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= psy17364
(312 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XB2|B Chain B, Crystal Structure Of Bos Taurus Mitochondrial Elongation
Factor TuTS COMPLEX
Length = 291
Score = 202 bits (515), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 113/276 (40%), Positives = 172/276 (62%), Gaps = 12/276 (4%)
Query: 22 TNKSLLGKLRKKTGYSFTNCKKALDLNEQDLGKAEKWLQEQAKELGWAKASKLAGRKTSQ 81
++K LL KLR+KTGYSF NCKKAL+ DL +AE WL +QA++ GW+KA++L GRKT +
Sbjct: 3 SSKELLMKLRRKTGYSFINCKKALETCGGDLKQAESWLHKQAQKEGWSKAARLHGRKTKE 62
Query: 82 GLISIAVEGKHATMVEFNCETDFVARNKQFQGMAELISLACLNYTKTQVQPQEPFAKVFL 141
GLI + EG +VE NCETDFV+RN +FQ + + ++L L + + ++K FL
Sbjct: 63 GLIGLLQEGDTTVLVEVNCETDFVSRNLKFQQLVQQVALGTLLHCQNLKDQLSTYSKGFL 122
Query: 142 DTAQLQSL-AGPENK-SLADHVAILISSVGENLVLRRAACVTVNEDHDVAGFTHP---SP 196
++++L L AGPE + SL D +A+ I +GEN++L+RAA V V V + H SP
Sbjct: 123 NSSELSELPAGPEREGSLKDQLALAIGKLGENMILKRAAWVKVPAGFYVGSYVHGAMHSP 182
Query: 197 GLEHTGPILGKFGSLMVYQDLKTGDKQQNVQNVARQLCQHVIGMNPKSIGSXXXXXXXXX 256
L + +LGK+G+L++ + T + + N+ ++ R+L QHV+GM P S+GS
Sbjct: 183 SLHNL--VLGKYGALVICE---TSELKANLADLGRRLGQHVVGMAPLSVGSLDDEPGGEA 237
Query: 257 XXXXIMYHQEFLLDPTQYVGEVIVAAGIKPVEFLRF 292
M Q +LLDP+ +G+ + G+ V+F+RF
Sbjct: 238 ETK--MLSQPYLLDPSITLGQYVQPHGVSVVDFVRF 271
>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 = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 47/156 (30%), Positives = 80/156 (51%), Gaps = 24/156 (15%)
Query: 25 SLLGKLRKKTGYSFTNCKKALDLNEQDLGKAEKWLQEQAKELGWAKASKLAGRKTSQGLI 84
SL+ +LR++TG +CKKAL D+ + E ++ G KA+K AG + G+I
Sbjct: 7 SLVKELRERTGAGMMDCKKALTEANGDI----ELAIENMRKSGAIKAAKKAGNVAADGVI 62
Query: 85 SIAVEGKHATMVEFNCETDFVARNKQFQGMAELISLACLNYTKTQVQPQEPFAKVFLDTA 144
++G + ++E NC+TDFVA++ FQ A+ + A + T V+ + A
Sbjct: 63 KTKIDGNYGIILEVNCQTDFVAKDAGFQAFADKVLDAAVAGKITDVE---------VLKA 113
Query: 145 QLQSLAGPENKSLADHVAILISSVGENLVLRRAACV 180
Q + + VA L++ +GEN+ +RR A +
Sbjct: 114 QFEE----------ERVA-LVAKIGENINIRRVAAL 138
>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 = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 47/156 (30%), Positives = 80/156 (51%), Gaps = 24/156 (15%)
Query: 25 SLLGKLRKKTGYSFTNCKKALDLNEQDLGKAEKWLQEQAKELGWAKASKLAGRKTSQGLI 84
SL+ +LR++TG +CKKAL D+ + E ++ G KA+K AG + G+I
Sbjct: 6 SLVKELRERTGAGMMDCKKALTEANGDI----ELAIENMRKSGAIKAAKKAGNVAADGVI 61
Query: 85 SIAVEGKHATMVEFNCETDFVARNKQFQGMAELISLACLNYTKTQVQPQEPFAKVFLDTA 144
++G + ++E NC+TDFVA++ FQ A+ + A + T V+ + A
Sbjct: 62 KTKIDGNYGIILEVNCQTDFVAKDAGFQAFADKVLDAAVAGKITDVE---------VLKA 112
Query: 145 QLQSLAGPENKSLADHVAILISSVGENLVLRRAACV 180
Q + + VA L++ +GEN+ +RR A +
Sbjct: 113 QFEE----------ERVA-LVAKIGENINIRRVAAL 137
>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 = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 48/156 (30%), Positives = 80/156 (51%), Gaps = 24/156 (15%)
Query: 25 SLLGKLRKKTGYSFTNCKKALDLNEQDLGKAEKWLQEQAKELGWAKASKLAGRKTSQGLI 84
SL+ +LR++TG +CKKAL D+ A E ++ G KA+K AG + G+I
Sbjct: 7 SLVKELRERTGAGMMDCKKALTEANGDIELA----IENMRKSGAIKAAKKAGNVAADGVI 62
Query: 85 SIAVEGKHATMVEFNCETDFVARNKQFQGMAELISLACLNYTKTQVQPQEPFAKVFLDTA 144
++G + ++E NC+TDFVA++ FQ A+ + A + T V+ + A
