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= 023963
(274 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 289 bits (739), Expect = 1e-78, Method: Compositional matrix adjust.
Identities = 147/269 (54%), Positives = 197/269 (73%), Gaps = 12/269 (4%)
Query: 9 SIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVN 68
S I EVW NL+ E IR ++ Y Y+AMDTEFPG+V R IG F+S+++Y YQ L+ N
Sbjct: 9 SQRICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIGEFRSNADYQYQLLRCN 68
Query: 69 VDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDF 128
VDLLK+IQLGLTF +E G P GT WQFNF+ F+ ED+YA DSI+LL+ SGI F
Sbjct: 69 VDLLKIIQLGLTFMNEQGEYPP-GTST---WQFNFK-FNLTEDMYAQDSIELLTTSGIQF 123
Query: 129 KKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQACFFD 188
KK++E+G++ F+ELLM+SG+VL + V W++FHSGYDFGYL+K+LT +LPE + FF+
Sbjct: 124 KKHEEEGIETQYFAELLMTSGVVLCEGVKWLSFHSGYDFGYLIKILTNSNLPEEELDFFE 183
Query: 189 LIKMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFMKMKD 248
+++++FP +YD+K+LMK C +L GGL ++AE LE+ERIG HQAGSDSLLT F KM++
Sbjct: 184 ILRLFFPVIYDVKYLMKSCKNLKGGLQEVAEQLELERIGPQHQAGSDSLLTGMAFFKMRE 243
Query: 249 NFFKGSPE--KYAGVLYGLG-----VENG 270
FF+ + KY G LYGLG V+NG
Sbjct: 244 MFFEDHIDDAKYCGHLYGLGSGSSYVQNG 272
>pdb|2D5R|A Chain A, Crystal Structure Of A Tob-Hcaf1 Complex
Length = 252
Score = 284 bits (727), Expect = 3e-77, Method: Compositional matrix adjust.
Identities = 142/257 (55%), Positives = 191/257 (74%), Gaps = 7/257 (2%)
Query: 11 HIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVD 70
I EVW NL+ E IR ++ Y Y+AMDTEFPG+V R IG F+S+++Y YQ L+ NVD
Sbjct: 1 RICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIGEFRSNADYQYQLLRCNVD 60
Query: 71 LLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDFKK 130
LLK+IQLGLTF +E G P GT WQFNF+ F+ ED+YA DSI+LL+ SGI FKK
Sbjct: 61 LLKIIQLGLTFMNEQGEYPP-GTST---WQFNFK-FNLTEDMYAQDSIELLTTSGIQFKK 115
Query: 131 NKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQACFFDLI 190
++E+G++ F+ELLM+SG+VL + V W++FHSGYDFGYL+K+LT +LPE + FF+++
Sbjct: 116 HEEEGIETQYFAELLMTSGVVLCEGVKWLSFHSGYDFGYLIKILTNSNLPEEELDFFEIL 175
Query: 191 KMYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFMKMKDNF 250
+++FP +YD+K+LMK C +L GGL ++AE LE+ERIG HQAGSDSLLT F KM++ F
Sbjct: 176 RLFFPVIYDVKYLMKSCKNLKGGLQEVAEQLELERIGPQHQAGSDSLLTGMAFFKMREMF 235
Query: 251 FKGSPE--KYAGVLYGL 265
F+ + KY G LYGL
Sbjct: 236 FEDHIDDAKYCGHLYGL 252
>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 = 258 bits (658), Expect = 4e-69, Method: Compositional matrix adjust.
