RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12089
(467 letters)
>2dm9_A V-type ATP synthase subunit E; A-ATPase, structural genomics,
NPPSFA, national project on P structural and functional
analyses; 1.85A {Pyrococcus horikoshii} SCOP: d.81.4.1
PDB: 2dma_A 4dt0_A
Length = 198
Score = 139 bits (351), Expect = 5e-39
Identities = 52/207 (25%), Positives = 101/207 (48%), Gaps = 11/207 (5%)
Query: 35 QIKHMMAFIEQEANEKAEEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKKI 94
+ ++ I +EA K E I +A ++ K ++ K R + Q EL+K+
Sbjct: 3 GAELIIQEINKEAERKIEYILNEARQQAEKIKEEARRNAEAKAEWIIRRAKTQAELEKQR 62
Query: 95 QSSNMLNQARLKALKVREDHVRNVLDEARKRLGEVTKNRDKYTQLIEKLIIQGLLQLLEP 154
+N + R K L ++E+ + +VL+E ++RL +++ D+Y + ++ L+ + + +L E
Sbjct: 63 IIANARLEVRRKRLAIQEEIISSVLEEVKRRLETMSE--DEYFESVKALLKEAIKELNEK 120
Query: 155 NVLIRSREVDKDIVNAVLPNVAKAYQDVAGKEVNLKLDNDQFLPVDTTGGIELLAQRGKI 214
V + S E ++ + + + DV+ + VDT GG+ + + G+I
Sbjct: 121 KVRVMSNEKTLGLIASRIEEIKSELGDVSIELG---------ETVDTMGGVIVETEDGRI 171
Query: 215 KISNTLEARLELIAQQIIPDIRVAIFG 241
+I NT EAR+E +I I +FG
Sbjct: 172 RIDNTFEARMERFEGEIRSTIAKVLFG 198
Score = 139 bits (351), Expect = 5e-39
Identities = 52/207 (25%), Positives = 101/207 (48%), Gaps = 11/207 (5%)
Query: 257 QIKHMMAFIEQEANEKAEEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKKI 316
+ ++ I +EA K E I +A ++ K ++ K R + Q EL+K+
Sbjct: 3 GAELIIQEINKEAERKIEYILNEARQQAEKIKEEARRNAEAKAEWIIRRAKTQAELEKQR 62
Query: 317 QSSNMLNQARLKALKVREDHVRNVLDEARKRLGEVTKNRDKYTQLIEKLIIQGLLQLLEP 376
+N + R K L ++E+ + +VL+E ++RL +++ D+Y + ++ L+ + + +L E
Sbjct: 63 IIANARLEVRRKRLAIQEEIISSVLEEVKRRLETMSE--DEYFESVKALLKEAIKELNEK 120
Query: 377 NVLIRSREVDKDIVNAVLPNVAKAYQDVAGKEVNLKLDNDQFLPVDTTGGIELLAQRGKI 436
V + S E ++ + + + DV+ + VDT GG+ + + G+I
Sbjct: 121 KVRVMSNEKTLGLIASRIEEIKSELGDVSIELG---------ETVDTMGGVIVETEDGRI 171
Query: 437 KISNTLEARLELIAQQIIPDIRVAIFG 463
+I NT EAR+E +I I +FG
Sbjct: 172 RIDNTFEARMERFEGEIRSTIAKVLFG 198
>3v6i_A V-type ATP synthase subunit E; peripheral stator stalk, right
handed coiled-coil, ATPase/SY ATP binding, membrane,
hydrolase; 2.25A {Thermus thermophilus} PDB: 3k5b_E
3j0j_J
Length = 187
Score = 114 bits (286), Expect = 6e-30
Identities = 36/213 (16%), Positives = 82/213 (38%), Gaps = 29/213 (13%)
Query: 29 DADVQKQIKHMMAFIEQEANEKAEEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQV 88
+A + ++++ + + QEA KAE + +AEE+ R + +E + +
Sbjct: 4 EAILSQEVEAEIQALLQEAEAKAEAVKREAEEKAKALL-----QARERALE----AQYRA 54
Query: 89 ELQKKIQSSNMLNQARLKALKVREDHVRNVLDEARKRLGEVTKNRDKYTQLIEKLIIQGL 148
L++ + + + R + + V R+ L + + ++ +++ KL ++ L
Sbjct: 55 ALRRAESAGEL--LVATARTQARGEVLEEVRRRVREALEALPQK-PEWPEVVRKLALEAL 111
Query: 149 LQLLEPNVLIRSREVDKDIVNAVLPNVAKAYQDVAGKEVNLKLDNDQFLPVDTTGGIELL 208
L L+ + E D + A+ Q G+ +
Sbjct: 112 EALPGAKALVANPE-DLPHLEALARERGVELQA----------------EPALRLGVRAV 154
Query: 209 AQRGKIKISNTLEARLELIAQQIIPDIRVAIFG 241
GK ++ N+L ARL+ + + A++G
Sbjct: 155 GAEGKTQVENSLLARLDRAWDALSSKVAQALWG 187
Score = 114 bits (286), Expect = 6e-30
Identities = 36/213 (16%), Positives = 82/213 (38%), Gaps = 29/213 (13%)
Query: 251 DADVQKQIKHMMAFIEQEANEKAEEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQV 310
