RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6276
(271 letters)
>2nn6_I 3'-5' exoribonuclease CSL4 homolog; RNA, exosome, PM/SCL,
phosphorolytic, hydrolase/transferase complex; 3.35A
{Homo sapiens} SCOP: b.40.4.5 b.84.4.2
Length = 209
Score = 144 bits (365), Expect = 6e-43
Identities = 65/164 (39%), Positives = 103/164 (62%), Gaps = 7/164 (4%)
Query: 1 MSNPP-ICIPGQRICQLDSDIVGGRGTYVRQGYLYSTLAGTVSINKHVEDNKEVSVIEVS 59
M+ P CIPG+R+C + G GTY R GY++S+LAG + + +N + V+ V
Sbjct: 15 MAPPVRYCIPGERLCN-LEEGSPGSGTYTRHGYIFSSLAGCLMKS---SENGALPVVSVV 70
Query: 60 SYKKEVIVPTPGDVVTARIMAVQQHLCKAHVISVGNTALSRTFRALLRRENVRATEIDRI 119
+ ++P G +VT ++ ++ K H++ VG+ L +FR +R+E+VRATE D++
Sbjct: 71 RETESQLLPDVGAIVTCKVSSINSRFAKVHILYVGSMPLKNSFRGTIRKEDVRATEKDKV 130
Query: 120 EMYKCYRPGDIILARL--PLKELHSYQLSTAENELGVVIALSEA 161
E+YK +RPGDI+LA++ +Y L+TAENELGVV+A SE+
Sbjct: 131 EIYKSFRPGDIVLAKVISLGDAQSNYLLTTAENELGVVVAHSES 174
>3m7n_A Putative uncharacterized protein AF_0206; exosome, RNA,
exonuclease, hydrolase, nuclease, hydrolase-RN; 2.40A
{Archaeoglobus fulgidus} PDB: 2ba1_A 3m85_A
Length = 179
Score = 102 bits (255), Expect = 5e-27
Identities = 40/158 (25%), Positives = 65/158 (41%), Gaps = 17/158 (10%)
Query: 6 ICIPGQRICQLDSDIVGGRGTYVRQGYLYSTLAGTVSINKHVEDNKEVSVIEVSSYKKEV 65
+PG RI + V G G Y G L++ +AG + I ++ V + +
Sbjct: 3 FVMPGDRIGS-AEEYVKGEGVYEEGGELFAAVAGKLII-----KDRVAKVESI----SPI 52
Query: 66 IVPTPGDVVTARIMAVQQHLCKAHVISV--GNTALSRTFRALLRRENVRATEIDRIEMYK 123
GDVV R++ ++ + V S N S +L NV + E+ +
Sbjct: 53 PEIVKGDVVLGRVVDLRNSIALIEVSSKKGENRGPSNRGIGILHVSNVDEGYVK--EISE 110
Query: 124 CYRPGDIILARLPLKELHSYQLSTAENELGVVIALSEA 161
DI+ AR+ + +LST E E+GV+ AL
Sbjct: 111 AVGYLDILKARV---IGDNLRLSTKEEEMGVLRALCSN 145
>2nn6_H Exosome complex exonuclease RRP4; RNA, exosome, PM/SCL,
phosphorolytic, hydrolase/transferase complex; 3.35A
{Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Length = 308
Score = 97.9 bits (243), Expect = 3e-24
Identities = 39/155 (25%), Positives = 65/155 (41%), Gaps = 11/155 (7%)
Query: 2 SNPPICIPGQRICQLDSDIVGGRGTYVRQGYLYSTLAGTVSINKHVEDNKEVSVIEVSSY 61
+ + +PG I D+ + G GTY+ + L +++AG+V NK + V +
Sbjct: 37 TKKHLVVPGDTITT-DTGFMRGHGTYMGEEKLIASVAGSVER-----VNKLICVKAL--- 87
Query: 62 KKEVIVPTPGDVVTARIMAVQQHLCKAHVISVGNTALSRTFRALLRRENVRATEIDRIEM 121
K + GD+V RI VQQ K S ++ L + L E R + D + M
Sbjct: 88 -KTRYIGEVGDIVVGRITEVQQKRWKVETNSRLDSVLLLSSMNLPGGELRRRSAEDELAM 146
Query: 122 YKCYRPGDIILAR-LPLKELHSYQLSTAENELGVV 155
+ GD+I A + + L T + G +
Sbjct: 147 RGFLQEGDLISAEVQAVFSDGAVSLHTRSLKYGKL 181
>2je6_I RRP4, exosome complex RNA-binding protein 1; nuclease, hydrolase,
exonuclease, phosphorolytic, exoribonuclease, RNA
degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus}
SCOP: b.40.4.5 b.84.4.2 d.51.1.1 PDB: 2jea_I* 2jeb_I*
3l7z_C
Length = 251
Score = 79.4 bits (195), Expect = 8e-18
Identities = 23/154 (14%), Positives = 50/154 (32%), Gaps = 16/154 (10%)
Query: 1 MSNPPICIPGQRICQLDSDIVGGRGTYVRQGYLYSTLAGTVSINKHVEDNKEVSVIEVSS 60
+ I +PG+ + + + I YST+ G + + + VI +
Sbjct: 13 LQPRSIVVPGELLAEGEFQIPWSPYILKINSKYYSTVVGLFDV-----KDTQFEVIPL-- 65
Query: 61 YKKEVIVPTPGDVVTARIMAVQQHLCKAHVISVGNTALSRTFRALLRRENVRATEIDRIE 120
+ P D+V + V+ + + + L + + + +
Sbjct: 66 -EGSFYYPKINDIVIGLVEDVEIYGWVVDIKAPYKAYLPAS-------NLLGRSINVGED 117
