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= 013017
(451 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1TA0|A Chain A, Three-Dimensional Structure Of A Rna-Polymerase Ii Binding
Protein With Associated Ligand
Length = 197
Score = 134 bits (338), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 67/155 (43%), Positives = 99/155 (63%), Gaps = 1/155 (0%)
Query: 283 HSTLEYCDDADFTFTVFFNMKEHTVYVKQRPHLKTFLERVAEMFEVVIFTASQSIYAAQL 342
HS+ + ++ADF V + H VYV +RPH+ FL+R+ E+FE V+FTAS + YA +
Sbjct: 28 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPV 87
Query: 343 LDILDPDGKLISRRVYRESCIFSDGTYTKDLTVLGVDLAKVAIIDNSPQVFRLQVNNGIP 402
D+LD G +R ++RESC+F G Y KDL+ LG DL +V I+DNSP + +N +P
Sbjct: 88 ADLLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDNAVP 146
Query: 403 IESWFDDPSDCSLISLLPFLDILADAEDVRPIIAK 437
+ SWFD+ SD L LLPF + L+ +DV ++ +
Sbjct: 147 VASWFDNMSDTELHDLLPFFEQLSRVDDVYSVLRQ 181
>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 = 134 bits (338), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 67/155 (43%), Positives = 99/155 (63%), Gaps = 1/155 (0%)
Query: 283 HSTLEYCDDADFTFTVFFNMKEHTVYVKQRPHLKTFLERVAEMFEVVIFTASQSIYAAQL 342
HS+ + ++ADF V + H VYV +RPH+ FL+R+ E+FE V+FTAS + YA +
Sbjct: 31 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPV 90
Query: 343 LDILDPDGKLISRRVYRESCIFSDGTYTKDLTVLGVDLAKVAIIDNSPQVFRLQVNNGIP 402
D+LD G +R ++RESC+F G Y KDL+ LG DL +V I+DNSP + +N +P
Sbjct: 91 ADLLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDNAVP 149
Query: 403 IESWFDDPSDCSLISLLPFLDILADAEDVRPIIAK 437
+ SWFD+ SD L LLPF + L+ +DV ++ +
Sbjct: 150 VASWFDNMSDTELHDLLPFFEQLSRVDDVYSVLRQ 184
>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 = 134 bits (338), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 67/155 (43%), Positives = 99/155 (63%), Gaps = 1/155 (0%)
Query: 283 HSTLEYCDDADFTFTVFFNMKEHTVYVKQRPHLKTFLERVAEMFEVVIFTASQSIYAAQL 342
HS+ + ++ADF V + H VYV +RPH+ FL+R+ E+FE V+FTAS + YA +
Sbjct: 28 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPV 87
Query: 343 LDILDPDGKLISRRVYRESCIFSDGTYTKDLTVLGVDLAKVAIIDNSPQVFRLQVNNGIP 402
D+LD G +R ++RESC+F G Y KDL+ LG DL +V I+DNSP + +N +P
Sbjct: 88 ADLLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDNAVP 146
Query: 403 IESWFDDPSDCSLISLLPFLDILADAEDVRPIIAK 437
+ SWFD+ SD L LLPF + L+ +DV ++ +
Sbjct: 147 VASWFDNMSDTELHDLLPFFEQLSRVDDVYSVLRQ 181
>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 = 134 bits (337), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 67/155 (43%), Positives = 99/155 (63%), Gaps = 1/155 (0%)
Query: 283 HSTLEYCDDADFTFTVFFNMKEHTVYVKQRPHLKTFLERVAEMFEVVIFTASQSIYAAQL 342
HS+ + ++ADF V + H VYV +RPH+ FL+R+ E+FE V+FTAS + YA +
Sbjct: 27 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPV 86
Query: 343 LDILDPDGKLISRRVYRESCIFSDGTYTKDLTVLGVDLAKVAIIDNSPQVFRLQVNNGIP 402
D+LD G +R ++RESC+F G Y KDL+ LG DL +V I+DNSP + +N +P
Sbjct: 87 ADLLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDNAVP 145