+A + ++++ + + QEA KAE + +AEE+ R + +E + +
Sbjct: 4 EAILSQEVEAEIQALLQEAEAKAEAVKREAEEKAKALL-----QARERALE----AQYRA 54
Query: 311 ELQKKIQSSNMLNQARLKALKVREDHVRNVLDEARKRLGEVTKNRDKYTQLIEKLIIQGL 370
L++ + + + R + + V R+ L + + ++ +++ KL ++ L
Sbjct: 55 ALRRAESAGEL--LVATARTQARGEVLEEVRRRVREALEALPQK-PEWPEVVRKLALEAL 111
Query: 371 LQLLEPNVLIRSREVDKDIVNAVLPNVAKAYQDVAGKEVNLKLDNDQFLPVDTTGGIELL 430
L L+ + E D + A+ Q G+ +
Sbjct: 112 EALPGAKALVANPE-DLPHLEALARERGVELQA----------------EPALRLGVRAV 154
Query: 431 AQRGKIKISNTLEARLELIAQQIIPDIRVAIFG 463
GK ++ N+L ARL+ + + A++G
Sbjct: 155 GAEGKTQVENSLLARLDRAWDALSSKVAQALWG 187
>2kz9_A V-type proton ATPase subunit E; V-ATPase, proton transport; NMR
{Saccharomyces cerevisiae}
Length = 69
Score = 85.7 bits (212), Expect = 5e-21
Identities = 24/63 (38%), Positives = 38/63 (60%)
Query: 247 MALSDADVQKQIKHMMAFIEQEANEKAEEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRK 306
AL+ V ++ M AFI +EA EKA+EI KA++E+ IEK +V+++ I + K
Sbjct: 6 TALTPNQVNDELNKMQAFIRKEAEEKAKEIQLKADQEYEIEKTNIVRNETNNIDGNFKSK 65
Query: 307 EKQ 309
K+
Sbjct: 66 LKK 68
Score = 82.6 bits (204), Expect = 5e-20
Identities = 22/60 (36%), Positives = 35/60 (58%)
Query: 28 DDADVQKQIKHMMAFIEQEANEKAEEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQ 87
V ++ M AFI +EA EKA+EI KA++E+ IEK +V+++ I + K K+
Sbjct: 9 TPNQVNDELNKMQAFIRKEAEEKAKEIQLKADQEYEIEKTNIVRNETNNIDGNFKSKLKK 68
>3lg8_A A-type ATP synthase subunit E; archaea, peripheral stalk,
hydrolase, structural protein, TR protein; 4.10A
{Methanocaldococcus jannaschii}
Length = 106
Score = 70.1 bits (171), Expect = 4e-15
Identities = 27/109 (24%), Positives = 47/109 (43%), Gaps = 5/109 (4%)
Query: 133 RDKYTQLIEKLIIQGLLQLLEPNVLIRSREVDKDIV-NAVLPNVAKAYQDVAGKEVNLKL 191
+ +Y + KLI G + L +++R + D +++ ++ L N+ K ++ K LK
Sbjct: 2 QPEYKDKLIKLIKDGAISLGGGELIVRLNKRDMELIDDSTLWNLEKEVENATKKVTVLKK 61
Query: 192 DNDQFLPVDTTGGIELLAQRGKIKISNTLEARLELIAQQIIPDIRVAIF 240
PVD GG + G + N+LEA I I +F
Sbjct: 62 GE----PVDIAGGCIIETADGLKSLDNSLEAIFNRNLNVIRARITEKLF 106
Score = 70.1 bits (171), Expect = 4e-15
Identities = 27/109 (24%), Positives = 47/109 (43%), Gaps = 5/109 (4%)
Query: 355 RDKYTQLIEKLIIQGLLQLLEPNVLIRSREVDKDIV-NAVLPNVAKAYQDVAGKEVNLKL 413
+ +Y + KLI G + L +++R + D +++ ++ L N+ K ++ K LK
Sbjct: 2 QPEYKDKLIKLIKDGAISLGGGELIVRLNKRDMELIDDSTLWNLEKEVENATKKVTVLKK 61
Query: 414 DNDQFLPVDTTGGIELLAQRGKIKISNTLEARLELIAQQIIPDIRVAIF 462
PVD GG + G + N+LEA I I +F
Sbjct: 62 GE----PVDIAGGCIIETADGLKSLDNSLEAIFNRNLNVIRARITEKLF 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 = 67.6 bits (164), Expect = 4e-12
Identities = 63/426 (14%), Positives = 142/426 (33%), Gaps = 121/426 (28%)
Query: 78 MEYYDRKEKQVELQKKIQSSNMLNQARLKALKVREDHVRNV---LDEARKRLGEVTKNRD 134
++ + E +E+ + +L Q R DH N+ + + L + K++
Sbjct: 189 LKNCNSPETVLEMLQ-----KLLYQID-PNWTSRSDHSSNIKLRIHSIQAELRRLLKSK- 241
Query: 135 KYTQLIEKLII------QGLLQLLEPN--VLIRSREVDKDIVNAVLPNVAKAYQDVAGKE 186
L++ + +L+ +R K + + + A ++
Sbjct: 242 ---PYENCLLVLLNVQNAKAWNAFNLSCKILLTTR--FKQVTDFL---SAATTTHISLDH 293
Query: 187 VNLKLDNDQ----F----------LPVDTTGG----IELLA--------------QRGKI 214
++ L D+ LP + + ++A
Sbjct: 294 HSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCD 353
