±±¾©Ê¯ÓÍ»¯¹¤Ñ§Ôº2026ÄêÑо¿ÉúÕÐÉú½ÓÊÕµ÷¼Á¹«¸æ
²é¿´: 1279  |  »Ø¸´: 8

heropighi

Í­³æ (СÓÐÃûÆø)

[ÇóÖú] CATEP Ä£”MÓЙC·Ö×Ó(pheophorbide a) Fail ÇóÖú ÒÑÓÐ1È˲ÎÓë



1. ???????????????_????@????M??w??????W?? (http://www.chemspider.com/Chemical-Structure.10343120.html?rid=ffd28fa6-0b51-45ee-bd8d-00af788c9361)
???d???3D???(.mol)?n????build ???30*30*30????g?????????G?M??????????????rebuild??¦²????????????Y????Fail????????m?L???????????§³????????fail???????????????????????e??? ?§­]?§á??????d??????3D???n????}(?????????????????? - H??????)???????§­]???????? Chlorophyll a ??Pheophytin a ?? pheophorbide a ?§³?????????????  !!!!!!!!!!!!!


2. ??L??^????????????§«C?????????????????????????????????????????
+-----------+-----------------+-----------------+------------+-----+ <-- BFGS
| Parameter |      value      |    tolerance    |    units   | OK? | <-- BFGS
+-----------+-----------------+-----------------+------------+-----+ <-- BFGS
|  dE/ion   |   4.055163E-005 |   5.000000E-005 |         eV | Yes | <-- BFGS
|  |F|max   |   8.697393E-002 |   1.000000E-001 |       eV/A | Yes | <-- BFGS
|  |dR|max  |   4.738836E-003 |   5.000000E-003 |          A | Yes | <-- BFGS
+-----------+-----------------+-----------------+------------+-----+ <-- BFGS
  
BFGS: Geometry optimization completed successfully.

?x?x?§Ø?!

CATEP ??M?§«C????(pheophorbide a) Fail  ????
123.jpg
»Ø¸´´ËÂ¥

» ²ÂÄãϲ»¶

» ±¾Ö÷ÌâÏà¹ØÉ̼ÒÍÆ¼ö: (ÎÒÒ²ÒªÔÚÕâÀïÍÆ¹ã)

ÒÑÔÄ   »Ø¸´´ËÂ¥   ¹Ø×¢TA ¸øTA·¢ÏûÏ¢ ËÍTAºì»¨ TAµÄ»ØÌû

huxiao.gl

ľ³æ (СÓÐÃûÆø)

¡¾´ð°¸¡¿Ó¦Öú»ØÌû

¸Ðл²ÎÓ룬ӦÖúÖ¸Êý +1
What's the error reporting from CASTEP output file?
Obviously, you have to add the omitted hydrogen atoms as well as the methyl ligands manually. Maybe this is the problem.
good luck
2Â¥2014-09-10 21:46:47
ÒÑÔÄ   »Ø¸´´ËÂ¥   ¹Ø×¢TA ¸øTA·¢ÏûÏ¢ ËÍTAºì»¨ TAµÄ»ØÌû

heropighi

Í­³æ (СÓÐÃûÆø)

ÒýÓûØÌû:
2Â¥: Originally posted by huxiao.gl at 2014-09-10 21:46:47
What's the error reporting from CASTEP output file?
Obviously, you have to add the omitted hydrogen atoms as well as the methyl ligands manually. Maybe this is the problem.

ÖxÖxÄú£¬ÁíÍâÏëÕˆ½ÌһϠ 1. ÔÚÌí¼Ó3D·Ö×Ó½Y˜‹µÄ¹ÙÄÜ»ù•r£¬¿Õég½Ç¶ÈÄÇÐ©ÖØÒª†á?  2. ÄÜ·ñÓÃ2D·Ö×ÓÄ£ÐÍ?íÄ£”M?
3Â¥2014-09-10 23:12:33
ÒÑÔÄ   »Ø¸´´ËÂ¥   ¹Ø×¢TA ¸øTA·¢ÏûÏ¢ ËÍTAºì»¨ TAµÄ»ØÌû

heropighi

Í­³æ (СÓÐÃûÆø)

ÒýÓûØÌû:
2Â¥: Originally posted by huxiao.gl at 2014-09-10 21:46:47
What's the error reporting from CASTEP output file?
Obviously, you have to add the omitted hydrogen atoms as well as the methyl ligands manually. Maybe this is the problem.

