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= 005059
(716 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3CT2|A Chain A, Crystal Structure Of Muconate Cycloisomerase From
Pseudomonas Fluorescens
pdb|3CT2|B Chain B, Crystal Structure Of Muconate Cycloisomerase From
Pseudomonas Fluorescens
pdb|3DGB|A Chain A, Crystal Structure Of Muconate Lactonizing Enzyme From
Pseudomonas Fluorescens Complexed With Muconolactone
pdb|3FJ4|A Chain A, Crystal Structure Of Muconate Lactonizing Enzyme From
Pseudomonas Fluorescens Complexed With Muconolactone
pdb|3FJ4|B Chain B, Crystal Structure Of Muconate Lactonizing Enzyme From
Pseudomonas Fluorescens Complexed With Muconolactone
Length = 382
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 44/100 (44%), Gaps = 10/100 (10%)
Query: 249 SIRLWVDRNKKSIFFYQDSSETDPFILGIQTEWQLQQMIR---FGHRSLIAADSTFGIKR 305
SI+ +DR + QD+S + +L +L+Q IR F + +A KR
Sbjct: 68 SIKTNIDRFVAPLLIGQDASNINAAML------RLEQSIRGNTFAKSGIESALLDAQGKR 121
Query: 306 LKYPLCTLLVFDSRQHALPVAWVVTRSSAKPDVTKWMKSL 345
L P+ LL R ALPVAW + D+ + K L
Sbjct: 122 LGLPVSELLGGRVRD-ALPVAWTLASGDTAKDIAEAQKML 160
>pdb|2XHL|A Chain A, Structure Of A Functional Derivative Of Clostridium
Botulinum Neurotoxin Type B
Length = 453
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 407 REIFKRLGNILYSIWDGADPFVNLEVLIQDFVDQTAFIEYFKASWMPKLAMWLSTMRALP 466
R I RL +L I +DP +N+ + F D+ F+E + + + + ++L
Sbjct: 297 RGIVDRLNKVLVCI---SDPNININIYKNKFKDKYKFVEDSEGKYSIDVESFDKLYKSLM 353
Query: 467 LASQEASGAIEAYHVKLKTKLFDDS 491
E + A E Y +K + F DS
Sbjct: 354 FGFTETNIA-ENYKIKTRASYFSDS 377
>pdb|1F82|A Chain A, Botulinum Neurotoxin Type B Catalytic Domain
Length = 424
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 407 REIFKRLGNILYSIWDGADPFVNLEVLIQDFVDQTAFIEYFKASWMPKLAMWLSTMRALP 466
R I RL +L I +DP +N+ + F D+ F+E + + + + ++L
Sbjct: 296 RGIVDRLNKVLVCI---SDPNININIYKNKFKDKYKFVEDSEGKYSIDVESFDKLYKSLM 352
Query: 467 LASQEASGAIEAYHVKLKTKLFDDS 491
E + A E Y +K + F DS
Sbjct: 353 FGFTETNIA-ENYKIKTRASYFSDS 376
>pdb|2ETF|A Chain A, Crystal Structure Of Full Length Botulinum Neurotoxin
(Type B) Light Chain
pdb|2ETF|B Chain B, Crystal Structure Of Full Length Botulinum Neurotoxin
(Type B) Light Chain
Length = 441
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 407 REIFKRLGNILYSIWDGADPFVNLEVLIQDFVDQTAFIEYFKASWMPKLAMWLSTMRALP 466
R I RL +L I +DP +N+ + F D+ F+E + + + + ++L
Sbjct: 297 RGIVDRLNKVLVCI---SDPNININIYKNKFKDKYKFVEDSEGKYSIDVESFDKLYKSLM 353
Query: 467 LASQEASGAIEAYHVKLKTKLFDDS 491
E + A E Y +K + F DS
Sbjct: 354 FGFTETNIA-ENYKIKTRASYFSDS 377
>pdb|1EPW|A Chain A, Crystal Structure Of Clostridium Neurotoxin Type B
pdb|1F31|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
Complexed With A Trisaccharide
pdb|1I1E|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
Complexed With Doxorubicin
pdb|1G9A|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
