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= 040506
(365 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XE4|A Chain A, Structure Of Oligopeptidase B From Leishmania Major
Length = 751
Score = 80.5 bits (197), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 47/169 (27%), Positives = 85/169 (50%), Gaps = 16/169 (9%)
Query: 31 QDPYHWMKNTN--DPDFINHLNHENSYAQASMSDTQTLQRTLFSEMKNRMPSKISTPPER 88
+DPY WM++ + DP I HLN E Y QA +D L+ +++E + + + P
Sbjct: 65 EDPYFWMRDDDRKDPAVIEHLNKEKVYFQARSADIAQLRDDIYAEHISHINEDDMSAPYV 124
Query: 89 WGPWLYYQYIPEGKEYPLLCRRLETEKSGWLQTVFHNVRGGFGKEEILLDWNEIAEKYGY 148
+G + YY +GK Y + CR ++ G EE+++D N++AE +
Sbjct: 125 YGKYRYYTREVKGKPYKIYCRVFTDKEP-----------GDVAAEEVIIDVNQVAEGKAF 173
Query: 149 VHVGTCR-VSPDHNFLAYTIDTSGDEQFMLQIKDLRN--QCIVPRVLCT 194
V + P+H+ +A+++D SG+E + ++ K + + Q I +V T
Sbjct: 174 CDVMEVKPAPPEHDLVAFSVDMSGNEVYTIEFKRISDPSQTIADKVSGT 222
>pdb|2BKL|A Chain A, Structural And Mechanistic Analysis Of Two Prolyl
Endopeptidases: Role Of Inter-Domain Dynamics In
Catalysis And Specificity
pdb|2BKL|B Chain B, Structural And Mechanistic Analysis Of Two Prolyl
Endopeptidases: Role Of Inter-Domain Dynamics In
Catalysis And Specificity
Length = 695
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 37/158 (23%), Positives = 73/158 (46%), Gaps = 20/158 (12%)
Query: 26 HGLTWQDPYHWMKNTNDPDFINHLNHENSYAQASMSDTQTLQRTLFSEMKNRM-PSKIST 84
HG+ DPY W+++ P+ + +N++A+ +++ + L + K +ST
Sbjct: 16 HGVQVADPYRWLEDEKAPEVQTWMTAQNAHAREALAKFPG-REALAARFKELFYTDSVST 74
Query: 85 PPERWGPWLYYQYIPEGKEYPLLCRRLETEKSGWLQTVFHNVRGGFGKEEILLDWNEIAE 144
P R G + Y + + ++ L R+ E+ G+E++LLD N +
Sbjct: 75 PSRRNGRFFYVRTHKDKEKAILYWRQGES-----------------GQEKVLLDPNGWS- 116
Query: 145 KYGYVHVGTCRVSPDHNFLAYTIDTSGDEQFMLQIKDL 182
K G V +GT VS D +A+ + ++ +L + D+
Sbjct: 117 KDGTVSLGTWAVSWDGKKVAFAQKPNAADEAVLHVIDV 154
>pdb|1DUS|A Chain A, Mj0882-A Hypothetical Protein From M. Jannaschii
Length = 194
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 62 DTQTLQRTLFSEMKNRMPSKIST-PPERWGPWLYYQYIPEGKE 103
D + + L+ +K+R +KI T PP R G + ++ I EGKE
Sbjct: 103 DIRVVHSDLYENVKDRKYNKIITNPPIRAGKEVLHRIIEEGKE 145
>pdb|2ZB4|A Chain A, Crystal Structure Of Human 15-Ketoprostaglandin Delta-13-
Reductase In Complex With Nadp And 15-Keto-Pge2
pdb|2ZB7|A Chain A, Crystal Structure Of Human 15-Ketoprostaglandin Delta-13-
Reductase In Complex With Nadph And Nicotinamide
pdb|2ZB8|A Chain A, Crystal Structure Of Human 15-Ketoprostaglandin Delta-13-
Reductase In Complex With Nadp And Indomethacin
Length = 357
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 4/80 (5%)
Query: 275 WQN-IILPGEDISLQDMDIFDGHLVLFVSKKGVPMLCSIDLSINFECKYQMEIENLNPWF 333
WQ +IL G + D + DGHL F+ G+P L S+ I + K + +