Query: 121 MYKCYRPGDIILAR-LPLKELHSYQLSTAENELG 153
+ + GD ++AR LS +LG
Sbjct: 118 LRRYLDVGDYVIARIENFDRSIDPVLSVKGKDLG 151
>2z0s_A Probable exosome complex RNA-binding protein 1; alpha/beta protein,
cytoplasm, structural genomics, NPPSFA; 3.20A {Aeropyrum
pernix} SCOP: b.40.4.5 d.51.1.1
Length = 235
Score = 73.2 bits (179), Expect = 1e-15
Identities = 28/152 (18%), Positives = 53/152 (34%), Gaps = 20/152 (13%)
Query: 6 ICIPGQRICQLDSDIVGGRGTYVRQGYLYSTLAGTVSINKHVEDNKEVSVIEVSSYKKEV 65
I +PG+ + + +G +T+ G + D + +++ +
Sbjct: 11 IVVPGEPLP--EEVEASPPYVIDYKGVKRATVVGLLREKG---DGGGRAFVKLKE----I 61
Query: 66 IVPTPGDVVTARIMAVQQHLCKAHVISVGNTALSRTFRALLRRENV--RATEIDRIEMYK 123
VP GDVV I +V + S + A+L ++ R +M
Sbjct: 62 YVPQAGDVVIGLIQSVGIMNWFVDINSP--------YVAVLSVQDFLGRPFNPAVDDMQS 113
Query: 124 CYRPGDIILAR-LPLKELHSYQLSTAENELGV 154
+ GD I A+ + + S L+ LG
Sbjct: 114 LLKVGDYIKAKVVAFDKTRSPLLTVQGEGLGR 145
>2ba0_A Archeal exosome RNA binding protein RRP4; RNAse PH, RNA
degradation, exoribonuclease, S1domain, KH domain,
archaeal; 2.70A {Archaeoglobus fulgidus} SCOP: b.40.4.5
b.84.4.2 d.51.1.1
Length = 229
Score = 70.5 bits (172), Expect = 1e-14
Identities = 31/151 (20%), Positives = 53/151 (35%), Gaps = 21/151 (13%)
Query: 6 ICIPGQRICQLDSDIVGGRGTYVRQGYLYSTLAGTVSINKHVEDNKEVSVIEVSSYKKEV 65
I +PG + + G GTYV G +Y+ + G V VI K
Sbjct: 4 IVLPGDLLS--TNPRAAGYGTYVEGGKVYAKIIGLFDQ-----TETHVRVI----PLKGR 52
Query: 66 IVPTPGDVVTARIMAVQQHLCKAHVISVGNTALSRTFRALLRRENVRATEIDRIEMYKCY 125
P+ GDVV I V + + S ++A L + ++ + +
Sbjct: 53 YTPSVGDVVIGIIREVAANGWAVDIYSP--------YQAFLPVSENPEMKPNK-KPNEVL 103
Query: 126 RPGDIILAR-LPLKELHSYQLSTAENELGVV 155
GD I+A+ L + L+ + +
Sbjct: 104 DIGDAIIAKVLNIDPKMKVTLTMKDRICRPI 134
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 60.3 bits (145), Expect = 2e-10
Identities = 50/265 (18%), Positives = 90/265 (33%), Gaps = 70/265 (26%)
Query: 45 KHVEDNKEVSVIEVS-----------SYK------KEVIVPTP------GDVVTARIMAV 81
KHV +K ++IE S + +PT DV+ + +M V
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVV 407
Query: 82 QQHLCKAHVISVGNTALSRT-----FRALLRRENVRATE---IDRIEMYKCYRPGDIILA 133
L K ++ + + ++ EN A +D + K + D+
Sbjct: 408 VNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDL--- 464
Query: 134 RLPLKE-----LH-SYQLSTAENELGVVIALSEAASLFRSSEKLTNDIEFLKQEKLKLYE 187
+P H + L E+ E +LFR + D FL+Q K+
Sbjct: 465 -IPPYLDQYFYSHIGHHLKNIEH--------PERMTLFR---MVFLDFRFLEQ---KIRH 509
Query: 188 ELSSSQKENEILRQTTGDLEVRLMQMNEVKGEMEFKIKELNK------KNQSESKLSDTI 241
+ ++ IL T L+ + + + E + + +N SK +D +
Sbjct: 510 DSTAWNASGSIL-NTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL 568
Query: 242 RELNEENIGLKQKVE--LQEAENQL 264
R I L + E +EA Q+
Sbjct: 569 R------IALMAEDEAIFEEAHKQV 587
Score = 45.2 bits (106), Expect = 2e-05
Identities = 43/309 (13%), Positives = 89/309 (28%), Gaps = 98/309 (31%)
Query: 35 STLAGTVSINKHVEDNKEVSV--IEVSSYKKEVIVPTPGDVVTARIMAVQQHLCKA---- 88
+ +A V ++ V+ + + + + + +P ++ + Q L
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCN------SPET-----VLEMLQKLLYQIDPN 212
Query: 89 ------------HVISVGNTALSRTF------RALLRRENVRATEIDRIEMY--KCY--- 125
I L R LL NV+ + + C
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA--WNAFNLSCKILL 270
Query: 126 --RPGDIILARLPLKELH------SYQLSTAENE------LGVVI-------------AL 158
R + H S L+ E + L L
