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= 024826
(262 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WJ3|A Chain A, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a
pdb|2WJ3|B Chain B, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a
pdb|2WJ3|C Chain C, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a
pdb|2WJ3|D Chain D, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a
pdb|2WJ4|A Chain A, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a Anaerobically Complexed With Its
Natural Substrate 1-H-3-Hydroxy-4-Oxoquinaldine
pdb|2WJ4|B Chain B, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a Anaerobically Complexed With Its
Natural Substrate 1-H-3-Hydroxy-4-Oxoquinaldine
pdb|2WJ4|C Chain C, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a Anaerobically Complexed With Its
Natural Substrate 1-H-3-Hydroxy-4-Oxoquinaldine
pdb|2WJ4|D Chain D, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a Anaerobically Complexed With Its
Natural Substrate 1-H-3-Hydroxy-4-Oxoquinaldine
pdb|2WJ6|A Chain A, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a Complexed With Its Natural
Product N-Acetylanthranilate
pdb|2WJ6|B Chain B, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a Complexed With Its Natural
Product N-Acetylanthranilate
pdb|2WJ6|C Chain C, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a Complexed With Its Natural
Product N-Acetylanthranilate
pdb|2WJ6|D Chain D, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a Complexed With Its Natural
Product N-Acetylanthranilate
Length = 276
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 41/86 (47%), Gaps = 6/86 (6%)
Query: 112 DSPVLILMPGLTGGSEDSYVRHMLLRARSKGWRVVVFNSRGCGDSPVTTPQFYSASFLGD 171
D P ++L+PG D V L++ +RV+V N RG G SP P F + D
Sbjct: 26 DGPAILLLPGWC---HDHRVYKYLIQELDADFRVIVPNWRGHGLSPSEVPDFGYQEQVKD 82
Query: 172 MQEVVAHVGSK--YPKAHLYAVGWSL 195
E++ +G + P +H + GW L
Sbjct: 83 ALEILDQLGVETFLPVSHSHG-GWVL 107
>pdb|2WM2|A Chain A, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a In Complex With Chloride
pdb|2WM2|B Chain B, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a In Complex With Chloride
pdb|2WM2|C Chain C, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a In Complex With Chloride
pdb|2WM2|D Chain D, Crystal Structure Of The Cofactor-Devoid 1-H-3-Hydroxy-4-
Oxoquinaldine 2,4-Dioxygenase (Hod) From Arthrobacter
Nitroguajacolicus Ru61a In Complex With Chloride
Length = 279
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 41/86 (47%), Gaps = 6/86 (6%)
Query: 112 DSPVLILMPGLTGGSEDSYVRHMLLRARSKGWRVVVFNSRGCGDSPVTTPQFYSASFLGD 171
D P ++L+PG D V L++ +RV+V N RG G SP P F + D
Sbjct: 29 DGPAILLLPGWC---HDHRVYKYLIQELDADFRVIVPNWRGHGLSPSEVPDFGYQEQVKD 85
Query: 172 MQEVVAHVGSK--YPKAHLYAVGWSL 195
E++ +G + P +H + GW L
Sbjct: 86 ALEILDQLGVETFLPVSHSHG-GWVL 110
>pdb|1HKH|A Chain A, Unligated Gamma Lactamase From An Aureobacterium Species
pdb|1HKH|B Chain B, Unligated Gamma Lactamase From An Aureobacterium Species
pdb|1HL7|A Chain A, Gamma Lactamase From An Aureobacterium Species In Complex
With 3a,4,7,7a-Tetrahydro-Benzo [1,3] Dioxol-2-One
pdb|1HL7|B Chain B, Gamma Lactamase From An Aureobacterium Species In Complex
With 3a,4,7,7a-Tetrahydro-Benzo [1,3] Dioxol-2-One
