RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17690
(545 letters)
>3qle_A TIM50P; chaperone, mitochondrion, preprotein translocation; HET:
1PE; 1.83A {Saccharomyces cerevisiae EC1118}
Length = 204
Score = 215 bits (549), Expect = 4e-67
Identities = 73/214 (34%), Positives = 102/214 (47%), Gaps = 11/214 (5%)
Query: 88 RIWKQMVTYNKMIVEPSREKLLPDPVPFPYYQPPYTLLLEFRDLLVHPEWTYNTGWRFKK 147
+ EP LLP P P P YQ P TL++ D LVH EW+ GWR K
Sbjct: 2 MSHASFNSMFTYFQEPPFPDLLPPPPP-PPYQRPLTLVITLEDFLVHSEWSQKHGWRTAK 60
Query: 148 RPFVDDFFETLNGSTTDRNNVPLFEVVIFTSESGLSIAPILEALDKENKYFYFKLFRDST 207
RP D F L+ +E+V+F+S + I E LD + + + LF++
Sbjct: 61 RPGADYFLGYLS---------QYYEIVLFSSNYMMYSDKIAEKLDPIHAFVSYNLFKEHC 111
Query: 208 EFVDGHHVKNLDLLNRDLKKVIAVDWNTHSLSKNRENALIIPRWNGNDDDRTLVDLAVFL 267
+ DG H+K+L LNRDL KVI +D + +S ENA+ + WNG DD LV L FL
Sbjct: 112 VYKDGVHIKDLSKLNRDLSKVIIIDTDPNSYKLQPENAIPMEPWNGEADD-KLVRLIPFL 170
Query: 268 RTIAVNGVDDVREVMLYYSQFDDPIEAFNQNQIK 301
+A DVR ++ + + E F+ K
Sbjct: 171 EYLATQQTKDVRPILNSFEDKKNLAEEFDHRVKK 204
Score = 95.9 bits (239), Expect = 6e-23
Identities = 34/84 (40%), Positives = 47/84 (55%), Gaps = 1/84 (1%)
Query: 342 PILEALDKENKYFYFKLFRDSTEFVDGHHVKNLDLLNRDLKKVIAVDWNTHSLSKNRENA 401
I E LD + + + LF++ + DG H+K+L LNRDL KVI +D + +S ENA
Sbjct: 90 KIAEKLDPIHAFVSYNLFKEHCVYKDGVHIKDLSKLNRDLSKVIIIDTDPNSYKLQPENA 149
Query: 402 LIIPRWNGNDDDRTLVDLAVFLRS 425
+ + WNG DD LV L FL
Sbjct: 150 IPMEPWNGEADD-KLVRLIPFLEY 172
Score = 92.4 bits (230), Expect = 1e-21
Identities = 32/92 (34%), Positives = 41/92 (44%), Gaps = 10/92 (10%)
Query: 452 RIWKQMVTYNKMIVEPSREKLLPDPVPFPYYQPPYTLLLEFRDLLVHPEWTYNTGWRFKK 511
+ EP LLP P P P YQ P TL++ D LVH EW+ GWR K
Sbjct: 2 MSHASFNSMFTYFQEPPFPDLLPPPPP-PPYQRPLTLVITLEDFLVHSEWSQKHGWRTAK 60
Query: 512 RPFVDDFFETLNGSTTDRNNVPLFEVVIFTSE 543
RP D F L+ +E+V+F+S
Sbjct: 61 RPGADYFLGYLS---------QYYEIVLFSSN 83
>2hhl_A CTD small phosphatase-like protein; CTD phosphatase, keggins anion,
structural genomics, PSI, protein structure initiative;
HET: KEG; 2.10A {Homo sapiens}
Length = 195
Score = 167 bits (425), Expect = 4e-49
Identities = 54/201 (26%), Positives = 87/201 (43%), Gaps = 29/201 (14%)
Query: 100 IVEPSREKLLPDPVPFPYYQPPYTLLLEFRDLLVHPEWTYNT---------------GWR 144
I P + LLP+ Y ++++ + LVH + +
Sbjct: 9 IPSPPAKYLLPEVTVLDY--GKKCVVIDLDETLVHSSFKPISNADFIVPVEIDGTIHQVY 66
Query: 145 FKKRPFVDDFFETLNGSTTDRNNVPLFEVVIFTSESGLSIAPILEALDKENKYFYFKLFR 204
KRP VD+F + + LFE V+FT+ P+ + LD+ F +LFR
Sbjct: 67 VLKRPHVDEFLQRMG---------QLFECVLFTASLAKYADPVADLLDR-WGVFRARLFR 116
Query: 205 DSTEFVDGHHVKNLDLLNRDLKKVIAVDWNTHSLSKNRENALIIPRWNGNDDDRTLVDLA 264
+S F G++VK+L L R+L KVI VD + S + ENA+ + W + D L+DL
Sbjct: 117 ESCVFHRGNYVKDLSRLGRELSKVIIVDNSPASYIFHPENAVPVQSWFDDMTDTELLDLI 176
Query: 265 VFLRTIAVNGVDDVREVMLYY 285
F ++ DD ++
Sbjct: 177 PFFEGLS--REDDEGHHHHHH 195
Score = 96.3 bits (240), Expect = 3e-23
Identities = 31/84 (36%), Positives = 46/84 (54%), Gaps = 1/84 (1%)
Query: 342 PILEALDKENKYFYFKLFRDSTEFVDGHHVKNLDLLNRDLKKVIAVDWNTHSLSKNRENA 401
P+ + LD+ F +LFR+S F G++VK+L L R+L KVI VD + S + ENA
Sbjct: 99 PVADLLDR-WGVFRARLFRESCVFHRGNYVKDLSRLGRELSKVIIVDNSPASYIFHPENA 157
Query: 402 LIIPRWNGNDDDRTLVDLAVFLRS 425
+ + W + D L+DL F
Sbjct: 158 VPVQSWFDDMTDTELLDLIPFFEG 181
Score = 63.6 bits (155), Expect = 7e-12
Identities = 21/95 (22%), Positives = 35/95 (36%), Gaps = 26/95 (27%)
Query: 464 IVEPSREKLLPDPVPFPYYQPPYTLLLEFRDLLVHPEWTYNT---------------GWR 508
I P + LLP+ Y ++++ + LVH + +
Sbjct: 9 IPSPPAKYLLPEVTVLDY--GKKCVVIDLDETLVHSSFKPISNADFIVPVEIDGTIHQVY 66
Query: 509 FKKRPFVDDFFETLNGSTTDRNNVPLFEVVIFTSE 543
KRP VD+F + + LFE V+FT+
Sbjct: 67 VLKRPHVDEFLQRMG---------QLFECVLFTAS 92
>2ght_A Carboxy-terminal domain RNA polymerase II polypeptide A small
phosphatase 1; protein-peptide complex, HAD superfamily,
hydrolase; HET: SEP; 1.80A {Homo sapiens} PDB: 2ghq_A*
3pgl_A* 1t9z_A* 1ta0_A* 3l0c_A 3l0y_A 3l0b_A* 2q5e_A
Length = 181
Score = 161 bits (410), Expect = 3e-47
Identities = 53/191 (27%), Positives = 83/191 (43%), Gaps = 29/191 (15%)
Query: 106 EKLLPDPVPFPYYQPPYTLLLEFRDLLVHPEWTYNT---------------GWRFKKRPF 150
+ LLP+ +++ + LVH + KRP
Sbjct: 2 QYLLPEAKA--QDSDKICVVINLDETLVHSSFKPVNNADFIIPVEIDGVVHQVYVLKRPH 59
Query: 151 VDDFFETLNGSTTDRNNVPLFEVVIFTSESGLSIAPILEALDKENKYFYFKLFRDSTEFV 210
VD+F + + LFE V+FT+ P+ + LDK F +LFR+S F
Sbjct: 60 VDEFLQRMG---------ELFECVLFTASLAKYADPVADLLDK-WGAFRARLFRESCVFH 109
Query: 211 DGHHVKNLDLLNRDLKKVIAVDWNTHSLSKNRENALIIPRWNGNDDDRTLVDLAVFLRTI 270
G++VK+L L RDL++V+ +D + S + +NA+ + W N D L DL F +
