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= 009327
(537 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3BF0|A Chain A, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Native Crystals
pdb|3BF0|B Chain B, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Native Crystals
pdb|3BF0|C Chain C, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Native Crystals
pdb|3BF0|D Chain D, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Native Crystals
Length = 593
Score = 94.0 bits (232), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 96/400 (24%), Positives = 164/400 (41%), Gaps = 25/400 (6%)
Query: 140 SVLTMKLRGQIADQLKSRFSSGLSLPQICENFVKAAYDPRIVGIYLHIEPLSCG-WGKVE 198
S L+ +L G +D+L+ SL I +A D I GI + ++ + G ++
Sbjct: 53 SKLSRQLLGASSDRLQEN-----SLFDIVNTIRQAKDDRNITGIVMDLKNFAGGDQPSMQ 107
Query: 199 EIRRHVVDFKKSGKFIIGYVPVCGEKEYYLACACEELYAPPSAYFSLYGLTVQASFLGGV 258
I + + +F+ SGK + + +YYLA +++ P L+G + +
Sbjct: 108 YIGKALKEFRDSGKPVYAVGENYSQGQYYLASFANKIWLSPQGVVDLHGFATNGLYYKSL 167
Query: 259 LEKVGIEPQVQRIGKYKSAGDQLTRKTMSEENCEMLTALLDNIYGNWLDKVSSTKGKRKE 318
L+K+ + V R+G YKSA + R MS E + + ++ N+L+ V++ + E
Sbjct: 168 LDKLKVSTHVFRVGTYKSAVEPFIRDDMSPAAREADSRWIGELWQNYLNTVAANRQIPAE 227
Query: 319 DI--------ERFINDGVYKVERLKEEGFITNVLYDDEVISMLKERLGVQK-DKNLPMVD 369
+ E G + E + + E+ L + G K DKN +
Sbjct: 228 QVFPGAQGLLEGLTKTGGDTAKYALENKLVDALASSAEIEKALTKEFGWSKTDKNYRAIS 287
Query: 370 YRKYSGVRRWTLGLTGGGDQIAVIRASGXXXXXXXXXXXXXXXXXXEQLIEKIRKVRESK 429
Y Y+ T T GD I V+ A+G Q IR R
Sbjct: 288 YYDYA---LKTPADT--GDSIGVVFANGAIMDGEETQGNVGGDTTAAQ----IRDARLDP 338
Query: 430 RYKAAIIRIDSPGGDALASDLM-WREIRLLSESKPVIASMSDVXXXXXXXXXXXXXTILA 488
+ KA ++R++SPGG AS+++ + KPV+ SM + I+A
Sbjct: 339 KVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVVSMGGMAASGGYWISTPANYIVA 398
Query: 489 ENLTLTGSIGVVTGKFNLGKLYEKIGFNKEIISRGKYAEV 528
TLTGSIG+ + + IG + + +S A+V
Sbjct: 399 NPSTLTGSIGIFGVITTVENSLDSIGVHTDGVSTSPLADV 438
>pdb|3BEZ|A Chain A, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Semet Crystals
pdb|3BEZ|B Chain B, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Semet Crystals
pdb|3BEZ|C Chain C, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Semet Crystals
pdb|3BEZ|D Chain D, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Semet Crystals
Length = 593
Score = 80.9 bits (198), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 95/400 (23%), Positives = 160/400 (40%), Gaps = 25/400 (6%)
Query: 140 SVLTMKLRGQIADQLKSRFSSGLSLPQICENFVKAAYDPRIVGIYLHIEPLSCG-WGKVE 198
S L+ +L G +D+L+ SL I +A D I GI ++ + G +
Sbjct: 53 SKLSRQLLGASSDRLQEN-----SLFDIVNTIRQAKDDRNITGIVXDLKNFAGGDQPSXQ 107
Query: 199 EIRRHVVDFKKSGKFIIGYVPVCGEKEYYLACACEELYAPPSAYFSLYGLTVQASFLGGV 258
I + + +F+ SGK + + +YYLA +++ P L+G + +
Sbjct: 108 YIGKALKEFRDSGKPVYAVGENYSQGQYYLASFANKIWLSPQGVVDLHGFATNGLYYKSL 167
Query: 259 LEKVGIEPQVQRIGKYKSAGDQLTRKTMSEENCEMLTALLDNIYGNWLDKVSSTKGKRKE 318
L+K+ + V R+G YKSA + R S E + + ++ N+L+ V++ + E
