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= 016590
(386 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MMP|A Chain A, Structure Of The Qb Replicase, An Rna-Dependent Rna
Polymerase Consisting Of Viral And Host Proteins
pdb|3MMP|C Chain C, Structure Of The Qb Replicase, An Rna-Dependent Rna
Polymerase Consisting Of Viral And Host Proteins
Length = 678
Score = 129 bits (325), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 94/308 (30%), Positives = 155/308 (50%), Gaps = 47/308 (15%)
Query: 79 NLIKQLREQTSAPMKDVKLALVDCDWDIEAALKELRKRGKVLASKKSSRTATEGLLALAQ 138
+L+K+LRE+T A M D K AL + + DIE A++ +RK G + A+KK+ A +G++
Sbjct: 7 SLVKELRERTGAGMMDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNVAADGVIKTKI 66
Query: 139 NESKAAVIELNCETDFVSRNEIFQYXXXXXXXXXXXXENVSQPVSGLFPVGPEYLEGLKL 198
+ + ++E+NC+TDFV+++ FQ + + V+G +E LK
Sbjct: 67 DGNYGIILEVNCQTDFVAKDAGFQ---------AFADKVLDAAVAGKIT----DVEVLKA 113
Query: 199 NLDHPKIGGETTVQNAITEVAAIMGENVKLRRGFLLSASSPGVVSTYLHTSPQSGLGRIA 258
+ ++ + A +GEN+ +RR ++A V+ +Y H + RI
Sbjct: 114 QFEEERVA-----------LVAKIGENINIRR---VAALEGDVLGSYQHGA------RIG 153
Query: 259 GLLSLEVEDGSSSFDPLKRVGSELAMHIVAQKPLFLTKELVSADALENEREILKSQAEST 318
L++ + D + + +AMH+ A KP F+ E VSA+ +E E ++ A +
Sbjct: 154 VLVAAKGAD--------EELVKHIAMHVAASKPEFIKPEDVSAEVVEKEYQVQLDIAMQS 205
Query: 319 GKSPMAIEKMVEGRLRKYYEEVVLMEQKFVMNDTLNIKTILDNLSKEVGSPVKIGSFFRM 378
GK EKMVEGR++K+ EV L Q FVM + + +L + EV F R
Sbjct: 206 GKPKEIAEKMVEGRMKKFTGEVSLTGQPFVMEPSKTVGQLLKEHNAEV------TGFIRF 259
Query: 379 EVGEGIRR 386
EVGEGI +
Sbjct: 260 EVGEGIEK 267
>pdb|3AGP|A Chain A, Structure Of Viral Polymerase Form I
pdb|3AGQ|A Chain A, Structure Of Viral Polymerase Form Ii
pdb|3AVT|A Chain A, Structure Of Viral Rna Polymerase Complex 1
pdb|3AVU|A Chain A, Structure Of Viral Rna Polymerase Complex 2
pdb|3AVV|A Chain A, Structure Of Viral Rna Polymerase Complex 3
pdb|3AVW|A Chain A, Structure Of Viral Rna Polymerase Complex 4
pdb|3AVX|A Chain A, Structure Of Viral Rna Polymerase Complex 5
pdb|3AVY|A Chain A, Structure Of Viral Rna Polymerase Complex 6
pdb|3VNU|A Chain A, Complex Structure Of Viral Rna Polymerase I
pdb|3VNV|A Chain A, Complex Structure Of Viral Rna Polymerase Ii
pdb|4FWT|A Chain A, Complex Structure Of Viral Rna Polymerase Form Iii
Length = 1289
Score = 129 bits (325), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 94/308 (30%), Positives = 155/308 (50%), Gaps = 47/308 (15%)
Query: 79 NLIKQLREQTSAPMKDVKLALVDCDWDIEAALKELRKRGKVLASKKSSRTATEGLLALAQ 138
+L+K+LRE+T A M D K AL + + DIE A++ +RK G + A+KK+ A +G++
Sbjct: 7 SLVKELRERTGAGMMDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNVAADGVIKTKI 66
Query: 139 NESKAAVIELNCETDFVSRNEIFQYXXXXXXXXXXXXENVSQPVSGLFPVGPEYLEGLKL 198