Sbjct: 110 RGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDNAVPVASWFDNMSDTELHDLLPFFEQL 169
Query: 271 AVNGVDDVREV 281
+ VDDV V
Sbjct: 170 S--RVDDVYSV 178
Score = 97.0 bits (242), Expect = 1e-23
Identities = 30/84 (35%), Positives = 46/84 (54%), Gaps = 1/84 (1%)
Query: 342 PILEALDKENKYFYFKLFRDSTEFVDGHHVKNLDLLNRDLKKVIAVDWNTHSLSKNRENA 401
P+ + LDK F +LFR+S F G++VK+L L RDL++V+ +D + S + +NA
Sbjct: 86 PVADLLDK-WGAFRARLFRESCVFHRGNYVKDLSRLGRDLRRVLILDNSPASYVFHPDNA 144
Query: 402 LIIPRWNGNDDDRTLVDLAVFLRS 425
+ + W N D L DL F
Sbjct: 145 VPVASWFDNMSDTELHDLLPFFEQ 168
Score = 60.4 bits (147), Expect = 7e-11
Identities = 18/89 (20%), Positives = 30/89 (33%), Gaps = 26/89 (29%)
Query: 470 EKLLPDPVPFPYYQPPYTLLLEFRDLLVHPEWTYNT---------------GWRFKKRPF 514
+ LLP+ +++ + LVH + KRP
Sbjct: 2 QYLLPEAKA--QDSDKICVVINLDETLVHSSFKPVNNADFIIPVEIDGVVHQVYVLKRPH 59
Query: 515 VDDFFETLNGSTTDRNNVPLFEVVIFTSE 543
VD+F + + LFE V+FT+
Sbjct: 60 VDEFLQRMG---------ELFECVLFTAS 79
>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster}
Length = 320
Score = 111 bits (277), Expect = 3e-27
Identities = 35/251 (13%), Positives = 74/251 (29%), Gaps = 28/251 (11%)
Query: 48 SMKLGFTVIGASTGALLAYFNGNIIHDEFMDLPIVQQYSKRIWKQMVTYNKMIVEPSREK 107
+K F ++ + ++ + + +R + + R +
Sbjct: 67 ELKPNFKLMMVGSTEADIEDACSLPDNIGEVVDDFDDADEREESVAHSAVYLAKVQRRVR 126
Query: 108 LLPDPVPFPYYQPPYTLLLEFRDLLVHPEWTYNTGWRFKKRPFVDDFFETLNGSTTDRNN 167
P + L+L+ L TG RP++ +F +
Sbjct: 127 DYKIKELAPPREGKKLLVLDIDYTLFDHRSPAETGTELM-RPYLHEFLTSAY-------- 177
Query: 168 VPLFEVVIFTSESGLSIAPILEALDKENKYFYF--------KLFRDSTEFVDGHHVKNLD 219
+++VI+++ S I + L + Y + VK L
Sbjct: 178 -EDYDIVIWSATSMRWIEEKMRLLGVASNDNYKVMFYLDSTAMISVHVPERGVVDVKPLG 236
Query: 220 LL-----NRDLKKVIAVDWNTHSLSKNRENALIIP----RWNGNDDDRTLVDLAVFLRTI 270
++ + I D + N ++ L I D L+ L+ +LR I
Sbjct: 237 VIWALYKQYNSSNTIMFDDIRRNFLMNPKSGLKIRPFRQAHLNRGTDTELLKLSDYLRKI 296
Query: 271 AVNGVDDVREV 281
A + D +
Sbjct: 297 AHH-CPDFNSL 306
Score = 61.0 bits (147), Expect = 2e-10
Identities = 15/101 (14%), Positives = 27/101 (26%), Gaps = 17/101 (16%)
Query: 342 PILEALDKENKYFYF--------KLFRDSTEFVDGHHVKNLDLL-----NRDLKKVIAVD 388
+ L + Y + VK L ++ + I D
Sbjct: 195 EKMRLLGVASNDNYKVMFYLDSTAMISVHVPERGVVDVKPLGVIWALYKQYNSSNTIMFD 254
Query: 389 WNTHSLSKNRENALIIP----RWNGNDDDRTLVDLAVFLRS 425
+ N ++ L I D L+ L+ +LR
Sbjct: 255 DIRRNFLMNPKSGLKIRPFRQAHLNRGTDTELLKLSDYLRK 295
Score = 45.2 bits (106), Expect = 3e-05
Identities = 14/98 (14%), Positives = 31/98 (31%), Gaps = 10/98 (10%)
Query: 447 QQYSKRIWKQMVTYNKMIVEPSREKLLPDPVPFPYYQPPYTLLLEFRDLLVHPEWTYNTG 506
+R + + R + P + L+L+ L TG
Sbjct: 102 DDADEREESVAHSAVYLAKVQRRVRDYKIKELAPPREGKKLLVLDIDYTLFDHRSPAETG 161
Query: 507 WRFKKRPFVDDFFETLNGSTTDRNNVPLFEVVIFTSES 544
RP++ +F + +++VI+++ S
Sbjct: 162 TELM-RPYLHEFLTSAY---------EDYDIVIWSATS 189
>3ef0_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD,
FCPH, BRCT, hydrolase, ALF4, transition state analog,
cobalt, magnesium; 2.10A {Schizosaccharomyces pombe}
Length = 372
Score = 70.6 bits (172), Expect = 3e-13
Identities = 40/256 (15%), Positives = 82/256 (32%), Gaps = 25/256 (9%)
Query: 100 IVEPSREKLLPDPVPFPYYQPPYTLLLEFRDLLVHPEWTYNTGWRFKKRPFVDDFFETLN 159
V+P+ + + DP Y ++ Y K RP + F + ++
Sbjct: 33 TVDPTVGEWMSDPGNVNYDVLRDVRSFNLQEGPSGYTSCYYI----KFRPGLAQFLQKIS 88
Query: 160 GSTTDRNNVPLFEVVIFTSESGLSIA-PILEALDKENKYFYFKLF-RDSTEFVDGHHVKN 217
L+E+ I+T + A + + +D K F ++ RD + K+
Sbjct: 89 ---------ELYELHIYTM-GTKAYAKEVAKIIDPTGKLFQDRVLSRDDS---GSLAQKS 135
Query: 218 L-DLLNRDLKKVIAVDWNTHSLSKNRENALIIPRWNGNDDDRTLVDLAVFLRTIAVNGVD 276
L L D V+ +D N N + + + + + A+ +
Sbjct: 136 LRRLFPCDTSMVVVIDDRGDVWDWN-PNLIKVVPYEFFVGIGDINSNFLSGNREALEEQN 194
Query: 277 DVREVMLYYSQFDDPI----EAFNQNQIKLRSIAPILEALDKENKYFYFKLFRDSTEFVE 332
R L + + P+ A +++ K +L D E + L + E
Sbjct: 195 KERVTALELQKSERPLAKQQNALLEDEGKPTPSHTLLHNRDHELERLEKVLKDIHAVYYE 254
Query: 333 ALYPPQSIAPILEALD 348
S + + +
Sbjct: 255 EENDISSRSGNHKHAN 270
Score = 47.9 bits (113), Expect = 5e-06
Identities = 36/230 (15%), Positives = 72/230 (31%), Gaps = 34/230 (14%)
Query: 234 NTHSLSKNRENALIIPRWNGNDDDRTLVDLAVFLRTIAVNGVDDVREVMLYYSQFDDPIE 293
N L + + +LI+ D D+T++ V + ++
Sbjct: 9 NVKRLRQEKRLSLIV------DLDQTIIHATVDPTVGEWMSDPGNVNYDVLRDVRSFNLQ 62
Query: 294 AFNQNQ-----IKLRSIAPILEA-LDKENKYFYFKLFRDSTEFVEALYPPQSIA-PILEA 346
IK R P L L K ++ + ++ T ++ A + +
Sbjct: 63 EGPSGYTSCYYIKFR---PGLAQFLQKISELYELHIYTMGT---------KAYAKEVAKI 110
Query: 347 LDKENKYFYFKLF-RDSTEFVDGHHVKNL-DLLNRDLKKVIAVDWNTHSLSKNRENALII 404
+D K F ++ RD + K+L L D V+ +D N N + +
