Re: [AMBER] Problem with Tleap from Robert Molt on 2016-01-21 (Amber Archive Jan 2016)

From: Robert Molt <rwmolt07.gmail.com>
Date: Thu, 21 Jan 2016 20:31:35 -0500

He said it looks like you have not loaded your force field, like in the
example:

source leaprc.ff14SB

Did you load a force field before attempting to do all of this?

You can check this by examining if can make a separate pdb output file
from what you have loaded to see if it has recognized the units.

Excuse the rough translation, Portuguese is not a language I know well.

On 1/21/16 8:20 PM, Marcelo Andrade Chagas wrote:
> Hi Luis.
>
> Por favor traduza para o ingles.
>
> O erro parece ser porque você não carregou um campo de força antes para a
> sua proteína.
>
> Tente antes, por exemplo:
>
> source leaprc.ff14SB
>
> mol=loadpdb arquivo.pdb
>
>
> Para vocẽ conferir:
>
> check mol
>
> edit mol
>
> Antes, porrém, você preparou os arquivo pdb com pdb4amber?
>
> Preste atenção ao resumo de pdb4amber, principalmente, para resíduos não
> padrão. Pode ser útil se seu sistema
> falta parâmetros.
>
> Att.,
>
> Marcelo
>
> Marcelo Andrade Chagas, MSc
> (PhD student)
> Laboratório de Química Computacional e Modelagem Molecular - LQC-MM
> * http://lqcmm.qui.ufmg.br/
> Departamento de Química da Universidade Federal de Minas Gerais - UFMG
> Tel:(31)3409-5776
>
> 2016-01-21 23:00 GMT-02:00 Luis Esteban <lugece.hotmail.com>:
>
>> Dear User Amber
>>
>> I have a problem when I used tleap, the problem is the next:
>>
>> Leap added 4 missing atoms according to residue templates:
>> 1 Heavy
>> 3 H / lone pairs
>> The file contained 401 atoms not in residue templates
>>
>> When I try to save the file I have this problem:
>>
>>> saveamberparm prr prr.prmtop prr.inpcrd
>> Checking Unit.
>> FATAL: Atom .R<NASN 1>.A<H 17> does not have a type.
>> FATAL: Atom .R<NASN 1>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<GLU 2>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 2>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<PHE 3>.A<HB1 21> does not have a type.
>> FATAL: Atom .R<SER 4>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<ILE 5>.A<HG11 20> does not have a type.
>> FATAL: Atom .R<ILE 5>.A<HD1 21> does not have a type.
>> FATAL: Atom .R<ILE 5>.A<HD2 22> does not have a type.
>> FATAL: Atom .R<ILE 5>.A<HD3 23> does not have a type.
>> FATAL: Atom .R<LEU 6>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<LYS 7>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 7>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 7>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 7>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<SER 8>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<PRO 9>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 9>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 9>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<GLY 10>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<SER 11>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<PHE 14>.A<HB1 21> does not have a type.
>> FATAL: Atom .R<ARG 15>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 15>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 15>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<ASN 16>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<GLY 17>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<ASN 18>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<TRP 19>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<PRO 20>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 20>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 20>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<ILE 21>.A<HG11 20> does not have a type.
>> FATAL: Atom .R<ILE 21>.A<HD1 21> does not have a type.
>> FATAL: Atom .R<ILE 21>.A<HD2 22> does not have a type.
>> FATAL: Atom .R<ILE 21>.A<HD3 23> does not have a type.
>> FATAL: Atom .R<PRO 22>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 22>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 22>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<GLY 23>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<GLU 24>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 24>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<ARG 25>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 25>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 25>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<ILE 26>.A<HG11 20> does not have a type.
>> FATAL: Atom .R<ILE 26>.A<HD1 21> does not have a type.
>> FATAL: Atom .R<ILE 26>.A<HD2 22> does not have a type.
>> FATAL: Atom .R<ILE 26>.A<HD3 23> does not have a type.
>> FATAL: Atom .R<PRO 27>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 27>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 27>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<ASP 28>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<LEU 32>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<SER 33>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<MET 34>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<MET 34>.A<HG1 19> does not have a type.
>> FATAL: Atom .R<GLY 35>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<PHE 36>.A<HB1 21> does not have a type.
>> FATAL: Atom .R<SER 37>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<LYS 39>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 39>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 39>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 39>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<GLU 40>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 40>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<ASP 41>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<LEU 42>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<SER 43>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<TRP 44>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<PRO 45>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 45>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 45>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<GLY 46>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<LEU 47>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<GLY 50>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<ASN 51>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<LEU 52>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<PHE 53>.A<HB1 21> does not have a type.
