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= psy3716
(436 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|O Chain O, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 393
Score = 163 bits (412), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 117/370 (31%), Positives = 197/370 (53%), Gaps = 33/370 (8%)
Query: 8 TVYLTAKQEAYSKNPEISAQWLNLEELYNKKLWHQLTLAVLAFVQNPAIQKEGELR-DLY 66
T+ T + EA +P + + E+ Y +KLW QL+ ++ F + K LR LY
Sbjct: 9 TILSTLRMEA---DPSLHPLFEQFEKFYEEKLWFQLSESLTKFFDDA---KSTPLRLRLY 62
Query: 67 HKFVISFETKINPVSLMEIMEVITNHLSDQEEALVLL-------QSFEDKVKNNLEAKSL 119
FV F KIN +S+++ + D +E+L L Q + K + N +K
Sbjct: 63 DNFVSKFYDKINQLSVVKYLLASLKDSKDFDESLKYLDDLKAQFQELDSKKQRNNGSKDH 122
Query: 120 --------CKILQAQMIMNKDADKPGSLDEVEKLIDEIELLVNDIEGVTAIHSRFYLVAS 171
+I + ++ N LD++EK +D+ + + I + FY S
Sbjct: 123 GDGILLIDSEIARTYLLKNDLVKARDLLDDLEKTLDKKDSIP------LRITNSFYSTNS 176
Query: 172 TLYRKQAKLSLYYRTALRYLGCVDLN-DLTASDQVQHAFLIGLAALLADSVYNIGELLAH 230
++ + + +Y T+L YL ++ + +T +++ Q A+ + ++ALL D +YN GELL H
Sbjct: 177 QYFKFKNDFNSFYYTSLLYLSTLEPSTSITLAERQQLAYDLSISALLGDKIYNFGELLHH 236
Query: 231 PILDSLQQTPNA-WLVELLRAFNAGDIEKFE-LMRPQWSAMNDIKANENKLSQKIALLCL 288
PI++++ N WL +LL A GD +KF+ L++ Q S + + +E+ L QKI L+ L
Sbjct: 237 PIMETIVNDSNYDWLFQLLNALTVGDFDKFDSLIKVQISKIPILAQHESFLRQKICLMTL 296
Query: 289 MELAFKKIPGSHQLSFAEISEAAQLPLIEVEFLIIKALALGLVKGHIDQVDESFNVTWVQ 348
+E F + LSF +IS+A LP VE L+++A++LGL+KG IDQV+E ++WVQ
Sbjct: 297 IETVF--VKNIRMLSFEDISKATHLPKDNVEHLVMRAISLGLLKGSIDQVNELVTISWVQ 354
Query: 349 PRVLSKDQLA 358
PR++S DQ+
Sbjct: 355 PRIISGDQIT 364
Score = 69.7 bits (169), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 30/56 (53%), Positives = 44/56 (78%)
Query: 368 LSFAEISEAAQLPLIEVEFLIIKALALGLVKGHIDQVDESFNVTWVQPRVLSKDQV 423
LSF +IS+A LP VE L+++A++LGL+KG IDQV+E ++WVQPR++S DQ+
Sbjct: 308 LSFEDISKATHLPKDNVEHLVMRAISLGLLKGSIDQVNELVTISWVQPRIISGDQI 363
>pdb|3CHM|A Chain A, Crystal Structure Of Pci Domain From A. Thaliana Cop9
Signalosome Subunit 7 (Csn7)
Length = 169
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 39/148 (26%), Positives = 65/148 (43%), Gaps = 26/148 (17%)
Query: 220 SVYNIGELLAHPILDSLQQTPNAWLVELLRAFNAGDIEKFELMRPQWSAMNDIKANENKL 279
S++ E+LA P + L+ T ++ ++LLR F G W D K N +L
Sbjct: 38 SLFAFSEILALPNVAQLEGTTDSVYLDLLRLFAHG----------TWG---DYKCNATRL 84
Query: 280 SQ-------KIALLCLMELA--FKKIPGSHQLSFAEISEAAQLPLIEVEFLIIKALALGL 330
K+ L ++ LA K +P + ++S +L +FLI + + G+
Sbjct: 85 PHLSPDQILKLKQLTVLTLAESNKVLPYDTLMVELDVSNVRELE----DFLINECMYAGI 140
Query: 331 VKGHIDQVDESFNVTWVQPRVLSKDQLA 358
V+G +DQ+ F V + R L QL
Sbjct: 141 VRGKLDQLKRCFEVPFAAGRDLRPGQLG 168
>pdb|2V0C|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Sulphamoyl Analogue Of Leucyl-Adenylate In The
Synthetic Site And An Adduct Of Amp With 5-Fluoro-1,3-
Dihydro-1-Hydroxy-2,1-Benzoxaborole (An2690) In The
Editing Site
Length = 878
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 6/71 (8%)
Query: 122 ILQAQMIMNKDADKPGSLDE-VEKLIDEIELLVNDIEGVTAIHSRF-YLVASTLYRKQAK 179
+ QA+ + KD + G L E ++K+ +++E L + TAI + +L A YRK
Sbjct: 708 VFQAEALEGKDRELYGKLHETLKKVTEDLEALRFN----TAIAALMEFLNALYEYRKDRP 763
Query: 180 LSLYYRTALRY 190
++ YRTA+RY
Sbjct: 764 VTPVYRTAIRY 774
>pdb|1OBH|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Pre-Transfer Editing Substrate Analogue In Both
Synthetic Active Site And Editing Site
pdb|2BTE|A Chain A, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
With A Trnaleu Transcript In The Post-Editing
Conformation And A Post-Transfer Editing Substrate
Analogue
pdb|2BTE|D Chain D, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
With A Trnaleu Transcript In The Post-Editing
Conformation And A Post-Transfer Editing Substrate
Analogue
pdb|2BYT|A Chain A, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
A Trnaleu Transcript In The Post-Editing Conformation
pdb|2BYT|D Chain D, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
A Trnaleu Transcript In The Post-Editing Conformation
pdb|1H3N|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Sulphamoyl Analogue Of Leucyl-Adenylate
pdb|1OBC|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Post-Transfer Editing Substrate Analogue
pdb|2V0G|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Trna(Leu) Transcript With 5-Fluoro-1,3-Dihydro-1-
Hydroxy-2,1-Benzoxaborole (An2690) Forming An Adduct To
The Ribose Of Adenosine-76 In The Enzyme Editing Site.