Sbjct: 111 IDPTGKLFQDRVLSRDDS---GSLAQKSLRRLFPCDTSMVVVIDDRGDVWDWN-PNLIKV 166
Query: 405 PR---WNGNDDDRTLVDLAVFLRSPPQKDENGNIIHDEFMDLPIVQQYSK 451
+ G D + Q E + + + P+ +Q +
Sbjct: 167 VPYEFFVGIGDINSNFLSGNREALEEQNKERVTALELQKSERPLAKQQNA 216
Score = 30.2 bits (67), Expect = 1.6
Identities = 14/78 (17%), Positives = 27/78 (34%), Gaps = 13/78 (16%)
Query: 464 IVEPSREKLLPDPVPFPYYQPPYTLLLEFRDLLVHPEWTYNTGWRFKKRPFVDDFFETLN 523
V+P+ + + DP Y ++ Y K RP + F + ++
Sbjct: 33 TVDPTVGEWMSDPGNVNYDVLRDVRSFNLQEGPSGYTSCYYI----KFRPGLAQFLQKIS 88
Query: 524 GSTTDRNNVPLFEVVIFT 541
L+E+ I+T
Sbjct: 89 ---------ELYELHIYT 97
>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 = 69.7 bits (170), Expect = 1e-12
Identities = 97/597 (16%), Positives = 167/597 (27%), Gaps = 220/597 (36%)
Query: 3 ISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSSEDD----AKRE--AQWRSMKLGFT-- 54
+ +P++ A L+ P PT D E ++ LG+
Sbjct: 16 LEHVLLVPTASFFIAS-QLQEQFNKILPEPTEGFAADDEPTTPAELVGKF----LGYVSS 70
Query: 55 -VIGASTG-------ALLAYFN-----GNIIHDEFMDLPIVQQYSKRIWKQMV-TY---- 96
V + G L F GN IH L + K+++ Y
Sbjct: 71 LVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITAR 130
Query: 97 ---NKMIVEPSREKLLP----DPVPFPYY-----Q-PPYTLLLEFRDLLVHPEWTYNTGW 143
+ + S L Q E RDL Y T
Sbjct: 131 IMAKRPFDKKSNSALFRAVGEGNAQL--VAIFGGQGNTDDYFEELRDL-------YQTY- 180
Query: 144 RFKKRPFVDDFFETLNGSTTDRNNVPLFEVVIFTSESGLSIAPILEALDKENKYFYFKLF 203
V D + A L L +
Sbjct: 181 ----HVLVGDLIK--------------------------FSAETLSELIR---------- 200
Query: 204 RDSTEFVDGHHVKNLDLLNRDLKKVIAVDWNTHSLSKNRENALI-IPR-WNGNDDDRTLV 261
+T + + L++L +W + + ++ L+ IP ++
Sbjct: 201 --TTLDAEKVFTQGLNIL----------EWLENPSNTPDKDYLLSIPISCPLI----GVI 244
Query: 262 DLAVFLRTIAVNGVD--DVRE-------------VMLYYSQFDDPIEAFNQNQIKLRSIA 306
LA ++ T + G ++R + ++ D E+F + K
Sbjct: 245 QLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDS-WESFFVSVRK----- 298
Query: 307 PILEALDKENKYFYFKLFRDSTEFVEALYPPQSIAPILEALDKENKYFYFKLFRDSTEFV 366
+ L F+ + EA YP S+ P + DS E
Sbjct: 299 -AITVL------FFIGV-----RCYEA-YPNTSLPP--------------SILEDSLENN 331
Query: 367 DGH-----HVKNLDLLNRDLKKVIAVDWNTHSLSKNRENALIIPRWNGNDD------DRT 415
+G + NL ++ + N+H L + + I NG + ++
Sbjct: 332 EGVPSPMLSISNLTQ--EQVQDYVNKT-NSH-LPAGK--QVEISLVNGAKNLVVSGPPQS 385
Query: 416 LVDLAVFLRS---PPQKDENGNIIHDEFMDLPIVQQYSKRIWKQMVTYNKMIVEPSREKL 472
L L + LR P D++ I P +S+R K + +
Sbjct: 386 LYGLNLTLRKAKAPSGLDQS-RI--------P----FSER--KLKFSN----------RF 420
Query: 473 LPDPVPF--PYYQPPYTLLLEFRDLLVHPEWTYNTGWRFK--KRPFVDDFFETLNGS 525
LP PF P L+ + DL N + K + P V ++T +GS
Sbjct: 421 LPVASPFHSHLLVPASDLINK--DL-----VKNNVSFNAKDIQIP-V---YDTFDGS 466
Score = 54.7 bits (131), Expect = 6e-08
Identities = 75/467 (16%), Positives = 135/467 (28%), Gaps = 171/467 (36%)
Query: 6 AQSIPSSPLSPAPPTLKSSPLSPSPPPTSSSEDDAKREAQWRSMKLGFTVIGASTGALLA 65
A+ + P S L + E +A+ L + G G
Sbjct: 129 ARIMAKRPFDKKSN----SALF-----RAVGEGNAQ---------L-VAIFGGQ-GNTDD 168
Query: 66 YFNGNIIHDEFMDL-----PIVQQYSKRIWKQMVT-----------YNKMI--------- 100
YF +E DL +V K + + + + +
Sbjct: 169 YF------EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENP 222
Query: 101 -VEPSREKLLPDPVPFPY---YQPPYTLLLEFRDLLVHPEWTY-NTGWRFKKRPFVDDFF 155
P ++ LL P+ P Q L H Y T P +
Sbjct: 223 SNTPDKDYLLSIPISCPLIGVIQ------------LAH----YVVTAKLLGFTP--GELR 264
Query: 156 ETLNGSTTDRNNVPLFEVVIFTSESGLSIAPILEALDKENKYFYF--------------- 200
L G+T + + +E+ S ++ K +F
Sbjct: 265 SYLKGATGHSQGLV---TAVAIAETD-SWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP 320
Query: 201 -KLFRDSTEFVDGH-----HVKNLDLLNRDLKKVIAVDWNTHSLSKNRENALIIPRWNGN 254
+ DS E +G + NL ++ + N+H L + + I NG
Sbjct: 321 PSILEDSLENNEGVPSPMLSISNLTQ--EQVQDYVNKT-NSH-LPAGK--QVEISLVNGA 374
Query: 255 DD------DRTLVDLAVFLRTI-AVNGVD------DVREVMLYYSQFDDPIEA-FNQNQI 300
+ ++L L + LR A +G+D R++ + ++F P+ + F+
Sbjct: 375 KNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLK-FSNRF-LPVASPFH---- 428
Query: 301 KLRSIAPILE-ALDKENKYFYFKLFRDSTEFVEALYPPQSIA-PILEALDKENKYFYFKL 358
S +L A D + +D + + + I P+ Y
Sbjct: 429 ---S--HLLVPASD--------LINKDLVK-NNVSFNAKDIQIPV---------Y----- 460
Query: 359 FRDSTEFVDGHHVKNLD-LLNRDLKKVIA---VDWN-------THSL 394
T DG ++ L ++ + I V W TH L
Sbjct: 461 ---DTF--DGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHIL 502
Score = 48.1 bits (114), Expect = 6e-06
Identities = 60/271 (22%), Positives = 92/271 (33%), Gaps = 79/271 (29%)
Query: 152 DDFF-ETLNGSTTD--RNNVPLFEVVIFTSESGLSIAPILEALDKEN----KYFYFKLFR 204
D+ F +T S D NN P+ + F E G I A+ E K K+F+
Sbjct: 1650 DNHFKDTYGFSILDIVINN-PVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFK 1708
