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= 013904
(434 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 138 bits (347), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 70/155 (45%), Positives = 99/155 (63%), Gaps = 1/155 (0%)
Query: 274 HSSTEPCDDADFTFQVFFNMKEHTVYVRQRPFLRTFLERVAEMFEIIVFTASESVYAEKL 333
HSS +P ++ADF V + H VYV +RP + FL+R+ E+FE ++FTAS + YA+ +
Sbjct: 31 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPV 90
Query: 334 LDILDPDRMLIARRAYRESCIFSDGSYAKDLTILGVDLARIAIIDNSPQVFRLQLDNGIP 393
D+LD AR +RESC+F G+Y KDL+ LG DL R+ I+DNSP + DN +P
Sbjct: 91 ADLLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDNAVP 149
Query: 394 IKSWFDDPSDCALISLLPFLETLAAADDVRPIIAE 428
+ SWFD+ SD L LLPF E L+ DDV ++ +
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 = 137 bits (346), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 70/155 (45%), Positives = 99/155 (63%), Gaps = 1/155 (0%)
Query: 274 HSSTEPCDDADFTFQVFFNMKEHTVYVRQRPFLRTFLERVAEMFEIIVFTASESVYAEKL 333
HSS +P ++ADF V + H VYV +RP + FL+R+ E+FE ++FTAS + YA+ +
Sbjct: 28 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPV 87
Query: 334 LDILDPDRMLIARRAYRESCIFSDGSYAKDLTILGVDLARIAIIDNSPQVFRLQLDNGIP 393
D+LD AR +RESC+F G+Y KDL+ LG DL R+ I+DNSP + DN +P
Sbjct: 88 ADLLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDNAVP 146
Query: 394 IKSWFDDPSDCALISLLPFLETLAAADDVRPIIAE 428
+ SWFD+ SD L LLPF E L+ DDV ++ +
Sbjct: 147 VASWFDNMSDTELHDLLPFFEQLSRVDDVYSVLRQ 181
>pdb|1TA0|A Chain A, Three-Dimensional Structure Of A Rna-Polymerase Ii Binding
Protein With Associated Ligand
Length = 197
Score = 137 bits (346), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 70/155 (45%), Positives = 99/155 (63%), Gaps = 1/155 (0%)
Query: 274 HSSTEPCDDADFTFQVFFNMKEHTVYVRQRPFLRTFLERVAEMFEIIVFTASESVYAEKL 333
HSS +P ++ADF V + H VYV +RP + FL+R+ E+FE ++FTAS + YA+ +
Sbjct: 28 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPV 87
Query: 334 LDILDPDRMLIARRAYRESCIFSDGSYAKDLTILGVDLARIAIIDNSPQVFRLQLDNGIP 393
D+LD AR +RESC+F G+Y KDL+ LG DL R+ I+DNSP + DN +P
Sbjct: 88 ADLLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDNAVP 146
Query: 394 IKSWFDDPSDCALISLLPFLETLAAADDVRPIIAE 428
+ SWFD+ SD L LLPF E L+ DDV ++ +
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 = 137 bits (345), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 70/155 (45%), Positives = 99/155 (63%), Gaps = 1/155 (0%)
Query: 274 HSSTEPCDDADFTFQVFFNMKEHTVYVRQRPFLRTFLERVAEMFEIIVFTASESVYAEKL 333
HSS +P ++ADF V + H VYV +RP + FL+R+ E+FE ++FTAS + YA+ +
Sbjct: 27 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPV 86
Query: 334 LDILDPDRMLIARRAYRESCIFSDGSYAKDLTILGVDLARIAIIDNSPQVFRLQLDNGIP 393
D+LD AR +RESC+F G+Y KDL+ LG DL R+ I+DNSP + DN +P
Sbjct: 87 ADLLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDNAVP 145