Query: 403 IESWFDDPSDCSLISLLPFLDILADAEDVRPIIAK 437
+ SWFD+ SD L LLPF + L+ +DV ++ +
Sbjct: 146 VASWFDNMSDTELHDLLPFFEQLSRVDDVYSVLRQ 180
>pdb|1T9Z|A Chain A, Three-Dimensional Structure Of A Rna-Polymerase Ii Binding
Protein
Length = 197
Score = 132 bits (332), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 67/155 (43%), Positives = 96/155 (61%), Gaps = 1/155 (0%)
Query: 283 HSTLEYCDDADFTFTVFFNMKEHTVYVKQRPHLKTFLERVAEMFEVVIFTASQSIYAAQL 342
HS+ + ++ADF V + H VYV +RPH+ FL+R E+FE V+FTAS + YA +
Sbjct: 28 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRXGELFECVLFTASLAKYADPV 87
Query: 343 LDILDPDGKLISRRVYRESCIFSDGTYTKDLTVLGVDLAKVAIIDNSPQVFRLQVNNGIP 402
D LD G +R ++RESC+F G Y KDL+ LG DL +V I DNSP + +N +P
Sbjct: 88 ADXLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLIXDNSPASYVFHPDNAVP 146
Query: 403 IESWFDDPSDCSLISLLPFLDILADAEDVRPIIAK 437
+ SWFD+ SD L LLPF + L+ +DV ++ +
Sbjct: 147 VASWFDNXSDTELHDLLPFFEQLSRVDDVYSVLRQ 181
>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 = 132 bits (332), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 65/149 (43%), Positives = 95/149 (63%), Gaps = 1/149 (0%)
Query: 283 HSTLEYCDDADFTFTVFFNMKEHTVYVKQRPHLKTFLERVAEMFEVVIFTASQSIYAAQL 342
HS+ + ++ADF + H VYV +RP++ FL R+ E+FE V+FTAS + YA +
Sbjct: 30 HSSFKPINNADFIVPIEIEGTTHQVYVLKRPYVDEFLRRMGELFECVLFTASLAKYADPV 89
Query: 343 LDILDPDGKLISRRVYRESCIFSDGTYTKDLTVLGVDLAKVAIIDNSPQVFRLQVNNGIP 402
D+LD G + R++RESC+F G Y KDL+ LG DL K I+DNSP + N +P
Sbjct: 90 TDLLDRCG-VFRARLFRESCVFHQGCYVKDLSRLGRDLRKTLILDNSPASYIFHPENAVP 148
Query: 403 IESWFDDPSDCSLISLLPFLDILADAEDV 431
++SWFDD +D L++L+P + L+ AEDV
Sbjct: 149 VQSWFDDMADTELLNLIPIFEELSGAEDV 177
>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 = 132 bits (331), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 66/155 (42%), Positives = 98/155 (63%), Gaps = 1/155 (0%)
Query: 283 HSTLEYCDDADFTFTVFFNMKEHTVYVKQRPHLKTFLERVAEMFEVVIFTASQSIYAAQL 342
HS+ + ++ADF V + H VYV +RPH+ FL+R+ E+FE V+FTAS + YA +
Sbjct: 31 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPV 90
Query: 343 LDILDPDGKLISRRVYRESCIFSDGTYTKDLTVLGVDLAKVAIIDNSPQVFRLQVNNGIP 402
D+LD G +R ++RESC+F G Y KDL+ LG DL +V I+ NSP + +N +P
Sbjct: 91 ADLLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLILANSPASYVFHPDNAVP 149
Query: 403 IESWFDDPSDCSLISLLPFLDILADAEDVRPIIAK 437
+ SWFD+ SD L LLPF + L+ +DV ++ +
Sbjct: 150 VASWFDNMSDTELHDLLPFFEQLSRVDDVYSVLRQ 184
>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 = 131 bits (330), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 66/155 (42%), Positives = 98/155 (63%), Gaps = 1/155 (0%)
Query: 283 HSTLEYCDDADFTFTVFFNMKEHTVYVKQRPHLKTFLERVAEMFEVVIFTASQSIYAAQL 342
HS+ + ++ADF V + H VYV +RPH+ FL+R+ E+FE V+FTAS + YA +
Sbjct: 31 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPV 90
Query: 343 LDILDPDGKLISRRVYRESCIFSDGTYTKDLTVLGVDLAKVAIIDNSPQVFRLQVNNGIP 402
D+LD G +R ++RESC+F G Y KDL+ LG DL +V I+ NSP + +N +P