Identities = 126/256 (49%), Positives = 179/256 (69%), Gaps = 6/256 (2%)
Query: 12 IREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQNLKVNVDL 71
IR+VW+ NL+ E +LI +++ YP ++MDTEFPG+V R +G FKSS +Y+YQ L+ NVD
Sbjct: 23 IRDVWSTNLQQEMNLIMSLIERYPVVSMDTEFPGVVARPLGVFKSSDDYHYQTLRANVDS 82
Query: 72 LKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSRSGIDFKKN 131
LK+IQ+GL +DE GN P + C WQFNF F+ +D+YA +SI+LL++SGIDFKK+
Sbjct: 83 LKIIQIGLALSDEEGNAPV----EACTWQFNFT-FNLQDDMYAPESIELLTKSGIDFKKH 137
Query: 132 KEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQACFFDLIK 191
+E G++ F+ELL+ SG+VL + V W+TFHSGYDF YLLK +T LP F+ ++
Sbjct: 138 QEVGIEPADFAELLIGSGLVLQEEVTWITFHSGYDFAYLLKAMTQIPLPAEYEEFYKILC 197
Query: 192 MYFPTLYDIKHLMKFCNSLHGGLNKLAELLEVERIGICHQAGSDSLLTCCTFMKMKDNFF 251
+YFP YDIK++MK + GL +A+ L++ RIG HQAGSD+LLT F +++ +F
Sbjct: 198 IYFPKNYDIKYIMKSVLNNSKGLQDIADDLQIHRIGPQHQAGSDALLTARIFFEIRSRYF 257
Query: 252 KGSPE-KYAGVLYGLG 266
GS + + LYGLG
Sbjct: 258 DGSIDSRMLNQLYGLG 273
>pdb|4B8A|B Chain B, Structure Of Yeast Not1 Mif4g Domain Co-Crystallized With
Caf1
Length = 286
Score = 193 bits (491), Expect = 8e-50, Method: Compositional matrix adjust.
Identities = 101/282 (35%), Positives = 155/282 (54%), Gaps = 24/282 (8%)
Query: 4 LPKSESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQ 63
LP + +R+VW NL EF++IR +V Y ++++ TEF G + R IG F+S +Y+YQ
Sbjct: 5 LPPPNYLFVRDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGTFRSKVDYHYQ 64
Query: 64 NLKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSR 123
++ NVD L IQLGL+ +D NGN P G WQFNF EF P +++ + +S++LL +
Sbjct: 65 TMRANVDFLNPIQLGLSLSDANGNKPDNGP---STWQFNF-EFDPKKEIMSTESLELLRK 120
Query: 124 SGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQ 183
SGI+F+K++ G+D FS+LLM SG++++DSV W+T+H+ YD G+L+ +L +P +
Sbjct: 121 SGINFEKHENLGIDVFEFSQLLMDSGLMMDDSVTWITYHAAYDLGFLINILMNDSMPNNK 180
Query: 184 ACFFDLIKMYFPTLYDIKHLMKFCNSLHG---------------GLNKLAELLEVERIGI 228
F + Y P YD+ + K L LA+ L + R I
Sbjct: 181 EDFEWWVHQYMPNFYDLNLVYKIIQEFKNPQLQQSSQQQQQQQYSLTTLADELGLPRFSI 240
Query: 229 CHQAGSDSLLTCCTFMKMKDNFFKGSPE-----KYAGVLYGL 265
G SLL +F ++ P KY GV+YG+
Sbjct: 241 FTTTGGQSLLMLLSFCQLSKLSMHKFPNGTDFAKYQGVIYGI 282
>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 = 193 bits (490), Expect = 9e-50, Method: Compositional matrix adjust.
Identities = 102/282 (36%), Positives = 157/282 (55%), Gaps = 24/282 (8%)
Query: 4 LPKSESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQ 63
LP + +R+VW NL EF++IR +V Y ++++ TEF G + R IG F+S +Y+YQ
Sbjct: 8 LPPPNYLFVRDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGTFRSKVDYHYQ 67
Query: 64 NLKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSR 123
++ NVD L IQLGL+ +D NGN P G WQFNF EF P +++ + +S++LL +
Sbjct: 68 TMRANVDFLNPIQLGLSLSDANGNKPDNGP---STWQFNF-EFDPKKEIMSTESLELLRK 123
Query: 124 SGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQ 183
SGI+F+K++ G+D FS+LLM SG++++DSV W+T+H+ YD G+L+ +L +P +
Sbjct: 124 SGINFEKHENLGIDVFEFSQLLMDSGLMMDDSVTWITYHAAYDLGFLINILMNDSMPNNK 183
Query: 184 ACFFDLIKMYFPTLYDIKHLMKFCNSLHG---------------GLNKLAELLEVERIGI 228
F + Y P YD+ + K L LA+ L + R I
Sbjct: 184 EDFEWWVHQYMPNFYDLNLVYKIIQEFKNPQLQQSSQQQQQQQYSLTTLADELGLPRFSI 243
Query: 229 CHQAGSDSLLTCCTFMKMKD----NFFKGSP-EKYAGVLYGL 265
G SLL +F ++ F G+ KY GV+YG+
Sbjct: 244 FTTTGGQSLLMLLSFCQLSKLSMHKFPNGTDFAKYQGVIYGI 285
>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 = 193 bits (490), Expect = 9e-50, Method: Compositional matrix adjust.
