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= 027829
(218 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2P51|A Chain A, Crystal Structure Of The S. Pombe Pop2p Deadenylation
Subunit
pdb|3G0Z|A Chain A, Structure Of S. Pombe Pop2p - Zn2+ And Mn2+ Bound Form
pdb|3G10|A Chain A, Structure Of S. Pombe Pop2p - Mg2+ And Mn2+ Bound Form
Length = 333
Score = 138 bits (347), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 92/259 (35%), Positives = 125/259 (48%), Gaps = 70/259 (27%)
Query: 16 IREVFEFNLISEFERIRALIDRYPIISMDTEFPGVVVRPDSNIRHRDPAANYNGLKANVD 75
IR+V+ NL E I +LI+RYP++SMDTEFPGVV RP + D +Y L+ANVD
Sbjct: 23 IRDVWSTNLQQEMNLIMSLIERYPVVSMDTEFPGVVARPLGVFKSSD-DYHYQTLRANVD 81
Query: 76 LLNLIQIGLTLSDEEGNLPDLGSGSTYYIWEFNFKDFDIARHAHALDSVELLKR------ 129
L +IQIGL LSDEEGN P W+FNF F++ +A +S+ELL +
Sbjct: 82 SLKIIQIGLALSDEEGNAPVEAC-----TWQFNFT-FNLQDDMYAPESIELLTKSGIDFK 135
Query: 130 ------------------QGLVLNKDVTWVTFHSAYDFGF-------------------C 152
GLVL ++VTW+TFHS YDF +
Sbjct: 136 KHQEVGIEPADFAELLIGSGLVLQEEVTWITFHSGYDFAYLLKAMTQIPLPAEYEEFYKI 195
Query: 153 TCLY------------------GGLDRVCKALGVERVVGKSHQAGSDSLLTLHAFLKIKD 194
C+Y GL + L + R +G HQAGSD+LLT F +I+
Sbjct: 196 LCIYFPKNYDIKYIMKSVLNNSKGLQDIADDLQIHR-IGPQHQAGSDALLTARIFFEIRS 254
Query: 195 KHFGNEYELQKYANVLHGL 213
++F + + N L+GL
Sbjct: 255 RYFDGSID-SRMLNQLYGL 272
>pdb|4GMJ|B Chain B, Structure Of Human Not1 Mif4g Domain Co-Crystallized With
Caf1
pdb|4GMJ|D Chain D, Structure Of Human Not1 Mif4g Domain Co-Crystallized With
Caf1
pdb|4GMJ|F Chain F, Structure Of Human Not1 Mif4g Domain Co-Crystallized With
Caf1
Length = 285
Score = 134 bits (338), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 91/259 (35%), Positives = 123/259 (47%), Gaps = 69/259 (26%)
Query: 16 IREVFEFNLISEFERIRALIDRYPIISMDTEFPGVVVRPDSNIRHRDPAANYNGLKANVD 75
I EV+ NL E ++IR +I +Y ++MDTEFPGVV RP R + Y L+ NVD
Sbjct: 12 ICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIGEFR-SNADYQYQLLRCNVD 70
Query: 76 LLNLIQIGLTLSDEEGNLPDLGSGSTYYIWEFNFKDFDIARHAHALDSVELLKRQGL--- 132
LL +IQ+GLT +E+G P S W+FNFK F++ +A DS+ELL G+
Sbjct: 71 LLKIIQLGLTFMNEQGEYPPGTS-----TWQFNFK-FNLTEDMYAQDSIELLTTSGIQFK 124
Query: 133 ---------------------VLNKDVTWVTFHSAYDFGF-------------------- 151
VL + V W++FHS YDFG+
Sbjct: 125 KHEEEGIETQYFAELLMTSGVVLCEGVKWLSFHSGYDFGYLIKILTNSNLPEEELDFFEI 184
Query: 152 -----------------CTCLYGGLDRVCKALGVERVVGKSHQAGSDSLLTLHAFLKIKD 194
C L GGL V + L +ER +G HQAGSDSLLT AF K+++
Sbjct: 185 LRLFFPVIYDVKYLMKSCKNLKGGLQEVAEQLELER-IGPQHQAGSDSLLTGMAFFKMRE 243
Query: 195 KHFGNEYELQKYANVLHGL 213
F + + KY L+GL
Sbjct: 244 MFFEDHIDDAKYCGHLYGL 262
>pdb|2D5R|A Chain A, Crystal Structure Of A Tob-Hcaf1 Complex
Length = 252
Score = 134 bits (337), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 91/259 (35%), Positives = 125/259 (48%), Gaps = 69/259 (26%)
Query: 16 IREVFEFNLISEFERIRALIDRYPIISMDTEFPGVVVRPDSNIRHRDPAANYNGLKANVD 75
I EV+ NL E ++IR +I +Y ++MDTEFPGVV RP R + Y L+ NVD
Sbjct: 2 ICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIGEFR-SNADYQYQLLRCNVD 60