>> FATAL: Atom .R<HIE 54>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<ARG 55>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 55>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 55>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<PRO 56>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 56>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 56>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<ARG 57>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 57>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 57>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<MET 61>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<MET 61>.A<HG1 19> does not have a type.
>> FATAL: Atom .R<MET 63>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<MET 63>.A<HG1 19> does not have a type.
>> FATAL: Atom .R<LYS 65>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 65>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 65>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 65>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<GLY 66>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<ASN 68>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<LYS 69>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 69>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 69>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 69>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<LEU 70>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<LEU 72>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<PRO 73>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 73>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 73>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<PRO 74>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 74>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 74>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<GLY 75>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<SER 76>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<ILE 78>.A<HG11 20> does not have a type.
>> FATAL: Atom .R<ILE 78>.A<HD1 21> does not have a type.
>> FATAL: Atom .R<ILE 78>.A<HD2 22> does not have a type.
>> FATAL: Atom .R<ILE 78>.A<HD3 23> does not have a type.
>> FATAL: Atom .R<SER 79>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<TYR 80>.A<HB1 22> does not have a type.
>> FATAL: Atom .R<PRO 81>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 81>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 81>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<LEU 82>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<GLU 83>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 83>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<ASN 84>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 87>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 87>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 87>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<PHE 88>.A<HB1 21> does not have a type.
>> FATAL: Atom .R<SER 89>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<LEU 90>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<ASP 91>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<SER 92>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<ASN 95>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<SER 96>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<ILE 97>.A<HG11 20> does not have a type.
>> FATAL: Atom .R<ILE 97>.A<HD1 21> does not have a type.
>> FATAL: Atom .R<ILE 97>.A<HD2 22> does not have a type.
>> FATAL: Atom .R<ILE 97>.A<HD3 23> does not have a type.
>> FATAL: Atom .R<HID 98>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<SER 99>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<LEU 100>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<PHE 101>.A<HB1 21> does not have a type.
>> FATAL: Atom .R<SER 102>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<GLU 103>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 103>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<GLU 104>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 104>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<PRO 106>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 106>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 106>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<LEU 109>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<GLN 110>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<GLN 110>.A<HG1 19> does not have a type.
>> FATAL: Atom .R<LEU 111>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<PRO 113>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 113>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 113>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<SER 114>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<GLU 115>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 115>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<GLU 116>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 116>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<ARG 117>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 117>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 117>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<TYR 119>.A<HB1 22> does not have a type.
>> FATAL: Atom .R<MET 120>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<MET 120>.A<HG1 19> does not have a type.
>> FATAL: Atom .R<GLY 122>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<LYS 123>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 123>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 123>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 123>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<ASN 125>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<SER 126>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<PHE 128>.A<HB1 21> does not have a type.
>> FATAL: Atom .R<GLU 129>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 129>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<ASP 130>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<LEU 131>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<SER 132>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<LEU 135>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<ARG 136>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 136>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 136>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<GLN 137>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<GLN 137>.A<HG1 19> does not have a type.
