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= 041557
(189 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SEZ|A Chain A, Crystal Structure Of Protoporphyrinogen Ix Oxidase
pdb|1SEZ|B Chain B, Crystal Structure Of Protoporphyrinogen Ix Oxidase
Length = 504
Score = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 7/76 (9%)
Query: 61 SSNPHVKIIGGGMAVLACALRLDKRGVKSNVFDMGNPDLEGRMG--TRMIGRQPLIFDHA 118
SS V +IG G++ LA A +L G+ VF+ EG+ G R + + LI+D
Sbjct: 11 SSAKRVAVIGAGVSGLAAAYKLKIHGLNVTVFEA-----EGKAGGKLRSVSQDGLIWDEG 65
Query: 119 TQFFTVNDSRFGELVD 134
T ++ L+D
Sbjct: 66 ANTXTESEGDVTFLID 81
>pdb|2GQF|A Chain A, Crystal Structure Of Flavoprotein Hi0933 From
Haemophilus Influenzae Rd
Length = 401
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/28 (53%), Positives = 16/28 (57%)
Query: 68 IIGGGMAVLACALRLDKRGVKSNVFDMG 95
IIG G A L CA +L K G VFD G
Sbjct: 9 IIGAGAAGLFCAAQLAKLGKSVTVFDNG 36
>pdb|3KKJ|A Chain A, X-Ray Structure Of P. Syringae Q888a4 Oxidoreductase At
Resolution 2.5a, Northeast Structural Genomics
Consortium Target Psr10
pdb|3KKJ|B Chain B, X-Ray Structure Of P. Syringae Q888a4 Oxidoreductase At
Resolution 2.5a, Northeast Structural Genomics
Consortium Target Psr10
Length = 336
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 26/68 (38%), Gaps = 3/68 (4%)
Query: 66 VKIIGGGMAVLACALRLDKRGVKSNVFDMGNPDLEGRMGTRMIGRQPLIFDHATQFFTVN 125
+ IIG G+A L+ A L G + ++FD D Q+FT
Sbjct: 5 IAIIGTGIAGLSAAQALTAAGHQVHLFDKSR---GSGGRXSSKRSDAGALDXGAQYFTAR 61
Query: 126 DSRFGELV 133
D RF V
Sbjct: 62 DRRFATAV 69
>pdb|3PVC|A Chain A, Crystal Structure Of Apo Mnmc From Yersinia Pestis
pdb|3SGL|A Chain A, The Crystal Structure Of Mnmc From Yersinia Pestis Bound
With Fad And Sam
Length = 689
Score = 27.7 bits (60), Expect = 3.6, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 3/61 (4%)
Query: 66 VKIIGGGMAVLACALRLDKRGVKSNVFDMGNPDLEGRMGTRMIGRQPLI---FDHATQFF 122
+ IIGGG+ AL L +RG ++ +G G R PL+ D FF
Sbjct: 267 IAIIGGGIVSALTALALQRRGAVVTLYCADAQPAQGASGNRQGALYPLLNGKNDALETFF 326
Query: 123 T 123
T
Sbjct: 327 T 327
>pdb|3OE2|A Chain A, 1.6 A Crystal Structure Of Peptidyl-Prolyl Cis-Trans
Isomerase Ppiase From Pseudomonas Syringae Pv. Tomato
Str. Dc3000 (Pspto Dc3000)
Length = 219
Score = 27.3 bits (59), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 2/27 (7%)
Query: 96 NPDLEGRMGTRMIGRQP--LIFDHATQ 120
PD GR+ R +GR P IFD +TQ
Sbjct: 131 KPDANGRVEVRYVGRLPDGKIFDQSTQ 157
>pdb|4AV2|A Chain A, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|B Chain B, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|C Chain C, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|D Chain D, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|E Chain E, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|F Chain F, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|G Chain G, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|H Chain H, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|I Chain I, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|J Chain J, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|K Chain K, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis.