Complexed With An Inhibitor (Experiment 3)
pdb|1G9B|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
Complexed With An Inhibitor (Experiment 1)
pdb|1G9C|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
Complexed With An Inhibitor (Experiment 4)
pdb|1G9D|A Chain A, Crystal Structure Of Clostridium Botulinum Neurotoxin B
Complexed With An Inhibitor (Experiment 2)
pdb|1S0B|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 4.0
pdb|1S0C|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 5.0
pdb|1S0D|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 5.5
pdb|1S0E|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 6.0
pdb|1S0F|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B At Ph 7.0
pdb|1S0G|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type B Apo Form
pdb|2NP0|A Chain A, Crystal Structure Of The Botulinum Neurotoxin Type B
Complexed With Synaptotagamin-Ii Ectodomain
Length = 1290
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 407 REIFKRLGNILYSIWDGADPFVNLEVLIQDFVDQTAFIEYFKASWMPKLAMWLSTMRALP 466
R I RL +L I +DP +N+ + F D+ F+E + + + + ++L
Sbjct: 296 RGIVDRLNKVLVCI---SDPNININIYKNKFKDKYKFVEDSEGKYSIDVESFDKLYKSLM 352
Query: 467 LASQEASGAIEAYHVKLKTKLFDDS 491
E + A E Y +K + F DS
Sbjct: 353 FGFTETNIA-ENYKIKTRASYFSDS 376
>pdb|3ZUQ|A Chain A, Crystal Structure Of An Engineered Botulinum Neurotoxin
Type B-Derivative, Lc-B-Gs-Hn-B
Length = 906
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 407 REIFKRLGNILYSIWDGADPFVNLEVLIQDFVDQTAFIEYFKASWMPKLAMWLSTMRALP 466
R I RL +L I +DP +N+ + F D+ F+E + + + + ++L
Sbjct: 297 RGIVDRLNKVLVCI---SDPNININIYKNKFKDKYKFVEDSEGKYSIDVESFDKLYKSLM 353
Query: 467 LASQEASGAIEAYHVKLKTKLFDDS 491
E + A E Y +K + F DS
Sbjct: 354 FGFTETNIA-ENYKIKTRASYFSDS 377
>pdb|2C8J|A Chain A, Crystal Structure Of Ferrochelatase Hemh-1 From Bacillus
Anthracis, Str. Ames
pdb|2C8J|B Chain B, Crystal Structure Of Ferrochelatase Hemh-1 From Bacillus
Anthracis, Str. Ames
Length = 311
Score = 30.4 bits (67), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 37/139 (26%), Positives = 59/139 (42%), Gaps = 32/139 (23%)
Query: 175 AKKIPYICNEIQQQTMSMIYLGIP------EESVLEKHIEGIQRYCGSDAKVNSLASQY- 227
AKK+ NE+Q + +YLG+ E++V E H +GIQ DA LA Y
Sbjct: 63 AKKLEKRLNEVQDEVEYHMYLGLKHIEPFIEDAVKEMHNDGIQ-----DAIALVLAPHYS 117
Query: 228 --------------VQKLGMIIRRSTHELD--LDDQASIRLWVDRNKKSIFFYQDSSETD 271
+KLG + + H +D + I+ WVD KSI+ +E +
Sbjct: 118 TFSVKSYVGRAQEEAEKLGNL---TIHGIDSWYKEPKFIQYWVDA-VKSIYSGMSDAERE 173
Query: 272 PFILGIQTEWQLQQMIRFG 290
+L + +++I G
Sbjct: 174 KAVLIVSAHSLPEKIIAMG 192
>pdb|1VSY|D Chain D, Proteasome Activator Complex
pdb|1VSY|R Chain R, Proteasome Activator Complex
pdb|3L5Q|I Chain I, Proteasome Activator Complex
pdb|3L5Q|U Chain U, Proteasome Activator Complex
Length = 227
Score = 29.3 bits (64), Expect = 8.1, Method: Composition-based stats.
