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= psy6240
(233 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1BS2|A Chain A, Yeast Arginyl-Trna Synthetase
pdb|1F7U|A Chain A, Crystal Structure Of The Arginyl-trna Synthetase Complexed
With The Trna(arg) And L-arg
pdb|1F7V|A Chain A, Crystal Structure Of Yeast Arginyl-Trna Synthetase
Complexed With The Trnaarg
Length = 607
Score = 108 bits (270), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 60/168 (35%), Positives = 88/168 (52%), Gaps = 21/168 (12%)
Query: 65 KVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGL 124
KV++EFSSPNIAKPFH GH R T++G F+ANL V+ +NYLGDWG QFGLL +G
Sbjct: 144 KVIIEFSSPNIAKPFHAGHLRSTIIGGFLANLYEKLGWEVIRMNYLGDWGKQFGLLAVGF 203
Query: 125 KELNIKHTDLEQSPLDVLYKAYVKANELAKINPDVQEQAPLDVLYKAYVKANDLAKINPD 184
+ + L + P+ L+ YV +IN D++E+ D +
Sbjct: 204 ERYGNEEA-LVKDPIHHLFDVYV------RINKDIEEEG-------------DSIPLEQS 243
Query: 185 VQEQASNIFQQLECGKNTLHTKDWLDFQQVTLNELRGTYERLGIHFSV 232
+A F+++E G K W F++ ++ + TY RL I + V
Sbjct: 244 TNGKAREYFKRMEDGDEE-ALKIWKRFREFSIEKYIDTYARLNIKYDV 290
>pdb|2ZUE|A Chain A, Crystal Structure Of Pyrococcus Horikoshii Arginyl-Trna
Synthetase Complexed With Trna(Arg) And An Atp Analog
(Anp)
pdb|2ZUF|A Chain A, Crystal Structure Of Pyrococcus Horikoshii Arginyl-Trna
Synthetase Complexed With Trna(Arg)
Length = 629
Score = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 39/148 (26%), Positives = 68/148 (45%), Gaps = 26/148 (17%)
Query: 58 TQLNCTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQF 117
+++ KV+VE +S N KP H+GH R +LG+ +A + + V NY+ D G QF
Sbjct: 113 SEIGKGKKVIVEHTSVNPTKPLHMGHARNAILGDVMARILRFLGYEVEVQNYIDDLGIQF 172
Query: 118 GLLQIGLKELNIKHTDLEQSPLDVLYKAYVKANELAKINPDVQEQA----PLD-VLYKAY 172
+ G L E +I +++E+ P+D L Y
Sbjct: 173 AQVYWGYLRLK---------------------EEFERIMNELRERGLKDNPIDHALGLLY 211
Query: 173 VKANDLAKINPDVQEQASNIFQQLECGK 200
V+ N + NP+++ + +I ++LE G+
Sbjct: 212 VEVNRRLEDNPELENEIRDIMKKLESGE 239
>pdb|1IQ0|A Chain A, Thermus Thermophilus Arginyl-Trna Synthetase
Length = 592
Score = 47.0 bits (110), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 33/64 (51%), Gaps = 5/64 (7%)
Query: 66 VVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQ-----FGLL 120
V+VE +S N K HVGH R LG+ +A + Y V+ LNY+ D G Q F L
Sbjct: 105 VLVEHTSVNPNKELHVGHLRNIALGDAIARILAYAGREVLVLNYIDDTGRQAAETLFALR 164
Query: 121 QIGL 124
GL
Sbjct: 165 HYGL 168
>pdb|3FNR|A Chain A, Crystal Structure Of Putative Arginyl T-Rna Synthetase
From Campylobacter Jejuni
Length = 464
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 44/96 (45%), Gaps = 4/96 (4%)
Query: 41 EFITQVLTSTGDKHVYKTQLNCTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYF 100
E Q LT+ D + + ++E+ S N P H+GH RG V G+ + L+ +
Sbjct: 10 ELANQALTNPND---FTKGEKKQESFLLEYVSANPTGPLHIGHARGAVFGDTLTRLARHL 66
Query: 101 ANNVVCLNYLGDWGTQFGLLQIGLKELNIKHTDLEQ 136
Y+ D G Q LL + + L++K + L +
Sbjct: 67 GYKFNTEYYVNDAGNQIYLLGLSIL-LSVKESILHE 101
>pdb|4INF|A Chain A, Crystal Structure Of Amidohydrolase Saro_0799 (target
Efi-505250) From Novosphingobium Aromaticivorans Dsm
12444 With Bound Calcium
pdb|4INF|B Chain B, Crystal Structure Of Amidohydrolase Saro_0799 (target
Efi-505250) From Novosphingobium Aromaticivorans Dsm
12444 With Bound Calcium
pdb|4INF|C Chain C, Crystal Structure Of Amidohydrolase Saro_0799 (target
Efi-505250) From Novosphingobium Aromaticivorans Dsm
12444 With Bound Calcium
pdb|4INF|D Chain D, Crystal Structure Of Amidohydrolase Saro_0799 (target
Efi-505250) From Novosphingobium Aromaticivorans Dsm
12444 With Bound Calcium
pdb|4ING|A Chain A, Crystal Structure Of Amidohydrolase Saro_0799 (target
Efi-505250) From Novosphingobium Aromaticivorans Dsm
12444 Complexed With Calcium And
4-hydroxy-3-methoxy-5-nitrobenzoic Acid
pdb|4ING|B Chain B, Crystal Structure Of Amidohydrolase Saro_0799 (target
Efi-505250) From Novosphingobium Aromaticivorans Dsm