Sbjct: 109 WQTKVILDGNSLEKVDPQLVDGHLSYFLGAIGMPGLTSL---IGIQEKGHITAGSNKTMV 165
Query: 334 FPLPSSSCSIVPGSNHDFMS 353
+ +C V G F+
Sbjct: 166 VSGAAGACGSVAGQIGHFLG 185
>pdb|2W4Q|A Chain A, Crystal Structure Of Human Zinc-Binding Alcohol
Dehydrogenase 1 (Zadh1) In Ternary Complex With Nadp And
18beta-Glycyrrhetinic Acid
pdb|2VNA|A Chain A, Structure Of Human Zinc-Binding Alcohol Dehydrogenase 1 (
Zadh1)
pdb|2W98|A Chain A, Crystal Structure Of Human Zinc-Binding Alcohol
Dehydrogenase 1 (Zadh1) In Ternary Complex With Nadp And
Phenylbutazone
pdb|2W98|B Chain B, Crystal Structure Of Human Zinc-Binding Alcohol
Dehydrogenase 1 (Zadh1) In Ternary Complex With Nadp And
Phenylbutazone
Length = 357
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 4/80 (5%)
Query: 275 WQN-IILPGEDISLQDMDIFDGHLVLFVSKKGVPMLCSIDLSINFECKYQMEIENLNPWF 333
WQ +IL G + D + DGHL F+ G+P L S+ I + K + +
Sbjct: 104 WQTKVILDGNSLEKVDPQLVDGHLSYFLGAIGMPGLTSL---IGIQEKGHITAGSNKTMV 160
Query: 334 FPLPSSSCSIVPGSNHDFMS 353
+ +C V G F+
Sbjct: 161 VSGAAGACGSVAGQIGHFLG 180
>pdb|3IF8|A Chain A, Crystal Structure Of Zwilch, A Member Of The Rzz
Kinetochore
Length = 339
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 235 ASSEEGLCDRCDQSISENEECSSGDYYLARCRAEKLYSANWQNI 278
+S EG C + I+ N + Y+ C+A+K YS N +N+
Sbjct: 147 SSDPEGTCWLGAELITTNNSITGIVLYVVSCKADKNYSVNLENL 190
>pdb|3K4U|A Chain A, Crystal Structure Of Putative Binding Component Of Abc
Transporter From Wolinella Succinogenes Dsm 1740
Complexed With Lysine
pdb|3K4U|B Chain B, Crystal Structure Of Putative Binding Component Of Abc
Transporter From Wolinella Succinogenes Dsm 1740
Complexed With Lysine
pdb|3K4U|C Chain C, Crystal Structure Of Putative Binding Component Of Abc
Transporter From Wolinella Succinogenes Dsm 1740
Complexed With Lysine
pdb|3K4U|D Chain D, Crystal Structure Of Putative Binding Component Of Abc
Transporter From Wolinella Succinogenes Dsm 1740
Complexed With Lysine
pdb|3K4U|E Chain E, Crystal Structure Of Putative Binding Component Of Abc
Transporter From Wolinella Succinogenes Dsm 1740
Complexed With Lysine
pdb|3K4U|F Chain F, Crystal Structure Of Putative Binding Component Of Abc
Transporter From Wolinella Succinogenes Dsm 1740
Complexed With Lysine
Length = 245
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 32 DPYHWMKNTNDPDFINHLNH 51
+P W DPDF+N LNH
Sbjct: 189 EPLGWAIKKGDPDFLNWLNH 208
>pdb|2E24|A Chain A, Crystal Structure Of A Mutant (R612a) Of Xanthan Lyase
Length = 752
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 214 FCVDITSTKDGKFITVNSNSRASSEEGLCDRCDQSISENEECSSGDYYLARCRAEKLYSA 273
F D T T D IT N + + E +R + S+S+ + ++G + R+ + YSA
Sbjct: 661 FWTDTTQTAD--LITSNKKASVMTREIADERLEASVSDPTQANNGTIAIELARSAEGYSA 718
Query: 274 N 274
+