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRL 330
Query: 159 SEAASLFR------------SSEKLTNDIE-FLKQ----EKLKLYEELSSSQKENEILRQ 201
S A R + +KLT IE L E K+++ LS +
Sbjct: 331 SIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS-------VFPP 383
Query: 202 TTGDLEVRLMQM---NEVKGEMEFKIKELNKKNQSESKLSDTIRELNEENIGLKQKVE-L 257
+ + L+ + + +K ++ + +L+K + E + ++ + + LK K+E
Sbjct: 384 SA-HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENE 442
Query: 258 QEAENQLIQ 266
++
Sbjct: 443 YALHRSIVD 451
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 52.7 bits (126), Expect = 6e-08
Identities = 46/278 (16%), Positives = 88/278 (31%), Gaps = 107/278 (38%)
Query: 10 GQRICQLDSDIV------------GGRGTYVRQGY---LYSTLA-GTVSINKHVEDNKEV 53
G I DIV G +G +R+ Y ++ T+ G + K ++ E
Sbjct: 1658 GFSI----LDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEH 1713
Query: 54 S-----------------------VIEVSSY---KKEVIVPTPGDVV--------TARIM 79
S ++E +++ K + ++P A
Sbjct: 1714 STSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIP-ADATFAGHSLGEYAA--- 1769
Query: 80 AVQQHL-CKAHVISVGNTA-LSRTFRALLRRENVRATEIDRIE--MYKCYRPGDIILARL 135
L A V+S+ + + +R + + V E+ R M PG + A
Sbjct: 1770 -----LASLADVMSIESLVEVVF-YRGMTMQVAVPRDELGRSNYGMIAI-NPGRVA-ASF 1821
Query: 136 PLKELHSY--QLSTAENEL---------G--VVIALSEAASLFRSSEKLTNDIEFLKQEK 182
+ L ++ L V A + +L + +TN + F+K +K
Sbjct: 1822 SQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA-GDLRAL----DTVTNVLNFIKLQK 1876
Query: 183 LKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKGEM 220
+ + EL S + + EV+G +
Sbjct: 1877 IDI-IELQKS------------------LSLEEVEGHL 1895
Score = 38.5 bits (89), Expect = 0.002
Identities = 33/222 (14%), Positives = 63/222 (28%), Gaps = 66/222 (29%)
Query: 4 PPICIPGQRICQLDSDIVGGRG--TY---VRQGYLYSTLAGTVS-INKHVEDNKEVSVIE 57
P +P L+ + G + + + V+ N H+ K+V +
Sbjct: 315 PNTSLPPS---ILEDSLENNEGVPSPMLSIS-NLTQEQVQDYVNKTNSHLPAGKQVEI-- 368
Query: 58 VSSYKKEVIVPTPGDVVTARIMAVQQHLCKAHVISVGNT-ALSRTFRALLRRENVRA-TE 115
+V K V+S G +L LR+ + +
Sbjct: 369 -------SLVNGA----------------KNLVVS-GPPQSL-YGLNLTLRKAKAPSGLD 403
Query: 116 IDRIEMYKCYRPGDIILARLPLKE-LHS-YQLSTAENELGVVIALSEAASLFRSSEKLTN 173
RI + R LP+ HS L A+ L + L
Sbjct: 404 QSRIPFSE--RKLKFSNRFLPVASPFHSHL--------------LVPASDLIN--KDLVK 445
Query: 174 DIEFLKQEKLKL--YEELSSSQKENEILRQTTGDLEVRLMQM 213
+ + +++ Y + LR +G + R++
Sbjct: 446 NNVSFNAKDIQIPVY-----DTFDGSDLRVLSGSISERIVDC 482
Score = 33.9 bits (77), Expect = 0.060
Identities = 27/125 (21%), Positives = 43/125 (34%), Gaps = 33/125 (26%)
Query: 30 QGYLYS----TLAGTVSINKHVEDNKEVSVIEVSSYKKEVIV---PTPGDVVTARIMAVQ 82
YL LA + K +I+ +Y I+ P +A AV
Sbjct: 93 NCYLEGNDIHALAAKLLQENDTTLVKTKELIK--NYITARIMAKRPFDKKSNSALFRAVG 150
Query: 83 QHLCKAHVISV----GNTALSRTFRALLRRENVRATEIDRIEMYKCYRP--GDII-LARL 135
+ A ++++ GNT F L R ++Y+ Y GD+I +
Sbjct: 151 EG--NAQLVAIFGGQGNT--DDYFEEL------------R-DLYQTYHVLVGDLIKFSAE 193
Query: 136 PLKEL 140
L EL
Sbjct: 194 TLSEL 198
Score = 30.8 bits (69), Expect = 0.64
Identities = 19/102 (18%), Positives = 34/102 (33%), Gaps = 18/102 (17%)
Query: 126 RPGDIILARLPLKELHSYQLSTAENELGVVIALSE--AASLFRSSEKLTNDIEFLKQEKL 183
RP + L+ L+ H + T + L E L +E D E +L
Sbjct: 7 RP--LTLSHGSLE--HVLLVPT--ASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAEL 60
Query: 184 ---------KLYEELSSSQKENEILRQTTGDLEVRLMQMNEV 216
L E Q + ++L + E ++ N++
