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= psy6037
(286 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 = 379 bits (973), Expect = e-105, Method: Compositional matrix adjust.
Identities = 185/267 (69%), Positives = 217/267 (81%), Gaps = 3/267 (1%)
Query: 14 IREVWARNVQEEFVHIRSLINTYNYIGIDTEFPGVVAKPLGDFRSTSEYQYHFLKINVDL 73
I EVWA N+ EE IR +I YNY+ +DTEFPGVVA+P+G+FRS ++YQY L+ NVDL
Sbjct: 12 ICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIGEFRSNADYQYQLLRCNVDL 71
Query: 74 LKIIQIGLTFFDSKSCTPPGPFTTWQFNFKFDLQEDMYAQDSIDLLQNSGIQFQRHKEEG 133
LKIIQ+GLTF + + PPG +TWQFNFKF+L EDMYAQDSI+LL SGIQF++H+EEG
Sbjct: 72 LKIIQLGLTFMNEQGEYPPGT-STWQFNFKFNLTEDMYAQDSIELLTTSGIQFKKHEEEG 130
Query: 134 IEPADFAELLTTSGVVLNDKVKWLSFHSGYDFGYLLKLLMGTRSLPSEEAEFFELQRLFF 193
IE FAELL TSGVVL + VKWLSFHSGYDFGYL+K+L + +LP EE +FFE+ RLFF
Sbjct: 131 IETQYFAELLMTSGVVLCEGVKWLSFHSGYDFGYLIKILTNS-NLPEEELDFFEILRLFF 189
Query: 194 KSIYDVKYLMKSCKNLKGGLQEVAEQLDLSRIGPQHQAGSDSLLTGRVFFKMRELFFEDA 253
IYDVKYLMKSCKNLKGGLQEVAEQL+L RIGPQHQAGSDSLLTG FFKMRE+FFED
Sbjct: 190 PVIYDVKYLMKSCKNLKGGLQEVAEQLELERIGPQHQAGSDSLLTGMAFFKMREMFFEDH 249
Query: 254 IDDDKYCGHIYGLGP-AGWNGHTNGNA 279
IDD KYCGH+YGLG + + + GNA
Sbjct: 250 IDDAKYCGHLYGLGSGSSYVQNGTGNA 276
>pdb|2D5R|A Chain A, Crystal Structure Of A Tob-Hcaf1 Complex
Length = 252
Score = 375 bits (962), Expect = e-104, Method: Compositional matrix adjust.
Identities = 181/253 (71%), Positives = 210/253 (83%), Gaps = 2/253 (0%)
Query: 14 IREVWARNVQEEFVHIRSLINTYNYIGIDTEFPGVVAKPLGDFRSTSEYQYHFLKINVDL 73
I EVWA N+ EE IR +I YNY+ +DTEFPGVVA+P+G+FRS ++YQY L+ NVDL
Sbjct: 2 ICEVWACNLDEEMKKIRQVIRKYNYVAMDTEFPGVVARPIGEFRSNADYQYQLLRCNVDL 61
Query: 74 LKIIQIGLTFFDSKSCTPPGPFTTWQFNFKFDLQEDMYAQDSIDLLQNSGIQFQRHKEEG 133
LKIIQ+GLTF + + PPG +TWQFNFKF+L EDMYAQDSI+LL SGIQF++H+EEG
Sbjct: 62 LKIIQLGLTFMNEQGEYPPGT-STWQFNFKFNLTEDMYAQDSIELLTTSGIQFKKHEEEG 120
Query: 134 IEPADFAELLTTSGVVLNDKVKWLSFHSGYDFGYLLKLLMGTRSLPSEEAEFFELQRLFF 193
IE FAELL TSGVVL + VKWLSFHSGYDFGYL+K+L + +LP EE +FFE+ RLFF
Sbjct: 121 IETQYFAELLMTSGVVLCEGVKWLSFHSGYDFGYLIKILTNS-NLPEEELDFFEILRLFF 179
Query: 194 KSIYDVKYLMKSCKNLKGGLQEVAEQLDLSRIGPQHQAGSDSLLTGRVFFKMRELFFEDA 253
IYDVKYLMKSCKNLKGGLQEVAEQL+L RIGPQHQAGSDSLLTG FFKMRE+FFED
Sbjct: 180 PVIYDVKYLMKSCKNLKGGLQEVAEQLELERIGPQHQAGSDSLLTGMAFFKMREMFFEDH 239
Query: 254 IDDDKYCGHIYGL 266
IDD KYCGH+YGL
Sbjct: 240 IDDAKYCGHLYGL 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 = 285 bits (729), Expect = 2e-77, Method: Compositional matrix adjust.
