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= 026823
(232 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2P1N|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiqutin
Ligase
pdb|2P1N|F Chain F, Mechanism Of Auxin Perception By The Tir1 Ubiqutin
Ligase
pdb|2P1O|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiquitin
Ligase
pdb|2P1Q|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiquitin
Ligase
Length = 13
Score = 32.0 bits (71), Expect = 0.30, Method: Composition-based stats.
Identities = 11/13 (84%), Positives = 13/13 (100%)
Query: 80 QVVGWPPVRSFRK 92
QVVGWPPVR++RK
Sbjct: 1 QVVGWPPVRNYRK 13
>pdb|1R0Z|A Chain A, Phosphorylated Cystic Fibrosis Transmembrane Conductance
Regulator (Cftr) Nucleotide-Binding Domain One (Nbd1)
With Atp
pdb|1R0Z|B Chain B, Phosphorylated Cystic Fibrosis Transmembrane Conductance
Regulator (Cftr) Nucleotide-Binding Domain One (Nbd1)
With Atp
pdb|1R0Z|C Chain C, Phosphorylated Cystic Fibrosis Transmembrane Conductance
Regulator (Cftr) Nucleotide-Binding Domain One (Nbd1)
With Atp
pdb|1R0Z|D Chain D, Phosphorylated Cystic Fibrosis Transmembrane Conductance
Regulator (Cftr) Nucleotide-Binding Domain One (Nbd1)
With Atp
Length = 286
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 24/41 (58%)
Query: 94 MLGVVQKSSGEESDMAGGNNAAFVKVSMDGAPYLRKVDLRM 134
+L VQ+S+G+ + NN +F + + G P L+ ++L +
Sbjct: 21 LLEKVQQSNGDRKHXSDENNVSFSHLCLVGNPVLKNINLNI 61
>pdb|1Q3H|A Chain A, Mouse Cftr Nbd1 With Amp.Pnp
pdb|1Q3H|B Chain B, Mouse Cftr Nbd1 With Amp.Pnp
pdb|1Q3H|C Chain C, Mouse Cftr Nbd1 With Amp.Pnp
pdb|1Q3H|D Chain D, Mouse Cftr Nbd1 With Amp.Pnp
pdb|1R0W|A Chain A, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) Apo
pdb|1R0W|B Chain B, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) Apo
pdb|1R0W|C Chain C, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) Apo
pdb|1R0W|D Chain D, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) Apo
pdb|1R0X|A Chain A, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp
pdb|1R0X|B Chain B, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp
pdb|1R0X|C Chain C, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp
pdb|1R0X|D Chain D, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp
pdb|1R0Y|A Chain A, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Adp
pdb|1R0Y|B Chain B, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Adp
pdb|1R0Y|C Chain C, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Adp
pdb|1R0Y|D Chain D, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Adp
pdb|1R10|A Chain A, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp, I4122
Space Group
pdb|1R10|B Chain B, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp, I4122
Space Group
Length = 286
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 24/41 (58%)
Query: 94 MLGVVQKSSGEESDMAGGNNAAFVKVSMDGAPYLRKVDLRM 134
+L VQ+S+G+ + NN +F + + G P L+ ++L +
Sbjct: 21 LLEKVQQSNGDRKHSSDENNVSFSHLCLVGNPVLKNINLNI 61
>pdb|1XFA|A Chain A, Structure Of Nbd1 From Murine Cftr- F508r Mutant
pdb|1XFA|B Chain B, Structure Of Nbd1 From Murine Cftr- F508r Mutant
Length = 283
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 24/41 (58%)