Query: 215 KISNTLEARLELIAQQIIPDIR-----VAIFGRNPNLMA---------LSDADVQKQIKH 260
K++ +E+ L + R +++F + ++ + +DV +
Sbjct: 354 KLTTIIESSLN---VLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNK 410
Query: 261 MMAF--IEQEANEKAEEI-------DAKAEEEFNIEKGRLVQHQRLKIMEYYDRKE---- 307
+ + +E++ E I K E E+ + + +V H I + +D +
Sbjct: 411 LHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR-SIVDH--YNIPKTFDSDDLIPP 467
Query: 308 --------------KQVELQKKIQSSNM--LNQARLKALKVRED--------HVRNVLDE 343
K +E +++ M L+ L+ K+R D + N L +
Sbjct: 468 YLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQ-KIRHDSTAWNASGSILNTLQQ 526
Query: 344 ARKRLGEVTKNRDKYTQLIEKLIIQGLLQLLEPNVLIRSREVDKDIVNAVLPNVAKAYQD 403
+ + N KY +L+ ++ L +E N LI S+ D++ L +A +
Sbjct: 527 LKFYKPYICDNDPKYERLVNAIL--DFLPKIEEN-LICSK--YTDLLRIALMAEDEAIFE 581
Query: 404 VAGKEV 409
A K+V
Sbjct: 582 EAHKQV 587
Score = 47.9 bits (113), Expect = 6e-06
Identities = 38/199 (19%), Positives = 70/199 (35%), Gaps = 45/199 (22%)
Query: 19 IEQEANAIGDDADVQKQIK------HMMAFIEQEANEKAEEIDAKAEEEFNIEKGR---- 68
+ N + + V+KQ K + + E + + +NI K
Sbjct: 404 VMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDD 463
Query: 69 -------------LVQHQRLKIMEYYDRKE--KQVEL-----QKKIQSSNMLNQARLKAL 108
+ H LK +E+ +R + V L ++KI+ + A L
Sbjct: 464 LIPPYLDQYFYSHIGHH--LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSIL 521
Query: 109 KVREDHVRNVLDEARKRLGEVTKNRDKYTQLIEKLIIQGLLQLLEPNVLIRSREVDKDIV 168
N L + + + N KY +L+ ++ L +E N LI S+ D++
Sbjct: 522 --------NTLQQLKFYKPYICDNDPKYERLVNAIL--DFLPKIEEN-LICSK--YTDLL 568
Query: 169 NAVLPNVAKAYQDVAGKEV 187
L +A + A K+V
Sbjct: 569 RIALMAEDEAIFEEAHKQV 587
>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 = 63.5 bits (154), Expect = 9e-11
Identities = 55/372 (14%), Positives = 109/372 (29%), Gaps = 137/372 (36%)
Query: 11 QIKHM-MAFIEQ--EANAIGDDADVQKQIKHMMA---F----IEQEANEKAEEIDAKAEE 60
Q + M M + A + + AD H F I N I
Sbjct: 1627 QEQGMGMDLYKTSKAAQDVWNRAD-----NHFKDTYGFSILDIVIN-NPVNLTI------ 1674
Query: 61 EFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKKIQSSNMLNQARLKALKVREDHVRNVLD 120
F EKG+ +I E Y + + K+++ + + + + +L
Sbjct: 1675 HFGGEKGK-------RIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLS 1727
Query: 121 EARKRLGEVTKNRDKYTQ----LIEKLIIQGLLQLLEPNVLIRSR-EVDKDIVNA----- 170
T+ TQ L+EK + ++S+ + D A
Sbjct: 1728 A--------TQF----TQPALTLMEKAAFE----------DLKSKGLIPADATFAGHSLG 1765
Query: 171 ---VLPNVAKAYQDVAGKEVNLKLDNDQFLPVDTTGGIELLAQRGKIKISNTLEARLELI 227
L + +A + +++ +E++ RG +
Sbjct: 1766 EYAAL--AS-----LAD-----------VMSIESL--VEVVFYRGM--------TMQVAV 1797
Query: 228 AQQIIPDIRVAIFGRNPNLMALSDADVQKQIKHMMAFIEQEANEK-AEEIDAKAEE--E- 283
+ + + NP +A S QEA + E + + E
Sbjct: 1798 PRDELGRSNYGMIAINPGRVAAS--------------FSQEALQYVVERVGKRTGWLVEI 1843
Query: 284 --FNIEKGRLVQHQRLKIMEYYDRKEKQV----ELQKKIQS-SNMLNQARLKALKVREDH 336
+N+E +Q +L + + + +N+LN +L+ + + E
Sbjct: 1844 VNYNVE-N------------------QQYVAAGDL-RALDTVTNVLNFIKLQKIDIIELQ 1883
Query: 337 VRNVLDEARKRL 348
L+E L
Sbjct: 1884 KSLSLEEVEGHL 1895
Score = 47.0 bits (111), Expect = 1e-05
Identities = 84/528 (15%), Positives = 157/528 (29%), Gaps = 182/528 (34%)
Query: 16 MAFIEQ--EANAIGDDADVQKQIKHMMAFIEQE---ANEKAEEIDAKAEEEFNIEKGRLV 70