Identities = 143/273 (52%), Positives = 190/273 (69%), Gaps = 8/273 (2%)
Query: 14 IREVWARNVQEEFVHIRSLINTYNYIGIDTEFPGVVAKPLGDFRSTSEYQYHFLKINVDL 73
IR+VW+ N+Q+E I SLI Y + +DTEFPGVVA+PLG F+S+ +Y Y L+ NVD
Sbjct: 23 IRDVWSTNLQQEMNLIMSLIERYPVVSMDTEFPGVVARPLGVFKSSDDYHYQTLRANVDS 82
Query: 74 LKIIQIGLTFFDSKSCTPPGPFTTWQFNFKFDLQEDMYAQDSIDLLQNSGIQFQRHKEEG 133
LKIIQIGL D + P TWQFNF F+LQ+DMYA +SI+LL SGI F++H+E G
Sbjct: 83 LKIIQIGLALSDEEGNAPVEA-CTWQFNFTFNLQDDMYAPESIELLTKSGIDFKKHQEVG 141
Query: 134 IEPADFAELLTTSGVVLNDKVKWLSFHSGYDFGYLLKLLMGTRSLPSEEAEFFELQRLFF 193
IEPADFAELL SG+VL ++V W++FHSGYDF YLLK M LP+E EF+++ ++F
Sbjct: 142 IEPADFAELLIGSGLVLQEEVTWITFHSGYDFAYLLK-AMTQIPLPAEYEEFYKILCIYF 200
Query: 194 KSIYDVKYLMKSCKNLKGGLQEVAEQLDLSRIGPQHQAGSDSLLTGRVFFKMRELFFEDA 253
YD+KY+MKS N GLQ++A+ L + RIGPQHQAGSD+LLT R+FF++R +F+ +
Sbjct: 201 PKNYDIKYIMKSVLNNSKGLQDIADDLQIHRIGPQHQAGSDALLTARIFFEIRSRYFDGS 260
Query: 254 IDDDKYCGHIYGLGPAG---WNGHTNGNAENIE 283
I D + +YGLG G W H N + I+
Sbjct: 261 I-DSRMLNQLYGLGSTGSVLW--HNNSSTPQIQ 290
>pdb|4B8A|B Chain B, Structure Of Yeast Not1 Mif4g Domain Co-Crystallized With
Caf1
Length = 286
Score = 177 bits (448), Expect = 9e-45, Method: Compositional matrix adjust.
Identities = 93/271 (34%), Positives = 155/271 (57%), Gaps = 19/271 (7%)
Query: 14 IREVWARNVQEEFVHIRSLINTYNYIGIDTEFPGVVAKPLGDFRSTSEYQYHFLKINVDL 73
+R+VW N+ EF IR L++ YN++ I TEF G +A+P+G FRS +Y Y ++ NVD
Sbjct: 13 VRDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGTFRSKVDYHYQTMRANVDF 72
Query: 74 LKIIQIGLTFFDSKSCTPPGPFTTWQFNFKFDLQEDMYAQDSIDLLQNSGIQFQRHKEEG 133
L IQ+GL+ D+ P +TWQFNF+FD ++++ + +S++LL+ SGI F++H+ G
Sbjct: 73 LNPIQLGLSLSDANGNKPDNGPSTWQFNFEFDPKKEIMSTESLELLRKSGINFEKHENLG 132
Query: 134 IEPADFAELLTTSGVVLNDKVKWLSFHSGYDFGYLLKLLMGTRSLPSEEAEFFELQRLFF 193
I+ +F++LL SG++++D V W+++H+ YD G+L+ +LM S+P+ + +F +
Sbjct: 133 IDVFEFSQLLMDSGLMMDDSVTWITYHAAYDLGFLINILMND-SMPNNKEDFEWWVHQYM 191
Query: 194 KSIYDVKYLMKSCKNLKG---------------GLQEVAEQLDLSRIGPQHQAGSDSLLT 238
+ YD+ + K + K L +A++L L R G SLL
Sbjct: 192 PNFYDLNLVYKIIQEFKNPQLQQSSQQQQQQQYSLTTLADELGLPRFSIFTTTGGQSLLM 251
Query: 239 GRVFFKMRELF---FEDAIDDDKYCGHIYGL 266
F ++ +L F + D KY G IYG+
Sbjct: 252 LLSFCQLSKLSMHKFPNGTDFAKYQGVIYGI 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 = 176 bits (447), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 93/271 (34%), Positives = 155/271 (57%), Gaps = 19/271 (7%)