Length = 279
Score = 35.8 bits (81), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 44/96 (45%), Gaps = 8/96 (8%)
Query: 115 VLILMPGLTGGSEDSYVRHMLLRARSKGWRVVVFNSRGCGDSPVTTPQFYSASFLGDMQE 174
VLI L G S + R +L ++G+RV+ ++ RG G S + +F D+
Sbjct: 27 VLIHGYPLDGHSWERQTRELL----AQGYRVITYDRRGFGGSSKVNTGYDYDTFAADLHT 82
Query: 175 VVAHVGSKYPKAHLYAVGWSLGANILIRYLGHESHS 210
V+ + + + VG+S+G L RY+ H
Sbjct: 83 VLETLDLR----DVVLVGFSMGTGELARYVARYGHE 114
>pdb|2YYS|A Chain A, Crystal Structure Of The Proline Iminopeptidase-Related
Protein Ttha1809 From Thermus Thermophilus Hb8
pdb|2YYS|B Chain B, Crystal Structure Of The Proline Iminopeptidase-Related
Protein Ttha1809 From Thermus Thermophilus Hb8
Length = 286
Score = 31.6 bits (70), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 30/53 (56%), Gaps = 3/53 (5%)
Query: 110 PPDSPVLILMPGLTGGSEDSYVRHMLLRARSKGWRVVVFNSRGCGDSPVTTPQ 162
P + P L ++ G GG ++YV L+ +G+RVV F+ RG G S + PQ
Sbjct: 22 PVEGPALFVLHGGPGG--NAYVLREGLQDYLEGFRVVYFDQRGSGRS-LELPQ 71
>pdb|3IX1|A Chain A, Periplasmic
N-Formyl-4-Amino-5-Aminomethyl-2-Methylpyrimidine
Binding Protein From Bacillus Halodurans
pdb|3IX1|B Chain B, Periplasmic
N-Formyl-4-Amino-5-Aminomethyl-2-Methylpyrimidine
Binding Protein From Bacillus Halodurans
Length = 302
Score = 31.6 bits (70), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 37/80 (46%), Gaps = 9/80 (11%)
Query: 172 MQEVVAHVGSKYPKAHLYAVGWSLGANILI--------RYLGHESHSCPLSG-AVSLCNP 222
++ +V G Y + HL VG+ LGA+I+ Y+ HE G +S NP
Sbjct: 121 LKTMVEAAGGDYEQVHLMDVGFELGASIVSGRADAVVGTYINHEYPVLKHEGHDISYFNP 180
Query: 223 FNLVIADQDFRMLFSLKTWV 242
+ + + D +L S + +V
Sbjct: 181 VDYGVPEYDELVLISNEAYV 200
>pdb|3NWO|A Chain A, Crystal Structure Of Proline Iminopeptidase Mycobacterium
Smegmatis
Length = 330
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 30/115 (26%), Positives = 52/115 (45%), Gaps = 20/115 (17%)
Query: 104 GDH----QLLPPDS------PVLILMPGLTGGSEDSYVRHMLLRARSKGWRVVVFNSRGC 153
GDH Q+ P++ P+++L G G +YV ++ A G V+ ++ GC
Sbjct: 36 GDHETWVQVTTPENAQPHALPLIVLHGG--PGMAHNYVANIAALADETGRTVIHYDQVGC 93
Query: 154 GDS---PVTTPQFYSAS-FLGDMQEVVAHVGSKYPKAHLYAVGWS--LGANILIR 202
G+S P F++ F+ + V +G + + H+ W LGA I +R
Sbjct: 94 GNSTHLPDAPADFWTPQLFVDEFHAVCTALGIE--RYHVLGQSWGGMLGAEIAVR 146
>pdb|2ZJF|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Epoxide
Hydrolase B Complexed With An Inhibitor
Length = 362
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 50/119 (42%), Gaps = 14/119 (11%)
Query: 110 PPDS--PVLILMPGLTGGSEDSYV-RHMLLRARSKGWRVVVFNSRGCGDSPVTTPQ--FY 164
PPD P+++L+ G E Y RH + G+RVV + RG G S Q +
Sbjct: 28 PPDQQGPLVVLLHGF---PESWYSWRHQIPALAGAGYRVVAIDQRGYGRSSKYRVQKAYR 84
Query: 165 SASFLGDMQEVVAHVGSKYPKAHLYAVGWSLGANILIRYLGHESHSCPLSGAVSLCNPF 223
+GD+ V+ G++ + VG GA + + C +G V + PF
Sbjct: 85 IKELVGDVVGVLDSYGAE----QAFVVGHDWGAPVAWTFAWLHPDRC--AGVVGISVPF 137
>pdb|2E3J|A Chain A, The Crystal Structure Of Epoxide Hydrolase B (Rv1938) From
Mycobacterium Tuberculosis At 2.1 Angstrom
Length = 356
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 50/119 (42%), Gaps = 14/119 (11%)
Query: 110 PPDS--PVLILMPGLTGGSEDSYV-RHMLLRARSKGWRVVVFNSRGCGDSPVTTPQ--FY 164
PPD P+++L+ G E Y RH + G+RVV + RG G S Q +
Sbjct: 22 PPDQQGPLVVLLHGF---PESWYSWRHQIPALAGAGYRVVAIDQRGYGRSSKYRVQKAYR 78