Sbjct: 719 D 719
>pdb|1X1H|A Chain A, Crystal Structure Of Xanthan Lyase (N194a)
pdb|1X1I|A Chain A, Crystal Structure Of Xanthan Lyase (N194a) Complexed With
A Product
pdb|1X1J|A Chain A, Crystal Structure Of Xanthan Lyase (N194a) With A
Substrate
Length = 752
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 214 FCVDITSTKDGKFITVNSNSRASSEEGLCDRCDQSISENEECSSGDYYLARCRAEKLYSA 273
F D T T D IT N + + E +R + S+S+ + ++G + R+ + YSA
Sbjct: 661 FWTDTTQTAD--LITSNKKASVMTREIADERLEASVSDPTQANNGTIAIELARSAEGYSA 718
Query: 274 N 274
+
Sbjct: 719 D 719
>pdb|2E22|A Chain A, Crystal Structure Of Xanthan Lyase In Complex With Mannose
Length = 752
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 214 FCVDITSTKDGKFITVNSNSRASSEEGLCDRCDQSISENEECSSGDYYLARCRAEKLYSA 273
F D T T D IT N + + E +R + S+S+ + ++G + R+ + YSA
Sbjct: 661 FWTDTTQTAD--LITSNKKASVMTREIADERLEASVSDPTQANNGTIAIELARSAEGYSA 718
Query: 274 N 274
+
Sbjct: 719 D 719
>pdb|1J0M|A Chain A, Crystal Structure Of Bacillus Sp. Gl1 Xanthan Lyase That
Acts On Side Chains Of Xanthan
pdb|1J0N|A Chain A, Crystal Structure Of Bacillus Sp. Gl1 Xanthan Lyase That
Acts On Side Chains Of Xanthan
Length = 752
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 214 FCVDITSTKDGKFITVNSNSRASSEEGLCDRCDQSISENEECSSGDYYLARCRAEKLYSA 273
F D T T D IT N + + E +R + S+S+ + ++G + R+ + YSA
Sbjct: 661 FWTDTTQTAD--LITSNKKASVMTREIADERLEASVSDPTQANNGTIAIELARSAEGYSA 718
Query: 274 N 274
+
Sbjct: 719 D 719
>pdb|2ZB3|A Chain A, Crystal Structure Of Mouse 15-Ketoprostaglandin Delta-13-
Reductase In Complex With Nadph
Length = 353
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 275 WQN-IILPGEDISLQDMDIFDGHLVLFVSKKGVPMLCSI 312
WQ IL G + D + DGHL F+ G+P L S+
Sbjct: 105 WQTKAILDGNGLEKVDPQLVDGHLSYFLGAIGMPGLTSL 143
>pdb|1VJ1|A Chain A, Crystal Structure Of Putative Nadph-Dependent
Oxidoreductase From Mus Musculus At 2.10 A Resolution
Length = 363
Score = 28.1 bits (61), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 275 WQ-NIILPGEDISLQDMDIFDGHLVLFVSKKGVPMLCSI 312
WQ IL G + D + DGHL F+ G P L S+
Sbjct: 115 WQTKAILDGNGLEKVDPQLVDGHLSYFLGAIGXPGLTSL 153
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 0.134 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,636,570
Number of Sequences: 62578
Number of extensions: 490024
Number of successful extensions: 1096
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1086
Number of HSP's gapped (non-prelim): 17
length of query: 365
length of database: 14,973,337
effective HSP length: 100
effective length of query: 265
effective length of database: 8,715,537
effective search space: 2309617305
effective search space used: 2309617305
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: 52 (24.6 bits)