Query: 14 IREVWARNVQEEFVHIRSLINTYNYIGIDTEFPGVVAKPLGDFRSTSEYQYHFLKINVDL 73
+R+VW N+ EF IR L++ YN++ I TEF G +A+P+G FRS +Y Y ++ NVD
Sbjct: 16 VRDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGTFRSKVDYHYQTMRANVDF 75
Query: 74 LKIIQIGLTFFDSKSCTPPGPFTTWQFNFKFDLQEDMYAQDSIDLLQNSGIQFQRHKEEG 133
L IQ+GL+ D+ P +TWQFNF+FD ++++ + +S++LL+ SGI F++H+ G
Sbjct: 76 LNPIQLGLSLSDANGNKPDNGPSTWQFNFEFDPKKEIMSTESLELLRKSGINFEKHENLG 135
Query: 134 IEPADFAELLTTSGVVLNDKVKWLSFHSGYDFGYLLKLLMGTRSLPSEEAEFFELQRLFF 193
I+ +F++LL SG++++D V W+++H+ YD G+L+ +LM S+P+ + +F +
Sbjct: 136 IDVFEFSQLLMDSGLMMDDSVTWITYHAAYDLGFLINILMND-SMPNNKEDFEWWVHQYM 194
Query: 194 KSIYDVKYLMKSCKNLKG---------------GLQEVAEQLDLSRIGPQHQAGSDSLLT 238
+ YD+ + K + K L +A++L L R G SLL
Sbjct: 195 PNFYDLNLVYKIIQEFKNPQLQQSSQQQQQQQYSLTTLADELGLPRFSIFTTTGGQSLLM 254
Query: 239 GRVFFKMRELF---FEDAIDDDKYCGHIYGL 266
F ++ +L F + D KY G IYG+
Sbjct: 255 LLSFCQLSKLSMHKFPNGTDFAKYQGVIYGI 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 = 176 bits (447), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 93/271 (34%), Positives = 155/271 (57%), Gaps = 19/271 (7%)
Query: 14 IREVWARNVQEEFVHIRSLINTYNYIGIDTEFPGVVAKPLGDFRSTSEYQYHFLKINVDL 73
+R+VW N+ EF IR L++ YN++ I TEF G +A+P+G FRS +Y Y ++ NVD
Sbjct: 15 VRDVWKSNLYSEFAVIRQLVSQYNHVSISTEFVGTLARPIGTFRSKVDYHYQTMRANVDF 74
Query: 74 LKIIQIGLTFFDSKSCTPPGPFTTWQFNFKFDLQEDMYAQDSIDLLQNSGIQFQRHKEEG 133
L IQ+GL+ D+ P +TWQFNF+FD ++++ + +S++LL+ SGI F++H+ G
Sbjct: 75 LNPIQLGLSLSDANGNKPDNGPSTWQFNFEFDPKKEIMSTESLELLRKSGINFEKHENLG 134
Query: 134 IEPADFAELLTTSGVVLNDKVKWLSFHSGYDFGYLLKLLMGTRSLPSEEAEFFELQRLFF 193
I+ +F++LL SG++++D V W+++H+ YD G+L+ +LM S+P+ + +F +
Sbjct: 135 IDVFEFSQLLMDSGLMMDDSVTWITYHAAYDLGFLINILMND-SMPNNKEDFEWWVHQYM 193
Query: 194 KSIYDVKYLMKSCKNLKG---------------GLQEVAEQLDLSRIGPQHQAGSDSLLT 238
+ YD+ + K + K L +A++L L R G SLL
Sbjct: 194 PNFYDLNLVYKIIQEFKNPQLQQSSQQQQQQQYSLTTLADELGLPRFSIFTTTGGQSLLM 253
Query: 239 GRVFFKMRELF---FEDAIDDDKYCGHIYGL 266
F ++ +L F + D KY G IYG+
Sbjct: 254 LLSFCQLSKLSMHKFPNGTDFAKYQGVIYGI 284
>pdb|3F70|A Chain A, Crystal Structure Of L3mbtl2-H4k20me1 Complex
pdb|3F70|B Chain B, Crystal Structure Of L3mbtl2-H4k20me1 Complex
Length = 456
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 50/109 (45%), Gaps = 24/109 (22%)
