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= 001926
(995 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EF0|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
Phosphatase
Length = 372
Score = 109 bits (272), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 95/319 (29%), Positives = 145/319 (45%), Gaps = 78/319 (24%)
Query: 733 WTKLRPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFAGRVISRGDDGDPF 792
+ K RPG+ FL++ S+L+E+H+YTMG K YA E+AK++DP G LF RV+SR D G
Sbjct: 73 YIKFRPGLAQFLQKISELYELHIYTMGTKAYAKEVAKIIDPTGKLFQDRVLSRDDSGS-- 130
Query: 793 DGDERVPKSKDLEGVLGME-SAVVIIDDSVRVWPHNKLNLIVVERYTYF----------- 840
K L + + S VV+IDD VW N NLI V Y +F
Sbjct: 131 ------LAQKSLRRLFPCDTSMVVVIDDRGDVWDWNP-NLIKVVPYEFFVGIGDINSNFL 183
Query: 841 -------------------------PCSRRQFGLL------GPS---LLEIDHD-ERSED 865
P +++Q LL PS L DH+ ER E
Sbjct: 184 SGNREALEEQNKERVTALELQKSERPLAKQQNALLEDEGKPTPSHTLLHNRDHELERLEK 243
Query: 866 GTLASSLGVIERLHKIFFSHQSLDDVDVRN----------ILAAEQRKILAGCRIVFSRV 915
V++ +H +++ + +D+ R+ I+ ++K+L GCR++FS V
Sbjct: 244 --------VLKDIHAVYYEEE--NDISSRSGNHKHANVGLIIPKMKQKVLKGCRLLFSGV 293
Query: 916 FPVGEANPHLHPLWQTAEQFGAVCTKHIDDQVTHVVANSLGTDKVNWALSTGRF-VVHPG 974
P+G + + + A FGA TH++A + T+KV A+S G VV
Sbjct: 294 IPLG-VDVLSSDIAKWAMSFGAEVVLDFSVPPTHLIAAKIRTEKVKKAVSMGNIKVVKLN 352
Query: 975 WVEASALLYRRANEQDFAI 993
W+ S ++R E D+ +
Sbjct: 353 WLTESLSQWKRLPESDYLL 371
>pdb|3EF1|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
Phosphatase
Length = 442
Score = 86.3 bits (212), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 48/109 (44%), Positives = 64/109 (58%), Gaps = 10/109 (9%)
Query: 733 WTKLRPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFAGRVISRGDDGDPF 792
+ K RPG+ FL++ S+L+E+H+YTMG K YA E+AK++DP G LF RV+SR D G
Sbjct: 81 YIKFRPGLAQFLQKISELYELHIYTMGTKAYAKEVAKIIDPTGKLFQDRVLSRDDSGS-- 138
Query: 793 DGDERVPKSKDLEGVLGME-SAVVIIDDSVRVWPHNKLNLIVVERYTYF 840
K L + + S VV+IDD VW N NLI V Y +F
Sbjct: 139 ------LAQKSLRRLFPCDTSMVVVIDDRGDVWDWNP-NLIKVVPYEFF 180
Score = 52.0 bits (123), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 35/131 (26%), Positives = 65/131 (49%), Gaps = 14/131 (10%)
Query: 874 VIERLHKIFFSHQSLDDVDVRN----------ILAAEQRKILAGCRIVFSRVFPVGEANP 923
V++ +H +++ + +D+ R+ I+ ++K+L GCR++FS V P+G +
Sbjct: 314 VLKDIHAVYYEEE--NDISSRSGNHKHANVGLIIPKMKQKVLKGCRLLFSGVIPLG-VDV 370
Query: 924 HLHPLWQTAEQFGAVCTKHIDDQVTHVVANSLGTDKVNWALSTGRF-VVHPGWVEASALL 982
+ + A FGA TH++A + T+KV A+S G VV W+ S
Sbjct: 371 LSSDIAKWAMSFGAEVVLDFSVPPTHLIAAKIRTEKVKKAVSMGNIKVVKLNWLTESLSQ 430
Query: 983 YRRANEQDFAI 993
++R E D+ +
Sbjct: 431 WKRLPESDYLL 441
>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 = 33.9 bits (76), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 32/90 (35%), Positives = 42/90 (46%), Gaps = 19/90 (21%)
Query: 737 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA-----GRVISRGDDGDP 791
RP + FL+R +LFE L+T YA +A +LD GV A V RG+
Sbjct: 70 RPHVDEFLQRMGQLFECVLFTASLAKYADPVADLLDRWGVFRARLFRESCVFHRGN---- 125
Query: 792 FDGDERVPKSKDLEGVLGME-SAVVIIDDS 820
KDL LG E S V+I+D+S
Sbjct: 126 --------YVKDLSR-LGRELSKVIIVDNS 146
>pdb|2BSG|A Chain A, The Modeled Structure Of Fibritin (Gpwac) Of Bacteriophage
T4 Based On Cryo-Em Reconstruction Of The Extended Tail
Of Bacteriophage T4
pdb|2BSG|B Chain B, The Modeled Structure Of Fibritin (Gpwac) Of Bacteriophage
T4 Based On Cryo-Em Reconstruction Of The Extended Tail
Of Bacteriophage T4
pdb|2BSG|C Chain C, The Modeled Structure Of Fibritin (Gpwac) Of Bacteriophage