Query: 394 IKSWFDDPSDCALISLLPFLETLAAADDVRPIIAE 428
+ SWFD+ SD L LLPF E L+ DDV ++ +
Sbjct: 146 VASWFDNMSDTELHDLLPFFEQLSRVDDVYSVLRQ 180
>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 = 135 bits (339), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 69/155 (44%), Positives = 98/155 (63%), Gaps = 1/155 (0%)
Query: 274 HSSTEPCDDADFTFQVFFNMKEHTVYVRQRPFLRTFLERVAEMFEIIVFTASESVYAEKL 333
HSS +P ++ADF V + H VYV +RP + FL+R+ E+FE ++FTAS + YA+ +
Sbjct: 31 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPV 90
Query: 334 LDILDPDRMLIARRAYRESCIFSDGSYAKDLTILGVDLARIAIIDNSPQVFRLQLDNGIP 393
D+LD AR +RESC+F G+Y KDL+ LG DL R+ I+ NSP + DN +P
Sbjct: 91 ADLLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLILANSPASYVFHPDNAVP 149
Query: 394 IKSWFDDPSDCALISLLPFLETLAAADDVRPIIAE 428
+ SWFD+ SD L LLPF E L+ DDV ++ +
Sbjct: 150 VASWFDNMSDTELHDLLPFFEQLSRVDDVYSVLRQ 184
>pdb|1T9Z|A Chain A, Three-Dimensional Structure Of A Rna-Polymerase Ii Binding
Protein
Length = 197
Score = 135 bits (339), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 70/155 (45%), Positives = 96/155 (61%), Gaps = 1/155 (0%)
Query: 274 HSSTEPCDDADFTFQVFFNMKEHTVYVRQRPFLRTFLERVAEMFEIIVFTASESVYAEKL 333
HSS +P ++ADF V + H VYV +RP + FL+R E+FE ++FTAS + YA+ +
Sbjct: 28 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRXGELFECVLFTASLAKYADPV 87
Query: 334 LDILDPDRMLIARRAYRESCIFSDGSYAKDLTILGVDLARIAIIDNSPQVFRLQLDNGIP 393
D LD AR +RESC+F G+Y KDL+ LG DL R+ I DNSP + DN +P
Sbjct: 88 ADXLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLIXDNSPASYVFHPDNAVP 146
Query: 394 IKSWFDDPSDCALISLLPFLETLAAADDVRPIIAE 428
+ SWFD+ SD L LLPF E L+ DDV ++ +
Sbjct: 147 VASWFDNXSDTELHDLLPFFEQLSRVDDVYSVLRQ 181
>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 = 135 bits (339), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 69/155 (44%), Positives = 98/155 (63%), Gaps = 1/155 (0%)
Query: 274 HSSTEPCDDADFTFQVFFNMKEHTVYVRQRPFLRTFLERVAEMFEIIVFTASESVYAEKL 333
HSS +P ++ADF V + H VYV +RP + FL+R+ E+FE ++FTAS + YA+ +
Sbjct: 31 HSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTASLAKYADPV 90
Query: 334 LDILDPDRMLIARRAYRESCIFSDGSYAKDLTILGVDLARIAIIDNSPQVFRLQLDNGIP 393
D+LD AR +RESC+F G+Y KDL+ LG DL R+ I+ NSP + DN +P
Sbjct: 91 ADLLDKWGAFRAR-LFRESCVFHRGNYVKDLSRLGRDLRRVLILANSPASYVFHPDNAVP 149
Query: 394 IKSWFDDPSDCALISLLPFLETLAAADDVRPIIAE 428
+ SWFD+ SD L LLPF E L+ DDV ++ +
Sbjct: 150 VASWFDNMSDTELHDLLPFFEQLSRVDDVYSVLRQ 184
>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 = 134 bits (337), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 66/150 (44%), Positives = 98/150 (65%), Gaps = 3/150 (2%)
Query: 274 HSSTEPCDDADFTFQVFFNMKEHTVYVRQRPFLRTFLERVAEMFEIIVFTASESVYAEKL 333
HSS +P ++ADF + H VYV +RP++ FL R+ E+FE ++FTAS + YA+ +
Sbjct: 30 HSSFKPINNADFIVPIEIEGTTHQVYVLKRPYVDEFLRRMGELFECVLFTASLAKYADPV 89
