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= 025133
(257 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 = 102 bits (255), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 71/216 (32%), Positives = 119/216 (55%), Gaps = 22/216 (10%)
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 ESAVRLDSIITVVDAKNLLFQIDKYRHLSSYPEAIHQIAFADVVILNKVDLVSPERSGDS 207
LD +I +VDA + Q++++ S Q+ +AD ++L K D+ +G++
Sbjct: 118 CQRYLLDGVIALVDAVHADEQMNQFTIAQS------QVGYADRILLTKTDV-----AGEA 166
Query: 208 LDELEKEIHEINSLAHVIRSVRCQVDLSEVLNCRAY 243
++L + + IN+ A V +DL + N +
Sbjct: 167 -EKLHERLARINARAPVYTVTHGDIDLGLLFNTNGF 201
>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 = 96.3 bits (238), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 69/216 (31%), Positives = 117/216 (54%), Gaps = 22/216 (10%)
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 ESAVRLDSIITVVDAKNLLFQIDKYRHLSSYPEAIHQIAFADVVILNKVDLVSPERSGDS 207
LD +I +VDA + Q++++ S Q+ +AD ++L K D+ +G++
Sbjct: 118 CQRYLLDGVIALVDAVHADEQMNQFTIAQS------QVGYADRILLTKTDV-----AGEA 166
Query: 208 LDELEKEIHEINSLAHVIRSVRCQVDLSEVLNCRAY 243
++L + + IN+ A V +DL + N +
Sbjct: 167 -EKLHERLARINARAPVYTVTHGDIDLGLLFNTNGF 201
>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 = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 42/142 (29%), Positives = 66/142 (46%), Gaps = 16/142 (11%)
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 SVLWLDDQLESAVRLDSIITVV 160
L + ++L+ A D++I +
Sbjct: 345 KFLTVANKLDRAANADALIRAI 366
>pdb|2GRJ|A Chain A, Crystal Structure Of Dephospho-Coa Kinase (Ec 2.7.1.24)
(Dephosphocoenzyme A Kinase) (Tm1387) From Thermotoga
Maritima At 2.60 A Resolution
pdb|2GRJ|B Chain B, Crystal Structure Of Dephospho-Coa Kinase (Ec 2.7.1.24)
(Dephosphocoenzyme A Kinase) (Tm1387) From Thermotoga
Maritima At 2.60 A Resolution
pdb|2GRJ|C Chain C, Crystal Structure Of Dephospho-Coa Kinase (Ec 2.7.1.24)
(Dephosphocoenzyme A Kinase) (Tm1387) From Thermotoga
Maritima At 2.60 A Resolution
pdb|2GRJ|D Chain D, Crystal Structure Of Dephospho-Coa Kinase (Ec 2.7.1.24)
(Dephosphocoenzyme A Kinase) (Tm1387) From Thermotoga
Maritima At 2.60 A Resolution
pdb|2GRJ|E Chain E, Crystal Structure Of Dephospho-Coa Kinase (Ec 2.7.1.24)
(Dephosphocoenzyme A Kinase) (Tm1387) From Thermotoga
Maritima At 2.60 A Resolution
pdb|2GRJ|F Chain F, Crystal Structure Of Dephospho-Coa Kinase (Ec 2.7.1.24)
(Dephosphocoenzyme A Kinase) (Tm1387) From Thermotoga
Maritima At 2.60 A Resolution
pdb|2GRJ|G Chain G, Crystal Structure Of Dephospho-Coa Kinase (Ec 2.7.1.24)
(Dephosphocoenzyme A Kinase) (Tm1387) From Thermotoga
Maritima At 2.60 A Resolution
pdb|2GRJ|H Chain H, Crystal Structure Of Dephospho-Coa Kinase (Ec 2.7.1.24)
(Dephosphocoenzyme A Kinase) (Tm1387) From Thermotoga
Maritima At 2.60 A Resolution
Length = 192
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 52/191 (27%), Positives = 96/191 (50%), Gaps = 27/191 (14%)
Query: 37 ITGFLGAGKSTLVNYILNGKHGKRIAVILNEFGEEIGVE-RAMINEGEGGALVEEWVELA 95
+TG +G GKST V IL K+G + V ++ G E+ E + + E GG+++E+ ++