Ý”³öÎļþÖ»ÓÐÏÂÃæŽ×‚€

ÆäÖÐ.castepï@ʾ
Pseudo atomic calculation performed for H 1s1
Converged in 13 iterations to a total energy of -12.4601 eV
  Pseudo atomic calculation performed for C 2s2 2p2
Converged in 17 iterations to a total energy of -145.7942 eV
Pseudo atomic calculation performed for N 2s2 2p3
Converged in 21 iterations to a total energy of -262.6886 eV
Pseudo atomic calculation performed for O 2s2 2p4
Converged in 23 iterations to a total energy of -429.2136 eV

µ½ß@Ñe¾ÍFailÁË£¬ÏëÆÆî^À²>_<
CATEP Ä£”MÓЙC·Ö×Ó(pheophorbide a) Fail  ÇóÖú-1
321.png

4Â¥2014-09-10 23:27:04
ÒÑÔÄ   »Ø¸´´ËÂ¥   ¹Ø×¢TA ¸øTA·¢ÏûÏ¢ ËÍTAºì»¨ TAµÄ»ØÌû

heropighi

Í­³æ (СÓÐÃûÆø)

???????:
3?: Originally posted by heropighi at 2014-09-10 23:12:33
?x?x????????????????  1. ??????3D????Y?????????r?????g?????§»??????  2. ?????2D???????????M?...

???x??Modify?§µ??l?F???Adjust Hydrogen?x?????????hydrogen atoms & methyl Ligand??????????
5Â¥2014-09-10 23:29:27
ÒÑÔÄ   »Ø¸´´ËÂ¥   ¹Ø×¢TA ¸øTA·¢ÏûÏ¢ ËÍTAºì»¨ TAµÄ»ØÌû

huxiao.gl

ľ³æ (СÓÐÃûÆø)

ÒýÓûØÌû:
3Â¥: Originally posted by heropighi at 2014-09-10 23:12:33
ÖxÖxÄú£¬ÁíÍâÏëÕˆ½ÌһϠ 1. ÔÚÌí¼Ó3D·Ö×Ó½Y˜‹µÄ¹ÙÄÜ»ù•r£¬¿Õég½Ç¶ÈÄÇÐ©ÖØÒª†á?  2. ÄÜ·ñÓÃ2D·Ö×ÓÄ£ÐÍ?íÄ£”M?...

ËäÈ»Èí¼þÄܹ»×Ô¶¯ÓÅ»¯½á¹¹£¬µ«Êdzõʼ½á¹¹²»ÄÜÓëÕæÊµµÄÆ«²îÌ«¶à¡£
Õâ¸ö·Ö×Ó±ßÔµÓм׻ù£¬ËùÒÔ²»ÊÇ2D½á¹¹¡£
good luck
6Â¥2014-09-11 01:47:44
ÒÑÔÄ   »Ø¸´´ËÂ¥   ¹Ø×¢TA ¸øTA·¢ÏûÏ¢ ËÍTAºì»¨ TAµÄ»ØÌû

huxiao.gl

ľ³æ (СÓÐÃûÆø)

ÒýÓûØÌû:
4Â¥: Originally posted by heropighi at 2014-09-10 23:27:04
Ý”³öÎļþÖ»ÓÐÏÂÃæŽ×‚€

ÆäÖÐ.castepï@ʾ
Pseudo atomic calculation performed for H 1s1
Converged in 13 iterations to a total energy of -12.4601 eV
  Pseudo atomic calculation performed for C 2s2 ...