Sbjct: 168 LDKLKVSTHVFRVGTYKSAVEPFIRDDXSPAAREADSRWIGELWQNYLNTVAANRQIPAE 227
Query: 319 DI--------ERFINDGVYKVERLKEEGFITNVLYDDEVISMLKERLGVQK-DKNLPMVD 369
+ E G + E + + E+ L + G K DKN +
Sbjct: 228 QVFPGAQGLLEGLTKTGGDTAKYALENKLVDALASSAEIEKALTKEFGWSKTDKNYRAIS 287
Query: 370 YRKYSGVRRWTLGLTGGGDQIAVIRASGXXXXXXXXXXXXXXXXXXEQLIEKIRKVRESK 429
Y Y+ T T GD I V+ A+G Q IR R
Sbjct: 288 YYDYA---LKTPADT--GDSIGVVFANGAIXDGEETQGNVGGDTTAAQ----IRDARLDP 338
Query: 430 RYKAAIIRIDSPGGDALASDLM-WREIRLLSESKPVIASMSDVXXXXXXXXXXXXXTILA 488
+ KA ++R++SPGG AS+++ + KPV+ S I+A
Sbjct: 339 KVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVVSXGGXAASGGYWISTPANYIVA 398
Query: 489 ENLTLTGSIGVVTGKFNLGKLYEKIGFNKEIISRGKYAEV 528
TLTGSIG+ + + IG + + +S A+V
Sbjct: 399 NPSTLTGSIGIFGVITTVENSLDSIGVHTDGVSTSPLADV 438
>pdb|3RST|A Chain A, Crystal Structure Of Bacillus Subtilis Signal Peptide
Peptidase A
pdb|3RST|B Chain B, Crystal Structure Of Bacillus Subtilis Signal Peptide
Peptidase A
pdb|3RST|C Chain C, Crystal Structure Of Bacillus Subtilis Signal Peptide
Peptidase A
pdb|3RST|D Chain D, Crystal Structure Of Bacillus Subtilis Signal Peptide
Peptidase A
pdb|3RST|E Chain E, Crystal Structure Of Bacillus Subtilis Signal Peptide
Peptidase A
pdb|3RST|F Chain F, Crystal Structure Of Bacillus Subtilis Signal Peptide
Peptidase A
pdb|3RST|G Chain G, Crystal Structure Of Bacillus Subtilis Signal Peptide
Peptidase A
pdb|3RST|H Chain H, Crystal Structure Of Bacillus Subtilis Signal Peptide
Peptidase A
Length = 240
Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 54/243 (22%), Positives = 112/243 (46%), Gaps = 15/243 (6%)
Query: 141 VLTMKLRGQIADQLKSRF---SSGLSLPQICENFVKAAYDPRIVGIYLHIEPLSCGWGKV 197
+ +++ G I D S + G + +N +A D + GI L + G +
Sbjct: 5 IAVLEVSGTIQDNGDSSSLLGADGYNHRTFLKNLERAKDDKTVKGIVLKVNSPGGGVYES 64
Query: 198 EEIRRHVVDFKKSGKFIIGYVPV---CGEKEYYLACACEELYAPPSAYFSLYGLTVQASF 254
EI + + + KK K I YV + YY++ A ++++A P G+ +++
Sbjct: 65 AEIHKKLEEIKKETKKPI-YVSMGSMAASGGYYISTAADKIFATPETLTGSLGVIMESVN 123
Query: 255 LGGVLEKVGIEPQVQRIGKYKSAGDQLTRKTMSEENCEMLTALLDNIYGNWLDKVSSTKG 314
+ +K+GI + + G + A + M++E ++ +++DN Y ++D +S +G
Sbjct: 124 YSKLADKLGISFETIKSGAH--ADIMSPSREMTKEEKNIMQSMVDNSYEGFVDVISKGRG 181
Query: 315 KRKEDIERFINDGVYKVERLKEEGFITNV-LYDDEVISMLKERLGVQKD-KNLPMVDYRK 372
K ++++ + VY + K+ + + YDD + +M K+ KD KN ++ Y +
Sbjct: 182 MPKAEVKKIADGRVYDGRQAKKLNLVDELGFYDDTITAMKKD----HKDLKNASVISYEE 237
Query: 373 YSG 375
G
Sbjct: 238 SFG 240
Score = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 58/115 (50%), Gaps = 2/115 (1%)
Query: 418 LIEKIRKVRESKRYKAAIIRIDSPGGDALASDLMWREIRLLSES--KPVIASMSDVXXXX 475
++ + + ++ K K +++++SPGG S + +++ + + KP+ SM +
Sbjct: 34 FLKNLERAKDDKTVKGIVLKVNSPGGGVYESAEIHKKLEEIKKETKKPIYVSMGSMAASG 93
Query: 476 XXXXXXXXXTILAENLTLTGSIGVVTGKFNLGKLYEKIGFNKEIISRGKYAEVLA 530
I A TLTGS+GV+ N KL +K+G + E I G +A++++
Sbjct: 94 GYYISTAADKIFATPETLTGSLGVIMESVNYSKLADKLGISFETIKSGAHADIMS 148
>pdb|4GIZ|C Chain C, Crystal Structure Of Full-length Human Papillomavirus