Identities = 15/64 (23%), Positives = 31/64 (48%)
Query: 45 ARVDSFIIGECSNVECPTRFHIERGRKRSRGSLKEYKDDEYLEYRLYWCSFGPENYGEGG 104
+++DS ++ S + +R IE+ R ++ +D +EY + + + Y + G
Sbjct: 49 SKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSG 108
Query: 105 GVLP 108
GV P
Sbjct: 109 GVRP 112
>pdb|1FNT|D Chain D, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1FNT|R Chain R, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|D Chain D, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1Z7Q|R Chain R, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|2ZCY|C Chain C, Yeast 20s Proteasome:syringolin A-Complex
pdb|2ZCY|Q Chain Q, Yeast 20s Proteasome:syringolin A-Complex
pdb|3BDM|C Chain C, Yeast 20s Proteasome:glidobactin A-Complex
pdb|3BDM|Q Chain Q, Yeast 20s Proteasome:glidobactin A-Complex
pdb|3NZJ|C Chain C, Crystal Structure Of Yeast 20s Proteasome In Complex With
Ligand 2a
pdb|3NZJ|Q Chain Q, Crystal Structure Of Yeast 20s Proteasome In Complex With
Ligand 2a
pdb|3NZW|C Chain C, Crystal Structure Of The Yeast 20s Proteasome In Complex
With 2b
pdb|3NZW|Q Chain Q, Crystal Structure Of The Yeast 20s Proteasome In Complex
With 2b
pdb|3NZX|C Chain C, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Ligand 2c
pdb|3NZX|Q Chain Q, Crystal Structure Of The Yeast 20s Proteasome In Complex
With Ligand 2c
pdb|3UN4|C Chain C, Yeast 20s Proteasome In Complex With Pr-957 (Morpholine)
pdb|3UN4|Q Chain Q, Yeast 20s Proteasome In Complex With Pr-957 (Morpholine)
pdb|3UN8|C Chain C, Yeast 20s Proteasome In Complex With Pr-957 (Epoxide)
pdb|3UN8|Q Chain Q, Yeast 20s Proteasome In Complex With Pr-957 (Epoxide)
pdb|4B4T|D Chain D, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
pdb|4G4S|D Chain D, Structure Of Proteasome-Pba1-Pba2 Complex
pdb|4INR|C Chain C, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
Lu102
pdb|4INR|Q Chain Q, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
Lu102
pdb|4INT|C Chain C, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
Lu122
pdb|4INT|Q Chain Q, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
Lu122
pdb|4INU|C Chain C, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
Lu112
pdb|4INU|Q Chain Q, Yeast 20s Proteasome In Complex With The Vinyl Sulfone
Lu112
Length = 254
Score = 29.3 bits (64), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 31/64 (48%)
Query: 45 ARVDSFIIGECSNVECPTRFHIERGRKRSRGSLKEYKDDEYLEYRLYWCSFGPENYGEGG 104
+++DS ++ S + +R IE+ R ++ +D +EY + + + Y + G
Sbjct: 65 SKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSG 124
Query: 105 GVLP 108
GV P
Sbjct: 125 GVRP 128
>pdb|1G0U|C Chain C, A Gated Channel Into The Proteasome Core Particle
pdb|1G0U|Q Chain Q, A Gated Channel Into The Proteasome Core Particle
pdb|3MG6|C Chain C, Structure Of Yeast 20s Open-Gate Proteasome With Compound
6
pdb|3MG6|Q Chain Q, Structure Of Yeast 20s Open-Gate Proteasome With Compound
6
pdb|3MG7|C Chain C, Structure Of Yeast 20s Open-Gate Proteasome With Compound
8
pdb|3MG7|Q Chain Q, Structure Of Yeast 20s Open-Gate Proteasome With Compound
8
pdb|3MG8|C Chain C, Structure Of Yeast 20s Open-Gate Proteasome With Compound
16
pdb|3MG8|Q Chain Q, Structure Of Yeast 20s Open-Gate Proteasome With Compound
16
Length = 243
Score = 28.9 bits (63), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 31/64 (48%)
Query: 45 ARVDSFIIGECSNVECPTRFHIERGRKRSRGSLKEYKDDEYLEYRLYWCSFGPENYGEGG 104
+++DS ++ S + +R IE+ R ++ +D +EY + + + Y + G
Sbjct: 65 SKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSG 124
Query: 105 GVLP 108
GV P
Sbjct: 125 GVRP 128
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
0.322 0.136 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,827,096
Number of Sequences: 62578
Number of extensions: 841964
Number of successful extensions: 1920
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1915
Number of HSP's gapped (non-prelim): 13
length of query: 716
length of database: 14,973,337
effective HSP length: 106
effective length of query: 610
effective length of database: 8,340,069
effective search space: 5087442090
effective search space used: 5087442090
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)