Sbjct: 61 VGKFLGYVSSLVEPSKVGQFD-QVLNLCLTEFENCYLEGNDI 101
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 47.0 bits (112), Expect = 4e-06
Identities = 19/111 (17%), Positives = 41/111 (36%), Gaps = 3/111 (2%)
Query: 160 EAASLFRSSEKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKGE 219
E SL L ++ E L S++E + L+ + ++ + +
Sbjct: 943 EYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQ 1002
Query: 220 MEFKIKELNKKNQS-ESKLSDTIRELNEENIGLKQKVELQEAENQLIQTTK 269
+ + K + + + + + EL E+N LK + E E ++ K
Sbjct: 1003 TQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKE--ELNRRIHDQAK 1051
>2nn6_G Exosome complex exonuclease RRP40; RNA, exosome, PM/SCL,
phosphorolytic, hydrolase/transferase complex; 3.35A
{Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Length = 289
Score = 41.4 bits (96), Expect = 2e-04
Identities = 22/122 (18%), Positives = 32/122 (26%), Gaps = 19/122 (15%)
Query: 17 DSDIVGGRGTYVRQGYLYSTLAGTVSINKHVED--NKEVSVIEVSS-YKKEVIVPTPGDV 73
+V G G L T G + + V Y VP GD
Sbjct: 76 RVRVVCGPGLRRCGDRLLVTKCGRLRHKEPGSGSGGGVYWVDSQQKRY-----VPVKGDH 130
Query: 74 VTARIMAVQQHLCKAHVISVGNTALSRTFRALLRRENVRATEIDRIEMYKCYRPGDIILA 133
V + A + VG + A L + R + GD+I
Sbjct: 131 VIGIVTAKSG---DIFKVDVGG-----SEPASLSYLSFEGA-TKR--NRPNVQVGDLIYG 179
Query: 134 RL 135
+
Sbjct: 180 QF 181
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin
subfragment 2, heavy meromyosin, essential light chain,
motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP:
i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 37.5 bits (87), Expect = 0.005
Identities = 23/103 (22%), Positives = 52/103 (50%), Gaps = 3/103 (2%)
Query: 169 EKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKGEMEFKIKELN 228
++L L +EK L E+L + + + L + ++ E+ EME +I+E
Sbjct: 881 KELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEE 940
Query: 229 KKNQSESKLSDTIRELNEENIGLKQKVELQEAENQLIQTTKNE 271
+++Q +L +++ ++ + L++++E +EA Q +Q K
Sbjct: 941 ERSQ---QLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVT 980
Score = 36.0 bits (83), Expect = 0.012
Identities = 21/124 (16%), Positives = 42/124 (33%), Gaps = 11/124 (8%)
Query: 159 SEAASLFRSSEKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKG 218
+ + + + L +E+ L E +S + +L + +
Sbjct: 983 GKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMIS 1042
Query: 219 EMEFKIKELNKKNQSESK-----------LSDTIRELNEENIGLKQKVELQEAENQLIQT 267
E+E ++K+ K Q K L + I EL + LK ++ +E E Q
Sbjct: 1043 ELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALA 1102
Query: 268 TKNE 271
+
Sbjct: 1103 RLED 1106
Score = 35.2 bits (81), Expect = 0.022
Identities = 23/100 (23%), Positives = 44/100 (44%), Gaps = 4/100 (4%)
Query: 166 RSSEKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKGEMEFKIK 225
+ +KL + + K+ +++ + +N L + LE R+ + E E K K
Sbjct: 969 AARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAK 1028
Query: 226 ELNKKNQS-ESKLSDTIRELNEENIGLKQKVELQEAENQL 264
L K ES +S+ L +E K + EL++ + +L
Sbjct: 1029 NLTKLKNKHESMISELEVRLKKEE---KSRQELEKIKRKL 1065
Score = 34.8 bits (80), Expect = 0.027
Identities = 18/113 (15%), Positives = 41/113 (36%), Gaps = 2/113 (1%)
Query: 160 EAASLFRSSEKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKGE 219
+ L +K+ + L+++ + Q E +E ++ M + +
Sbjct: 942 RSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNK 1001