+ ++ E + +G V + + E N+ I A A + LV
Sbjct: 65 LGYVSSLVEPSKVGQFDQV---LNLCLTEFENCYLEGND----IHALAAKLLQENDTTLV 117
Query: 71 QHQRLKIMEYYD-RKEKQVELQKKIQSSNMLNQARLKALKVREDHVR---------NV-- 118
+ + L I Y R + KK S+ L +A V E + + N
Sbjct: 118 KTKEL-IKNYITARIMAKRPFDKKSNSA--LFRA------VGEGNAQLVAIFGGQGNTDD 168
Query: 119 -LDEARKRLGEVTKNRDKYTQLIEKLIIQGLLQLLEPNVLIRSREVDKDIVNAVLPNVAK 177
+E R L + Y L+ LI + L LIR+ + K
Sbjct: 169 YFEELRD-LYQT------YHVLVGDLIKF-SAETLSE--LIRTT-----------LDAEK 207
Query: 178 AYQDVAGKEVNLKLDNDQFL--PVDTTGGIELLAQRGKIKISNTLEARLELIA--Q--QI 231
+ L+ ++L P T + L I IS LI Q
Sbjct: 208 VFTQG--------LNILEWLENP-SNTPDKDYLLS---IPIS------CPLIGVIQLAHY 249
Query: 232 IPDIRVAIFGRNP-----NLMALS--DADVQKQIKHMMAFIEQEANEKAEEIDAKAEEEF 284
+ ++ G P L + + I + + E F
Sbjct: 250 VVTAKLL--GFTPGELRSYLKGATGHSQGLV-----TAVAIAE----------TDSWESF 292
Query: 285 --NIEKGRLVQHQRLKIM--------EYYDRK-------EKQVELQKKIQSSNMLNQARL 327
++ K + ++ E Y E +E + + S ML+
Sbjct: 293 FVSVRKA-------ITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSP-MLS---- 340
Query: 328 KALKVR---EDHVRNVLDEARKRLGEVTKNRDKYTQLI---EKLIIQGL---LQLLEPNV 378
+ ++ V++ +++ L + L+ + L++ G L L N+
Sbjct: 341 ----ISNLTQEQVQDYVNKTNSHLPA---GKQVEISLVNGAKNLVVSGPPQSLYGL--NL 391
Query: 379 LIRSREVDKDIVNAVLPNVAKAYQDVAGKEVNLKLDNDQFLPV----------DTTGGIE 428
+R + + + +P + LK N +FLPV + I
Sbjct: 392 TLRKAKAPSGLDQSRIPFSERK----------LKFSN-RFLPVASPFHSHLLVPASDLIN 440
Query: 429 LLAQRGKIKIS---------NTLEAR-LELIAQQIIPDIRVAIFGRNP 466
+ + + +T + L +++ I I I R P
Sbjct: 441 KDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCII-RLP 487
Score = 41.2 bits (96), Expect = 7e-04
Identities = 31/246 (12%), Positives = 69/246 (28%), Gaps = 92/246 (37%)
Query: 257 QIKHM-MAFIEQ--EANEKAEEIDAKAEEE--FNI-----------------EKGRLVQH 294
Q + M M + A + D ++ F+I EKG+
Sbjct: 1627 QEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGK---- 1682
Query: 295 QRLKIMEYYDRKEKQVELQKKIQSSNMLNQARLKALKVREDHVRNVLDEARKRLGEVTKN 354
+I E Y + + K+++ + + + + +L T+
Sbjct: 1683 ---RIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSA--------TQF 1731
Query: 355 RDKYTQ----LIEKLIIQGLLQLLEPNVLIRSR-EVDKDIVNA--------VLPNVAKAY 401
TQ L+EK + ++S+ + D A L +
Sbjct: 1732 ----TQPALTLMEKAAFE----------DLKSKGLIPADATFAGHSLGEYAAL--AS--- 1772
Query: 402 QDVAGKEVNLKLDNDQFLPVDTTGGIELLAQRGKIKISNTLEARLELIAQQIIPDIRVAI 461
+A + +++ +E++ RG + + + +
Sbjct: 1773 --LAD-----------VMSIESL--VEVVFYRGM--------TMQVAVPRDELGRSNYGM 1809
Query: 462 FGRNPN 467
NP
Sbjct: 1810 IAINPG 1815
Score = 32.3 bits (73), Expect = 0.47
Identities = 33/183 (18%), Positives = 54/183 (29%), Gaps = 70/183 (38%)
Query: 143 LIIQGLLQLLEPNVLIRSREVDKDI--VNAVLP----------NVAKAYQDVAG-----K 185
L I L Q +V + N+ LP N AK V+G
Sbjct: 339 LSISNLTQ----------EQVQDYVNKTNSHLPAGKQVEISLVNGAKNLV-VSGPPQSLY 387
Query: 186 EVNLKL-------DNDQ---------------FLPVDT---TGGIELLAQRGKIKISNTL 220
+NL L DQ FLPV + + LL I+ L
Sbjct: 388 GLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHS---HLLVPASD-LINKDL 443
Query: 221 EARLELIAQQIIPDIRVAIF----GRNPNLMALSDADVQKQIKHMMAFIEQEAN-EKAEE 275
+ DI++ ++ G + + + + ++I + I E +
Sbjct: 444 VKNNVSFNAK---DIQIPVYDTFDGSD---LRVLSGSISERIVDCI--IRLPVKWETTTQ 495