12444 Complexed With Calcium And
4-hydroxy-3-methoxy-5-nitrobenzoic Acid
Length = 373
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 27/150 (18%), Positives = 64/150 (42%), Gaps = 15/150 (10%)
Query: 36 PVDKTEFITQVLTSTGDKHVYKTQLNCTDKVVVEFSSPNIAKPFH---VGHFRGTVLGNF 92
P ++ I + L G++ + DK ++ +SP + +P H T +
Sbjct: 77 PSERATQILERLLDLGERRIADMDATGIDKAILALTSPGV-QPLHDLDEARTLATRANDT 135
Query: 93 VANLSNYFANNVVCLNYLG----DWGTQ---FGLLQIGLKELNI-KHTD---LEQSPLDV 141
+A+ + + + + + +W + G ++G K + I HT L++ D
Sbjct: 136 LADACQKYPDRFIGMGTVAPQDPEWSAREIHRGARELGFKGIQINSHTQGRYLDEEFFDP 195
Query: 142 LYKAYVKANELAKINPDVQEQAPLDVLYKA 171
+++A V+ ++ I+P + +D + +A
Sbjct: 196 IFRALVEVDQPLYIHPATSPDSMIDPMLEA 225
>pdb|3UM9|A Chain A, Crystal Structure Of The Defluorinating L-2-Haloacid
Dehalogenase Bpro0530
pdb|3UM9|B Chain B, Crystal Structure Of The Defluorinating L-2-Haloacid
Dehalogenase Bpro0530
Length = 230
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 2/68 (2%)
Query: 168 LYKAYVKANDLAKINPDVQEQASNIFQQLECGKNTLHT--KDWLDFQQVTLNELRGTYER 225
LY Y +I P E S +++Q + + T + DF+ TL+ LR T
Sbjct: 16 LYDVYSVRTSCERIFPGQGEMVSKMWRQKQLEYTWMRTLMGQYQDFESATLDALRYTCGS 75
Query: 226 LGIHFSVD 233
LG+ D
Sbjct: 76 LGLALDAD 83
>pdb|2G2Q|A Chain A, The Crystal Structure Of G4, The Poxviral Disulfide
Oxidoreductase Essential For Cytoplasmic Disulfide Bond
Formation
pdb|2G2Q|B Chain B, The Crystal Structure Of G4, The Poxviral Disulfide
Oxidoreductase Essential For Cytoplasmic Disulfide Bond
Formation
pdb|2G2Q|C Chain C, The Crystal Structure Of G4, The Poxviral Disulfide
Oxidoreductase Essential For Cytoplasmic Disulfide Bond
Formation
Length = 124
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 85 RGTVLGNFVANLSNYFAN 102
RGT++GNF A+LSNY +
Sbjct: 55 RGTLIGNFAAHLSNYIVS 72
>pdb|2XZ7|A Chain A, Crystal Structure Of The Phosphoenolpyruvate-Binding
Domain Of Enzyme I In Complex With Phosphoenolpyruvate
From The Thermoanaerobacter Tengcongensis Pep-Sugar
Phosphotransferase System (Pts)
Length = 325
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 42/98 (42%), Gaps = 2/98 (2%)
Query: 77 KPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGLKELNIKHTDLEQ 136
+PFH R + A+ FA +C GD LL +GL E ++ T + +
Sbjct: 227 QPFHPAILRLVKMVIDAAHKEGKFA--AMCGEMAGDPLAAVILLGLGLDEFSMSATSIPE 284
Query: 137 SPLDVLYKAYVKANELAKINPDVQEQAPLDVLYKAYVK 174
+ Y KA E+A+ ++ E ++ + K +K
Sbjct: 285 IKNIIRNVEYEKAKEIAEKALNMSEAREIEKMMKDVIK 322
>pdb|2XZ9|A Chain A, Crystal Structure From The Phosphoenolpyruvate-Binding
Domain Of Enzyme I In Complex With Pyruvate From The
Thermoanaerobacter Tengcongensis Pep-Sugar
Phosphotransferase System (Pts)
pdb|2XZ9|B Chain B, Crystal Structure From The Phosphoenolpyruvate-Binding
Domain Of Enzyme I In Complex With Pyruvate From The
Thermoanaerobacter Tengcongensis Pep-Sugar
Phosphotransferase System (Pts)
Length = 324
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 42/98 (42%), Gaps = 2/98 (2%)
Query: 77 KPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGLKELNIKHTDLEQ 136
+PFH R + A+ FA +C GD LL +GL E ++ T + +
Sbjct: 226 QPFHPAILRLVKMVIDAAHKEGKFA--AMCGEMAGDPLAAVILLGLGLDEFSMSATSIPE 283
Query: 137 SPLDVLYKAYVKANELAKINPDVQEQAPLDVLYKAYVK 174
+ Y KA E+A+ ++ E ++ + K +K
Sbjct: 284 IKNIIRNVEYEKAKEIAEKALNMSEAREIEKMMKDVIK 321
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
0.319 0.137 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,161,281
Number of Sequences: 62578
Number of extensions: 296188
Number of successful extensions: 828
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 819
Number of HSP's gapped (non-prelim): 20
length of query: 233
length of database: 14,973,337
effective HSP length: 96
effective length of query: 137
effective length of database: 8,965,849
effective search space: 1228321313
effective search space used: 1228321313
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)