Query: 334 LDILDPDRMLIAR-RAYRESCIFSDGSYAKDLTILGVDLARIAIIDNSPQVFRLQLDNGI 392
D+LD R + R R +RESC+F G Y KDL+ LG DL + I+DNSP + +N +
Sbjct: 90 TDLLD--RCGVFRARLFRESCVFHQGCYVKDLSRLGRDLRKTLILDNSPASYIFHPENAV 147
Query: 393 PIKSWFDDPSDCALISLLPFLETLAAADDV 422
P++SWFDD +D L++L+P E L+ A+DV
Sbjct: 148 PVQSWFDDMADTELLNLIPIFEELSGAEDV 177
>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 = 132 bits (332), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 65/149 (43%), Positives = 99/149 (66%), Gaps = 3/149 (2%)
Query: 274 HSSTEPCDDADFTFQVFFNMKEHTVYVRQRPFLRTFLERVAEMFEIIVFTASESVYAEKL 333
HSS +P +ADF V + H VYV +RP + FL+R+ ++FE ++FTAS + YA+ +
Sbjct: 41 HSSFKPISNADFIVPVEIDGTIHQVYVLKRPHVDEFLQRMGQLFECVLFTASLAKYADPV 100
Query: 334 LDILDPDRMLIAR-RAYRESCIFSDGSYAKDLTILGVDLARIAIIDNSPQVFRLQLDNGI 392
D+LD R + R R +RESC+F G+Y KDL+ LG +L+++ I+DNSP + +N +
Sbjct: 101 ADLLD--RWGVFRARLFRESCVFHRGNYVKDLSRLGRELSKVIIVDNSPASYIFHPENAV 158
Query: 393 PIKSWFDDPSDCALISLLPFLETLAAADD 421
P++SWFDD +D L+ L+PF E L+ DD
Sbjct: 159 PVQSWFDDMTDTELLDLIPFFEGLSREDD 187
>pdb|3QLE|A Chain A, Structural Basis For The Function Of Tim50 In The
Mitochondrial Presequence Translocase
Length = 204
Score = 100 bits (250), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 47/135 (34%), Positives = 85/135 (62%), Gaps = 3/135 (2%)
Query: 294 KEHTVYVRQRPFLRTFLERVAEMFEIIVFTASESVYAEKLLDILDPDRMLIARRAYRESC 353
++H +RP FL +++ +EI++F+++ +Y++K+ + LDP ++ ++E C
Sbjct: 52 QKHGWRTAKRPGADYFLGYLSQYYEIVLFSSNYMMYSDKIAEKLDPIHAFVSYNLFKEHC 111
Query: 354 IFSDGSYAKDLTILGVDLARIAIIDNSPQVFRLQLDNGIPIKSWFDDPSDCALISLLPFL 413
++ DG + KDL+ L DL+++ IID P ++LQ +N IP++ W + +D L+ L+PFL
Sbjct: 112 VYKDGVHIKDLSKLNRDLSKVIIIDTDPNSYKLQPENAIPMEPW-NGEADDKLVRLIPFL 170
Query: 414 ETLAA--ADDVRPII 426
E 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 = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 36/64 (56%), Gaps = 6/64 (9%)
Query: 291 FNMKEHT------VYVRQRPFLRTFLERVAEMFEIIVFTASESVYAEKLLDILDPDRMLI 344
FN++E Y++ RP L FL++++E++E+ ++T YA+++ I+DP L
Sbjct: 67 FNLQEGPSGYTSCYYIKFRPGLAQFLQKISELYELHIYTMGTKAYAKEVAKIIDPTGKLF 126
Query: 345 ARRA 348
R
Sbjct: 127 QDRV 130
>pdb|3EF0|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
Phosphatase
Length = 372
Score = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 26/113 (23%), Positives = 50/113 (44%), Gaps = 17/113 (15%)
Query: 253 VPKETERKRXXXXXXXXXXXXHSSTEPC------DDADFTFQVF-----FNMKEHT---- 297
V + + KR H++ +P D + + V FN++E
Sbjct: 10 VKRLRQEKRLSLIVDLDQTIIHATVDPTVGEWMSDPGNVNYDVLRDVRSFNLQEGPSGYT 69
Query: 298 --VYVRQRPFLRTFLERVAEMFEIIVFTASESVYAEKLLDILDPDRMLIARRA 348
Y++ RP L FL++++E++E+ ++T YA+++ I+DP L R
Sbjct: 70 SCYYIKFRPGLAQFLQKISELYELHIYTMGTKAYAKEVAKIIDPTGKLFQDRV 122
>pdb|1J0H|A Chain A, Crystal Structure Of Bacillus Stearothermophilus
Neopullulanase