Sbjct: 91 ADLLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLILANSPASYVFHPDNAVP 149
Query: 403 IESWFDDPSDCSLISLLPFLDILADAEDVRPIIAK 437
+ SWFD+ SD L LLPF + L+ +DV ++ +
Sbjct: 150 VASWFDNMSDTELHDLLPFFEQLSRVDDVYSVLRQ 184
>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 = 131 bits (329), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 64/148 (43%), Positives = 96/148 (64%), Gaps = 1/148 (0%)
Query: 283 HSTLEYCDDADFTFTVFFNMKEHTVYVKQRPHLKTFLERVAEMFEVVIFTASQSIYAAQL 342
HS+ + +ADF V + H VYV +RPH+ FL+R+ ++FE V+FTAS + YA +
Sbjct: 41 HSSFKPISNADFIVPVEIDGTIHQVYVLKRPHVDEFLQRMGQLFECVLFTASLAKYADPV 100
Query: 343 LDILDPDGKLISRRVYRESCIFSDGTYTKDLTVLGVDLAKVAIIDNSPQVFRLQVNNGIP 402
D+LD G + R++RESC+F G Y KDL+ LG +L+KV I+DNSP + N +P
Sbjct: 101 ADLLDRWG-VFRARLFRESCVFHRGNYVKDLSRLGRELSKVIIVDNSPASYIFHPENAVP 159
Query: 403 IESWFDDPSDCSLISLLPFLDILADAED 430
++SWFDD +D L+ L+PF + L+ +D
Sbjct: 160 VQSWFDDMTDTELLDLIPFFEGLSREDD 187
>pdb|3QLE|A Chain A, Structural Basis For The Function Of Tim50 In The
Mitochondrial Presequence Translocase
Length = 204
Score = 104 bits (260), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 49/135 (36%), Positives = 85/135 (62%), Gaps = 3/135 (2%)
Query: 303 KEHTVYVKQRPHLKTFLERVAEMFEVVIFTASQSIYAAQLLDILDPDGKLISRRVYRESC 362
++H +RP FL +++ +E+V+F+++ +Y+ ++ + LDP +S +++E C
Sbjct: 52 QKHGWRTAKRPGADYFLGYLSQYYEIVLFSSNYMMYSDKIAEKLDPIHAFVSYNLFKEHC 111
Query: 363 IFSDGTYTKDLTVLGVDLAKVAIIDNSPQVFRLQVNNGIPIESWFDDPSDCSLISLLPFL 422
++ DG + KDL+ L DL+KV IID P ++LQ N IP+E W + +D L+ L+PFL
Sbjct: 112 VYKDGVHIKDLSKLNRDLSKVIIIDTDPNSYKLQPENAIPMEPW-NGEADDKLVRLIPFL 170
Query: 423 DILA--DAEDVRPII 435
+ LA +DVRPI+
Sbjct: 171 EYLATQQTKDVRPIL 185
>pdb|3EF1|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
Phosphatase
Length = 442
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 33/50 (66%)
Query: 308 YVKQRPHLKTFLERVAEMFEVVIFTASQSIYAAQLLDILDPDGKLISRRV 357
Y+K RP L FL++++E++E+ I+T YA ++ I+DP GKL RV
Sbjct: 81 YIKFRPGLAQFLQKISELYELHIYTMGTKAYAKEVAKIIDPTGKLFQDRV 130
>pdb|3EF0|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
Phosphatase
Length = 372
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 33/50 (66%)
Query: 308 YVKQRPHLKTFLERVAEMFEVVIFTASQSIYAAQLLDILDPDGKLISRRV 357
Y+K RP L FL++++E++E+ I+T YA ++ I+DP GKL RV
Sbjct: 73 YIKFRPGLAQFLQKISELYELHIYTMGTKAYAKEVAKIIDPTGKLFQDRV 122
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 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,699,689
Number of Sequences: 62578
Number of extensions: 458057
Number of successful extensions: 842
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 820
Number of HSP's gapped (non-prelim): 13
length of query: 451
length of database: 14,973,337
effective HSP length: 102
effective length of query: 349
effective length of database: 8,590,381
effective search space: 2998042969
effective search space used: 2998042969
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: 53 (25.0 bits)