Query: 276 IDA 278
A
Sbjct: 496 FKA 498
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 37.1 bits (85), Expect = 0.005
Identities = 11/74 (14%), Positives = 27/74 (36%), Gaps = 8/74 (10%)
Query: 43 IEQEANEKAEEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKKIQSSNMLNQ 102
I + E+ + + + + + + + E+ R+ +QVE K N+
Sbjct: 87 IRKWREEQRKRLQELDAAS-KVMEQEWREKAKKDLEEWNQRQSEQVEKNKI------NNR 139
Query: 103 ARLKA-LKVREDHV 115
KA + + +
Sbjct: 140 IADKAFYQQPDADI 153
Score = 37.1 bits (85), Expect = 0.005
Identities = 11/74 (14%), Positives = 27/74 (36%), Gaps = 8/74 (10%)
Query: 265 IEQEANEKAEEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKKIQSSNMLNQ 324
I + E+ + + + + + + + E+ R+ +QVE K N+
Sbjct: 87 IRKWREEQRKRLQELDAAS-KVMEQEWREKAKKDLEEWNQRQSEQVEKNKI------NNR 139
Query: 325 ARLKA-LKVREDHV 337
KA + + +
Sbjct: 140 IADKAFYQQPDADI 153
Score = 32.1 bits (72), Expect = 0.26
Identities = 16/86 (18%), Positives = 28/86 (32%), Gaps = 15/86 (17%)
Query: 53 EIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKKIQSSNMLNQARLKAL---- 108
+ D +E +I K R Q +RL +E + Q +A+ K L
Sbjct: 76 QADRLTQEPESIRKWREEQRKRL--------QELDAASKVMEQE--WREKAK-KDLEEWN 124
Query: 109 KVREDHVRNVLDEARKRLGEVTKNRD 134
+ + + V R + D
Sbjct: 125 QRQSEQVEKNKINNRIADKAFYQQPD 150
Score = 32.1 bits (72), Expect = 0.26
Identities = 16/86 (18%), Positives = 28/86 (32%), Gaps = 15/86 (17%)
Query: 275 EIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKKIQSSNMLNQARLKAL---- 330
+ D +E +I K R Q +RL +E + Q +A+ K L
Sbjct: 76 QADRLTQEPESIRKWREEQRKRL--------QELDAASKVMEQE--WREKAK-KDLEEWN 124
Query: 331 KVREDHVRNVLDEARKRLGEVTKNRD 356
+ + + V R + D
Sbjct: 125 QRQSEQVEKNKINNRIADKAFYQQPD 150
>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 = 35.3 bits (80), Expect = 0.017
Identities = 14/57 (24%), Positives = 21/57 (36%), Gaps = 27/57 (47%)
Query: 210 QRGKIKISNTLEARLELIAQQIIPDIRVAIFGRNPNLMALSDADVQKQIKHMMAFIE 266
++ +K L+A L+L A D P AL+ IK A +E
Sbjct: 18 EKQALK---KLQASLKLYA----DD-------SAP---ALA-------IK---ATME 47
Score = 33.0 bits (74), Expect = 0.080
Identities = 8/36 (22%), Positives = 15/36 (41%), Gaps = 13/36 (36%)
Query: 432 QRGKIKISNTLEARLELIAQQIIPD------IRVAI 461
++ +K L+A L+L A D I+ +
Sbjct: 18 EKQALK---KLQASLKLYA----DDSAPALAIKATM 46
Score = 32.2 bits (72), Expect = 0.14
Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 17/35 (48%)
Query: 85 EKQVELQKKIQSSNMLNQARLK--------ALKVR 111
EKQ L KK+Q+S LK AL ++
Sbjct: 18 EKQ-AL-KKLQAS-------LKLYADDSAPALAIK 43
Score = 32.2 bits (72), Expect = 0.14
Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 17/35 (48%)
Query: 307 EKQVELQKKIQSSNMLNQARLK--------ALKVR 333
EKQ L KK+Q+S LK AL ++
Sbjct: 18 EKQ-AL-KKLQAS-------LKLYADDSAPALAIK 43
Score = 28.8 bits (63), Expect = 2.2
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 20/46 (43%)
Query: 134 DKYTQLIEKLIIQGLLQLLEPNVLIRSREVDKDIVNAVLPNVA-KA 178
+K Q ++KL Q L+L + +A P +A KA
Sbjct: 18 EK--QALKKL--QASLKLYADD-------------SA--PALAIKA 44
Score = 28.8 bits (63), Expect = 2.2
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 20/46 (43%)
Query: 356 DKYTQLIEKLIIQGLLQLLEPNVLIRSREVDKDIVNAVLPNVA-KA 400
