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= 024744
(263 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NIJ|A Chain A, Yjia Protein
pdb|4IXM|A Chain A, Crystal Structure Of Zn(ii)-bound Yjia Gtpase From E. Coli
pdb|4IXM|B Chain B, Crystal Structure Of Zn(ii)-bound Yjia Gtpase From E. Coli
Length = 318
Score = 84.3 bits (207), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 66/229 (28%), Positives = 111/229 (48%), Gaps = 40/229 (17%)
Query: 32 VGVTVITGFLGAGKSTLVNYILNGKHGKRIAVILNEFGEEIGVERAMINEGEGGALVEEW 91
+ VT++TGFLGAGK+TL+ +ILN +HG +IAVI NEFG E+ V+ +I G +
Sbjct: 4 IAVTLLTGFLGAGKTTLLRHILNEQHGYKIAVIENEFG-EVSVDDQLI-----GDRATQI 57
Query: 92 VELANGCICCTVKHSLVQALEQLVQRKER----LDHILLETTGLANPAPLASVLWLDDQL 147
L NGCICC+ + L AL L+ ++ D +++E TG+A+P P+ + + L
Sbjct: 58 KTLTNGCICCSRSNELEDALLDLLDNLDKGNIQFDRLVIECTGMADPGPIIQTFFSHEVL 117
Query: 148 ESAVRLDSII-------------------TDVVILNKVDLVSPERSGDSLDELEKEIHEI 188
LD +I + V +++ L + +G++ ++L + + I
Sbjct: 118 CQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGYADRILLTKTDVAGEA-EKLHERLARI 176
Query: 189 NSLAHVIRSVRCQVDLSEVLNCRAYDATHVTRLEGLLEEHQYKSSQNLH 237
N+ A V +DL + N + +LEE+ + H
Sbjct: 177 NARAPVYTVTHGDIDLGLLFNTNGF----------MLEENVVSTKPRFH 215
>pdb|4IXN|A Chain A, Crystal Structure Of Zn(ii)-bound E37a,c66a,c67a Triple
Mutant Yjia Gtpase
pdb|4IXN|B Chain B, Crystal Structure Of Zn(ii)-bound E37a,c66a,c67a Triple
Mutant Yjia Gtpase
Length = 318
Score = 78.2 bits (191), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 64/229 (27%), Positives = 109/229 (47%), Gaps = 40/229 (17%)
Query: 32 VGVTVITGFLGAGKSTLVNYILNGKHGKRIAVILNEFGEEIGVERAMINEGEGGALVEEW 91
+ VT++TGFLGAGK+TL+ +ILN +HG +IAVI NEFG E+ V+ +I G +
Sbjct: 4 IAVTLLTGFLGAGKTTLLRHILNEQHGYKIAVIANEFG-EVSVDDQLI-----GDRATQI 57
Query: 92 VELANGCICCTVKHSLVQALEQLVQRKER----LDHILLETTGLANPAPLASVLWLDDQL 147
L NGCI + + L AL L+ ++ D +++E TG+A+P P+ + + L
Sbjct: 58 KTLTNGCIAASRSNELEDALLDLLDNLDKGNIQFDRLVIECTGMADPGPIIQTFFSHEVL 117
Query: 148 ESAVRLDSII-------------------TDVVILNKVDLVSPERSGDSLDELEKEIHEI 188
LD +I + V +++ L + +G++ ++L + + I
Sbjct: 118 CQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGYADRILLTKTDVAGEA-EKLHERLARI 176
Query: 189 NSLAHVIRSVRCQVDLSEVLNCRAYDATHVTRLEGLLEEHQYKSSQNLH 237
N+ A V +DL + N + +LEE+ + H
Sbjct: 177 NARAPVYTVTHGDIDLGLLFNTNGF----------MLEENVVSTKPRFH 215
>pdb|3GEE|A Chain A, Crystal Structure Of Mnme From Chlorobium Tepidum In
Complex With Gdp And Folinic Acid
pdb|3GEI|A Chain A, Crystal Structure Of Mnme From Chlorobium Tepidum In
Complex With Gcp
pdb|3GEI|B Chain B, Crystal Structure Of Mnme From Chlorobium Tepidum In
Complex With Gcp
pdb|3GEI|C Chain C, Crystal Structure Of Mnme From Chlorobium Tepidum In
Complex With Gcp
Length = 476
Score = 31.2 bits (69), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 46/171 (26%), Positives = 80/171 (46%), Gaps = 17/171 (9%)
Query: 30 VSVGV-TVITGFLGAGKSTLVNYILNGKHGKRIAVI------LNEFGEEIGV-ERAMINE 81
VS GV TVI G AGKSTL+N +L G+ A++ ++ EE + ++ M
Sbjct: 230 VSEGVSTVIAGKPNAGKSTLLNTLL----GQERAIVSHMPGTTRDYIEECFIHDKTMFRL 285
Query: 82 GEGGALVEEWVELANGCICCTVKHSLVQA---LEQLVQRKERLDHILLETTGLANPAPLA 138
+ L E E+ + I + + + +A L L ERLD L E L P A
Sbjct: 286 TDTAGLREAGEEIEHEGIRRS-RMKMAEADLILYLLDLGTERLDDELTEIRELKAAHPAA 344
Query: 139 SVLWLDDQLESAVRLDSIITDVVILNKVDLVS-PERSGDSLDELEKEIHEI 188
L + ++L+ A D++I + +++ +GD +D L++ + ++
Sbjct: 345 KFLTVANKLDRAANADALIRAIADGTGTEVIGISALNGDGIDTLKQHMGDL 395
>pdb|3ZQJ|A Chain A, Mycobacterium Tuberculosis Uvra
pdb|3ZQJ|B Chain B, Mycobacterium Tuberculosis Uvra
pdb|3ZQJ|C Chain C, Mycobacterium Tuberculosis Uvra
pdb|3ZQJ|D Chain D, Mycobacterium Tuberculosis Uvra
pdb|3ZQJ|E Chain E, Mycobacterium Tuberculosis Uvra
pdb|3ZQJ|F Chain F, Mycobacterium Tuberculosis Uvra
Length = 993
Score = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 13/20 (65%), Positives = 16/20 (80%)
Query: 34 VTVITGFLGAGKSTLVNYIL 53
+T +TG G+GKSTLVN IL
Sbjct: 670 LTSVTGVSGSGKSTLVNDIL 689
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
0.315 0.134 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,684,235
Number of Sequences: 62578
Number of extensions: 304493
Number of successful extensions: 992
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 977
Number of HSP's gapped (non-prelim): 24
length of query: 263
length of database: 14,973,337
effective HSP length: 97
effective length of query: 166
effective length of database: 8,903,271
effective search space: 1477942986
effective search space used: 1477942986
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)