BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 043315
(587 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A8H|A Chain A, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis With
N-(Phosphonoacetyl)-Putrescine
pdb|4A8H|B Chain B, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis With
N-(Phosphonoacetyl)-Putrescine
pdb|4A8P|A Chain A, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis With
N5-(Phosphonoacetyl)-L-Ornithine
pdb|4A8P|B Chain B, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis With
N5-(Phosphonoacetyl)-L-Ornithine
pdb|4A8P|C Chain C, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis With
N5-(Phosphonoacetyl)-L-Ornithine
pdb|4A8P|D Chain D, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis With
N5-(Phosphonoacetyl)-L-Ornithine
pdb|4A8P|E Chain E, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis With
N5-(Phosphonoacetyl)-L-Ornithine
pdb|4A8P|F Chain F, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis With
N5-(Phosphonoacetyl)-L-Ornithine
Length = 355
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 52/105 (49%), Gaps = 12/105 (11%)
Query: 411 SSQVTIQPFILIAPYKTMYESISKLAQDEFIPFIILPSHQ-SHKMQQGGGFNCKIQNCAP 469
+S V F+ + +YE+ +L+++E + + P +Q + +M G NCK +C P
Sbjct: 215 ASSVEGADFLYTDVWYGLYEA--ELSEEERMK-VFYPKYQVNQEMMDRAGANCKFMHCLP 271
Query: 470 CSVGIYVDRGIND------LIEAED--VSERILDDNVINDFKSRN 506
+ G V + D EAE+ S R L ++ND++++N
Sbjct: 272 ATRGEEVTDEVIDGKNSICFDEAENRLTSIRGLLVYLMNDYEAKN 316
>pdb|4A8T|A Chain A, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis Lacking Its C-Terminal Helix, With
Bound N5-(Phosphonoacetyl)-L-Ornithine
Length = 339
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 52/105 (49%), Gaps = 12/105 (11%)
Query: 411 SSQVTIQPFILIAPYKTMYESISKLAQDEFIPFIILPSHQ-SHKMQQGGGFNCKIQNCAP 469
+S V F+ + +YE+ +L+++E + + P +Q + +M G NCK +C P
Sbjct: 237 ASSVEGADFLYTDVWYGLYEA--ELSEEERMK-VFYPKYQVNQEMMDRAGANCKFMHCLP 293
Query: 470 CSVGIYVDRGIND------LIEAED--VSERILDDNVINDFKSRN 506
+ G V + D EAE+ S R L ++ND++++N
Sbjct: 294 ATRGEEVTDEVIDGKNSICFDEAENRLTSIRGLLVYLMNDYEAKN 338
>pdb|3TXX|A Chain A, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis
pdb|3TXX|B Chain B, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis
pdb|3TXX|C Chain C, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis
pdb|3TXX|D Chain D, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis
pdb|3TXX|E Chain E, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis
pdb|3TXX|F Chain F, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis
pdb|3TXX|G Chain G, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis
pdb|3TXX|H Chain H, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis
pdb|3TXX|I Chain I, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis
pdb|3TXX|J Chain J, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis
pdb|3TXX|K Chain K, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis
pdb|3TXX|L Chain L, Crystal Structure Of Putrescine Transcarbamylase From
Enterococcus Faecalis
Length = 359
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 52/105 (49%), Gaps = 12/105 (11%)
Query: 411 SSQVTIQPFILIAPYKTMYESISKLAQDEFIPFIILPSHQ-SHKMQQGGGFNCKIQNCAP 469
+S V F+ + +YE+ +L+++E + + P +Q + +M G NCK +C P
Sbjct: 235 ASSVEGADFLYTDVWYGLYEA--ELSEEERMK-VFYPKYQVNQEMMDRAGANCKFMHCLP 291
Query: 470 CSVGIYVDRGIND------LIEAED--VSERILDDNVINDFKSRN 506
+ G V + D EAE+ S R L ++ND++++N
Sbjct: 292 ATRGEEVTDEVIDGKNSICFDEAENRLTSIRGLLVYLMNDYEAKN 336
>pdb|3GBJ|A Chain A, Crystal Structure Of The Motor Domain Of Kinesin Kif13b
Bound With Adp
pdb|3GBJ|B Chain B, Crystal Structure Of The Motor Domain Of Kinesin Kif13b
Bound With Adp
pdb|3GBJ|C Chain C, Crystal Structure Of The Motor Domain Of Kinesin Kif13b
Bound With Adp
Length = 354
Score = 29.3 bits (64), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 42/93 (45%), Gaps = 3/93 (3%)
Query: 253 ILRWRIRKLID--KDTFTLAMLTHTAVTAVRTPLISLYYTPYRKLEITQSMEDRMRTLCT 310
I ++R L+D TL + H+ + L L T Y+ +E S ++ RT+
Sbjct: 150 IYNEKVRDLLDPKGSRQTLKVREHSVLGPYVDGLSKLAVTSYKDIESLMSEGNKSRTVAA 209
Query: 311 TPVNSELRKNLMENTPITQHKIY-VENSKSGEK 342
T +N E ++ H +Y V++ SGEK
Sbjct: 210 TNMNEESSRSHAVFKITLTHTLYDVKSGTSGEK 242
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.324 0.138 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,523,125
Number of Sequences: 62578
Number of extensions: 588495
Number of successful extensions: 1257
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1257
Number of HSP's gapped (non-prelim): 4
length of query: 587
length of database: 14,973,337
effective HSP length: 104
effective length of query: 483
effective length of database: 8,465,225
effective search space: 4088703675
effective search space used: 4088703675
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)