Query: 205 DSTEFVDG---HHVKNLDLLN-----------------RDLKKVIAVDWNT----HSLSK 240
+ E K LL+ DLK + + HSL
Sbjct: 1709 EINEHSTSYTFRSEK--GLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLG- 1765
Query: 241 NRE-NAL-----IIPRWNGNDDDRTLVDLAVFLRTIAVNGVDDVREV-MLYYSQFDDPIE 293
E AL ++ + LV++ VF R + + E+ Y +
Sbjct: 1766 --EYAALASLADVMS-----IES--LVEV-VFYRGMTMQVAVPRDELGRSNYG-----MI 1810
Query: 294 AFNQNQIKLRSIAPILEALDKENKYFYFKLFRDSTEFVEAL-Y--PPQ--SIAPILEALD 348
A N ++ S + EAL + ++ + + VE + Y Q A L ALD
Sbjct: 1811 AINPGRVAA-SFS--QEALQYVVE----RVGKRTGWLVEIVNYNVENQQYVAAGDLRALD 1863
Query: 349 ---------KENKYFYFKLFRD-STEFVDGH 369
K K +L + S E V+GH
Sbjct: 1864 TVTNVLNFIKLQKIDIIELQKSLSLEEVEGH 1894
Score = 42.0 bits (98), Expect = 5e-04
Identities = 16/95 (16%), Positives = 28/95 (29%), Gaps = 28/95 (29%)
Query: 2 PISPAQSIP--SSPLSPAPPTLKSSPLSPSPPPTSSSEDDAKREAQWRSMKLGFTVIGAS 59
P++ P S L PA + +D K + + + V
Sbjct: 422 PVA----SPFHSHLLVPASDLIN--------------KDLVKNNVSFNAKDIQIPVYDTF 463
Query: 60 TGALLAYFNGNIIHDEFMDLPIVQQ-YSKRI-WKQ 92
G+ L +G+I IV + W+
Sbjct: 464 DGSDLRVLSGSISER------IVDCIIRLPVKWET 492
Score = 28.9 bits (64), Expect = 5.5
Identities = 35/204 (17%), Positives = 58/204 (28%), Gaps = 62/204 (30%)
Query: 366 VDGHHVKNLDLLNRDLKKVIAVDWNTHSL-SKNREN-ALIIP----RWNGNDDDRTLVDL 419
+D + + L L + L+ V+ V + + S+ +E I+P + +D+ T +L
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAEL 60
Query: 420 -AVFLR---------SPPQKDE--------------NGNIIHDEFMDLPIVQQYSKRIWK 455
FL Q D+ GN IH L + K
Sbjct: 61 VGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTK 120
Query: 456 QMV-TY-------NKMIVEPSREKLLP----DPVPFPYY-----Q-PPYTLLLEFRDLLV 497
+++ Y + + S L Q E RDL
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL--VAIFGGQGNTDDYFEELRDL-- 176
Query: 498 HPEWTYNTGWRFKKRPFVDDFFET 521
Y T V D +
Sbjct: 177 -----YQTY-----HVLVGDLIKF 190
>3ef1_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD,
FCPH, BRCT, hydrolase, BEF3, acylphosphate analog,
cobalt, magnesium; HET: BFD; 2.15A {Schizosaccharomyces
pombe}
Length = 442
Score = 65.4 bits (158), Expect = 2e-11
Identities = 28/175 (16%), Positives = 58/175 (33%), Gaps = 24/175 (13%)
Query: 99 MIVEPSREKLLPDPVPFPYYQPPYTLLLEFRDLLVHPEWTYNTGWRFKKRPFVDDFFETL 158
V+P+ + + DP Y ++ Y K RP + F + +
Sbjct: 40 ATVDPTVGEWMSDPGNVNYDVLRDVRSFNLQEGPSGYTSCYYI----KFRPGLAQFLQKI 95
Query: 159 NGSTTDRNNVPLFEVVIFTSESGLSIAPILEALDKENKYFYFKLF-RDSTEFVDGHHVKN 217
+ L+E+ I+T + + + +D K F ++ RD + K+
Sbjct: 96 S---------ELYELHIYTMGTKAYAKEVAKIIDPTGKLFQDRVLSRDDS---GSLAQKS 143
Query: 218 L-DLLNRDLKKVIAVDWNTHSLSKNRENALIIPRWN-----GNDDDRTLVDLAVF 266
L L D V+ +D + + N + + + G+ + L
Sbjct: 144 LRRLFPCDTSMVVVID-DRGDVWDWNPNLIKVVPYEFFVGIGDINSNFLAKSTPL 197
Score = 48.1 bits (113), Expect = 5e-06
Identities = 24/189 (12%), Positives = 52/189 (27%), Gaps = 28/189 (14%)
Query: 257 DRTLVDLAVFLRTIAVNGVDDVREVMLYYSQFDDPIEAFNQNQ-----IKLRSIAPILEA 311
D+T++ V + ++ IK R P L
Sbjct: 34 DQTIIHATVDPTVGEWMSDPGNVNYDVLRDVRSFNLQEGPSGYTSCYYIKFR---PGLAQ 90
Query: 312 -LDKENKYFYFKLFRDSTEFVEALYPPQSIAPILEALDKENKYFYFKLF-RDSTEFVDGH 369
L K ++ + ++ + + + +D K F ++ RD +
Sbjct: 91 FLQKISELYELHIY--------TMGTKAYAKEVAKIIDPTGKLFQDRVLSRDDS---GSL 139
Query: 370 HVKNL-DLLNRDLKKVIAVDWNTHSLSKNRENALIIPRWN-----GNDDDRTLVDLAVFL 423
K+L L D V+ +D + + N + + + G+ + L
Sbjct: 140 AQKSLRRLFPCDTSMVVVID-DRGDVWDWNPNLIKVVPYEFFVGIGDINSNFLAKSTPLP 198
Query: 424 RSPPQKDEN 432
Sbjct: 199 EQEQLIPLE 207
Score = 30.0 bits (66), Expect = 2.0
Identities = 14/80 (17%), Positives = 27/80 (33%), Gaps = 13/80 (16%)
Query: 463 MIVEPSREKLLPDPVPFPYYQPPYTLLLEFRDLLVHPEWTYNTGWRFKKRPFVDDFFETL 522
V+P+ + + DP Y ++ Y K RP + F + +
Sbjct: 40 ATVDPTVGEWMSDPGNVNYDVLRDVRSFNLQEGPSGYTSCYYI----KFRPGLAQFLQKI 95
Query: 523 NGSTTDRNNVPLFEVVIFTS 542
+ L+E+ I+T
Sbjct: 96 S---------ELYELHIYTM 106
>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 = 58.7 bits (141), Expect = 4e-09
Identities = 84/515 (16%), Positives = 148/515 (28%), Gaps = 162/515 (31%)
Query: 74 DEFMDLPIVQQYSKRIWKQMVTYNKMIVEPSREKLLPDPVPF-------PYYQP--PYTL 124
D + + R++ +++ + +V+ E++L F QP +
Sbjct: 52 DHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRM 111
Query: 125 LLEFRDLLVHPEWTYNTGWRFKKRPFVDDFFETLNGSTTDRNNVPLFEVVIFTSESGLSI 184
+E RD L YN F K NV + + ++ L +
Sbjct: 112 YIEQRDRL------YNDNQVFAKY------------------NVSRLQPYLKLRQALLEL 147
Query: 185 AP-----------------ILEAL--DKENKYFYFKLF------RDSTEFVDGHHVKNLD 219
P L+ K FK+F +S E V ++ L
Sbjct: 148 RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV----LEMLQ 203
Query: 220 LLNRDLKKVIAVDWNTHSLSKNRENALIIPRWNGNDDDRTLVDLAVFLRTIAVNGVDDVR 279