Query: 76 LLNLIQIGLTLSDEEGNLPDLGSGSTYYIWEFNFKDFDIARHAHALDSVELLKRQGL--- 132
LL +IQ+GLT +E+G P G++ W+FNFK F++ +A DS+ELL G+
Sbjct: 61 LLKIIQLGLTFMNEQGEYP---PGTS--TWQFNFK-FNLTEDMYAQDSIELLTTSGIQFK 114
Query: 133 ---------------------VLNKDVTWVTFHSAYDFGF-------------------- 151
VL + V W++FHS YDFG+
Sbjct: 115 KHEEEGIETQYFAELLMTSGVVLCEGVKWLSFHSGYDFGYLIKILTNSNLPEEELDFFEI 174
Query: 152 -----------------CTCLYGGLDRVCKALGVERVVGKSHQAGSDSLLTLHAFLKIKD 194
C L GGL V + L +ER +G HQAGSDSLLT AF K+++
Sbjct: 175 LRLFFPVIYDVKYLMKSCKNLKGGLQEVAEQLELER-IGPQHQAGSDSLLTGMAFFKMRE 233
Query: 195 KHFGNEYELQKYANVLHGL 213
F + + KY L+GL
Sbjct: 234 MFFEDHIDDAKYCGHLYGL 252
>pdb|4B8A|B Chain B, Structure Of Yeast Not1 Mif4g Domain Co-Crystallized With
Caf1
Length = 286
Score = 107 bits (267), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 60/162 (37%), Positives = 91/162 (56%), Gaps = 30/162 (18%)
Query: 14 ILIREVFEFNLISEFERIRALIDRYPIISMDTEFPGVVVRPDSNIRHRDPAANYNGLKAN 73
+ +R+V++ NL SEF IR L+ +Y +S+ TEF G + RP R + +Y ++AN
Sbjct: 11 LFVRDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGTFRSK-VDYHYQTMRAN 69
Query: 74 VDLLNLIQIGLTLSDEEGNLPDLGSGSTYYIWEFNFKDFDIARHAHALDSVELLKR---- 129
VD LN IQ+GL+LSD GN PD G + W+FNF +FD + + +S+ELL++
Sbjct: 70 VDFLNPIQLGLSLSDANGNKPDNGPST----WQFNF-EFDPKKEIMSTESLELLRKSGIN 124
Query: 130 --------------------QGLVLNKDVTWVTFHSAYDFGF 151
GL+++ VTW+T+H+AYD GF
Sbjct: 125 FEKHENLGIDVFEFSQLLMDSGLMMDDSVTWITYHAAYDLGF 166
>pdb|4B8C|A Chain A, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|C Chain C, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|E Chain E, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|F Chain F, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 288
Score = 107 bits (267), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 60/162 (37%), Positives = 91/162 (56%), Gaps = 30/162 (18%)
Query: 14 ILIREVFEFNLISEFERIRALIDRYPIISMDTEFPGVVVRPDSNIRHRDPAANYNGLKAN 73
+ +R+V++ NL SEF IR L+ +Y +S+ TEF G + RP R + +Y ++AN
Sbjct: 13 LFVRDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGTFRSKV-DYHYQTMRAN 71
Query: 74 VDLLNLIQIGLTLSDEEGNLPDLGSGSTYYIWEFNFKDFDIARHAHALDSVELLKR---- 129
VD LN IQ+GL+LSD GN PD G + W+FNF +FD + + +S+ELL++
Sbjct: 72 VDFLNPIQLGLSLSDANGNKPDNGPST----WQFNF-EFDPKKEIMSTESLELLRKSGIN 126
Query: 130 --------------------QGLVLNKDVTWVTFHSAYDFGF 151
GL+++ VTW+T+H+AYD GF
Sbjct: 127 FEKHENLGIDVFEFSQLLMDSGLMMDDSVTWITYHAAYDLGF 168
>pdb|1UOC|A Chain A, X-Ray Structure Of The Rnase Domain Of The Yeast Pop2
Protein
pdb|1UOC|B Chain B, X-Ray Structure Of The Rnase Domain Of The Yeast Pop2
Protein
Length = 289
Score = 107 bits (266), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 60/162 (37%), Positives = 91/162 (56%), Gaps = 30/162 (18%)
Query: 14 ILIREVFEFNLISEFERIRALIDRYPIISMDTEFPGVVVRPDSNIRHRDPAANYNGLKAN 73
+ +R+V++ NL SEF IR L+ +Y +S+ TEF G + RP R + +Y ++AN
Sbjct: 14 LFVRDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGTFRSKV-DYHYQTMRAN 72
Query: 74 VDLLNLIQIGLTLSDEEGNLPDLGSGSTYYIWEFNFKDFDIARHAHALDSVELLKR---- 129
VD LN IQ+GL+LSD GN PD G + W+FNF +FD + + +S+ELL++