Identities = 102/282 (36%), Positives = 157/282 (55%), Gaps = 24/282 (8%)
Query: 4 LPKSESIHIREVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGIVLRSIGNFKSSSEYNYQ 63
LP + +R+VW NL EF++IR +V Y ++++ TEF G + R IG F+S +Y+YQ
Sbjct: 7 LPPPNYLFVRDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGTFRSKVDYHYQ 66
Query: 64 NLKVNVDLLKLIQLGLTFTDENGNLPKCGTDKYCLWQFNFREFSPDEDVYAYDSIKLLSR 123
++ NVD L IQLGL+ +D NGN P G WQFNF EF P +++ + +S++LL +
Sbjct: 67 TMRANVDFLNPIQLGLSLSDANGNKPDNGP---STWQFNF-EFDPKKEIMSTESLELLRK 122
Query: 124 SGIDFKKNKEKGVDAMRFSELLMSSGIVLNDSVHWVTFHSGYDFGYLLKLLTCKDLPETQ 183
SGI+F+K++ G+D FS+LLM SG++++DSV W+T+H+ YD G+L+ +L +P +
Sbjct: 123 SGINFEKHENLGIDVFEFSQLLMDSGLMMDDSVTWITYHAAYDLGFLINILMNDSMPNNK 182
Query: 184 ACFFDLIKMYFPTLYDIKHLMKFCNSLHG---------------GLNKLAELLEVERIGI 228
F + Y P YD+ + K L LA+ L + R I
Sbjct: 183 EDFEWWVHQYMPNFYDLNLVYKIIQEFKNPQLQQSSQQQQQQQYSLTTLADELGLPRFSI 242
Query: 229 CHQAGSDSLLTCCTFMKMKD----NFFKGSP-EKYAGVLYGL 265
G SLL +F ++ F G+ KY GV+YG+
Sbjct: 243 FTTTGGQSLLMLLSFCQLSKLSMHKFPNGTDFAKYQGVIYGI 284
>pdb|2YBX|A Chain A, Crystal Structure Of Human
Phosphatidylinositol-5-Phosphate 4-Kinase Type-2 Alpha
pdb|2YBX|B Chain B, Crystal Structure Of Human
Phosphatidylinositol-5-Phosphate 4-Kinase Type-2 Alpha
Length = 394
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 128 FKKNKEK-GVDAMRFSELLMSSGIVLNDSV--HWVTFHSGYDFGYLLKLLTCKDLPE 181
F+ +E+ G+D F L S + NDS FH+ YD Y++K +T +D+ E
Sbjct: 87 FRNLRERFGIDDQDFQNSLTRSAPLPNDSQARSGARFHTSYDKRYIIKTITSEDVAE 143
>pdb|2A1R|A Chain A, Crystal Structure Of Parn Nuclease Domain
pdb|2A1R|B Chain B, Crystal Structure Of Parn Nuclease Domain
pdb|2A1S|A Chain A, Crystal Structure Of Native Parn Nuclease Domain
pdb|2A1S|B Chain B, Crystal Structure Of Native Parn Nuclease Domain
pdb|2A1S|C Chain C, Crystal Structure Of Native Parn Nuclease Domain
pdb|2A1S|D Chain D, Crystal Structure Of Native Parn Nuclease Domain
Length = 430
Score = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 38/136 (27%), Positives = 55/136 (40%), Gaps = 19/136 (13%)
Query: 14 EVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGI----VLRSIGNFKSSSEYNYQNLKVNV 69
E+ N + + +++ + A+D EF GI + ++ N + E YQ LK +
Sbjct: 2 EIIRSNFKSNLHKVYQAIEEADFFAIDGEFSGISDGPSVSALTNGFDTPEERYQKLKKHS 61
Query: 70 DLLKLIQLGL-TFTDENGNLPKCGTDKYCLWQFNFREF-------SPDED-VYAYDSIKL 120
L Q GL TF + + KY FNF F SPD V SI
Sbjct: 62 MDFLLFQFGLCTFKYDYTD------SKYITKSFNFYVFPKPFNRSSPDVKFVCQSSSIDF 115
Query: 121 LSRSGIDFKKNKEKGV 136
L+ G DF K G+
Sbjct: 116 LASQGFDFNKVFRNGI 131
>pdb|3HWI|A Chain A, Crystal Structure Of Probable Thiosulfate
Sulfurtransferase Cysa2 (Rhodanese-Like Protein) From
Mycobacterium Tuberculosis
pdb|3HWI|B Chain B, Crystal Structure Of Probable Thiosulfate