+ + ++E+NC+TDFV+++ FQ + + V+G +E LK
Sbjct: 67 DGNYGIILEVNCQTDFVAKDAGFQ---------AFADKVLDAAVAGKI----TDVEVLKA 113
Query: 199 NLDHPKIGGETTVQNAITEVAAIMGENVKLRRGFLLSASSPGVVSTYLHTSPQSGLGRIA 258
+ ++ + A +GEN+ +RR ++A V+ +Y H + RI
Sbjct: 114 QFEEERVA-----------LVAKIGENINIRR---VAALEGDVLGSYQHGA------RIG 153
Query: 259 GLLSLEVEDGSSSFDPLKRVGSELAMHIVAQKPLFLTKELVSADALENEREILKSQAEST 318
L++ + D + + +AMH+ A KP F+ E VSA+ +E E ++ A +
Sbjct: 154 VLVAAKGAD--------EELVKHIAMHVAASKPEFIKPEDVSAEVVEKEYQVQLDIAMQS 205
Query: 319 GKSPMAIEKMVEGRLRKYYEEVVLMEQKFVMNDTLNIKTILDNLSKEVGSPVKIGSFFRM 378
GK EKMVEGR++K+ EV L Q FVM + + +L + EV F R
Sbjct: 206 GKPKEIAEKMVEGRMKKFTGEVSLTGQPFVMEPSKTVGQLLKEHNAEV------TGFIRF 259
Query: 379 EVGEGIRR 386
EVGEGI +
Sbjct: 260 EVGEGIEK 267
>pdb|1EFU|B Chain B, Elongation Factor Complex Ef-TuEF-Ts From Escherichia Coli
pdb|1EFU|D Chain D, Elongation Factor Complex Ef-TuEF-Ts From Escherichia Coli
Length = 282
Score = 129 bits (324), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 94/308 (30%), Positives = 154/308 (50%), Gaps = 47/308 (15%)
Query: 79 NLIKQLREQTSAPMKDVKLALVDCDWDIEAALKELRKRGKVLASKKSSRTATEGLLALAQ 138
+L+K+LRE+T A M D K AL + + DIE A++ +RK G + A+KK+ A +G++
Sbjct: 6 SLVKELRERTGAGMMDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNVAADGVIKTKI 65
Query: 139 NESKAAVIELNCETDFVSRNEIFQYXXXXXXXXXXXXENVSQPVSGLFPVGPEYLEGLKL 198
+ + ++E+NC+TDFV+++ FQ + V+G +E LK
Sbjct: 66 DGNYGIILEVNCQTDFVAKDAGFQAFADKV---------LDAAVAGKIT----DVEVLKA 112
Query: 199 NLDHPKIGGETTVQNAITEVAAIMGENVKLRRGFLLSASSPGVVSTYLHTSPQSGLGRIA 258
+ ++ + A +GEN+ +RR ++A V+ +Y H + RI
Sbjct: 113 QFEEERVA-----------LVAKIGENINIRR---VAALEGDVLGSYQHGA------RIG 152
Query: 259 GLLSLEVEDGSSSFDPLKRVGSELAMHIVAQKPLFLTKELVSADALENEREILKSQAEST 318
L++ + D + + +AMH+ A KP F+ E VSA+ +E E ++ A +
Sbjct: 153 VLVAAKGAD--------EELVKHIAMHVAASKPEFIKPEDVSAEVVEKEYQVQLDIAMQS 204
Query: 319 GKSPMAIEKMVEGRLRKYYEEVVLMEQKFVMNDTLNIKTILDNLSKEVGSPVKIGSFFRM 378
GK EKMVEGR++K+ EV L Q FVM + + +L + EV F R
Sbjct: 205 GKPKEIAEKMVEGRMKKFTGEVSLTGQPFVMEPSKTVGQLLKEHNAEV------TGFIRF 258
Query: 379 EVGEGIRR 386
EVGEGI +
Sbjct: 259 EVGEGIEK 266
>pdb|1AIP|C Chain C, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
pdb|1AIP|D Chain D, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
pdb|1AIP|G Chain G, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
pdb|1AIP|H Chain H, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
Length = 196
Score = 92.4 bits (228), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 46/88 (52%), Positives = 62/88 (70%), Gaps = 2/88 (2%)
Query: 77 QVNLIKQLREQTSAPMKDVKLALVDCDWDIEAALKELRKRGKVLASKKSSRTATEGLLA- 135
Q+ LIK+LRE T A M DVK AL D WD E A++ LR+RG + A+KK+ R A EG++