Query: 166 GYLLKLLMGTRSLPSEEAEFFELQRLFFKSIYDVKYLMKSCKNLKGGLQEVAEQLDLSRI 225
GYL+K L+G+R+LP + K + +KY + L E +D S++
Sbjct: 126 GYLMKRLVGSRTLPVD---------FHIKMVESMKYPFRQGMRL--------EVVDKSQV 168
Query: 226 GPQHQAGSDSLLTGRVFFKMRELFFEDAIDDDKYCGHIYG--LGPAGWN 272
A D+++ GR+ L +ED DD + H++ + P GW+
Sbjct: 169 SRTRMAVVDTVIGGRL-----RLLYEDGDSDDDFWCHMWSPLIHPVGWS 212
>pdb|3CEY|A Chain A, Crystal Structure Of L3mbtl2
pdb|3CEY|B Chain B, Crystal Structure Of L3mbtl2
Length = 474
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 50/109 (45%), Gaps = 24/109 (22%)
Query: 166 GYLLKLLMGTRSLPSEEAEFFELQRLFFKSIYDVKYLMKSCKNLKGGLQEVAEQLDLSRI 225
GYL+K L+G+R+LP + K + +KY + L E +D S++
Sbjct: 144 GYLMKRLVGSRTLPVD---------FHIKMVESMKYPFRQGMRL--------EVVDKSQV 186
Query: 226 GPQHQAGSDSLLTGRVFFKMRELFFEDAIDDDKYCGHIYG--LGPAGWN 272
A D+++ GR+ L +ED DD + H++ + P GW+
Sbjct: 187 SRTRMAVVDTVIGGRL-----RLLYEDGDSDDDFWCHMWSPLIHPVGWS 230
>pdb|4HNO|A Chain A, High Resolution Crystal Structure Of Dna
Apurinic/apyrimidinic (ap) Endonuclease Iv Nfo From
Thermatoga Maritima
Length = 288
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 24/47 (51%)
Query: 162 GYDFGYLLKLLMGTRSLPSEEAEFFELQRLFFKSIYDVKYLMKSCKN 208
G+D GY + G +L +E F L+RL + D KY + + K+
Sbjct: 185 GFDSGYDITKKEGVEALLNEIESLFGLERLKMIHLNDSKYPLGAAKD 231
>pdb|2X7V|A Chain A, Crystal Structure Of Thermotoga Maritima Endonuclease Iv
In The Presence Of Zinc
pdb|2X7W|A Chain A, Crystal Structure Of Thermotoga Maritima Endonuclease Iv
In The Presence Of Cadmium And Zinc
Length = 287
Score = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 24/47 (51%)
Query: 162 GYDFGYLLKLLMGTRSLPSEEAEFFELQRLFFKSIYDVKYLMKSCKN 208
G+D GY + G +L +E F L+RL + D KY + + K+
Sbjct: 182 GFDSGYDITKKEGVEALLNEIESLFGLERLKMIHLNDSKYPLGAAKD 228
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
0.320 0.139 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,128,938
Number of Sequences: 62578
Number of extensions: 387624
Number of successful extensions: 661
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 640
Number of HSP's gapped (non-prelim): 16
length of query: 286
length of database: 14,973,337
effective HSP length: 98
effective length of query: 188
effective length of database: 8,840,693
effective search space: 1662050284
effective search space used: 1662050284
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)