pdb|1J0H|B Chain B, Crystal Structure Of Bacillus Stearothermophilus
Neopullulanase
pdb|1J0I|A Chain A, Crystal Structure Of Neopullulanase Complex With Panose
pdb|1J0I|B Chain B, Crystal Structure Of Neopullulanase Complex With Panose
Length = 588
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 47 LDTSVQNCNNDSSKVVLSATEN--GHNEASHCKTWYDGEYPAFQKWFSSAEDPV 98
L T + C+ +V+L A N G+ A W +GE ++ WF E P+
Sbjct: 225 LKTLIDRCHEKGIRVMLDAVFNHCGYEFAPFQDVWKNGESSKYKDWFHIHEFPL 278
>pdb|1J0J|A Chain A, Crystal Structure Of Neopullulanase E357q Complex With
Maltotetraose
pdb|1J0J|B Chain B, Crystal Structure Of Neopullulanase E357q Complex With
Maltotetraose
pdb|1J0K|A Chain A, Crystal Structure Of Neopullulanase E357q Complex With
Isopanose
pdb|1J0K|B Chain B, Crystal Structure Of Neopullulanase E357q Complex With
Isopanose
Length = 588
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 47 LDTSVQNCNNDSSKVVLSATEN--GHNEASHCKTWYDGEYPAFQKWFSSAEDPV 98
L T + C+ +V+L A N G+ A W +GE ++ WF E P+
Sbjct: 225 LKTLIDRCHEKGIRVMLDAVFNHCGYEFAPFQDVWKNGESSKYKDWFHIHEFPL 278
>pdb|4FN5|A Chain A, Elongation Factor G 1 (Pseudomonas Aeruginosa) In Complex
With Argyrin B
Length = 709
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 38/84 (45%), Gaps = 10/84 (11%)
Query: 93 SAEDPVLVRKMDSPPPACPTNFEAITSHVTDGNGIHFESIAQDDEGYEGGPAVPDMKADD 152
S E P+++ +MD P P E T + GI +AQ+D + +K D+
Sbjct: 402 SIEKPIILERMDFPEPVISVAVEPKTKADQEKMGIALGKLAQEDPSFR-------VKTDE 454
Query: 153 YDNW--ISYVGQNLMLDMTEESMK 174
IS +G+ L LD+ + MK
Sbjct: 455 ESGQTIISGMGE-LHLDIIVDRMK 477
>pdb|4HYZ|A Chain A, Crystal Structure Of A Hypothetical Protein (Rumgna_01855)
From Ruminococcus Gnavus Atcc 29149 At 2.25 A Resolution
pdb|4HYZ|B Chain B, Crystal Structure Of A Hypothetical Protein (Rumgna_01855)
From Ruminococcus Gnavus Atcc 29149 At 2.25 A Resolution
Length = 114
Score = 29.3 bits (64), Expect = 4.7, Method: Composition-based stats.
Identities = 16/67 (23%), Positives = 32/67 (47%), Gaps = 2/67 (2%)
Query: 149 KADDYDNWISYVGQNLMLDMTEESMK--LPALKEKAEMVDMNSAGLCQELTKNSDYSQSF 206
++ DY++W S ++L +TEES L L+++ E + ++ N Y
Sbjct: 28 QSKDYESWKSRFTKDLQSSLTEESYDSYLKILEKQGEFKEFGKCTYLGQIKDNKKYGGVI 87
Query: 207 LVSHYDQ 213
+V Y++
Sbjct: 88 IVVKYEE 94
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
0.318 0.133 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,038,517
Number of Sequences: 62578
Number of extensions: 484292
Number of successful extensions: 976
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 951
Number of HSP's gapped (non-prelim): 19
length of query: 434
length of database: 14,973,337
effective HSP length: 102
effective length of query: 332
effective length of database: 8,590,381
effective search space: 2852006492
effective search space used: 2852006492
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)