L + D N S S + N + + + + R L+ + + V + +V+
Sbjct: 204 KLLYQI------DPNWTSRSDHSSN-IKLRIHSIQAELRRLLKSKPYENCLLV--LLNVQ 254
Query: 280 EVMLYYSQFDDP--IEAFN-QNQIKL----RSIAPILEA-------LDKENKYFY----F 321
+ AFN +I L + + L A LD +
Sbjct: 255 ----------NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK 304
Query: 322 KLFRDSTEFVEALYPPQ--SIAPILEALDKENKYFYFKLFRDSTEFVDGHHVKNLDLLNR 379
L + P + + P ++ E RD N +N
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPRRLSIIAE-------SIRD-----GLATWDNWKHVNC 352
Query: 380 D-LKKVIAVDWNTHSLSKNRENALIIPRWNGNDDDRTLVDLAVFLRSPPQKDENGNIIHD 438
D L +I SL N L + + L+VF PP
Sbjct: 353 DKLTTIIES-----SL-----NVL-----EPAEYRKMFDRLSVF---PP----------- 383
Query: 439 EFMDLPIVQQYSKRIWKQMVTYNKM-IVEPSREKLL--PDPVPFPYYQPPYTLLLEFR-- 493
I IW ++ + M +V + L P ++ LE +
Sbjct: 384 ---SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI--PSIYLELKVK 438
Query: 494 ---DLLVHPEW--TYNTGWRFKKR----PFVDDFF 519
+ +H YN F P++D +F
Sbjct: 439 LENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYF 473
Score = 53.7 bits (128), Expect = 1e-07
Identities = 54/374 (14%), Positives = 100/374 (26%), Gaps = 116/374 (31%)
Query: 147 KRPFVDDFFETLNGSTTDRNNVPLFEVVIFTSESGL-----SIAPILEALDKENKYFYFK 201
+D TL T L + L + P ++ E
Sbjct: 287 THISLDHHSMTL----TPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE------- 335
Query: 202 LFRDSTEFVDGHHVKNLDLLNRD-LKKVIAVDWNTHSLSKNRENALIIPRWNGNDDDRTL 260
RD N +N D L +I SL N L + +
Sbjct: 336 SIRD-----GLATWDNWKHVNCDKLTTIIES-----SL-----NVL-----EPAEYRKMF 375
Query: 261 VDLAVFLRTIAVNGVDDVR------EVMLYYSQFDDPIEAFNQNQIKLRSIAPILEALDK 314
L+VF ++ + D + N+ ++E K
Sbjct: 376 DRLSVF--------PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS-----LVEKQPK 422
Query: 315 ENKYFYFKLFRDSTE-----------FVEALYPPQSIAPILEALDKENKYFYFKLFRDST 363
E+ ++ + V+ P++ ++YFY +
Sbjct: 423 ESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHI----- 477
Query: 364 EFVDGHHVKNLDLLNR-DLKKVIAVDWNTHSLSKNRENALIIPRWNGNDDDRTLVDLAVF 422
GHH+KN++ R L +++ +D+ R+ L
Sbjct: 478 ----GHHLKNIEHPERMTLFRMVFLDF----------------RF-----------LEQK 506
Query: 423 LRSPPQKDENGNIIHDEFMDLPIVQQYSKRIWKQMVTYNKMIVEPSREKLLPDPVPFPYY 482
+R I + L + Y I +P E+L+ + F
Sbjct: 507 IRHDSTAWNASGSILNTLQQL---KFYKPYICDN---------DPKYERLVNAILDFLPK 554
Query: 483 QPPYTLLLEFRDLL 496
+ ++ DLL
Sbjct: 555 IEENLICSKYTDLL 568
Score = 47.5 bits (112), Expect = 1e-05
Identities = 42/299 (14%), Positives = 82/299 (27%), Gaps = 123/299 (41%)
Query: 184 IAPILEALD-KENK--YFYFKLFRDSTEFVDGHHVKNLDLLNRDLKKVIAVDWNTHSLSK 240
I L L+ E + + +F S H+ ++++ W
Sbjct: 359 IESSLNVLEPAEYRKMFDRLSVFPPSA------HIP---------TILLSLIW------- 396
Query: 241 NRENALIIPRWNGNDDDRTLVDLAVFLRTIAVNGVDDVREVMLYYSQFDDPIEAFNQNQI 300
D + DV V+ N++
Sbjct: 397 -------------FDVIK-----------------SDVMVVV---------------NKL 411
Query: 301 KLRSIAPILEALDKENKYFYFKLFRDSTE-----------FVEALYPPQSIAPILEALDK 349
S ++E KE+ ++ + V+ P++
Sbjct: 412 HKYS---LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY 468
Query: 350 ENKYFYFKLFRDSTEFVDGHHVKNLDLLNR---------DL----KKVIAVD--WNTHSL 394
++YFY + GHH+KN++ R D +K+ WN
Sbjct: 469 LDQYFYSHI---------GHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGS 519
Query: 395 SKNRENAL------IIPRWNGNDDDRTLVDLAVFLRSPPQKDENGNIIHDEFMDLPIVQ 447
N L I N +R + + FL + N+I ++ D +++
Sbjct: 520 ILNTLQQLKFYKPYICD--NDPKYERLVNAILDFLPKIEE-----NLICSKYTD--LLR 569
Score = 40.6 bits (94), Expect = 0.002
Identities = 40/242 (16%), Positives = 81/242 (33%), Gaps = 45/242 (18%)
Query: 257 DRTLVDLAVFLRTIAVNGVDDVREVMLYYSQFDDPIEAFNQNQIKLRSIAPILEALDKEN 316
D V F+ V D+ + +L + D I + + + L + +E
Sbjct: 20 DILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVS-GTLRLFWTLLSKQEEM 78
Query: 317 -KYFYFKLFRDSTEFVEALYPPQSIAPILEALDKENKYFYF--KLFRDSTEFVDGHHVKN 373
+ F ++ R + +F+ + + P + Y +L+ D+ F ++V
Sbjct: 79 VQKFVEEVLRINYKFLMSPIKTEQRQPSMM----TRMYIEQRDRLYNDNQVFAK-YNVSR 133
Query: 374 LDL---LNRDL------------------KKVIAVD-WNTHSLSKNRENALIIPRW---- 407
L L + L K +A+D ++ + + + W
Sbjct: 134 LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF---WLNLK 190
Query: 408 NGNDDDRTLVDLAVFLRSPPQKDENGNIIHDEFMDLPI----VQQYSKRIWKQMVTYNKM 463
N N + L L L Q D N D ++ + +Q +R+ K N +
Sbjct: 191 NCNSPETVLEMLQKLLY---QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247
Query: 464 IV 465
+V
Sbjct: 248 LV 249
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 36.2 bits (83), Expect = 0.032
Identities = 18/36 (50%), Positives = 22/36 (61%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S P+SP S + + SP SPS PTS S
