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= 045335
(339 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3BF7|A Chain A, 1.1 Resolution Structure Of Ybff, A New Esterase From
Escherichia Coli: A Unique Substrate-Binding Crevice
Generated By Domain Arrangement
pdb|3BF7|B Chain B, 1.1 Resolution Structure Of Ybff, A New Esterase From
Escherichia Coli: A Unique Substrate-Binding Crevice
Generated By Domain Arrangement
Length = 255
Score = 41.2 bits (95), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 42/91 (46%), Gaps = 14/91 (15%)
Query: 73 VLLHGILGSRKNWGTFARRLARAYPTWQTCDVMVIPHQSRKGGLT------TVASTALDV 126
VL+HG+ GS N G AR L + Q DV R GL+ + A D+
Sbjct: 20 VLVHGLFGSLDNLGVLARDLVNDHNIIQ-VDV-------RNHGLSPREPVMNYPAMAQDL 71
Query: 127 LKLVAQLRITPRVLVGHSFGGKVVLSMVEQA 157
+ + L+I +GHS GGK V+++ A
Sbjct: 72 VDTLDALQIDKATFIGHSMGGKAVMALTALA 102
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 311 HVLEDAGHWVHADNPDGLFRIL 332
HV+ AGHWVHA+ PD + R +
Sbjct: 227 HVIAGAGHWVHAEKPDAVLRAI 248
>pdb|3BF8|A Chain A, 1.1 Resolution Structure Of Ybff, A New Esterase From
Escherichia Coli: A Unique Substrate-Binding Crevice
Generated By Domain Arrangement
pdb|3BF8|B Chain B, 1.1 Resolution Structure Of Ybff, A New Esterase From
Escherichia Coli: A Unique Substrate-Binding Crevice
Generated By Domain Arrangement
Length = 255
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 41/91 (45%), Gaps = 14/91 (15%)
Query: 73 VLLHGILGSRKNWGTFARRLARAYPTWQTCDVMVIPHQSRKGGLT------TVASTALDV 126
VL+HG+ GS N G AR L + Q DV R GL+ + A D+
Sbjct: 20 VLVHGLFGSLDNLGVLARDLVNDHNIIQ-VDV-------RNHGLSPREPVMNYPAMAQDL 71
Query: 127 LKLVAQLRITPRVLVGHSFGGKVVLSMVEQA 157
+ + +I +GHS GGK V+++ A
Sbjct: 72 VDTLDAQQIDKATFIGHSMGGKAVMALTALA 102
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 311 HVLEDAGHWVHADNPDGLFRIL 332
HV+ AGHWVHA+ PD + R +
Sbjct: 227 HVIAGAGHWVHAEKPDAVLRAI 248
>pdb|1R3D|A Chain A, Crystal Structure Of Protein Vc1974 From Vibrio Cholerae,
Pfam Abhydrolase
Length = 264
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 45/93 (48%), Gaps = 7/93 (7%)
Query: 70 PTAVLLHGILGSRKNWGTFARRLARAYPTWQTCDVMVIP-HQSRKGGLTTVASTALDVLK 128
P VL+HG+LGS +W LAR T D +P H + + A++ ++
Sbjct: 17 PLVVLVHGLLGSGADWQPVLSHLARTQCAALTLD---LPGHGTNPERHCDNFAEAVEXIE 73
Query: 129 LVAQLRIT---PRVLVGHSFGGKVVLSMVEQAA 158
Q +T P +LVG+S GG+++ + Q A
Sbjct: 74 QTVQAHVTSEVPVILVGYSLGGRLIXHGLAQGA 106
>pdb|1U2E|A Chain A, Crystal Structure Of The C-C Bond Hydrolase Mhpc
pdb|1U2E|B Chain B, Crystal Structure Of The C-C Bond Hydrolase Mhpc
pdb|1U2E|C Chain C, Crystal Structure Of The C-C Bond Hydrolase Mhpc
pdb|1U2E|D Chain D, Crystal Structure Of The C-C Bond Hydrolase Mhpc
Length = 289
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 65/281 (23%), Positives = 101/281 (35%), Gaps = 55/281 (19%)