Query: 220 MEFKIKELNKKNQSESKLSDTIRELNEENIGLKQKVE--LQEAENQLIQTTKN 270
+ + K L ++ + E + LK K E + E E +L + K+
Sbjct: 1002 LTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKS 1054
Score = 32.9 bits (75), Expect = 0.12
Identities = 18/114 (15%), Positives = 37/114 (32%), Gaps = 21/114 (18%)
Query: 169 EKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKGEMEFKIKELN 228
L I L+ + +L +L+ ++E + D + + E+E I +L
Sbjct: 1070 SDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQ 1129
Query: 229 KKNQSE-----------SKLSDTIRELNEE----------NIGLKQKVELQEAE 261
+ +SE LS+ + L E L+ + +
Sbjct: 1130 EDLESEKAARNKAEKQKRDLSEELEALKTELEDTLDTTATQQELRGSDYKDDDD 1183
Score = 26.7 bits (59), Expect = 9.8
Identities = 12/110 (10%), Positives = 37/110 (33%)
Query: 138 KELHSYQLSTAENELGVVIALSEAASLFRSSEKLTNDIEFLKQEKLKLYEELSSSQKENE 197
E AE + + ++ A + +E +K +++ +
Sbjct: 1067 GESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHIS 1126
Query: 198 ILRQTTGDLEVRLMQMNEVKGEMEFKIKELNKKNQSESKLSDTIRELNEE 247
L++ + + + K ++ +++ L + + + T +EL
Sbjct: 1127 DLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTLDTTATQQELRGS 1176
>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil
(dimeric, parallel), familial hypertrophic
cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo
sapiens} SCOP: h.1.26.1 PDB: 2fxm_A
Length = 129
Score = 34.5 bits (79), Expect = 0.011
Identities = 31/123 (25%), Positives = 60/123 (48%), Gaps = 4/123 (3%)
Query: 145 LSTAENELGVVIALSEAASLFRSSEKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTG 204
L +AE E + E L + EK + L+++ + L +E + Q + + +
Sbjct: 6 LKSAEREKEMASMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQVQAEQDNLA 65
Query: 205 DLEVRLMQMNEVKGEMEFKIKELNKKNQSE----SKLSDTIRELNEENIGLKQKVELQEA 260
D E R Q+ + K ++E K+KE+NK+ + E ++L+ R+L +E LK+ ++ E
Sbjct: 66 DAEERCDQLIKNKIQLEAKVKEMNKRLEDEEEMNAELTAKKRKLEDECSELKRDIDDLEL 125
Query: 261 ENQ 263
Sbjct: 126 TLA 128
>2ycu_A Non muscle myosin 2C, alpha-actinin; motor protein; HET: AOV; 2.25A
{Homo sapiens} PDB: 1br1_A* 1br4_A* 1br2_A*
Length = 995
Score = 34.6 bits (80), Expect = 0.035
Identities = 14/117 (11%), Positives = 38/117 (32%), Gaps = 9/117 (7%)
Query: 159 SEAASLFRSSEKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKG 218
+ A L + ++ +E K +Y + + ++ +LE + ++G
Sbjct: 874 KKIAVLLQKYNRILKKLENWATTK-SVYLGSNETGDSITAVQAKLKNLEAFDGECQSLEG 932
Query: 219 EMEFKIKELNKKNQSESKLSDTIRELNEENIGLKQK------VELQEAENQLIQTTK 269
+ + + Q + + EL E + + +N L+ +
Sbjct: 933 QSNSDLLSILA--QLTELNYNGVPELTERKDTFFAQQWTGVKSSAETYKNTLLAELE 987
>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 427
Score = 32.8 bits (74), Expect = 0.11
Identities = 22/108 (20%), Positives = 45/108 (41%), Gaps = 7/108 (6%)
Query: 166 RSSEKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKGEMEFKIK 225
L E + E L ++ KE E+ + ++ + ++ E + E+ K
Sbjct: 315 SKPFSLQETYEAKRNEFLGELQK-----KEEEMRQMFVQRVKEKEAELKEAEKELHEKFD 369
Query: 226 ELNKKNQSE-SKLSDTIRELNEENIGL-KQKVELQEAENQLIQTTKNE 271
L K +Q E KL D + L++E ++K + ++Q Q ++
Sbjct: 370 RLKKLHQDEKKKLEDKKKSLDDEVNAFKQRKTAAELLQSQGSQAGGSQ 417
>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome
segregation, cell adhesion, kleisin, MIT cell cycle;
HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP:
c.37.1.12