Sulfurtransferase Cysa2 (Rhodanese-Like Protein) From
Mycobacterium Tuberculosis
Length = 298
Score = 31.2 bits (69), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 5/53 (9%)
Query: 109 DEDVYAYDSIKLLSRSGIDFKKN-----KEKGVDAMRFSELLMSSGIVLNDSV 156
DED AYD + +D++ + K VDA +FS+LL GI D+V
Sbjct: 49 DEDTSAYDRDHIAGAIKLDWRTDLQDPVKRDFVDAQQFSKLLSERGIANEDTV 101
>pdb|3AAX|A Chain A, Crystal Structure Of Probable Thiosulfate
Sulfurtransferase Cysa3 (Rv3117) From Mycobacterium
Tuberculosis: Monoclinic Form
pdb|3AAX|B Chain B, Crystal Structure Of Probable Thiosulfate
Sulfurtransferase Cysa3 (Rv3117) From Mycobacterium
Tuberculosis: Monoclinic Form
Length = 277
Score = 31.2 bits (69), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 5/53 (9%)
Query: 109 DEDVYAYDSIKLLSRSGIDFKKN-----KEKGVDAMRFSELLMSSGIVLNDSV 156
DED AYD + +D++ + K VDA +FS+LL GI D+V
Sbjct: 28 DEDTSAYDRDHIAGAIKLDWRTDLQDPVKRDFVDAQQFSKLLSERGIANEDTV 80
>pdb|3AAY|A Chain A, Crystal Structure Of Probable Thiosulfate
Sulfurtransferase Cysa3 (Rv3117) From Mycobacterium
Tuberculosis: Orthorhombic Form
pdb|3AAY|B Chain B, Crystal Structure Of Probable Thiosulfate
Sulfurtransferase Cysa3 (Rv3117) From Mycobacterium
Tuberculosis: Orthorhombic Form
Length = 277
Score = 31.2 bits (69), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 5/53 (9%)
Query: 109 DEDVYAYDSIKLLSRSGIDFKKN-----KEKGVDAMRFSELLMSSGIVLNDSV 156
DED AYD + +D++ + K VDA +FS+LL GI D+V
Sbjct: 28 DEDTSAYDRDHIAGAIKLDWRTDLQDPVKRDFVDAQQFSKLLSERGIANEDTV 80
>pdb|3D45|A Chain A, Crystal Structure Of Mouse Parn In Complex With M7gpppg
pdb|3D45|B Chain B, Crystal Structure Of Mouse Parn In Complex With M7gpppg
Length = 507
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 50/124 (40%), Gaps = 7/124 (5%)
Query: 14 EVWNDNLEHEFSLIRDIVDDYPYIAMDTEFPGI----VLRSIGNFKSSSEYNYQNLKVNV 69
E+ N + + +++ + A+D EF GI + ++ + + E YQ LK +
Sbjct: 4 EIIRSNFKINLHKVYQAIEEADFFAIDGEFSGISDGPSVTALTSGFDTPEERYQKLKKHS 63
Query: 70 DLLKLIQLGLTFTDENGNLPKCGTDKYCLWQF--NFREFSPDED-VYAYDSIKLLSRSGI 126
L Q GL + K T + + F F SPD V SI L+ G
Sbjct: 64 MDFLLFQFGLCAFKYDHTDSKHVTKSFNFYVFPKPFSRSSPDVKFVCQSSSIDFLASQGF 123
Query: 127 DFKK 130
DF K
Sbjct: 124 DFNK 127
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
0.322 0.140 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,756,011
Number of Sequences: 62578
Number of extensions: 374382
Number of successful extensions: 854
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 838
Number of HSP's gapped (non-prelim): 16
length of query: 274
length of database: 14,973,337
effective HSP length: 97
effective length of query: 177
effective length of database: 8,903,271
effective search space: 1575878967
effective search space used: 1575878967
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)