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= 001230
(1118 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 = 86.7 bits (213), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 48/109 (44%), Positives = 64/109 (58%), Gaps = 10/109 (9%)
Query: 972 WTKLRPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFAGRVISRGDDGDPF 1031
+ K RPG+ FL++ S+L+E+H+YTMG K YA E+AK++DP G LF RV+SR D G
Sbjct: 81 YIKFRPGLAQFLQKISELYELHIYTMGTKAYAKEVAKIIDPTGKLFQDRVLSRDDSGS-- 138
Query: 1032 DGDERVPKSKDLEGVLGME-SAVVIIDDSVRVWPHNKLNLIVVERYTYF 1079
K L + + S VV+IDD VW N NLI V Y +F
Sbjct: 139 ------LAQKSLRRLFPCDTSMVVVIDDRGDVWDWNP-NLIKVVPYEFF 180
>pdb|3EF0|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
Phosphatase
Length = 372
Score = 85.1 bits (209), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 48/109 (44%), Positives = 64/109 (58%), Gaps = 10/109 (9%)
Query: 972 WTKLRPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFAGRVISRGDDGDPF 1031
+ K RPG+ FL++ S+L+E+H+YTMG K YA E+AK++DP G LF RV+SR D G
Sbjct: 73 YIKFRPGLAQFLQKISELYELHIYTMGTKAYAKEVAKIIDPTGKLFQDRVLSRDDSGS-- 130
Query: 1032 DGDERVPKSKDLEGVLGME-SAVVIIDDSVRVWPHNKLNLIVVERYTYF 1079
K L + + S VV+IDD VW N NLI V Y +F
Sbjct: 131 ------LAQKSLRRLFPCDTSMVVVIDDRGDVWDWNP-NLIKVVPYEFF 172
>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 = 34.3 bits (77), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 32/90 (35%), Positives = 42/90 (46%), Gaps = 19/90 (21%)
Query: 976 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA-----GRVISRGDDGDP 1030
RP + FL+R +LFE L+T YA +A +LD GV A V RG+
Sbjct: 70 RPHVDEFLQRMGQLFECVLFTASLAKYADPVADLLDRWGVFRARLFRESCVFHRGN---- 125
Query: 1031 FDGDERVPKSKDLEGVLGME-SAVVIIDDS 1059
KDL LG E S V+I+D+S
Sbjct: 126 --------YVKDLSR-LGRELSKVIIVDNS 146
>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 = 3.1, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 976 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA 1018
RP + FL+R +LFE L+T YA +A +LD G A
Sbjct: 60 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLDKWGAFRA 102
>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 = 3.2, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 976 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA 1018
RP + FL+R +LFE L+T YA +A +LD G A
Sbjct: 56 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLDKWGAFRA 98
>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 = 3.2, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 976 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA 1018
RP + FL+R +LFE L+T YA +A +LD G A
Sbjct: 60 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLDKWGAFRA 102
>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 = 3.2, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 976 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA 1018
RP + FL+R +LFE L+T YA +A +LD G A
Sbjct: 60 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLDKWGAFRA 102
>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 = 3.2, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 976 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA 1018
RP + FL+R +LFE L+T YA +A +LD G A
Sbjct: 57 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLDKWGAFRA 99
>pdb|3P0W|A Chain A, Crystal Structure Of D-Glucarate Dehydratase From
Ralstonia Solanacearum Complexed With Mg And D-Glucarate
pdb|3P0W|B Chain B, Crystal Structure Of D-Glucarate Dehydratase From
Ralstonia Solanacearum Complexed With Mg And D-Glucarate
pdb|3P0W|C Chain C, Crystal Structure Of D-Glucarate Dehydratase From
Ralstonia Solanacearum Complexed With Mg And D-Glucarate
pdb|3P0W|D Chain D, Crystal Structure Of D-Glucarate Dehydratase From
Ralstonia Solanacearum Complexed With Mg And D-Glucarate
Length = 470
Score = 31.2 bits (69), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 27/130 (20%), Positives = 52/130 (40%), Gaps = 7/130 (5%)
Query: 179 IREALESVLRGDISFEGVCSKLEFTLESLRELVNENNVPTKDALIQLAFSAVQSV----- 233
IR+ALE V+ + + L S+R + A + SA ++
Sbjct: 61 IRQALERVI--PLVVGQSIGRTNGVLSSIRRALAGGGNAAHQATVHQVTSASEAAVLRQP 118
Query: 234 HSVFCSMNHVLKEQNKEILSRLLSLIKSHEPPLFSSNQIKEMEAMLSSLVTRANDKEKDM 293
H + M++V+ +L L ++ L + Q ++ ML+ L + ++ D+
Sbjct: 119 HEINLRMDNVITAVEAALLDLLGQFLEVPVAELLGAGQQRDSAPMLAYLFYVGDRRKTDL 178
Query: 294 LAMHGVNGKD 303
+ G NG D
Sbjct: 179 PYLEGANGAD 188
>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 = 3.7, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 976 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA 1018
RP + FL+R +LFE L+T YA +A +LD G A
Sbjct: 57 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLDKWGAFRA 99
>pdb|1T9Z|A Chain A, Three-Dimensional Structure Of A Rna-Polymerase Ii Binding
Protein
Length = 197
Score = 30.4 bits (67), Expect = 5.8, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 22/43 (51%)
Query: 976 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA 1018
RP + FL+R +LFE L+T YA +A LD G A
Sbjct: 57 RPHVDEFLQRXGELFECVLFTASLAKYADPVADXLDKWGAFRA 99
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
0.313 0.131 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,195,508
Number of Sequences: 62578
Number of extensions: 1104485
Number of successful extensions: 1591
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1578
Number of HSP's gapped (non-prelim): 15
length of query: 1118
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1009
effective length of database: 8,152,335
effective search space: 8225706015
effective search space used: 8225706015
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 57 (26.6 bits)