>> FATAL: Atom .R<LEU 138>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<ARG 139>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 139>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 139>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<ASN 140>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<ARG 141>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 141>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 141>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<LEU 142>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<PHE 143>.A<HB1 21> does not have a type.
>> FATAL: Atom .R<GLN 144>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<GLN 144>.A<HG1 19> does not have a type.
>> FATAL: Atom .R<GLU 145>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 145>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<ASN 146>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<SER 147>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<LEU 149>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<SER 150>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<SER 151>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<LEU 152>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<PRO 153>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 153>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 153>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<LEU 154>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<ASN 155>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<SER 156>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<LEU 157>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<SER 158>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<ARG 159>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 159>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 159>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<ASN 160>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<ASN 161>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<GLU 162>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 162>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<ASP 164>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<LEU 165>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<LEU 166>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<PHE 167>.A<HB1 21> does not have a type.
>> FATAL: Atom .R<LEU 168>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<SER 169>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<GLU 170>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 170>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<LEU 171>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<GLN 172>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<GLN 172>.A<HG1 19> does not have a type.
>> FATAL: Atom .R<LEU 174>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<HIE 175>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<ASP 176>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<ILE 177>.A<HG11 20> does not have a type.
>> FATAL: Atom .R<ILE 177>.A<HD1 21> does not have a type.
>> FATAL: Atom .R<ILE 177>.A<HD2 22> does not have a type.
>> FATAL: Atom .R<ILE 177>.A<HD3 23> does not have a type.
>> FATAL: Atom .R<SER 178>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<SER 179>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<LEU 180>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<LEU 181>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<SER 182>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<ARG 183>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 183>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 183>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<HID 184>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<LYS 185>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 185>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 185>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 185>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<HIE 186>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<LEU 187>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<LYS 189>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 189>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 189>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 189>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<ASP 190>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<HIE 191>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<SER 192>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<PRO 193>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 193>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 193>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<ASP 194>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<LEU 195>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<TYR 196>.A<HB1 22> does not have a type.
>> FATAL: Atom .R<SER 197>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<LEU 198>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<GLU 199>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 199>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<LEU 200>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<GLY 202>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<LEU 203>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<ASP 204>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<GLU 205>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 205>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<ILE 206>.A<HG11 20> does not have a type.
>> FATAL: Atom .R<ILE 206>.A<HD1 21> does not have a type.
>> FATAL: Atom .R<ILE 206>.A<HD2 22> does not have a type.
>> FATAL: Atom .R<ILE 206>.A<HD3 23> does not have a type.
>> FATAL: Atom .R<GLY 207>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<LYS 208>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 208>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 208>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 208>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<ARG 209>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 209>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 209>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<TYR 210>.A<HB1 22> does not have a type.
>> FATAL: Atom .R<GLY 211>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<GLU 212>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 212>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<ASP 213>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<SER 214>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<GLU 215>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 215>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<GLN 216>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<GLN 216>.A<HG1 19> does not have a type.
