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From: Dmitry Nilov <nilovdm.gmail.com>

Date: Wed, 2 Feb 2011 22:59:39 +0300

It seems that your problem results from incorrect atom names in input

pdb (is it pdb?) file.

On Wed, Feb 2, 2011 at 10:33 PM, vani panguluri <vanipanguluri.gmail.com> wrote:

*> Hello ,
*

*>
*

*> I am getting this error can anyone suggest me a solution.
*

*>
*

*> FATAL: Atom .R<ARG 2509>.A<HH22 24> does not have a type.
*

*> FATAL: Atom .R<CYS 2510>.A<N 1> does not have a type.
*

*> FATAL: Atom .R<CYS 2510>.A<CA 2> does not have a type.
*

*> FATAL: Atom .R<CYS 2510>.A<C 3> does not have a type.
*

*> FATAL: Atom .R<CYS 2510>.A<O 4> does not have a type.
*

*> FATAL: Atom .R<CYS 2510>.A<CB 5> does not have a type.
*

*> FATAL: Atom .R<CYS 2510>.A<SG 6> does not have a type.
*

*> FATAL: Atom .R<CYS 2510>.A<H 7> does not have a type.
*

*> FATAL: Atom .R<CYS 2510>.A<HA 8> does not have a type.
*

*> FATAL: Atom .R<CYS 2510>.A<HB2 9> does not have a type.
*

*> FATAL: Atom .R<CYS 2510>.A<HB3 10> does not have a type.
*

*> FATAL: Atom .R<CYS 2510>.A<HG 11> does not have a type.
*

*> FATAL: Atom .R<SER 2511>.A<N 1> does not have a type.
*

*> FATAL: Atom .R<SER 2511>.A<CA 2> does not have a type.
*

*> FATAL: Atom .R<SER 2511>.A<C 3> does not have a type.
*

*> FATAL: Atom .R<SER 2511>.A<O 4> does not have a type.
*

*> FATAL: Atom .R<SER 2511>.A<CB 5> does not have a type.
*

*> FATAL: Atom .R<SER 2511>.A<OG 6> does not have a type.
*

*> FATAL: Atom .R<SER 2511>.A<H 7> does not have a type.
*

*> FATAL: Atom .R<SER 2511>.A<HA 8> does not have a type.
*

*> FATAL: Atom .R<SER 2511>.A<HB2 9> does not have a type.
*

*> FATAL: Atom .R<SER 2511>.A<HB3 10> does not have a type.
*

*> FATAL: Atom .R<SER 2511>.A<HG 11> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<N 1> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<CA 2> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<C 3> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<O 4> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<CB 5> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<CG 6> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<CD 7> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<OE1 8> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<OE2 9> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<H 10> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<HA 11> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<HB2 12> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<HB3 13> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<HG2 14> does not have a type.
*

*> FATAL: Atom .R<GLU 2512>.A<HG3 15> does not have a type.
*

*> FATAL: Atom .R<SER 2513>.A<N 1> does not have a type.
*

*> FATAL: Atom .R<SER 2513>.A<CA 2> does not have a type.
*

*> FATAL: Atom .R<SER 2513>.A<C 3> does not have a type.
*

*> FATAL: Atom .R<SER 2513>.A<O 4> does not have a type.
*

*> FATAL: Atom .R<SER 2513>.A<CB 5> does not have a type.
*

*> FATAL: Atom .R<SER 2513>.A<OG 6> does not have a type.
*

*> FATAL: Atom .R<SER 2513>.A<H 7> does not have a type.
*

*> FATAL: Atom .R<SER 2513>.A<HA 8> does not have a type.
*

*> FATAL: Atom .R<SER 2513>.A<HB2 9> does not have a type.
*

*> FATAL: Atom .R<SER 2513>.A<HB3 10> does not have a type.
*

*> FATAL: Atom .R<SER 2513>.A<HG 11> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<N 1> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<CA 2> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<C 3> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<O 4> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<CB 5> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<OG1 6> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<CG2 7> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<H 8> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<HA 9> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<HB 10> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<HG1 11> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<HG21 12> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<HG22 13> does not have a type.
*

*> FATAL: Atom .R<THR 2514>.A<HG23 14> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<N 1> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<CA 2> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<C 3> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<O 4> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<CB 5> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<CG 6> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<CD 7> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<CE 8> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<NZ 9> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<H 10> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<HA 11> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<HB2 12> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<HB3 13> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<HG2 14> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<HG3 15> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<HD2 16> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<HD3 17> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<HE2 18> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<HE3 19> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<HZ1 20> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<HZ2 21> does not have a type.
*

*> FATAL: Atom .R<LYS 2515>.A<HZ3 22> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<N 1> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<CA 2> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<C 3> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<O 4> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<CB 5> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<CG 6> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<CD 7> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<NE 8> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<CZ 9> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<NH1 10> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<NH2 11> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<H 12> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<HA 13> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<HB2 14> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<HB3 15> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<HG2 16> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<HG3 17> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<HD2 18> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<HD3 19> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<HE 20> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<HH11 21> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<HH12 22> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<HH21 23> does not have a type.
*

