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= 040601
(97 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EF1|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
Phosphatase
Length = 442
Score = 40.4 bits (93), Expect = 2e-04, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 31/41 (75%)
Query: 55 FLVKLRPYIRKFLKEASKMYEIYLCTTGIRSYAVMMAKLLD 95
+ +K RP + +FL++ S++YE+++ T G ++YA +AK++D
Sbjct: 80 YYIKFRPGLAQFLQKISELYELHIYTMGTKAYAKEVAKIID 120
>pdb|3EF0|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
Phosphatase
Length = 372
Score = 40.4 bits (93), Expect = 3e-04, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 31/41 (75%)
Query: 55 FLVKLRPYIRKFLKEASKMYEIYLCTTGIRSYAVMMAKLLD 95
+ +K RP + +FL++ S++YE+++ T G ++YA +AK++D
Sbjct: 72 YYIKFRPGLAQFLQKISELYELHIYTMGTKAYAKEVAKIID 112
>pdb|3L0Y|A Chain A, Crystal Structure Of Scp1 Phosphatase D98a Mutant
pdb|3L0Y|B Chain B, Crystal Structure Of Scp1 Phosphatase D98a Mutant
Length = 184
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 60 RPYIRKFLKEASKMYEIYLCTTGIRSYAVMMAKLLD 95
RP++ +FL+ +++E L T + YA +A LLD
Sbjct: 60 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLD 95
>pdb|3L0C|A Chain A, Crystal Structure Of Scp1 Phosphatase D206a Mutant With
Trap Inorganic Phosphate
pdb|3L0C|B Chain B, Crystal Structure Of Scp1 Phosphatase D206a Mutant With
Trap Inorganic Phosphate
Length = 184
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 60 RPYIRKFLKEASKMYEIYLCTTGIRSYAVMMAKLLD 95
RP++ +FL+ +++E L T + YA +A LLD
Sbjct: 60 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLD 95
>pdb|3PGL|A Chain A, Crystal Structure Of Human Small C-Terminal Domain
Phosphatase 1 (Scp1) Bound To Rabeprazole
pdb|3PGL|B Chain B, Crystal Structure Of Human Small C-Terminal Domain
Phosphatase 1 (Scp1) Bound To Rabeprazole
Length = 180
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 60 RPYIRKFLKEASKMYEIYLCTTGIRSYAVMMAKLLD 95
RP++ +FL+ +++E L T + YA +A LLD
Sbjct: 56 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLD 91
>pdb|3L0B|A Chain A, Crystal Structure Of Scp1 Phosphatase D206a Mutant
Phosphory Intermediate
pdb|3L0B|B Chain B, Crystal Structure Of Scp1 Phosphatase D206a Mutant
Phosphory Intermediate
Length = 184
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 60 RPYIRKFLKEASKMYEIYLCTTGIRSYAVMMAKLLD 95
RP++ +FL+ +++E L T + YA +A LLD
Sbjct: 60 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLD 95
>pdb|2GHQ|A Chain A, Ctd-Specific Phosphatase Scp1 In Complex With Peptide C-
Terminal Domain Of Rna Polymerase Ii
pdb|2GHQ|B Chain B, Ctd-Specific Phosphatase Scp1 In Complex With Peptide C-
Terminal Domain Of Rna Polymerase Ii
pdb|2GHT|A Chain A, Ctd-Specific Phosphatase Scp1 In Complex With Peptide
From C-Terminal Domain Of Rna Polymerase Ii
pdb|2GHT|B Chain B, Ctd-Specific Phosphatase Scp1 In Complex With Peptide
From C-Terminal Domain Of Rna Polymerase Ii
Length = 181
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 60 RPYIRKFLKEASKMYEIYLCTTGIRSYAVMMAKLLD 95
RP++ +FL+ +++E L T + YA +A LLD
Sbjct: 57 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLD 92
>pdb|2HHL|A Chain A, Crystal Structure Of The Human Small Ctd Phosphatase 3
Isoform 1
pdb|2HHL|B Chain B, Crystal Structure Of The Human Small Ctd Phosphatase 3
Isoform 1
pdb|2HHL|C Chain C, Crystal Structure Of The Human Small Ctd Phosphatase 3
Isoform 1
pdb|2HHL|D Chain D, Crystal Structure Of The Human Small Ctd Phosphatase 3
Isoform 1
Length = 195
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 60 RPYIRKFLKEASKMYEIYLCTTGIRSYAVMMAKLLD 95
RP++ +FL+ +++E L T + YA +A LLD
Sbjct: 70 RPHVDEFLQRMGQLFECVLFTASLAKYADPVADLLD 105
>pdb|1TA0|A Chain A, Three-Dimensional Structure Of A Rna-Polymerase Ii
Binding Protein With Associated Ligand
Length = 197
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 60 RPYIRKFLKEASKMYEIYLCTTGIRSYAVMMAKLLD 95
RP++ +FL+ +++E L T + YA +A LLD
Sbjct: 57 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLD 92
>pdb|2Q5E|A Chain A, Crystal Structure Of Human Carboxy-Terminal Domain Rna
Polymerase Ii Polypeptide A Small Phosphatase 2
pdb|2Q5E|B Chain B, Crystal Structure Of Human Carboxy-Terminal Domain Rna
Polymerase Ii Polypeptide A Small Phosphatase 2
pdb|2Q5E|C Chain C, Crystal Structure Of Human Carboxy-Terminal Domain Rna
Polymerase Ii Polypeptide A Small Phosphatase 2
pdb|2Q5E|D Chain D, Crystal Structure Of Human Carboxy-Terminal Domain Rna
Polymerase Ii Polypeptide A Small Phosphatase 2
pdb|2Q5E|E Chain E, Crystal Structure Of Human Carboxy-Terminal Domain Rna
Polymerase Ii Polypeptide A Small Phosphatase 2
pdb|2Q5E|F Chain F, Crystal Structure Of Human Carboxy-Terminal Domain Rna
Polymerase Ii Polypeptide A Small Phosphatase 2
pdb|2Q5E|G Chain G, Crystal Structure Of Human Carboxy-Terminal Domain Rna
Polymerase Ii Polypeptide A Small Phosphatase 2
pdb|2Q5E|H Chain H, Crystal Structure Of Human Carboxy-Terminal Domain Rna
Polymerase Ii Polypeptide A Small Phosphatase 2
Length = 187
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 60 RPYIRKFLKEASKMYEIYLCTTGIRSYAVMMAKLLD 95
RPY+ +FL+ +++E L T + YA + LLD
Sbjct: 59 RPYVDEFLRRMGELFECVLFTASLAKYADPVTDLLD 94
>pdb|1T9Z|A Chain A, Three-Dimensional Structure Of A Rna-Polymerase Ii
Binding Protein
Length = 197
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 60 RPYIRKFLKEASKMYEIYLCTTGIRSYAVMMAKLLD 95
RP++ +FL+ +++E L T + YA +A LD
Sbjct: 57 RPHVDEFLQRXGELFECVLFTASLAKYADPVADXLD 92
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
0.325 0.139 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,915,913
Number of Sequences: 62578
Number of extensions: 54370
Number of successful extensions: 141
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 129
Number of HSP's gapped (non-prelim): 12
length of query: 97
length of database: 14,973,337
effective HSP length: 63
effective length of query: 34
effective length of database: 11,030,923
effective search space: 375051382
effective search space used: 375051382
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)