>> FATAL: Atom .R<PHE 217>.A<HB1 21> does not have a type.
>> FATAL: Atom .R<ARG 218>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 218>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 218>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<ASP 219>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<SER 221>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<LYS 222>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 222>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 222>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 222>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<ILE 223>.A<HG11 20> does not have a type.
>> FATAL: Atom .R<ILE 223>.A<HD1 21> does not have a type.
>> FATAL: Atom .R<ILE 223>.A<HD2 22> does not have a type.
>> FATAL: Atom .R<ILE 223>.A<HD3 23> does not have a type.
>> FATAL: Atom .R<LEU 224>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<ASP 226>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<LEU 228>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<GLN 229>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<GLN 229>.A<HG1 19> does not have a type.
>> FATAL: Atom .R<LYS 230>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 230>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 230>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 230>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<PHE 231>.A<HB1 21> does not have a type.
>> FATAL: Atom .R<ASP 233>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<ASP 234>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<MET 235>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<MET 235>.A<HG1 19> does not have a type.
>> FATAL: Atom .R<TYR 236>.A<HB1 22> does not have a type.
>> FATAL: Atom .R<SER 237>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<LEU 238>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<TYR 239>.A<HB1 22> does not have a type.
>> FATAL: Atom .R<GLY 240>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<GLY 241>.A<HA1 8> does not have a type.
>> FATAL: Atom .R<ASN 242>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<GLU 246>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 246>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<LEU 247>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<LYS 251>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 251>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 251>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 251>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<SER 252>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<PHE 253>.A<HB1 21> does not have a type.
>> FATAL: Atom .R<ASP 254>.A<HB1 13> does not have a type.
>> FATAL: Atom .R<SER 256>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<LEU 257>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<ILE 258>.A<HG11 20> does not have a type.
>> FATAL: Atom .R<ILE 258>.A<HD1 21> does not have a type.
>> FATAL: Atom .R<ILE 258>.A<HD2 22> does not have a type.
>> FATAL: Atom .R<ILE 258>.A<HD3 23> does not have a type.
>> FATAL: Atom .R<ARG 259>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 259>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 259>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<LYS 260>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 260>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 260>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 260>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<ARG 262>.A<HB1 25> does not have a type.
>> FATAL: Atom .R<ARG 262>.A<HG1 26> does not have a type.
>> FATAL: Atom .R<ARG 262>.A<HD1 27> does not have a type.
>> FATAL: Atom .R<ILE 264>.A<HG11 20> does not have a type.
>> FATAL: Atom .R<ILE 264>.A<HD1 21> does not have a type.
>> FATAL: Atom .R<ILE 264>.A<HD2 22> does not have a type.
>> FATAL: Atom .R<ILE 264>.A<HD3 23> does not have a type.
>> FATAL: Atom .R<LEU 265>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<GLU 266>.A<HB1 16> does not have a type.
>> FATAL: Atom .R<GLU 266>.A<HG1 17> does not have a type.
>> FATAL: Atom .R<LYS 268>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 268>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 268>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 268>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<GLN 269>.A<HB1 18> does not have a type.
>> FATAL: Atom .R<GLN 269>.A<HG1 19> does not have a type.
>> FATAL: Atom .R<LYS 271>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 271>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 271>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 271>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<ASN 272>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 273>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 273>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 273>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<SER 275>.A<HB1 12> does not have a type.
>> FATAL: Atom .R<PRO 276>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PRO 276>.A<HG1 16> does not have a type.
>> FATAL: Atom .R<PRO 276>.A<HD1 17> does not have a type.
>> FATAL: Atom .R<TYR 277>.A<HB1 22> does not have a type.
>> FATAL: Atom .R<ASN 278>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<LEU 279>.A<HB1 20> does not have a type.
>> FATAL: Atom .R<TYR 281>.A<HB1 22> does not have a type.
>> FATAL: Atom .R<LYS 282>.A<HB1 23> does not have a type.
>> FATAL: Atom .R<LYS 282>.A<HG1 24> does not have a type.
>> FATAL: Atom .R<LYS 282>.A<HD1 25> does not have a type.
>> FATAL: Atom .R<LYS 282>.A<HE1 26> does not have a type.
>> FATAL: Atom .R<TYR 283>.A<HB1 22> does not have a type.
>> FATAL: Atom .R<ASN 284>.A<HB1 15> does not have a type.
>> FATAL: Atom .R<PHE 285>.A<HB1 21> does not have a type.
>> FATAL: Atom .R<CGLU 286>.A<HB1 17> does not have a type.
>> FATAL: Atom .R<CGLU 286>.A<HG1 18> does not have a type.
>> Failed to generate parameters
>> Parameter file was not saved.
>>
>> Could you help me.....
>>
>> Beast regards
>>
>> _______________________________________________
>> AMBER mailing list
>> AMBER.ambermd.org
>> http://lists.ambermd.org/mailman/listinfo/amber
>>
> _______________________________________________
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-- 
Dr. Robert Molt Jr.
r.molt.chemical.physics.gmail.com
_______________________________________________
AMBER mailing list
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Received on Thu Jan 21 2016 - 18:00:03 PST