pdb|4AV2|L Chain L, Single Particle Electron Microscopy Of Pilq Dodecameric
Complexes From Neisseria Meningitidis
Length = 745
Score = 26.6 bits (57), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 5/50 (10%)
Query: 90 NVFDMGNPDLEGRMGTRMIGRQPLIFDHATQFFTVNDSR-----FGELVD 134
++ + N D G T + GR ++ D AT V D+R F +L+D
Sbjct: 434 SILRLDNADTTGNRNTLISGRGSVLIDPATNTLIVTDTRSVIEKFRKLID 483
>pdb|3KPF|A Chain A, X-Ray Structure Of The Mutant Lys300met Of Polyamine
Oxidase From Zea Mays
pdb|3KPF|B Chain B, X-Ray Structure Of The Mutant Lys300met Of Polyamine
Oxidase From Zea Mays
pdb|3KU9|A Chain A, X-Ray Structure Of The Mutant Lys300met Of Polyamine
Oxidase From Zea Mays In Complex With Spermine
pdb|3KU9|B Chain B, X-Ray Structure Of The Mutant Lys300met Of Polyamine
Oxidase From Zea Mays In Complex With Spermine
pdb|3L1R|A Chain A, X-Ray Structure Of The Mutant Lys300met Of Polyamine
Oxidase From Zea Mays In Complex With Spermidine
pdb|3L1R|B Chain B, X-Ray Structure Of The Mutant Lys300met Of Polyamine
Oxidase From Zea Mays In Complex With Spermidine
Length = 478
Score = 26.6 bits (57), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 64 PHVKIIGGGMAVLACALRLDKRGVKSNVFDMGNPDLEGRM 103
P V ++G GM+ ++ A RL + G+ + + GRM
Sbjct: 5 PRVIVVGAGMSGISAAKRLSEAGITDLLILEATDHIGGRM 44
>pdb|1B37|A Chain A, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1B37|B Chain B, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1B37|C Chain C, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1B5Q|A Chain A, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1B5Q|B Chain B, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1B5Q|C Chain C, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1H81|A Chain A, Structure Of Polyamine Oxidase In The Reduced State
pdb|1H81|B Chain B, Structure Of Polyamine Oxidase In The Reduced State
pdb|1H81|C Chain C, Structure Of Polyamine Oxidase In The Reduced State
pdb|1H82|A Chain A, Structure Of Polyamine Oxidase In Complex With Guazatine
pdb|1H82|B Chain B, Structure Of Polyamine Oxidase In Complex With Guazatine
pdb|1H82|C Chain C, Structure Of Polyamine Oxidase In Complex With Guazatine
pdb|1H83|A Chain A, Structure Of Polyamine Oxidase In Complex With 1,8-
Diaminooctane
pdb|1H83|B Chain B, Structure Of Polyamine Oxidase In Complex With 1,8-
Diaminooctane
pdb|1H83|C Chain C, Structure Of Polyamine Oxidase In Complex With 1,8-
Diaminooctane
pdb|1H84|A Chain A, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 4.6
pdb|1H84|B Chain B, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 4.6
pdb|1H84|C Chain C, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 4.6
pdb|1H86|A Chain A, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 7.0
pdb|1H86|B Chain B, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 7.0
pdb|1H86|C Chain C, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 7.0
Length = 472
Score = 26.6 bits (57), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 64 PHVKIIGGGMAVLACALRLDKRGVKSNVFDMGNPDLEGRM 103
P V ++G GM+ ++ A RL + G+ + + GRM
Sbjct: 5 PRVIVVGAGMSGISAAKRLSEAGITDLLILEATDHIGGRM 44
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
0.320 0.133 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,758,319
Number of Sequences: 62578
Number of extensions: 162296
Number of successful extensions: 446
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 438
Number of HSP's gapped (non-prelim): 13
length of query: 189
length of database: 14,973,337
effective HSP length: 93
effective length of query: 96
effective length of database: 9,153,583
effective search space: 878743968
effective search space used: 878743968
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: 48 (23.1 bits)