Sbjct: 1593 SPTSPSYS-PTSP-SYSATSPSYSPTSPSYSPTSPS 1626
Score = 35.8 bits (82), Expect = 0.044
Identities = 20/41 (48%), Positives = 23/41 (56%), Gaps = 5/41 (12%)
Query: 1 SPISPAQSIPS---SPLSPA--PPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP SP+ P + SP SPS PTS S
Sbjct: 1600 SPTSPSYSATSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1640
Score = 35.1 bits (80), Expect = 0.081
Identities = 18/36 (50%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P+ SP SPS PTS S
Sbjct: 1614 SPTSPSYSPTSPSYSPTSPSY--SPTSPSYSPTSPS 1647
Score = 33.9 bits (77), Expect = 0.16
Identities = 18/36 (50%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P+ SP SPS PTS S
Sbjct: 1635 SPTSPSYSPTSPSYSPTSPS--YSPTSPSYSPTSPS 1668
Score = 33.9 bits (77), Expect = 0.18
Identities = 19/36 (52%), Positives = 23/36 (63%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S P+SP S +P + SP SPS PTS S
Sbjct: 1621 SPTSPSYS-PTSP-SYSPTSPSYSPTSPSYSPTSPS 1654
Score = 32.4 bits (73), Expect = 0.50
Identities = 18/40 (45%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSSEDDA 40
SP SP+ S S SP P+ SP SPS PTS S
Sbjct: 1712 SPTSPSYSPTSPSYSPTSPSY--SPTSPSYSPTSPSYSPT 1749
Score = 31.2 bits (70), Expect = 1.1
Identities = 16/34 (47%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTS 34
P SP+ S S SP P+ SP SPS PTS
Sbjct: 1572 MPSSPSYSPTSPSYSPTSPSY--SPTSPSYSPTS 1603
Score = 30.8 bits (69), Expect = 1.4
Identities = 17/36 (47%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP S S P+ P+ SP SPS PTS S
Sbjct: 1559 SPSSPGYS-TSPAYMPSSPSY--SPTSPSYSPTSPS 1591
Score = 30.4 bits (68), Expect = 1.7
Identities = 19/40 (47%), Positives = 22/40 (55%), Gaps = 7/40 (17%)
Query: 1 SPISPAQSIPSSP-LSPAPPTLKS-----SPLSPSPPPTS 34
SP SP+ S P+SP SP P+ SP SPS PTS
Sbjct: 1642 SPTSPSYS-PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1680
Score = 30.4 bits (68), Expect = 2.2
Identities = 18/36 (50%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P SP SPS PTS S
Sbjct: 1677 SPTSPSYSPTSPSYSPTSP--SYSPTSPSYSPTSPS 1710
Score = 30.0 bits (67), Expect = 2.8
Identities = 20/37 (54%), Positives = 23/37 (62%), Gaps = 4/37 (10%)
Query: 1 SPISPAQSIPSSP-LSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S P+SP SP P+ SP SPS PTS S
Sbjct: 1628 SPTSPSYS-PTSPSYSPTSPSY--SPTSPSYSPTSPS 1661
Score = 28.5 bits (63), Expect = 7.7
Identities = 16/40 (40%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSP-LSPSPP---PTSSS 36
S +SP + S SP+ P +SP PS P PTS S
Sbjct: 1545 SAMSPGYGLTSPSYSPSSPGYSTSPAYMPSSPSYSPTSPS 1584
Score = 28.1 bits (62), Expect = 8.8
Identities = 18/36 (50%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P+ SP SPS PTS S
Sbjct: 1656 SPTSPSYSPTSPSYSPTSPSY--SPTSPSYSPTSPS 1689
>3v33_A Ribonuclease ZC3H12A; rossmann-like sandwich fold, RNAse,
cytoplastic, hydrolase; 2.00A {Homo sapiens}
Length = 223
Score = 34.7 bits (79), Expect = 0.047
Identities = 29/164 (17%), Positives = 58/164 (35%), Gaps = 17/164 (10%)
Query: 339 SIAPILEALDKENKYFYFKLFRDSTEFVDGHHVKNLDLLNRDLKKVIAVDWNTHSLSKNR 398
S IL A++ +F + D T FV + + I + +
Sbjct: 45 SCRGILLAVN----WFLERGHTDITVFVPSWRKEQPRPDVPITDQHILRELEKKKILVFT 100
Query: 399 ENALIIPRWNGNDDDRTLVDLAVFLRSPPQKDENGNII-HDEFMDLPIVQQYSKRIWKQM 457
+ + + DDR +V LA + +G ++ +D + DL Q ++ WK+
Sbjct: 101 PSRRVGGKRVVCYDDRFIVKLA--------YESDGIVVSNDTYRDL----QGERQEWKRF 148
Query: 458 VTYNKMIVEPSREKLLPDPVPFPYYQPPYTLLLEFRDLLVHPEW 501
+ ++ +K +P P + P L + L +
Sbjct: 149 IEERLLMYSFVNDKFMPPDDPLGRHGPSLDNFLRKKPLTLEHRK 192
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 34.7 bits (79), Expect = 0.097
Identities = 18/36 (50%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP S S SP P+ SP SPS PTS S
Sbjct: 1543 SPTSPTYSPTSPAYSPTSPS--YSPTSPSYSPTSPS 1576
Score = 34.3 bits (78), Expect = 0.12
Identities = 18/36 (50%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P+ SP SPS PTS S
Sbjct: 1620 SPTSPSYSPTSPSYSPTSPS--YSPTSPSYSPTSPS 1653
Score = 32.8 bits (74), Expect = 0.39
Identities = 16/36 (44%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
+P SP + S SP PT SP SP+ PTS S
Sbjct: 1529 APTSPGFGVSSPGFSPTSPT--YSPTSPAYSPTSPS 1562
Score = 32.4 bits (73), Expect = 0.44
Identities = 19/40 (47%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSSEDDA 40
SP SPA S S SP P SP SPS PTS S
Sbjct: 1655 SPTSPAYSPTSPSYSPTSP--SYSPTSPSYSPTSPSYSPT 1692
Score = 31.6 bits (71), Expect = 0.89
Identities = 18/36 (50%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P+ SP SPS PTS S
Sbjct: 1599 SPTSPSYSPTSPSYSPTSPS--YSPTSPSYSPTSPS 1632
Score = 31.6 bits (71), Expect = 0.92