Sbjct: 17 VTGKIGTGKST-VCEILKNKYGAHV-VNVDRIGHEVLEEVKEKLVELFGGSVLEDG-KVN 73
Query: 96 NGCICCTVKHSL--VQALEQLVQ--RKERLDHILLETTGL-ANPAPLASVLWLDDQLESA 150
+ V S ++ LE LV K+R+ I+ +T+GL A L L DQL
Sbjct: 74 RKKLAGIVFESRENLKKLELLVHPLXKKRVQEIINKTSGLIVIEAALLKRXGL-DQL--- 129
Query: 151 VRLDSIITVVDAKNLLFQIDKYRHLSSYPEAIHQIAFADVVILNKVDLVSPERSGDSLDE 210
D +ITVV ++ + + ++ EA ++ F + ++ + + + +L++
Sbjct: 130 --CDHVITVVASRETILKRNR--------EADRRLKFQEDIVPQGIVVA----NNSTLED 175
Query: 211 LEKEIHEINSL 221
LEK++ E+ L
Sbjct: 176 LEKKVEEVXKL 186
>pdb|3QN0|A Chain A, Structure Of 6-Pyruvoyltetrahydropterin Synthase
pdb|3QN0|B Chain B, Structure Of 6-Pyruvoyltetrahydropterin Synthase
pdb|3QN0|C Chain C, Structure Of 6-Pyruvoyltetrahydropterin Synthase
pdb|3QN0|D Chain D, Structure Of 6-Pyruvoyltetrahydropterin Synthase
pdb|3QN0|E Chain E, Structure Of 6-Pyruvoyltetrahydropterin Synthase
pdb|3QN0|F Chain F, Structure Of 6-Pyruvoyltetrahydropterin Synthase
pdb|3QN9|A Chain A, Crystal Structure Of A 6-Pyruvoyltetrahydropterin Synthase
Homologue From Esherichia Coli
pdb|3QN9|B Chain B, Crystal Structure Of A 6-Pyruvoyltetrahydropterin Synthase
Homologue From Esherichia Coli
Length = 141
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 119 ERLDHILL-ETTGLANPAPLASVLWLDDQLESAVRLDSIITV 159
ERLDH L + GL NP W+ DQ++ V L S + V
Sbjct: 87 ERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMV 128
>pdb|3QNA|A Chain A, Crystal Structure Of A 6-Pyruvoyltetrahydropterin Synthase
Homologue From Esherichia Coli Complexed Sepiapterin
pdb|3QNA|B Chain B, Crystal Structure Of A 6-Pyruvoyltetrahydropterin Synthase
Homologue From Esherichia Coli Complexed Sepiapterin
pdb|3QNA|C Chain C, Crystal Structure Of A 6-Pyruvoyltetrahydropterin Synthase
Homologue From Esherichia Coli Complexed Sepiapterin
pdb|3QNA|D Chain D, Crystal Structure Of A 6-Pyruvoyltetrahydropterin Synthase
Homologue From Esherichia Coli Complexed Sepiapterin
pdb|3QNA|E Chain E, Crystal Structure Of A 6-Pyruvoyltetrahydropterin Synthase
Homologue From Esherichia Coli Complexed Sepiapterin
pdb|3QNA|F Chain F, Crystal Structure Of A 6-Pyruvoyltetrahydropterin Synthase
Homologue From Esherichia Coli Complexed Sepiapterin
Length = 141
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 119 ERLDHILL-ETTGLANPAPLASVLWLDDQLESAVRLDSIITV 159
ERLDH L + GL NP W+ DQ++ V L S + V
Sbjct: 87 ERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMV 128
>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 = 5.9, 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
0.316 0.134 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,609,281
Number of Sequences: 62578
Number of extensions: 306811
Number of successful extensions: 978
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 962
Number of HSP's gapped (non-prelim): 21
length of query: 257
length of database: 14,973,337
effective HSP length: 97
effective length of query: 160
effective length of database: 8,903,271
effective search space: 1424523360
effective search space used: 1424523360
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)