Sbjct: 63 KTKIDGNYGIILEVNCQTDFVAKDAGFQAFADKVLDAAVAGKITDVE---------VLKA 113
Query: 145 QLQSLAGPENKSLADHVAILISSVGENLVLRRAACV 180
Q + + VA L++ +GEN+ +RR A +
Sbjct: 114 QFEE----------ERVA-LVAKIGENINIRRVAAL 138
>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 = 64.3 bits (155), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 58/192 (30%), Positives = 92/192 (47%), Gaps = 48/192 (25%)
Query: 25 SLLGKLRKKTGYSFTNCKKALDLNEQDLGKAEKWLQEQA----KELGWAKASKLAGRKTS 80
L+ KLR+ TG + K+AL+ D G W +E+A +E G KA+K A R+
Sbjct: 5 ELIKKLREATGAGMMDVKRALE----DAG----WDEEKAVQLLRERGAMKAAKKADREAR 56
Query: 81 QGLIS--IAVEGKHATMVEFNCETDFVARNKQFQGMAELISL--ACLN--YTKTQVQPQE 134
+G+I I + +VE NCETDFVARN+ FQ +A+ +++ A +N Y + P E
Sbjct: 57 EGIIGHYIHHNQRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVSAEEIPAE 116
Query: 135 PFAK---VFLDTA-------QL-QSLAGPENKSLADHVAIL------------------- 164
K +++ A Q+ + +A K + V +L
Sbjct: 117 ELEKERQIYIQAALNEGKPQQIAEKIAEGRLKKYLEEVVLLEQPFVKDDKVKVKELIQQA 176
Query: 165 ISSVGENLVLRR 176
I+ +GEN+V+RR
Sbjct: 177 IAKIGENIVVRR 188
>pdb|2CP9|A Chain A, Solution Structure Of Rsgi Ruh-042, A Uba Domain From
Human Mitochondrial Elongation Factor Ts
Length = 64
Score = 59.3 bits (142), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 29/49 (59%), Positives = 38/49 (77%)
Query: 24 KSLLGKLRKKTGYSFTNCKKALDLNEQDLGKAEKWLQEQAKELGWAKAS 72
K LL KLR+KTGYSF NCKKAL+ DL +AE WL ++A++ GW+KA+
Sbjct: 10 KELLMKLRRKTGYSFVNCKKALETCGGDLKQAEIWLHKEAQKEGWSKAA 58
>pdb|1TFE|A Chain A, Dimerization Domain Of Ef-Ts From T. Thermophilus
Length = 145
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 34/117 (29%), Positives = 55/117 (47%), Gaps = 34/117 (29%)
Query: 94 TMVEFNCETDFVARNKQFQGMAELISL--ACLN--YTKTQVQPQEPFAK---VFLDTA-- 144
+VE NCETDFVARN+ FQ +A+ +++ A +N Y + P E K +++ A
Sbjct: 18 VLVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVSAEEIPAEELEKERQIYIQAALN 77
Query: 145 -----QL-QSLAGPENKSLADHVAIL-------------------ISSVGENLVLRR 176
Q+ + +A K + V +L I+ +GEN+V+RR
Sbjct: 78 EGKPQQIAEKIAEGRLKKYLEEVVLLEQPFVKDDKVKVKELIQQAIAKIGENIVVRR 134
>pdb|1VRM|A Chain A, Crystal Structure Of The Apbe Protein (Tm1553) From
Thermotoga Maritima Msb8 At 1.58 A Resolution
Length = 325
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 21/100 (21%), Positives = 40/100 (40%), Gaps = 2/100 (2%)
Query: 124 NYTKTQVQPQEPFAKVFLDTAQLQSLAGPENKSLA--DHVAILISSVGENLVLRRAACVT 181
NY +V +E + T L +N + + V I + + + L RA +
Sbjct: 119 NYENLRVPSREEIEEALKHTGYKNVLFDDKNXRVXVKNGVKIDLGGIAKGYALDRARQIA 178
Query: 182 VNEDHDVAGFTHPSPGLEHTGPILGKFGSLMVYQDLKTGD 221
++ D + GF + GP GK+ ++ +D + D
Sbjct: 179 LSFDENATGFVEAGGDVRIIGPKFGKYPWVIGVKDPRGDD 218
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
0.318 0.132 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,657,776
Number of Sequences: 62578
Number of extensions: 273572
Number of successful extensions: 806
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 779
Number of HSP's gapped (non-prelim): 16
length of query: 312
length of database: 14,973,337
effective HSP length: 99
effective length of query: 213
effective length of database: 8,778,115
effective search space: 1869738495
effective search space used: 1869738495
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)