Identities = 16/40 (40%), Positives = 19/40 (47%), Gaps = 4/40 (10%)
Query: 1 SPISPAQSIPSSP-LSPAPPTLKSSPLSPSPPPTSSSEDD 39
SP SP S P+SP SP P SP SP+ P +
Sbjct: 1690 SPTSPNYS-PTSPSYSPTSPGY--SPGSPAYSPKQDEQKH 1726
Score = 31.2 bits (70), Expect = 1.3
Identities = 18/36 (50%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P+ SP SPS PTS S
Sbjct: 1613 SPTSPSYSPTSPSYSPTSPS--YSPTSPSYSPTSPS 1646
Score = 30.8 bits (69), Expect = 1.6
Identities = 18/36 (50%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P+ SP SPS PTS S
Sbjct: 1578 SPTSPSYSPTSPSYSPTSPS--YSPTSPSYSPTSPS 1611
Score = 30.1 bits (67), Expect = 2.2
Identities = 12/38 (31%), Positives = 17/38 (44%), Gaps = 2/38 (5%)
Query: 1 SPISPAQSIPSSPLSP--APPTLKSSPLSPSPPPTSSS 36
SP + +P SP + SP SP+ PTS +
Sbjct: 1518 EATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPA 1555
Score = 30.1 bits (67), Expect = 2.7
Identities = 13/37 (35%), Positives = 16/37 (43%), Gaps = 4/37 (10%)
Query: 1 SPISPAQSIPSSP-LSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S P+SP SP P SP +
Sbjct: 1697 SPTSPSYS-PTSPGYSPGSPA--YSPKQDEQKHNENE 1730
Score = 30.1 bits (67), Expect = 2.8
Identities = 17/36 (47%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P SP SPS PTS +
Sbjct: 1627 SPTSPSYSPTSPSYSPTSP--SYSPTSPSYSPTSPA 1660
Score = 30.1 bits (67), Expect = 2.9
Identities = 18/36 (50%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P SP SPS PTS S
Sbjct: 1585 SPTSPSYSPTSPSYSPTSP--SYSPTSPSYSPTSPS 1618
Score = 29.7 bits (66), Expect = 3.3
Identities = 18/36 (50%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P SP SPS PTS S
Sbjct: 1592 SPTSPSYSPTSPSYSPTSP--SYSPTSPSYSPTSPS 1625
Score = 29.7 bits (66), Expect = 3.4
Identities = 18/36 (50%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P+ SP SPS PTS S
Sbjct: 1606 SPTSPSYSPTSPSYSPTSPS--YSPTSPSYSPTSPS 1639
Score = 29.7 bits (66), Expect = 3.5
Identities = 17/36 (47%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P SP SPS PTS
Sbjct: 1676 SPTSPSYSPTSPSYSPTSP--NYSPTSPSYSPTSPG 1709
Score = 29.3 bits (65), Expect = 4.2
Identities = 17/36 (47%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P+ SP SP+ PTS S
Sbjct: 1634 SPTSPSYSPTSPSYSPTSPS--YSPTSPAYSPTSPS 1667
Score = 28.9 bits (64), Expect = 5.2
Identities = 18/36 (50%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SP+ S S SP P SP SPS PTS S
Sbjct: 1564 SPTSPSYSPTSPSYSPTSP--SYSPTSPSYSPTSPS 1597
Score = 28.9 bits (64), Expect = 6.0
Identities = 19/36 (52%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
SP SPA S S SP P+ SP SPS PTS S
Sbjct: 1550 SPTSPAYSPTSPSYSPTSPSY--SPTSPSYSPTSPS 1583
>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 = 30.3 bits (67), Expect = 0.79
Identities = 8/27 (29%), Positives = 14/27 (51%), Gaps = 5/27 (18%)
Query: 325 RDSTEFVEA---LYPPQSIAPILEALD 348
+ + + ++A LY S AP L A+
Sbjct: 19 KQALKKLQASLKLYADDS-APAL-AIK 43
>1t4w_A CEP-1, C.elegans P53 tumor suppressor-like transcription factor;
DNA-binding domain; 2.10A {Caenorhabditis elegans} SCOP:
b.2.5.2
Length = 196
Score = 30.6 bits (68), Expect = 0.94
Identities = 18/45 (40%), Positives = 23/45 (51%), Gaps = 5/45 (11%)
Query: 411 DDDRTLVDLAVFLRSPPQKDENGNIIHDEFMDLPIVQQYSKRIWK 455
DD R + LAVFL DENGN I ++ + Y +R WK
Sbjct: 147 DDRRKTMCLAVFL-----DDENGNEILHAYIKQVRIVAYPRRDWK 186
>2g6z_A Dual specificity protein phosphatase 5; alpha/beta, hydrolase;
2.70A {Homo sapiens}
Length = 211
Score = 30.5 bits (69), Expect = 1.0
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 1 SPISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
+ P+S L+P P S LS SP T++S
Sbjct: 175 DMQGAYCTFPASVLAPVPTHSTVSELSRSPVATATS 210
>1jb0_L Photosystem 1 reaction centre subunit XI; membrane protein,
multiprotein-pigment complex, photosynthes; HET: CL1 PQN
BCR LHG LMG; 2.50A {Synechococcus elongatus} SCOP:
f.31.1.1 PDB: 3pcq_L*
Length = 154
Score = 29.9 bits (67), Expect = 1.2
Identities = 13/41 (31%), Positives = 16/41 (39%), Gaps = 1/41 (2%)
Query: 27 SPSPPPTSSSEDDAKREAQWRSMKLGFTVIGASTGALLAYF 67
S SS D K W GF +GA A +A+F
Sbjct: 98 LVSFQKGGSSSDPLKTSEGWSQFTAGF-FVGAMGSAFVAFF 137
>3zu3_A Putative reductase YPO4104/Y4119/YP_4011; oxidoreductase, fatty
acid biosynthesis II, short-chain dehydrogenase
reductase superfamily; HET: NAI; 1.80A {Yersinia pestis}
PDB: 3zu4_A* 3zu5_A* 3zu2_A*
Length = 405
Score = 30.1 bits (67), Expect = 2.2
Identities = 10/35 (28%), Positives = 16/35 (45%)
Query: 427 PQKDENGNIIHDEFMDLPIVQQYSKRIWKQMVTYN 461
P D+ G + D P VQ +++W Q+ N
Sbjct: 328 PHMDQEGRLRADYKELDPEVQNQVQQLWDQVTNDN 362