Õâ¸ö²»ÊDZ¨´íÐÅÏ¢
good luck
7Â¥2014-09-11 01:48:30
ÒÑÔÄ   »Ø¸´´ËÂ¥   ¹Ø×¢TA ¸øTA·¢ÏûÏ¢ ËÍTAºì»¨ TAµÄ»ØÌû

huxiao.gl

ľ³æ (СÓÐÃûÆø)

¡¾´ð°¸¡¿Ó¦Öú»ØÌû

¡ï ¡ï ¡ï ¡ï ¡ï
heropighi: ½ð±Ò+5, ¡ïÓаïÖú 2014-09-16 09:36:56
???????:
5?: Originally posted by heropighi at 2014-09-10 23:29:27
???x??Modify?§µ??l?F???Adjust Hydrogen?x?????????hydrogen atoms & methyl Ligand??????????...

Adjust Hydrogen?????????????????????????????????????
good luck
8Â¥2014-09-11 01:49:51
ÒÑÔÄ   »Ø¸´´ËÂ¥   ¹Ø×¢TA ¸øTA·¢ÏûÏ¢ ËÍTAºì»¨ TAµÄ»ØÌû

heropighi

Í­³æ (СÓÐÃûÆø)

??.castep??????§µ???§Ô??F????????????????]?§Ô??F?e?`???!
+-------------------------------------------------+
|                                                 |
|      CCC   AA    SSS  TTTTT  EEEEE  PPPP        |
|     C     A  A  S       T    E      P   P       |
|     C     AAAA   SS     T    EEE    PPPP        |
|     C     A  A     S    T    E      P           |
|      CCC  A  A  SSS     T    EEEEE  P           |
|                                                 |
+-------------------------------------------------+
|                                                 |
| Welcome to Materials Studio CASTEP version 4.1  |
| Ab Initio Total Energy Program                  |
|                                                 |
| Authors:                                        |
| M. Segall, M. Probert, C. Pickard, P. Hasnip,   |
| S. Clark, K. Refson, M. Payne                   |
|                                                 |
| Contributors:                                   |
| P. Lindan, P. Haynes, J. White, V. Milman,      |
| N. Govind, M. Gibson, P. Tulip, V. Cocula,      |
| B. Montanari, D. Quigley, M. Glover,            |
| L. Bernasconi, A. Perlov, M. Plummer            |
|                                                 |
| Copyright (c) 2000 - 2006                       |
|                                                 |
| Please cite                                     |
|                                                 |
|     "First principles methods using CASTEP"     |
|                                                 |
|         Zeitschrift fuer Krystallographie       |
|           220(5-6) pp. 567-570 (2005)           |
|                                                 |
| S. J. Clark, M. D. Segall, C. J. Pickard,       |
| P. J. Hasnip, M. J. Probert, K. Refson,         |
| M. C. Payne                                     |
|                                                 |
|       in all publications arising from          |
|              your use of CASTEP                 |
|                                                 |
+-------------------------------------------------+