Length = 430
Score = 32.7 bits (75), Expect = 0.11
Identities = 16/102 (15%), Positives = 36/102 (35%), Gaps = 10/102 (9%)
Query: 156 IALSEAASLFRSSEKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMN- 214
+ LS S + + E LK++ KL + + S K + + +++
Sbjct: 163 VELSRMFEEVSGSIQYKKEYEELKEKIEKLSKSATESIKNRRRIHGELKTYKSPGLEVLF 222
Query: 215 ---------EVKGEMEFKIKELNKKNQSESKLSDTIRELNEE 247
E +G E E + E K+ + ++ ++
Sbjct: 223 QGPRGSRYDEAEGRFEVINNETEQLKAEEKKILNQFLKIKKK 264
>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein,
nuclear protein, neurogenesis, cytosk LIS1 binding,
differentiation; 2.24A {Rattus norvegicus}
Length = 189
Score = 31.2 bits (70), Expect = 0.25
Identities = 19/103 (18%), Positives = 39/103 (37%)
Query: 157 ALSEAASLFRSSEKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEV 216
+ + + L + E L + +L + ++ + D E RL Q E
Sbjct: 86 SYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKRATIMSLEDFEQRLNQAIER 145
Query: 217 KGEMEFKIKELNKKNQSESKLSDTIRELNEENIGLKQKVELQE 259
+E ++ E S +L D R+L +E +++ E+
Sbjct: 146 NAFLESELDEKESLLVSVQRLKDEARDLRQELAVRERQQEVTR 188
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.9 bits (69), Expect = 0.27
Identities = 14/79 (17%), Positives = 34/79 (43%), Gaps = 7/79 (8%)
Query: 193 QKENEILRQTTGDLEVRLMQMNEVKGEMEFKIKELNKKNQSESKLSDTIRELNEENIGLK 252
+E E +R+ + RL +++ ME + +E +++ L + + +E+ K
Sbjct: 81 TQEPESIRKWREEQRKRLQELDAASKVMEQEWRE-----KAKKDLEEWNQRQSEQVE--K 133
Query: 253 QKVELQEAENQLIQTTKNE 271
K+ + A+ Q +
Sbjct: 134 NKINNRIADKAFYQQPDAD 152
>2qag_C Septin-7; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 418
Score = 30.9 bits (69), Expect = 0.45
Identities = 14/113 (12%), Positives = 50/113 (44%), Gaps = 2/113 (1%)
Query: 160 EAASLFRSSEKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKGE 219
++ +LT +E+ + + + E E+ + ++ ++ ++ + + E
Sbjct: 301 NGVDNNKNKGQLTKSPLAQMEEERREHVA-KMKKMEMEMEQVFEMKVKEKVQKLKDSEAE 359
Query: 220 MEFKIKELNKKNQSE-SKLSDTIRELNEENIGLKQKVELQEAENQLIQTTKNE 271
++ + +++ K +++ +L + R+ +E + + + E +N KN+
Sbjct: 360 LQRRHEQMKKNLEAQHKELEEKRRQFEDEKANWEAQQRILEQQNSSRTLEKNK 412
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.5 bits (65), Expect = 0.60
Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 3/23 (13%)
Query: 169 EKLTNDIEFLKQEKLKLYEELSS 191
EK ++ L Q LKLY + S+
Sbjct: 18 EK--QALKKL-QASLKLYADDSA 37
>2cly_A ATP synthase B chain, mitochondrial; mitochondrion, ION transport,
CF(0), stator, transport, acetylation, hydrogen ION
transport; 2.8A {Bos taurus} SCOP: f.52.1.1 PDB: 2wss_T*
Length = 214
Score = 30.1 bits (67), Expect = 0.60
Identities = 19/112 (16%), Positives = 44/112 (39%), Gaps = 6/112 (5%)
Query: 162 ASLFRSSEKLTNDIEFLKQEK--LKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKGE 219
S +++ + I+ K ++ ++ L Q+ N + E EVK
Sbjct: 95 EVKQASIKQIQDAIDMEKSQQALVQKRHYLFDVQRNNIAMALEVTYRERLHRVYREVKNR 154
Query: 220 MEFKIKELNKKNQSESK-LSDTIRELNEENIGLKQKVELQEAENQLIQTTKN 270
+++ I N Q E + + + + + ++I +Q+ +E + I K
Sbjct: 155 LDYHISVQNMMRQKEQEHMINWVEKRVVQSISAQQE---KETIAKCIADLKL 203
>1go4_E MAD1 (mitotic arrest deficient)-like 1; mitotic spindle checkpoint,
cell cycle, mitosis, nuclear Pro; 2.05A {Homo sapiens}
SCOP: h.1.22.1
Length = 100
Score = 28.5 bits (63), Expect = 0.84
Identities = 16/96 (16%), Positives = 34/96 (35%), Gaps = 4/96 (4%)