*> FATAL: Atom .R<ARG 2516>.A<HH22 24> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<N 1> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<CA 2> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<C 3> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<O 4> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<CB 5> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<CG 6> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<CD 7> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<CE 8> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<NZ 9> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<H 10> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<HA 11> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<HB2 12> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<HB3 13> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<HG2 14> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<HG3 15> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<HD2 16> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<HD3 17> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<HE2 18> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<HE3 19> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<HZ1 20> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<HZ2 21> does not have a type.
*

*> FATAL: Atom .R<LYS 2517>.A<HZ3 22> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<N 1> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<CA 2> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<C 3> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<O 4> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<CB 5> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<CG 6> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<CD1 7> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<CD2 8> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<H 9> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<HA 10> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<HB2 11> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<HB3 12> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<HG 13> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<HD11 14> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<HD12 15> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<HD13 16> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<HD21 17> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<HD22 18> does not have a type.
*

*> FATAL: Atom .R<LEU 2518>.A<HD23 19> does not have a type.
*

*> FATAL: Atom .R<ALA 2519>.A<N 1> does not have a type.
*

*> FATAL: Atom .R<ALA 2519>.A<CA 2> does not have a type.
*

*> FATAL: Atom .R<ALA 2519>.A<C 3> does not have a type.
*

*> FATAL: Atom .R<ALA 2519>.A<O 4> does not have a type.
*

*> FATAL: Atom .R<ALA 2519>.A<CB 5> does not have a type.
*

*> FATAL: Atom .R<ALA 2519>.A<H 6> does not have a type.
*

*> FATAL: Atom .R<ALA 2519>.A<HA 7> does not have a type.
*

*> FATAL: Atom .R<ALA 2519>.A<HB1 8> does not have a type.
*

*> FATAL: Atom .R<ALA 2519>.A<HB2 9> does not have a type.
*

*> FATAL: Atom .R<ALA 2519>.A<HB3 10> does not have a type.
*

*> FATAL: Atom .R<SER 2520>.A<N 1> does not have a type.
*

*> FATAL: Atom .R<SER 2520>.A<CA 2> does not have a type.
*

*> FATAL: Atom .R<SER 2520>.A<C 3> does not have a type.
*

*> FATAL: Atom .R<SER 2520>.A<O 4> does not have a type.
*

*> FATAL: Atom .R<SER 2520>.A<CB 5> does not have a type.
*

*> FATAL: Atom .R<SER 2520>.A<OG 6> does not have a type.
*

*> FATAL: Atom .R<SER 2520>.A<H 7> does not have a type.
*

*> FATAL: Atom .R<SER 2520>.A<HA 8> does not have a type.
*

*> FATAL: Atom .R<SER 2520>.A<HB2 9> does not have a type.
*

*> FATAL: Atom .R<SER 2520>.A<HB3 10> does not have a type.
*

*> FATAL: Atom .R<SER 2520>.A<HG 11> does not have a type.
*

*> FATAL: Atom .R<ALA 2521>.A<N 1> does not have a type.
*

*> FATAL: Atom .R<ALA 2521>.A<CA 2> does not have a type.
*

*> FATAL: Atom .R<ALA 2521>.A<C 3> does not have a type.
*

*> FATAL: Atom .R<ALA 2521>.A<O 4> does not have a type.
*

*> FATAL: Atom .R<ALA 2521>.A<CB 5> does not have a type.
*

*> FATAL: Atom .R<ALA 2521>.A<H 6> does not have a type.
*

*> FATAL: Atom .R<ALA 2521>.A<HA 7> does not have a type.
*

*> FATAL: Atom .R<ALA 2521>.A<HB1 8> does not have a type.
*

*> FATAL: Atom .R<ALA 2521>.A<HB2 9> does not have a type.
*

*> FATAL: Atom .R<ALA 2521>.A<HB3 10> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<N 1> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<CA 2> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<C 3> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<O 4> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<CB 5> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<CG1 6> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<CG2 7> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<OXT 8> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<H 9> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<HA 10> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<HB 11> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<HG11 12> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<HG12 13> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<HG13 14> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<HG21 15> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<HG22 16> does not have a type.
*

*> FATAL: Atom .R<VAL 2522>.A<HG23 17> does not have a type.
*

*> Failed to generate parameters
*

*> Parameter file was not saved.
*

*> Regards,
*

*> Vani Panguluri
*

*> _______________________________________________
*

*> AMBER mailing list
*

*> AMBER.ambermd.org
*

*> http://lists.ambermd.org/mailman/listinfo/amber
*

*>
*

Date: Wed, 2 Feb 2011 22:59:39 +0300

It seems that your problem results from incorrect atom names in input

pdb (is it pdb?) file.

On Wed, Feb 2, 2011 at 10:33 PM, vani panguluri <vanipanguluri.gmail.com> wrote:

-- Dmitry Nilov, Faculty of Bioengineering and Bioinformatics, Lomonosov Moscow State University _______________________________________________ AMBER mailing list AMBER.ambermd.org http://lists.ambermd.org/mailman/listinfo/amberReceived on Wed Feb 02 2011 - 12:00:05 PST

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