>1m4j_A A6 gene product, twinfilin; mixed beta-sheet, PAIR of
alpha-helices, structural protein; 1.60A {Mus musculus}
SCOP: d.109.1.2
Length = 142
Score = 28.4 bits (63), Expect = 3.2
Identities = 17/109 (15%), Positives = 37/109 (33%), Gaps = 11/109 (10%)
Query: 193 KENKYFYFKLFRDSTEFVDGHHVKNLDLLNRDLKKVIAVDWNTHSLSKNRENALIIPRWN 252
+ KY K+ ++ + V G D +D + L ++++ ++ R +
Sbjct: 21 RNGKYRLLKISIENEQLVVGSCSPPSDSWEQDYDSFVL------PLLEDKQPCYVLFRLD 74
Query: 253 GNDDDRTLVDLAVFLRTIAVNGVDDVREVMLYYSQFDDPIEAFNQNQIK 301
+ + + VR+ MLY + + F IK
Sbjct: 75 SQNAQGYEWIFIAWSPDHS-----HVRQKMLYAATRATLKKEFGGGHIK 118
>1jer_A Cucumber stellacyanin; electron transport, copper, glycoprotein,
hydroxylation; 1.60A {Cucumis sativus} SCOP: b.6.1.1
Length = 138
Score = 27.7 bits (61), Expect = 5.0
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 3 ISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSS 36
++ ++ P S +PP+ S P PP S S
Sbjct: 107 VAANATVSMPPPSSSPPS--SVMPPPVMPPPSPS 138
>3i3t_A Ubiquitin carboxyl-terminal hydrolase 21; hydrolase, structural
genomics consortium, SGC, activator, alternative
splicing, chromatin regulator, nucleus, polymorphism,
protease; 2.59A {Homo sapiens} PDB: 2y5b_A 3mtn_A
Length = 355
Score = 28.5 bits (63), Expect = 5.8
Identities = 26/193 (13%), Positives = 55/193 (28%), Gaps = 25/193 (12%)
Query: 287 QFDDPIEAFNQNQIKLRSIAP--ILEALDKENKYFYFKLFRDSTEFVEALYPPQSIAPIL 344
F D I A ++ P K F +D+ EF++ L + +
Sbjct: 53 AFADVIGALWHPD-SCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLL-----MERLH 106
Query: 345 EALDKENKYFYFKLFRDSTEFVDGHHVKNLDLLNRDLKKVIAVDWNTHSLSKNRENALII 404
+++ + L L+ + W + RE++ I+
Sbjct: 107 LEINRRGRRAPPILANGPVPSPPRRGGALLEEPELSDDDRANLMWKRY---LEREDSKIV 163
Query: 405 PRWNGNDDDRTLVDLAVFLRSPPQKDENGNI--IHDEFMDLPIVQQYSKRIWKQMVTYNK 462
+ G L+S + G + F DL + ++ +
Sbjct: 164 DLFVG------------QLKSCLKCQACGYRSTTFEVFCDLSLPIPKKGFAGGKVSLRDC 211
Query: 463 MIVEPSREKLLPD 475
+ E+L +
Sbjct: 212 FNLFTKEEELESE 224
>2dn6_A KIAA0640 protein; PH domain, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 115
Score = 27.4 bits (61), Expect = 6.2
Identities = 7/46 (15%), Positives = 15/46 (32%), Gaps = 2/46 (4%)
Query: 279 REVMLYYSQFDDPIEAFNQNQIKLRSIAPILEALDKENKYFYFKLF 324
+ ++ Y + + I L + DK+ K F +
Sbjct: 32 KPNIISY--YVSEDLKDKKGDILLDENCCVESLPDKDGKKCLFLVK 75
>2xkx_A Disks large homolog 4; structural protein, scaffold protein,
membrane associated GU kinase; 22.9A {Rattus
norvegicus}
Length = 721
Score = 28.7 bits (63), Expect = 6.3
Identities = 11/76 (14%), Positives = 27/76 (35%), Gaps = 4/76 (5%)
Query: 2 PISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSSEDDAKREAQWRSMK---LGFTVIGA 58
P+ + + + + P + + L +P + +E + + E LGF++ G
Sbjct: 21 PLKHSPAHLPNQANSPPVIVNTDTL-EAPGYVNGTEGEMEYEEITLERGNSGLGFSIAGG 79
Query: 59 STGALLAYFNGNIIHD 74
+ + I
Sbjct: 80 TDNPHIGDDPSIFITK 95
>3s8m_A Enoyl-ACP reductase; rossmann fold, oxidoreductase, NADH binding,
fatty acid SYNT enoyl-ACP; 1.60A {Xanthomonas oryzae PV}
Length = 422
Score = 28.6 bits (63), Expect = 6.5
Identities = 11/37 (29%), Positives = 17/37 (45%)
Query: 425 SPPQKDENGNIIHDEFMDLPIVQQYSKRIWKQMVTYN 461
P + DE + D++ VQ K +W Q+ T N
Sbjct: 343 QPAEVDEQNRLRLDDWELRDDVQDACKALWPQVTTEN 379
>1th1_C APC protein, adenomatous polyposis coli protein; protein-protein
complex, cell adhesion/antitumor protein complex; HET:
TPO SEP; 2.50A {Homo sapiens}
Length = 179
Score = 27.7 bits (60), Expect = 7.8
Identities = 9/54 (16%), Positives = 19/54 (35%)
Query: 2 PISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSSEDDAKREAQWRSMKLGFTV 55
P SP Q++P S PP +++ P + + + ++
Sbjct: 63 PDSPGQTMPPSRSKTPPPPPQTAQTKREVPKNKAPTAEKRESGPKQAAVNAAVQ 116
Score = 27.7 bits (60), Expect = 8.5
Identities = 13/43 (30%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 3 ISPAQSIPSSPLSPAPPTLKSSPLSPSPPPTSSSEDDAKREAQ 45
ISP+ +P SP PP+ +P P P + + K +A
Sbjct: 57 ISPSD-LPDSPGQTMPPSRSKTPPPP-PQTAQTKREVPKNKAP 97
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
0.320 0.138 0.422
Gapped
Lambda K H
0.267 0.0620 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,891,959
Number of extensions: 559589
Number of successful extensions: 1613
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1521
Number of HSP's successfully gapped: 100
Length of query: 545
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 447
Effective length of database: 3,965,535
Effective search space: 1772594145
Effective search space used: 1772594145
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 60 (27.1 bits)