+K Q ++KL Q L+L + +A P +A KA
Sbjct: 18 EK--QALKKL--QASLKLYADD-------------SA--PALAIKA 44
Score = 27.2 bits (59), Expect = 7.8
Identities = 9/34 (26%), Positives = 18/34 (52%), Gaps = 5/34 (14%)
Query: 33 QKQ-IKHMMAFIEQEANEKAEEIDAKAEEEFNIE 65
+KQ +K + A ++ A++ A + KA +E
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKA----TME 47
Score = 27.2 bits (59), Expect = 7.8
Identities = 9/34 (26%), Positives = 18/34 (52%), Gaps = 5/34 (14%)
Query: 255 QKQ-IKHMMAFIEQEANEKAEEIDAKAEEEFNIE 287
+KQ +K + A ++ A++ A + KA +E
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKA----TME 47
>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 = 35.6 bits (82), Expect = 0.037
Identities = 40/332 (12%), Positives = 105/332 (31%), Gaps = 21/332 (6%)
Query: 34 KQIKHMMAFIEQEANEKAEEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKK 93
++ K E E E ++ EE+ ++ +Q + E + + + +++
Sbjct: 867 QRTKERQQKAEAELKELEQKHTQLCEEKNLLQ--EKLQAETELYAEAEEMRVRLAAKKQE 924
Query: 94 IQSSNMLNQARLKALKVREDHVRNVLDEARKRLGEVTKNRDKYTQLIEKLIIQGLLQLLE 153
++ +AR++ + R ++ + ++++ ++ + ++ +KL ++
Sbjct: 925 LEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLE------- 977
Query: 154 PNVLIRSREVDKDIVNAVLPNVAKAYQDVAGKEVNLKLDNDQFLPVDTTGGIELLAQRGK 213
+ + + + + + + L+ L + K
Sbjct: 978 ----KVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTT-------NLAEEEEK 1026
Query: 214 IKISNTLEARLELIAQQIIPDIRVAIFGRNPNLMALSDADVQKQIKHMMAFIEQEANEKA 273
K L+ + E + ++ ++ R + + H Q +
Sbjct: 1027 AKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAEL 1086
Query: 274 EEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKKIQSSNMLNQARLKALKVR 333
+ AK EEE RL K +E + + + AR KA K +
Sbjct: 1087 KAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQK 1146
Query: 334 EDHVRNVLDEARKRLGEVTKNRDKYTQLIEKL 365
D L+ + L + +L
Sbjct: 1147 RDLSEE-LEALKTELEDTLDTTATQQELRGSD 1177
Score = 28.3 bits (63), Expect = 8.0
Identities = 21/126 (16%), Positives = 59/126 (46%), Gaps = 8/126 (6%)
Query: 248 ALSDADVQKQIKHMMAFIEQ--EANEKAEEIDAKAEEEF---NIEKGRLVQHQRLKIMEY 302
L +++++ +++ E +KAE + E++ EK L + + + Y
Sbjct: 849 LLKVTRQEEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELY 908
Query: 303 YDRKEKQVELQ-KKIQSSNMLN--QARLKALKVREDHVRNVLDEARKRLGEVTKNRDKYT 359
+ +E +V L KK + +L+ +AR++ + R ++ + ++++ ++ + ++
Sbjct: 909 AEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEE 968
Query: 360 QLIEKL 365
+KL
Sbjct: 969 AARQKL 974
>3nyb_A Poly(A) RNA polymerase protein 2; polya RNA polymerase, zinc
knuckle protein, RNA surveillance binds to TRF4P/AIR2P
heterodimer; 2.70A {Saccharomyces cerevisiae}
Length = 323
Score = 33.2 bits (75), Expect = 0.15
Identities = 12/89 (13%), Positives = 35/89 (39%), Gaps = 2/89 (2%)
Query: 218 NTLEARLELIAQQIIPDIRVAIFGRNPNLMALSDADVQKQIKHMMAFIEQEANEKAEEID 277
N + + +Q+ PD + +FG + L +D+ +E+ +
Sbjct: 43 NQTISTIREAVKQLWPDADLHVFGSYSTDLYLPGSDI--DCVVTSELGGKESRNNLYSLA 100
Query: 278 AKAEEEFNIEKGRLVQHQRLKIMEYYDRK 306
+ +++ + +V R+ I+++ +
Sbjct: 101 SHLKKKNLATEVEVVAKARVPIIKFVEPH 129
>4ep7_A Poly(A) RNA polymerase protein CID1; poly(U) polymerase, UTP
binding, transferase; HET: UTP; 2.28A
{Schizosaccharomyces pombe}
Length = 340
Score = 33.2 bits (75), Expect = 0.19