Query: 71 TAVLLHGILGSRKNWGTFARRLARAYPTWQTCDVMVIPHQSRKGGLTTVASTA---LDVL 127
T VLLHG W F+R + ++ P + + S + +L
Sbjct: 38 TVVLLHGSGPGATGWANFSRNIDPLVEAGYRVILLDCPGWGKSDSVVNSGSRSDLNARIL 97
Query: 128 K-LVAQLRITPRVLVGHSFGGKVVLSMVEQAAKPLARPVRVWVLDATPGKVRAGGDGEDH 186
K +V QL I L+G+S GG A L P RV L + GG G
Sbjct: 98 KSVVDQLDIAKIHLLGNSMGGH------SSVAFTLKWPERVGKL-----VLMGGGTGG-- 144
Query: 187 PAELIHFLSKLPKEVISKQEVVNALIQQGFSKDVAQWVVTNLKPXXXXXXXXXXXWVFDL 246
+ + +P E I + +N L +Q + NLK +VFD
Sbjct: 145 ----MSLFTPMPTEGIKR---LNQLYRQP--------TIENLK-------LMMDIFVFDT 182
Query: 247 EGIAE---------MYQSYDE-TNLWKLVENLPQ-----GVHVNFLKAERSLHRWALEDI 291
+ + M D N K +E P+ G + +KA+ +L W D
Sbjct: 183 SDLTDALFEARLNNMLSRRDHLENFVKSLEANPKQFPDFGPRLAEIKAQ-TLIVWGRNDR 241
Query: 292 QRIHAAEELAVDGGGGVEMHVLEDAGHWVHADNPDGLFRIL 332
A + G G E+H+ D GHW ++ D +++
Sbjct: 242 FVPMDAGLRLLSGIAGSELHIFRDCGHWAQWEHADAFNQLV 282
>pdb|4DYO|A Chain A, Crystal Structure Of Human Aspartyl Aminopeptidase (Dnpep)
In Complex With Aspartic Acid Hydroxamate
Length = 485
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 5/44 (11%)
Query: 189 ELIHFLSKLPKEVISKQEVVNALIQQGFS--KDVAQWVVTNLKP 230
EL+ F+++ P + E N L+Q GFS K+ +W N+KP
Sbjct: 30 ELLKFVNRSPSPFHAVAECRNRLLQAGFSELKETEKW---NIKP 70
>pdb|2FTC|E Chain E, Structural Model For The Large Subunit Of The Mammalian
Mitochondrial Ribosome
pdb|2FTC|F Chain F, Structural Model For The Large Subunit Of The Mammalian
Mitochondrial Ribosome
Length = 137
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%)
Query: 246 LEGIAEMYQSYDETNLWKLVENLPQGVHVNFLKAERSLHRWALEDI 291
++ I Q + KLVE+LPQ + N KAE + ALE +
Sbjct: 85 IKEIKNYVQGINLVQAKKLVESLPQEIKANVAKAEAEKIKAALEAV 130
>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 = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 125 DVLKLVAQLRITPRVLVGHSFGGKVVLSMVEQAA 158
D L+++ QL + + V HS GG V++ ++EQA
Sbjct: 85 DALEILDQLGVETFLPVSHSHGGWVLVELLEQAG 118
>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 = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 125 DVLKLVAQLRITPRVLVGHSFGGKVVLSMVEQAA 158
D L+++ QL + + V HS GG V++ ++EQA
Sbjct: 82 DALEILDQLGVETFLPVSHSHGGWVLVELLEQAG 115
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 0.135 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,046,914
Number of Sequences: 62578
Number of extensions: 403587
Number of successful extensions: 1050
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1039
Number of HSP's gapped (non-prelim): 17
length of query: 339
length of database: 14,973,337
effective HSP length: 99
effective length of query: 240
effective length of database: 8,778,115
effective search space: 2106747600
effective search space used: 2106747600
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: 52 (24.6 bits)