Sbjct: 3 QMELIKKLREATGAGMMDVKRALEDAGWDEEKAVQLLRERGAMKAAKKADREAREGIIGH 62
Query: 136 -LAQNESKAAVIELNCETDFVSRNEIFQ 162
+ N+ ++ELNCETDFV+RNE+FQ
Sbjct: 63 YIHHNQRVGVLVELNCETDFVARNELFQ 90
Score = 88.2 bits (217), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 48/146 (32%), Positives = 81/146 (55%), Gaps = 6/146 (4%)
Query: 237 SSPGVVSTYLHTSPQSGLGRIAGLLSLEVE-DGSSSFDPLKRVGSELAMHIVAQKPLFLT 295
+ G++ Y+H + + G+ L+ L E D + + + + +LAMHI P +++
Sbjct: 55 AREGIIGHYIHHNQRVGV-----LVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVS 109
Query: 296 KELVSADALENEREILKSQAESTGKSPMAIEKMVEGRLRKYYEEVVLMEQKFVMNDTLNI 355
E + A+ LE ER+I A + GK EK+ EGRL+KY EEVVL+EQ FV +D + +
Sbjct: 110 AEEIPAEELEKERQIYIQAALNEGKPQQIAEKIAEGRLKKYLEEVVLLEQPFVKDDKVKV 169
Query: 356 KTILDNLSKEVGSPVKIGSFFRMEVG 381
K ++ ++G + + F R E+G
Sbjct: 170 KELIQQAIAKIGENIVVRRFCRFELG 195
>pdb|1TFE|A Chain A, Dimerization Domain Of Ef-Ts From T. Thermophilus
Length = 145
Score = 88.6 bits (218), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 48/146 (32%), Positives = 81/146 (55%), Gaps = 6/146 (4%)
Query: 237 SSPGVVSTYLHTSPQSGLGRIAGLLSLEVE-DGSSSFDPLKRVGSELAMHIVAQKPLFLT 295
+ G++ Y+H + + G+ L+ L E D + + + + +LAMHI P +++
Sbjct: 1 AREGIIGHYIHHNQRVGV-----LVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVS 55
Query: 296 KELVSADALENEREILKSQAESTGKSPMAIEKMVEGRLRKYYEEVVLMEQKFVMNDTLNI 355
E + A+ LE ER+I A + GK EK+ EGRL+KY EEVVL+EQ FV +D + +
Sbjct: 56 AEEIPAEELEKERQIYIQAALNEGKPQQIAEKIAEGRLKKYLEEVVLLEQPFVKDDKVKV 115
Query: 356 KTILDNLSKEVGSPVKIGSFFRMEVG 381
K ++ ++G + + F R E+G
Sbjct: 116 KELIQQAIAKIGENIVVRRFCRFELG 141
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 26/36 (72%), Gaps = 2/36 (5%)
Query: 129 ATEGLLA--LAQNESKAAVIELNCETDFVSRNEIFQ 162
A EG++ + N+ ++ELNCETDFV+RNE+FQ
Sbjct: 1 AREGIIGHYIHHNQRVGVLVELNCETDFVARNELFQ 36
>pdb|1XB2|B Chain B, Crystal Structure Of Bos Taurus Mitochondrial Elongation
Factor TuTS COMPLEX
Length = 291
Score = 66.2 bits (160), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 60/236 (25%), Positives = 97/236 (41%), Gaps = 41/236 (17%)
Query: 80 LIKQLREQTSAPMKDVKLALVDCDWDIEAA----LKELRKRGKVLASKKSSRTATEGLLA 135
L+ +LR +T + K AL C D++ A K+ +K G A++ R EGL+
Sbjct: 7 LLMKLRRKTGYSFINCKKALETCGGDLKQAESWLHKQAQKEGWSKAARLHGRKTKEGLIG 66
Query: 136 LAQNESKAAVIELNCETDFVSRNEIF-QYXXXXXXXXXXXXENVSQPVSGL--------- 185
L Q ++E+NCETDFVSRN F Q +N+ +S
Sbjct: 67 LLQEGDTTVLVEVNCETDFVSRNLKFQQLVQQVALGTLLHCQNLKDQLSTYSKGFLNSSE 126
Query: 186 ---FPVGPEYLEGLKLNLDHPKIGGETTVQNAITEVAAIMGENVKLRRGFLLSASSPGVV 242
P GPE E ++++ + +GEN+ L+R + + V
Sbjct: 127 LSELPAGPER---------------EGSLKDQLALAIGKLGENMILKRAAWVKVPAGFYV 171
Query: 243 STYLHTSPQSG------LGRIAGLLSLEVEDGSSSFDPLKRVGSELAMHIVAQKPL 292
+Y+H + S LG+ L+ E + ++ L +G L H+V PL