Query: 173 NDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKGEMEFKIKEL----N 228
F ++E L ++ + E L + LE +L + + + K L N
Sbjct: 5 QSFLFSREEADTLRLKVEELEGERSRLEEEKRMLEAQLERRALQGDYDQSRTKVLHMSLN 64
Query: 229 KKNQSESKLSDTIRELNEENIGLKQKVELQEAENQL 264
+ + +L + +L E L+ + E +
Sbjct: 65 PTSVARQRLREDHSQLQAECERLRGLLRAMERGGTV 100
>12as_A Asparagine synthetase; ligase, nitrogen fixation; HET: AMP; 2.20A
{Escherichia coli K12} SCOP: d.104.1.1 PDB: 11as_A*
Length = 330
Score = 29.3 bits (66), Expect = 1.5
Identities = 10/35 (28%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 168 SEKLTNDIEFLK-QEKLKLYEELSSSQKENEILRQ 201
+ L + I F+ QE L Y +L + +E I +
Sbjct: 158 APFLPDQIHFVHSQELLSRYPDLDAKGRERAIAKD 192
>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon,
coiled post-transcriptional, gene regulation, chaperone;
HET: EPE; 2.20A {Helicobacter pylori}
Length = 256
Score = 28.5 bits (63), Expect = 1.9
Identities = 23/105 (21%), Positives = 43/105 (40%), Gaps = 6/105 (5%)
Query: 169 EKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRL----MQMNEVKGEMEFK- 223
+K ND E + L L EE + + + QT D ++ +M+E+K E E +
Sbjct: 35 DKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEIKSERELRS 94
Query: 224 -IKELNKKNQSESKLSDTIRELNEENIGLKQKVELQEAENQLIQT 267
E + + ++ + I L E +K E + E ++
Sbjct: 95 LNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEK 139
Score = 27.4 bits (60), Expect = 5.3
Identities = 15/103 (14%), Positives = 37/103 (35%), Gaps = 1/103 (0%)
Query: 169 EKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKGEMEFKIKELN 228
L +I+ L+ + ++L + + E + +LE + + + E +++ N
Sbjct: 14 SHLDKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTN 73
Query: 229 KKNQSESKLSDTIRELNEENIGLKQKVELQEAENQLIQTTKNE 271
K S K I+ E L + ++ + +
Sbjct: 74 AKIASIQKKMSEIKS-ERELRSLNIEEDIAKERSNQANREIEN 115
>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP
hydrolysis, GDP, GMP, dynamin related, large GTPase
family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens}
SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A*
2bc9_A* 2d4h_A*
Length = 592
Score = 28.8 bits (63), Expect = 2.2
Identities = 26/135 (19%), Positives = 55/135 (40%), Gaps = 3/135 (2%)
Query: 137 LKELHSYQLSTAENELGVVIALSEAASLFRSSEKLTNDIEFLKQEKLKLYEELSSSQKEN 196
+++L + E + A + +S E +T+ I Q + +E+ + +
Sbjct: 437 VQKLQDLKKKYYEEPRKGIQAEEILQTYLKSKESMTDAILQTDQTLTEKEKEIEVERVKA 496
Query: 197 EILRQTTGDLEVRLMQMNEVKGEMEFKIKELNKKNQSESKLSDTIRELNEENIGLKQKVE 256
E + + L + ++ + E +E + K +E +D ++ L E+ L K
Sbjct: 497 ESAQASAKMLHEMQRKNEQMMEQKERSYQE-HLKQLTEKMENDRVQLLKEQERTLALK-- 553
Query: 257 LQEAENQLIQTTKNE 271
LQE E L + + E
Sbjct: 554 LQEQEQLLKEGFQKE 568
>2j5u_A MREC protein; bacterial cell shape determining protein MREC, cell
shape regulation; 2.5A {Listeria monocytogenes}
Length = 255
Score = 28.2 bits (63), Expect = 2.9
Identities = 7/32 (21%), Positives = 13/32 (40%)
Query: 240 TIRELNEENIGLKQKVELQEAENQLIQTTKNE 271
++ EN LK+++E + K E
Sbjct: 20 DLKNTYTENQHLKERLEELAQLESEVADLKKE 51
Score = 26.6 bits (59), Expect = 9.3
Identities = 7/34 (20%), Positives = 18/34 (52%)
Query: 186 YEELSSSQKENEILRQTTGDLEVRLMQMNEVKGE 219
+L ++ EN+ L++ +L ++ ++K E
Sbjct: 18 VVDLKNTYTENQHLKERLEELAQLESEVADLKKE 51
>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic
vesicle, protein transport, transport, vacuole; 2.80A
{Saccharomyces cerevisiae}
Length = 152
Score = 27.2 bits (59), Expect = 4.1
Identities = 14/71 (19%), Positives = 27/71 (38%), Gaps = 3/71 (4%)
Query: 193 QKENEILRQTTGDLEVRLMQMNEVKGEMEFKIKELNKKNQSESKLSDTIRELNEENIGLK 252
++ L T L+ L + ++ I NK + L+ + EN L+
Sbjct: 60 VSHDDALLNTLAILQKELKSKEQEIRRLKEVIALKNKNTER---LNAALISGTIENNVLQ 116
Query: 253 QKVELQEAENQ 263
QK+ + E+
Sbjct: 117 QKLSDLKKEHS 127
>2w83_C C-JUN-amino-terminal kinase-interacting protein 4; golgi apparatus,
protein transport, ER-golgi transport, ARF, GTPase,
effector, myristate; HET: GTP; 1.93A {Homo sapiens}
Length = 77
Score = 25.7 bits (56), Expect = 5.1
Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 188 ELSSSQKENEILRQTTGDLEVR----LMQMNEVKGEMEFKIKELNKKNQSESKLSDTIRE 243
E+ + EN L +T L + + +++E+ E + EL Q++ KL + RE
Sbjct: 10 EVENLILENTQLLETKNALNIVKNDLIAKVDELTCEKDVLQGELEAVKQAKLKLEEKNRE 69
Query: 244 LNEE 247
L EE
Sbjct: 70 LEEE 73
>3zyy_X Iron-sulfur cluster binding protein; iron-sulfur-binding protein,
ashka family, ATPase; 2.20A {Carboxydothermus
hydrogenoformans}
Length = 631
Score = 27.5 bits (60), Expect = 5.6
Identities = 11/48 (22%), Positives = 21/48 (43%), Gaps = 2/48 (4%)
Query: 72 DVVTARIMAVQQHLCKAHVISVGNTALSRTFRALLRRENVRATEIDRI 119
++ A + + + VGN++L +ALL R+ E+ I
Sbjct: 549 NIKDAITIGLLPDIDINKFSYVGNSSLKGARKALLSRKACA--EVKEI 594
>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle
protein; 2.50A {Gallus gallus}
Length = 101
Score = 26.0 bits (57), Expect = 5.6
Identities = 17/79 (21%), Positives = 34/79 (43%), Gaps = 3/79 (3%)
Query: 169 EKLTNDIEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKGEMEFKIKELN 228
E+ D + + +L EE QK+ L+ T ++E + E + ++E K+
Sbjct: 26 EQAEADKKQAEDRCKQLEEEQQGLQKK---LKGTEDEVEKYSESVKEAQEKLEQAEKKAT 82
Query: 229 KKNQSESKLSDTIRELNEE 247
+ L+ I+ + EE
Sbjct: 83 DAEAEVASLNRRIQLVEEE 101
>1yvc_A MRR5; structure, autostructure, autoassign, northeast structural
genomics, autoqf, PSI, protein structure initiative;
NMR {Methanococcus maripaludis} SCOP: b.40.4.12
Length = 70
Score = 24.9 bits (55), Expect = 9.7
Identities = 8/29 (27%), Positives = 14/29 (48%), Gaps = 2/29 (6%)
Query: 65 VIVP--TPGDVVTARIMAVQQHLCKAHVI 91
V VP G V+ ++ AV++ A +
Sbjct: 41 VFVPNAEKGSVINVKVTAVKEKFAFAERV 69
>1t2k_D Cyclic-AMP-dependent transcription factor ATF-2; protein DNA
complex, transcription/DNA complex; 3.00A {Homo sapiens}
SCOP: h.1.3.1
Length = 61
Score = 24.6 bits (54), Expect = 9.9
Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 5/47 (10%)
Query: 160 EAASLFRS-----SEKLTNDIEFLKQEKLKLYEELSSSQKENEILRQ 201
AAS R + L E L +L E++ + E L+Q
Sbjct: 11 AAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQ 57
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.313 0.130 0.347
Gapped
Lambda K H
0.267 0.0462 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,872,665
Number of extensions: 230493
Number of successful extensions: 642
Number of sequences better than 10.0: 1
Number of HSP's gapped: 597
Number of HSP's successfully gapped: 119
Length of query: 271
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 179
Effective length of database: 4,133,061
Effective search space: 739817919
Effective search space used: 739817919
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (26.0 bits)