Query: 165 SASFLGDMQEVVAHVGSKYPKAHLYAVGWSLGANILIRYLGHESHSCPLSGAVSLCNPF 223
+GD+ V+ G++ + VG GA + + C +G V + PF
Sbjct: 79 IKELVGDVVGVLDSYGAE----QAFVVGHDWGAPVAWTFAWLHPDRC--AGVVGISVPF 131
>pdb|3HNP|A Chain A, Crystal Structure Of An Oxidoreductase From Bacillus
Cereus. Northeast Structural Genomics Consortium Target
Id Bcr251
pdb|3HNP|B Chain B, Crystal Structure Of An Oxidoreductase From Bacillus
Cereus. Northeast Structural Genomics Consortium Target
Id Bcr251
pdb|3HNP|C Chain C, Crystal Structure Of An Oxidoreductase From Bacillus
Cereus. Northeast Structural Genomics Consortium Target
Id Bcr251
pdb|3HNP|D Chain D, Crystal Structure Of An Oxidoreductase From Bacillus
Cereus. Northeast Structural Genomics Consortium Target
Id Bcr251
pdb|3HNP|E Chain E, Crystal Structure Of An Oxidoreductase From Bacillus
Cereus. Northeast Structural Genomics Consortium Target
Id Bcr251
pdb|3HNP|F Chain F, Crystal Structure Of An Oxidoreductase From Bacillus
Cereus. Northeast Structural Genomics Consortium Target
Id Bcr251
Length = 353
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 24/51 (47%)
Query: 129 SYVRHMLLRARSKGWRVVVFNSRGCGDSPVTTPQFYSASFLGDMQEVVAHV 179
+ + +L R KG V+ + +R + Q FLGD+ E+ +H+
Sbjct: 103 EHAKELLALGREKGVVVMPYQNRRFDGDFLAVKQVVEQGFLGDIIEIESHI 153
>pdb|3NKS|A Chain A, Structure Of Human Protoporphyrinogen Ix Oxidase
Length = 477
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 16 ITSVHVSTKAMPYNHPHPSLE----VTGGALHTFLPALKTLSRPYSPF 59
++ + + ++ +P HP+ + GGALH L+ L RP PF
Sbjct: 75 VSELGLDSEVLPVRGDHPAAQNRFLYVGGALHALPTGLRGLLRPSPPF 122
>pdb|3CXU|A Chain A, Structure Of A Y149f Mutant Of Epoxide Hydrolase From
Solanum Tuberosum
pdb|3CXU|B Chain B, Structure Of A Y149f Mutant Of Epoxide Hydrolase From
Solanum Tuberosum
Length = 328
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 31/66 (46%), Gaps = 4/66 (6%)
Query: 132 RHMLLRARSKGWRVVVFNSRGCGDS---PVTTPQFYSA-SFLGDMQEVVAHVGSKYPKAH 187
RH ++ +G+R V + RG GD+ P+ P +S +GD+ ++ + K
Sbjct: 48 RHQMVYLAERGYRAVAPDLRGYGDTTGAPLNDPSKFSILHLVGDVVALLEAIAPNEEKVF 107
Query: 188 LYAVGW 193
+ A W
Sbjct: 108 VVAHDW 113
>pdb|2CJP|A Chain A, Structure Of Potato (Solanum Tuberosum) Epoxide Hydrolase
I (Steh1)
pdb|2CJP|B Chain B, Structure Of Potato (Solanum Tuberosum) Epoxide Hydrolase
I (Steh1)
Length = 328
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 31/66 (46%), Gaps = 4/66 (6%)
Query: 132 RHMLLRARSKGWRVVVFNSRGCGDS---PVTTPQFYSA-SFLGDMQEVVAHVGSKYPKAH 187
RH ++ +G+R V + RG GD+ P+ P +S +GD+ ++ + K
Sbjct: 48 RHQMVYLAERGYRAVAPDLRGYGDTTGAPLNDPSKFSILHLVGDVVALLEAIAPNEEKVF 107
Query: 188 LYAVGW 193
+ A W
Sbjct: 108 VVAHDW 113
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
0.323 0.138 0.445
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,493,984
Number of Sequences: 62578
Number of extensions: 348946
Number of successful extensions: 667
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 659
Number of HSP's gapped (non-prelim): 28
length of query: 262
length of database: 14,973,337
effective HSP length: 97
effective length of query: 165
effective length of database: 8,903,271
effective search space: 1469039715
effective search space used: 1469039715
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)