Identities = 16/103 (15%), Positives = 36/103 (34%), Gaps = 5/103 (4%)
Query: 214 IKISNTLEARLELIAQQIIPDIRVAIFGRNPNLMALSDADVQKQIKHMMAFIEQEANEKA 273
K L L ++I PD + FG + +AL ++D+ + ++
Sbjct: 25 FKEKRAALDTLRLCLKRISPDAELVAFGSLESGLALKNSDMD-----LCVLMDSRVQSDT 79
Query: 274 EEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKKI 316
+ E +G+ +Q R+ I++ + +
Sbjct: 80 IALQFYEELIAEGFEGKFLQRARIPIIKLTSDTKNGFGASFQC 122
>2ipc_A Preprotein translocase SECA subunit; nucleotide binding fold,
ATPase, parallel dimer; 2.80A {Thermus thermophilus}
Length = 997
Score = 32.5 bits (74), Expect = 0.32
Identities = 40/309 (12%), Positives = 90/309 (29%), Gaps = 42/309 (13%)
Query: 44 EQEANEKAEEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKKIQSSNMLNQA 103
+EA A+ +K GR + EY + E + + L
Sbjct: 555 AREAEIVAQAGRSKTVTIATNMAGRGTDIKLGGNPEYLAAALLEKEGFDRYEWKVELFIK 614
Query: 104 RLKALKVREDHVRNVLDEARKRLGEVTKNRDKYTQLIEKLIIQGLLQLLEPNVLIRSREV 163
++ A K E R+ L E + + + E+ + + SR +
Sbjct: 615 KMVAGKEEEARALAQELGIREELLERIREIREECKQDEERVRALGGLFIIGTERHESRRI 674
Query: 164 DKDIVNAVL----PNVAKAY-------------QDVAGKEVNLKLDNDQFLPVDTTGGIE 206
D + P ++ Y V + D+ + +
Sbjct: 675 DNQLRGRAGRQGDPGGSRFYVSFDDDLMRLFASDRVIAMLDRMGFDDSEPIEHPMVTRSI 734
Query: 207 LLAQRGKIKISNTLEARLELIAQQIIPDIRVAIFGRNPNLMALSDADVQKQIKHMM---- 262
AQ+ +++ N + L ++ R I+ + ++ D +V++ M+
Sbjct: 735 ERAQK-RVEDRNFAIRKQLLQFDDVLSRQREVIYAQRRLILLGKDEEVKEAAIGMVEETV 793
Query: 263 -AFIEQEANEKAEE-------------------IDAKAEEEFNIEKGRLVQHQRLKIMEY 302
+ E N + D E ++ V+ ++
Sbjct: 794 ASLAENFLNPEVHPEDWDLEGLKATLLDTAPQLQDFPFAELRALKAEEAVERLVEAALKA 853
Query: 303 YDRKEKQVE 311
Y+ +E ++
Sbjct: 854 YEAREAELS 862
>2o8r_A Polyphosphate kinase; structural genomics, protein structure
initiative, PSI, nysgrc, NEW YORK structural genomics
research consortium; HET: MSE; 2.70A {Porphyromonas
gingivalis} SCOP: a.7.15.1 d.322.1.2 d.136.1.4 d.136.1.4
Length = 705
Score = 29.0 bits (66), Expect = 4.3
Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 3/71 (4%)
Query: 29 DADVQKQIKHMMAFIEQEANEKAEEIDAKAEEEFNIEKGR-LVQHQRLKIMEYYDRKEKQ 87
D ++++I ++ I+ N KA ID+ + V+ Q I Y KE+
Sbjct: 635 DPTLRREIIDILE-IQLRDNIKACRIDSSLNNIYKHNSDEKPVRAQA-AIYRYLKGKEET 692
Query: 88 VELQKKIQSSN 98
K+ +
Sbjct: 693 TPAAKEGHHHH 703
Score = 29.0 bits (66), Expect = 4.3
Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 3/71 (4%)
Query: 251 DADVQKQIKHMMAFIEQEANEKAEEIDAKAEEEFNIEKGR-LVQHQRLKIMEYYDRKEKQ 309
D ++++I ++ I+ N KA ID+ + V+ Q I Y KE+
Sbjct: 635 DPTLRREIIDILE-IQLRDNIKACRIDSSLNNIYKHNSDEKPVRAQA-AIYRYLKGKEET 692
Query: 310 VELQKKIQSSN 320
K+ +
Sbjct: 693 TPAAKEGHHHH 703
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 28.5 bits (64), Expect = 5.3
Identities = 19/158 (12%), Positives = 48/158 (30%), Gaps = 2/158 (1%)
Query: 211 RGKIKISNTLEARLELIAQQIIPDIRVAIFGRNPNLMALSDADVQKQIKHMMAFIEQEAN 270
RG R A I R+ + + M + +Q ++ + +
Sbjct: 802 RGHQARCYATFLRRTRAAIIIQKFQRMYVVRKRYQCMRDATIALQALLRGYLV--RNKYQ 859
Query: 271 EKAEEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKKIQSSNMLNQARLKAL 330
E + ++ V + R Y + + + K+ + ++
Sbjct: 860 MMLREHKSIIIQKHVRGWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERY 919