Sbjct: 172 GSYVHGAMHSPSLHNLVLGKYGALVICETSELKAN---LADLGRRLGQHVVGMAPL 224
>pdb|3QDE|A Chain A, The Structure Of Cellobiose Phosphorylase From Clostridium
Thermocellum In Complex With Phosphate
pdb|3QDE|B Chain B, The Structure Of Cellobiose Phosphorylase From Clostridium
Thermocellum In Complex With Phosphate
Length = 811
Score = 31.6 bits (70), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 40/98 (40%), Gaps = 3/98 (3%)
Query: 245 YLHTSPQSGLGRIAGLLSLEVEDGSS--SFDPLKRVGSELAMHIVAQKPLFLTKELVSAD 302
++H P+ R+ L + ++EDGS+ + PL + G+ PL+L +
Sbjct: 369 FVHQIPERARERLLDLAATQLEDGSAYHQYQPLTKKGNNEIGSNFNDDPLWLILATAAYI 428
Query: 303 ALENEREILKSQAESTGKSPMAIEKMVEGRLRKYYEEV 340
+ ILK Q P + M E R +Y V
Sbjct: 429 KETGDYSILKEQV-PFNNDPSKADTMFEHLTRSFYHVV 465
>pdb|3PER|A Chain A, Crystal Structure Of Boxb With Phosphate Bound To The
Diiron Center
pdb|3PER|B Chain B, Crystal Structure Of Boxb With Phosphate Bound To The
Diiron Center
pdb|3PF7|A Chain A, Crystal Structure Of Boxb With Malonate Bound To The
Diiron Center
pdb|3PF7|B Chain B, Crystal Structure Of Boxb With Malonate Bound To The
Diiron Center
pdb|3PM5|A Chain A, Crystal Structure Of Boxb In Mixed Valent State With Bound
Benzoyl-Coa
pdb|3PM5|B Chain B, Crystal Structure Of Boxb In Mixed Valent State With Bound
Benzoyl-Coa
pdb|3PM5|C Chain C, Crystal Structure Of Boxb In Mixed Valent State With Bound
Benzoyl-Coa
pdb|3PM5|D Chain D, Crystal Structure Of Boxb In Mixed Valent State With Bound
Benzoyl-Coa
pdb|3Q1G|A Chain A, Crystal Structure Of Boxb Crystallized With Peg
pdb|3Q1G|B Chain B, Crystal Structure Of Boxb Crystallized With Peg
pdb|3Q1G|C Chain C, Crystal Structure Of Boxb Crystallized With Peg
pdb|3Q1G|D Chain D, Crystal Structure Of Boxb Crystallized With Peg
Length = 481
Score = 31.2 bits (69), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 192 YLEGLKLNLDHPKIGGETTVQNAITEVAAIMGENVKLRRGFLLSASSPGVVSTYLHTSPQ 251
Y GLK + KIG + +QN+ EV + G+ + R LSA + + ++ T Q
Sbjct: 311 YTNGLKGRFEEEKIGDDHKLQNSEYEVMDVAGDKILTRHVPALSALNERLRDDWI-TDVQ 369
Query: 252 SGLGR 256
+G+ R
Sbjct: 370 AGVDR 374
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 0.131 0.361
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,726,883
Number of Sequences: 62578
Number of extensions: 359196
Number of successful extensions: 1015
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 997
Number of HSP's gapped (non-prelim): 18
length of query: 386
length of database: 14,973,337
effective HSP length: 101
effective length of query: 285
effective length of database: 8,652,959
effective search space: 2466093315
effective search space used: 2466093315
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: 52 (24.6 bits)