  This version was compiled for linux_x86_64 on Dec 19 2006

License checkout of MS_castep successful
Number of licenses checked out     1

Pseudo atomic calculation performed for H 1s1

Converged in 13 iterations to a total energy of -12.4696 eV


Pseudo atomic calculation performed for C 2s2 2p2

Converged in 18 iterations to a total energy of -145.8305 eV

Pseudo atomic calculation performed for N 2s2 2p3

Converged in 22 iterations to a total energy of -262.7213 eV

Pseudo atomic calculation performed for O 2s2 2p4

Converged in 25 iterations to a total energy of -429.5980 eV
9Â¥2014-09-11 09:32:52
ÒÑÔÄ   »Ø¸´´ËÂ¥   ¹Ø×¢TA ¸øTA·¢ÏûÏ¢ ËÍTAºì»¨ TAµÄ»ØÌû
Ïà¹Ø°æ¿éÌø×ª ÎÒÒª¶©ÔÄÂ¥Ö÷ heropighi µÄÖ÷Ìâ¸üÐÂ
×î¾ßÈËÆøÈÈÌûÍÆ¼ö [²é¿´È«²¿] ×÷Õß »Ø/¿´ ×îºó·¢±í
[¿¼ÑÐ] ²ÄÁÏ¿ÆÑ§Ó빤³Ì320Çóµ÷¼Á£¬080500 +7 »Æ¹ÏζÊíÆ¬ 2026-04-06 7/350 2026-04-06 22:38 by qlm5820
[¿¼ÑÐ] 071000ÉúÎïѧµ÷¼Á +7 À­ÌáÌÒ 2026-04-06 7/350 2026-04-06 18:55 by 52305043001
[¿¼ÑÐ] 0854Çóµ÷¼Á +4 assdll 2026-04-05 4/200 2026-04-06 12:29 by ÖзÉÔº¿Õ¹ÜѧԺÑ
[¿¼ÑÐ] Çóµ÷¼Á +7 ÕÅ.1 2026-04-05 7/350 2026-04-05 20:40 by à£à£à£0119
[¿¼ÑÐ] 322Çóµ÷¼Á +3 àźߺߺã 2026-04-05 3/150 2026-04-05 19:52 by nepu_uu
[¿¼ÑÐ] Çóµ÷¼Áµ½0856²ÄÁϹ¤³Ì +3 ³Ì9915 2026-04-05 3/150 2026-04-05 18:15 by À¶ÔÆË¼Óê
[¿¼ÑÐ] ¹¤¿Æ08ר˶»úе275Çóµ÷¼Á +3 AaAa7420 2026-04-02 3/150 2026-04-05 13:26 by jp9609
[¿¼ÑÐ] 0835ѧ˶299Çóµ÷¼Á 08´óÀà¿É½ÓÊÜ +5 useryy 2026-04-03 5/250 2026-04-04 20:07 by À¶ÔÆË¼Óê
[¿¼ÑÐ] 292Çóµ÷¼Á +11 2022080213 2026-04-04 13/650 2026-04-04 18:38 by macy2011
[¿¼ÑÐ] ²ÄÁÏ295 +13 СӢ11 2026-04-03 14/700 2026-04-04 09:02 by À´¿´Á÷ÐÇÓê10
[¿¼ÑÐ] 350Ò»Ö¾Ô¸±±¾©º½¿Õº½Ìì´óѧ08500²ÄÁÏ¿ÆÑ§Ó빤³ÌÇóµ÷¼Á +5 kjnasfss 2026-04-03 5/250 2026-04-03 22:29 by Î޼ʵIJÝÔ­
[¿¼ÑÐ] 311Çóµ÷¼Á +20 zchqwer 2026-04-01 22/1100 2026-04-03 22:09 by lglzsd
[¿¼ÑÐ] 283Çóµ÷¼Á +3 jiouuu 2026-04-03 4/200 2026-04-03 13:28 by jiouuu
[¿¼ÑÐ] 279Çóµ÷¼Á +6 qazplm0852 2026-04-02 6/300 2026-04-03 10:03 by À¶ÔÆË¼Óê
[¿¼ÑÐ] 366Çóµ÷¼ÁÒ»Ö¾Ô¸¶«±±´óѧ +8 ÔËÆøÀ´µÃÈôÓÐËÆÎ 2026-04-02 8/400 2026-04-02 21:39 by dongzh2009
[¿¼ÑÐ] ²ÄÁÏרҵÇóµ÷¼Á +10 ÔÂÔÂÄñľ 2026-04-01 10/500 2026-04-02 12:57 by wxiongid
[¿¼ÑÐ] 08¿ªÍ·¿´¹ýÀ´£¡£¡£¡ +4 wwwwffffff 2026-03-31 6/300 2026-04-02 11:42 by ¾ùÖµ»Ø¹é
[¿¼ÑÐ] 324Çóµ÷¼Á +5 ÏëÉÏѧÇóµ÷ 2026-04-01 6/300 2026-04-02 10:16 by sanrepian
[¿¼ÑÐ] 307·ÖÇóµ÷¼Á +14 (o~o) 2026-03-31 15/750 2026-04-01 20:43 by longlotian
[¿¼ÑÐ] Çóµ÷¼Á +4 DADA¹Ö 2026-03-31 4/200 2026-04-01 14:30 by ZXlzxl0425
ÐÅÏ¢Ìáʾ
ÇëÌî´¦ÀíÒâ¼û