pdb|2V0G|D Chain D, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Trna(Leu) Transcript With 5-Fluoro-1,3-Dihydro-1-
Hydroxy-2,1-Benzoxaborole (An2690) Forming An Adduct To
The Ribose Of Adenosine-76 In The Enzyme Editing Site
Length = 878
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 6/71 (8%)
Query: 122 ILQAQMIMNKDADKPGSLDE-VEKLIDEIELLVNDIEGVTAIHSRF-YLVASTLYRKQAK 179
+ QA+ + KD + G L E ++K+ +++E L + TAI + +L A YRK
Sbjct: 708 VFQAEALEGKDRELYGKLHETLKKVTEDLEALRFN----TAIAALMEFLNALYEYRKDRP 763
Query: 180 LSLYYRTALRY 190
++ YRTA+RY
Sbjct: 764 VTPVYRTAIRY 774
>pdb|1IG3|A Chain A, Mouse Thiamin Pyrophosphokinase Complexed With Thiamin
pdb|1IG3|B Chain B, Mouse Thiamin Pyrophosphokinase Complexed With Thiamin
pdb|2F17|A Chain A, Mouse Thiamin Pyrophosphokinase In A Ternary Complex With
Pyrithiamin Pyrophosphate And Amp At 2.5 Angstrom
pdb|2F17|B Chain B, Mouse Thiamin Pyrophosphokinase In A Ternary Complex With
Pyrithiamin Pyrophosphate And Amp At 2.5 Angstrom
Length = 263
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 38/95 (40%), Gaps = 7/95 (7%)
Query: 297 PGSHQLSFAEISEAAQLPLIEVEFLIIKALALGLVKGHIDQVDESFN-------VTWVQP 349
P F + + Q + E E + + LG + G DQ+ S N +T V
Sbjct: 114 PDQDHTDFTKCLQVLQRKIEEKELQVDVIVTLGGLGGRFDQIMASVNTLFQATHITPVPI 173
Query: 350 RVLSKDQLAFKKIPGSHQLSFAEISEAAQLPLIEV 384
++ KD L + PG H+L E + LI V
Sbjct: 174 IIIQKDSLIYLLQPGKHRLHVDTGMEGSWCGLIPV 208
>pdb|2E2E|A Chain A, Tpr Domain Of Nrfg Mediates The Complex Formation
Between Heme Lyase And Formate-Dependent Nitrite
Reductase In Escherichia Coli O157:h7
pdb|2E2E|B Chain B, Tpr Domain Of Nrfg Mediates The Complex Formation
Between Heme Lyase And Formate-Dependent Nitrite
Reductase In Escherichia Coli O157:h7
Length = 177
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 32/62 (51%), Gaps = 6/62 (9%)
Query: 6 DPTVYLTAKQEAYSKNPEISAQWLNLEELYNKKLWHQ-LTLAVLAFVQNPAIQKEGELRD 64
+P L A Q+ NP+ S QW L E Y LW + ++LA+ Q A+Q GE +
Sbjct: 25 NPEAQLQALQDKIRANPQNSEQWALLGEYY---LWQNDYSNSLLAYRQ--ALQLRGENAE 79
Query: 65 LY 66
LY
Sbjct: 80 LY 81
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 0.134 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,920,754
Number of Sequences: 62578
Number of extensions: 454762
Number of successful extensions: 1187
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1177
Number of HSP's gapped (non-prelim): 16
length of query: 436
length of database: 14,973,337
effective HSP length: 102
effective length of query: 334
effective length of database: 8,590,381
effective search space: 2869187254
effective search space used: 2869187254
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)