Query: 94 MLGVVQKSSGEESDMAGGNNAAFVKVSMDGAPYLRKVDLRM 134
+L VQ+S+G+ + NN +F + + G P L+ ++L +
Sbjct: 21 LLEKVQQSNGDRKHSSDENNVSFSHLCLVGNPVLKNINLNI 61
>pdb|1XF9|A Chain A, Structure Of Nbd1 From Murine Cftr- F508s Mutant
pdb|1XF9|B Chain B, Structure Of Nbd1 From Murine Cftr- F508s Mutant
pdb|1XF9|C Chain C, Structure Of Nbd1 From Murine Cftr- F508s Mutant
pdb|1XF9|D Chain D, Structure Of Nbd1 From Murine Cftr- F508s Mutant
Length = 283
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 24/41 (58%)
Query: 94 MLGVVQKSSGEESDMAGGNNAAFVKVSMDGAPYLRKVDLRM 134
+L VQ+S+G+ + NN +F + + G P L+ ++L +
Sbjct: 21 LLEKVQQSNGDRKHSSDENNVSFSHLCLVGNPVLKNINLNI 61
>pdb|3SI7|A Chain A, The Crystal Structure Of The Nbd1 Domain Of The Mouse Cftr
Protein, Deltaf508 Mutant
pdb|3SI7|B Chain B, The Crystal Structure Of The Nbd1 Domain Of The Mouse Cftr
Protein, Deltaf508 Mutant
pdb|3SI7|C Chain C, The Crystal Structure Of The Nbd1 Domain Of The Mouse Cftr
Protein, Deltaf508 Mutant
pdb|3SI7|D Chain D, The Crystal Structure Of The Nbd1 Domain Of The Mouse Cftr
Protein, Deltaf508 Mutant
Length = 285
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 24/41 (58%)
Query: 94 MLGVVQKSSGEESDMAGGNNAAFVKVSMDGAPYLRKVDLRM 134
+L VQ+S+G+ + NN +F + + G P L+ ++L +
Sbjct: 21 LLEKVQQSNGDRKHSSDENNVSFSHLCLVGNPVLKNINLNI 61
>pdb|1ZR6|A Chain A, The Crystal Structure Of An Acremonium Strictum
Glucooligosaccharide Oxidase Reveals A Novel
Flavinylation
pdb|2AXR|A Chain A, Crystal Structure Of Glucooligosaccharide Oxidase From
Acremonium Strictum: A Novel Flavinylation Of
6-S-Cysteinyl, 8alpha-N1-Histidyl Fad
Length = 503
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 107 DMAGGNNAAFVKVSMDGAPYLRKVDLRMYNTYQDLY 142
D GG N+A VS D Y + L ++ Y +Y
Sbjct: 361 DFHGGKNSALAAVSNDETAYAHRDQLWLWQFYDSIY 396
>pdb|3HSU|A Chain A, Functional Roles Of The 6-S-Cysteinyl, 8 Alpha-N1-Histidyl
Fad In Glucooligosaccharide Oxidase From Acremonium
Strictum
Length = 503
Score = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 107 DMAGGNNAAFVKVSMDGAPYLRKVDLRMYNTYQDLY 142
D GG N+A VS D Y + L ++ Y +Y
Sbjct: 361 DFHGGKNSALAAVSNDETAYAHRDQLWLWQFYDSIY 396
>pdb|3B5X|A Chain A, Crystal Structure Of Msba From Vibrio Cholerae
pdb|3B5X|B Chain B, Crystal Structure Of Msba From Vibrio Cholerae
Length = 582
Score = 27.3 bits (59), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 86 PVRSF-RKNMLGVVQKSSGEESDMAGGNNAAFVKVSMDGAPYLRKVDLRMYNTYQ 139
PVR F +++ G++ + + + +AG + A V + +GA + + L +N++Q
Sbjct: 112 PVRFFDQESTGGLLSRITYDSEQVAGATSRALVSIVREGASIIGLLTLMFWNSWQ 166
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
0.316 0.134 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,417,508
Number of Sequences: 62578
Number of extensions: 250525
Number of successful extensions: 630
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 622
Number of HSP's gapped (non-prelim): 24
length of query: 232
length of database: 14,973,337
effective HSP length: 96
effective length of query: 136
effective length of database: 8,965,849
effective search space: 1219355464
effective search space used: 1219355464
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)