Query: 331 KVREDHVRNVLDEARKRLGEVTKNRDKYTQLIEKLIIQ 368
K + N + + ++++ E K + + L I
Sbjct: 920 KKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEIT 957
>2yzs_A Putative uncharacterized protein; uncharacterized conserved
protein, structural genomics, unknown function, NPPSFA;
2.00A {Aquifex aeolicus}
Length = 315
Score = 28.2 bits (63), Expect = 5.5
Identities = 18/111 (16%), Positives = 46/111 (41%), Gaps = 15/111 (13%)
Query: 66 KGRLVQHQRLKIMEYYDRKEKQVELQKKIQSSNMLNQARLKALKVREDHVRNVLDEARKR 125
+ + H +K +E+Y +K++ L K ++LN + + D +
Sbjct: 78 ESSVSGHLLIKQVEHYLDAQKRLYLAKSFVIGSILNLEYV---------YKISADTYLNK 128
Query: 126 LGEVTKNRDKYTQLIE----KLIIQGLLQLLEPNVLIRSREVDKDIVNAVL 172
+ E + + +E KL + L ++ + R++ ++ +NA++
Sbjct: 129 VKETNSIPELMS--VEAEFRKLCYKKLEEVTGWELEKRTKRPPQNPLNALI 177
Score = 28.2 bits (63), Expect = 5.5
Identities = 18/111 (16%), Positives = 46/111 (41%), Gaps = 15/111 (13%)
Query: 288 KGRLVQHQRLKIMEYYDRKEKQVELQKKIQSSNMLNQARLKALKVREDHVRNVLDEARKR 347
+ + H +K +E+Y +K++ L K ++LN + + D +
Sbjct: 78 ESSVSGHLLIKQVEHYLDAQKRLYLAKSFVIGSILNLEYV---------YKISADTYLNK 128
Query: 348 LGEVTKNRDKYTQLIE----KLIIQGLLQLLEPNVLIRSREVDKDIVNAVL 394
+ E + + +E KL + L ++ + R++ ++ +NA++
Sbjct: 129 VKETNSIPELMS--VEAEFRKLCYKKLEEVTGWELEKRTKRPPQNPLNALI 177
>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA
binding domain, poly(A polymerase, mitochondria,
transferase; 3.10A {Homo sapiens}
Length = 464
Score = 27.9 bits (61), Expect = 7.6
Identities = 20/123 (16%), Positives = 37/123 (30%), Gaps = 7/123 (5%)
Query: 214 IKISNTLEARLELIAQQIIPDIRVAIFGRNPNLMALSDADVQKQIKHMMAFIEQEANEKA 273
K+ + +E +A PD V FG + N D+ M +++ N A
Sbjct: 152 TKLRYLTCSLIEDMAAAYFPDCIVRPFGSSVNTFGKLGCDLD-----MFLDLDETRNLSA 206
Query: 274 EEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKKIQSSNMLNQARLKALKVR 333
+I EF ++ + KI+ + AR ++
Sbjct: 207 HKISGNFLMEFQVKNVPSERIATQKILSVLGECLDH--FGPGCVGVQKILNARCPLVRFS 264
Query: 334 EDH 336
Sbjct: 265 HQA 267
>4e8f_A Poly(A) RNA polymerase protein CID1; beta polymerase-like
nucleotidyl transferase, terminal uridi transferase,
UTP, cytoplasmic; 2.60A {Schizosaccharomyces pombe
972h-} PDB: 4e7x_A* 4e80_A
Length = 405
Score = 27.5 bits (60), Expect = 9.6
Identities = 16/103 (15%), Positives = 36/103 (34%), Gaps = 5/103 (4%)
Query: 214 IKISNTLEARLELIAQQIIPDIRVAIFGRNPNLMALSDADVQKQIKHMMAFIEQEANEKA 273
K L L ++I PD + FG + +AL ++D+ + ++
Sbjct: 62 FKEKRAALDTLRLCLKRISPDAELVAFGSLESGLALKNSDMD-----LCVLMDSRVQSDT 116
Query: 274 EEIDAKAEEEFNIEKGRLVQHQRLKIMEYYDRKEKQVELQKKI 316
+ E +G+ +Q R+ I++ + +
Sbjct: 117 IALQFYEELIAEGFEGKFLQRARIPIIKLTSDTKNGFGASFQC 159
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
0.316 0.133 0.350
Gapped
Lambda K H
0.267 0.0439 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,999,175
Number of extensions: 456672
Number of successful extensions: 1612
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1556
Number of HSP's successfully gapped: 122
Length of query: 467
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 370
Effective length of database: 3,993,456
Effective search space: 1477578720
Effective search space used: 1477578720
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (27.2 bits)