Oncoprotein E6 In Complex With Lxxll Peptide Of
Ubiquitin Ligase E6ap At 2.55 A Resolution
pdb|4GIZ|D Chain D, Crystal Structure Of Full-length Human Papillomavirus
Oncoprotein E6 In Complex With Lxxll Peptide Of
Ubiquitin Ligase E6ap At 2.55 A Resolution
Length = 142
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 41/96 (42%), Gaps = 20/96 (20%)
Query: 164 LPQICENFVKAAYDPRIVGIYLHIEPLSCGWGKVEEIRRHVVDFKKSGKFIIGYVPVCGE 223
LPQ+C +D I+ L C + K + +RR V DF + I+ +
Sbjct: 11 LPQLCTELQTTIHD--II--------LECVYCKQQLLRREVYDFARRDLCIVY-----RD 55
Query: 224 KEYYLAC-ACEELYAPPSAY----FSLYGLTVQASF 254
Y C C + Y+ S Y +SLYG T++ +
Sbjct: 56 GNPYAVCDKCLKFYSKISEYRHYSYSLYGTTLEQQY 91
>pdb|1OHV|A Chain A, 4-aminobutyrate-aminotransferase From Pig
pdb|1OHV|B Chain B, 4-aminobutyrate-aminotransferase From Pig
pdb|1OHV|C Chain C, 4-aminobutyrate-aminotransferase From Pig
pdb|1OHV|D Chain D, 4-aminobutyrate-aminotransferase From Pig
pdb|1OHW|A Chain A, 4-Aminobutyrate-Aminotransferase Inactivated By
Gamma-Vinyl Gaba
pdb|1OHW|B Chain B, 4-Aminobutyrate-Aminotransferase Inactivated By
Gamma-Vinyl Gaba
pdb|1OHW|C Chain C, 4-Aminobutyrate-Aminotransferase Inactivated By
Gamma-Vinyl Gaba
pdb|1OHW|D Chain D, 4-Aminobutyrate-Aminotransferase Inactivated By
Gamma-Vinyl Gaba
pdb|1OHY|A Chain A, 4-Aminobutyrate-Aminotransferase Inactivated By
Gamma-Ethynyl Gaba
pdb|1OHY|B Chain B, 4-Aminobutyrate-Aminotransferase Inactivated By
Gamma-Ethynyl Gaba
pdb|1OHY|C Chain C, 4-Aminobutyrate-Aminotransferase Inactivated By
Gamma-Ethynyl Gaba
pdb|1OHY|D Chain D, 4-Aminobutyrate-Aminotransferase Inactivated By
Gamma-Ethynyl Gaba
Length = 472
Score = 28.9 bits (63), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 28/46 (60%), Gaps = 2/46 (4%)
Query: 416 EQLIEKIRKVRESKRYKAAII--RIDSPGGDALASDLMWREIRLLS 459
E++ + I K R+ K+ A II I S GGD ASD +R++R +S
Sbjct: 243 EEVEDLIVKYRKKKKTVAGIIVEPIQSEGGDNHASDDFFRKLRDIS 288
>pdb|1X41|A Chain A, Solution Structure Of The Myb-Like Dna Binding Domain Of
Human Transcriptional Adaptor 2-Like, Isoform B
Length = 60
Score = 28.5 bits (62), Expect = 9.8, Method: Composition-based stats.
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 287 SEENCEMLTALLDNIYGNWLDKVSSTKGKRKEDIER 322
++E +L A++D +GNW D + K KE+ E+
Sbjct: 13 AQEEMALLEAVMDCGFGNWQDVANQMCTKTKEECEK 48
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 0.136 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,618,504
Number of Sequences: 62578
Number of extensions: 568738
Number of successful extensions: 1215
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1204
Number of HSP's gapped (non-prelim): 10
length of query: 537
length of database: 14,973,337
effective HSP length: 103
effective length of query: 434
effective length of database: 8,527,803
effective search space: 3701066502
effective search space used: 3701066502
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: 54 (25.4 bits)