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From: Vishal Nemaysh <vishal.bioinfotech.gmail.com>

Date: Thu, 3 Jul 2014 15:15:46 +0530

Hi,

I am a newbie to use the AMBER 12 and doing practice from the tutorial *SUSTIVA

Amber module* by using following link (

http://ambermd.org/tutorials/basic/tutorial4b/) . I have encountered the

following error while running tleap to create the topology and coordinate

file for Sustiva-RT complex. Kindly suggest me how to overcome this

error.Thanks in advance

FATAL: Atom .R<VAL 241>.A<C 3> does not have a type.

FATAL: Atom .R<VAL 241>.A<O 4> does not have a type.

FATAL: Atom .R<VAL 241>.A<CB 5> does not have a type.

FATAL: Atom .R<VAL 241>.A<CG1 6> does not have a type.

FATAL: Atom .R<VAL 241>.A<CG2 7> does not have a type.

FATAL: Atom .R<GLN 242>.A<N 1> does not have a type.

FATAL: Atom .R<GLN 242>.A<CA 2> does not have a type.

FATAL: Atom .R<GLN 242>.A<C 3> does not have a type.

FATAL: Atom .R<GLN 242>.A<O 4> does not have a type.

FATAL: Atom .R<GLN 242>.A<CB 5> does not have a type.

FATAL: Atom .R<GLN 242>.A<CG 6> does not have a type.

FATAL: Atom .R<GLN 242>.A<CD 7> does not have a type.

FATAL: Atom .R<GLN 242>.A<OE1 8> does not have a type.

FATAL: Atom .R<GLN 242>.A<NE2 9> does not have a type.

FATAL: Atom .R<PRO 243>.A<N 1> does not have a type.

FATAL: Atom .R<PRO 243>.A<CA 2> does not have a type.

FATAL: Atom .R<PRO 243>.A<C 3> does not have a type.

FATAL: Atom .R<PRO 243>.A<O 4> does not have a type.

FATAL: Atom .R<PRO 243>.A<CB 5> does not have a type.

FATAL: Atom .R<PRO 243>.A<CG 6> does not have a type.

FATAL: Atom .R<PRO 243>.A<CD 7> does not have a type.

Failed to generate parameters

Parameter file was not saved.

Date: Thu, 3 Jul 2014 15:15:46 +0530

Hi,

I am a newbie to use the AMBER 12 and doing practice from the tutorial *SUSTIVA

Amber module* by using following link (

http://ambermd.org/tutorials/basic/tutorial4b/) . I have encountered the

following error while running tleap to create the topology and coordinate

file for Sustiva-RT complex. Kindly suggest me how to overcome this

error.Thanks in advance

FATAL: Atom .R<VAL 241>.A<C 3> does not have a type.

FATAL: Atom .R<VAL 241>.A<O 4> does not have a type.

FATAL: Atom .R<VAL 241>.A<CB 5> does not have a type.

FATAL: Atom .R<VAL 241>.A<CG1 6> does not have a type.

FATAL: Atom .R<VAL 241>.A<CG2 7> does not have a type.

FATAL: Atom .R<GLN 242>.A<N 1> does not have a type.

FATAL: Atom .R<GLN 242>.A<CA 2> does not have a type.

FATAL: Atom .R<GLN 242>.A<C 3> does not have a type.

FATAL: Atom .R<GLN 242>.A<O 4> does not have a type.

FATAL: Atom .R<GLN 242>.A<CB 5> does not have a type.

FATAL: Atom .R<GLN 242>.A<CG 6> does not have a type.

FATAL: Atom .R<GLN 242>.A<CD 7> does not have a type.

FATAL: Atom .R<GLN 242>.A<OE1 8> does not have a type.

FATAL: Atom .R<GLN 242>.A<NE2 9> does not have a type.

FATAL: Atom .R<PRO 243>.A<N 1> does not have a type.

FATAL: Atom .R<PRO 243>.A<CA 2> does not have a type.

FATAL: Atom .R<PRO 243>.A<C 3> does not have a type.

FATAL: Atom .R<PRO 243>.A<O 4> does not have a type.

FATAL: Atom .R<PRO 243>.A<CB 5> does not have a type.

FATAL: Atom .R<PRO 243>.A<CG 6> does not have a type.

FATAL: Atom .R<PRO 243>.A<CD 7> does not have a type.

Failed to generate parameters

Parameter file was not saved.

-- Vishal Research Scholar, Neuropharmaceutical Chemistry lab., Dr. B. R. Ambedkar Center for Biomedical Research, University of Delhi, Delhi-110007 Email: *vishal.bioinfotech.gmail.com <vishal.bioinfotech.gmail.com>* Phone: 91-11-27662778 Mobile: 91+9650736653 _______________________________________________ AMBER mailing list AMBER.ambermd.org http://lists.ambermd.org/mailman/listinfo/amberReceived on Thu Jul 03 2014 - 03:00:03 PDT

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