T4 Based On Cryo-Em Reconstruction Of The Extended Tail
Of Bacteriophage T4
Length = 487
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 35/145 (24%), Positives = 61/145 (42%), Gaps = 14/145 (9%)
Query: 788 DGDPFDGDERVPKSKDLEGVLGMESAVVIIDDSVRVWPHNKLNLIVVERYTYFPCSRRQF 847
DG P +G R+ K+ E +LG ++ + +N V +
Sbjct: 13 DGPPAEGQSRISWIKNGEEILGADT---------QYGSEGSMNRPTVSVLRNVEVLDKNI 63
Query: 848 GLLGPSLLEIDHDERSEDGTLASSLGVIERLHKIFFSHQSLDDVDVRNILAAEQRKILAG 907
G+L SL + D ++ G L S G IE L +I + + + D+ L +E +IL G
Sbjct: 64 GILKTSLETANSDIKTIQGILDVS-GDIEALAQIGINKKDISDLKT---LTSEHTEILNG 119
Query: 908 C-RIVFSRVFPVGEANPHLHPLWQT 931
V S + +G N + +++T
Sbjct: 120 TNNTVDSILADIGPFNAEANSVYRT 144
>pdb|1TA0|A Chain A, Three-Dimensional Structure Of A Rna-Polymerase Ii Binding
Protein With Associated Ligand
Length = 197
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 737 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFAGRVI 783
RP + FL+R +LFE L+T YA +A +LD G F R+
Sbjct: 57 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLDKWGA-FRARLF 102
>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 = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 737 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA 779
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 = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%)
Query: 737 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA 779
RP + FL+R +LFE L+T YA +A +LD G A
Sbjct: 60 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLDKWGAFRA 102
>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 = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 22/41 (53%)
Query: 737 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVL 777
RP + FL+R +LFE L+T YA +A +LD G
Sbjct: 60 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLDKWGAF 100
>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: 737 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA 779
RP + FL+R +LFE L+T YA +A +LD G A
Sbjct: 56 RPHVDEFLQRMGELFECVLFTASLAKYADPVADLLDKWGAFRA 98
>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: 737 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA 779
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 = 5.6, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 22/43 (51%)
Query: 737 RPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDPKGVLFA 779
RP + FL+R +LFE L+T YA +A LD G A
Sbjct: 57 RPHVDEFLQRXGELFECVLFTASLAKYADPVADXLDKWGAFRA 99
>pdb|3QLE|A Chain A, Structural Basis For The Function Of Tim50 In The
Mitochondrial Presequence Translocase
Length = 204
Score = 29.6 bits (65), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%)
Query: 731 GMWTKLRPGIWTFLERASKLFEMHLYTMGNKLYATEMAKVLDP 773
G T RPG FL S+ +E+ L++ +Y+ ++A+ LDP
Sbjct: 55 GWRTAKRPGADYFLGYLSQYYEIVLFSSNYMMYSDKIAEKLDP 97
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
0.315 0.131 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,165,186
Number of Sequences: 62578
Number of extensions: 1105459
Number of successful extensions: 1456
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1439
Number of HSP's gapped (non-prelim): 15
length of query: 995
length of database: 14,973,337
effective HSP length: 108
effective length of query: 887
effective length of database: 8,214,913
effective search space: 7286627831
effective search space used: 7286627831
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 56 (26.2 bits)