Sbjct: 73 VDFLNPIQLGLSLSDANGNKPDNGPST----WQFNF-EFDPKKEIMSTESLELLRKSGIN 127
Query: 130 --------------------QGLVLNKDVTWVTFHSAYDFGF 151
GL+++ VTW+T+H+AYD GF
Sbjct: 128 FEKHENLGIDVFEFSQLLMDSGLMMDDSVTWITYHAAYDLGF 169
>pdb|3T2U|A Chain A, Structure Of Wuchereria Bancrofti Pi-Class Glutathione
S-Transferase
pdb|3T2U|B Chain B, Structure Of Wuchereria Bancrofti Pi-Class Glutathione
S-Transferase
Length = 208
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 140 WVTFHSAYDFGFCTCLYGGLDRVCKALGVERVVGKSHQ-AGSDSLLTLH 187
W + S + FG CLY G ++ ++ + R + + H G + L T H
Sbjct: 38 WPSMKSHFHFGQLPCLYDGDHQIVQSGAILRHLARKHNLNGGNELETTH 86
>pdb|2C1D|A Chain A, Crystal Structure Of Soxxa From P. Pantotrophus
pdb|2C1D|C Chain C, Crystal Structure Of Soxxa From P. Pantotrophus
pdb|2C1D|E Chain E, Crystal Structure Of Soxxa From P. Pantotrophus
pdb|2C1D|G Chain G, Crystal Structure Of Soxxa From P. Pantotrophus
Length = 264
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 24/52 (46%)
Query: 158 GLDRVCKALGVERVVGKSHQAGSDSLLTLHAFLKIKDKHFGNEYELQKYANV 209
GLD+ A+GV S G +S+ L A + D+H G ++ Y N
Sbjct: 65 GLDKWNAAMGVNGESCASCHQGPESMAGLRAVMPRVDEHTGKLMIMEDYVNA 116
>pdb|3H49|A Chain A, Crystal Structure Of A Putative Ribokinase (Apo Form) From
E.Coli At 1.8a Resolution
pdb|3H49|B Chain B, Crystal Structure Of A Putative Ribokinase (Apo Form) From
E.Coli At 1.8a Resolution
pdb|3IN1|A Chain A, Crystal Structure Of A Putative Ribokinase In Complex With
Adp From E.Coli
pdb|3IN1|B Chain B, Crystal Structure Of A Putative Ribokinase In Complex With
Adp From E.Coli
Length = 325
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 66 NYNGLKANVDLLNLIQIGLTLSDEEGNLPDLGSGSTYYIWEFNFKDFDIARHAHA 120
+ LK +V + I +GL D E +GS +W+ N D D AR + A
Sbjct: 85 DIQSLKQDVSIDTSINVGLVTEDGERTFVTNRNGS---LWKLNIDDVDFARFSQA 136
>pdb|2LCK|A Chain A, Structure Of The Mitochondrial Uncoupling Protein 2
Determined By Nmr Molecular Fragment Replacement
Length = 303
Score = 26.9 bits (58), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 21/45 (46%)
Query: 143 FHSAYDFGFCTCLYGGLDRVCKALGVERVVGKSHQAGSDSLLTLH 187
F SA+ GFCT + V K + +G+ H AG +L L
Sbjct: 206 FTSAFGAGFCTTVIASPVDVVKTRYMNSALGQYHSAGHCALTMLR 250
>pdb|3R6F|A Chain A, Crystal Structure Of A Zinc-Containing Hit Family
Protein From Encephalitozoon Cuniculi
Length = 135
Score = 26.9 bits (58), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 23 NLISEFERIRALIDRYPI 40
N+I E +R+ ALIDRYP+
Sbjct: 19 NIIYETDRLFALIDRYPL 36
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
0.323 0.142 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,744,932
Number of Sequences: 62578
Number of extensions: 288311
Number of successful extensions: 551
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 520
Number of HSP's gapped (non-prelim): 14
length of query: 218
length of database: 14,973,337
effective HSP length: 95
effective length of query: 123
effective length of database: 9,028,427
effective search space: 1110496521
effective search space used: 1110496521
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)