RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1686
(448 letters)
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 380 bits (976), Expect = e-130
Identities = 206/360 (57%), Positives = 262/360 (72%), Gaps = 18/360 (5%)
Query: 1 SIAAAKVQEVREITRVERVGAHSHIRGLGLDDSLEPRKVSQGMVGQLQARRAAGVVLGMI 60
A KV E+R++TR+ER+GAHSHIRGLGLDD+LEPR+ SQGMVGQL ARRAAGVVL MI
Sbjct: 4 VTATTKVPEIRDVTRIERIGAHSHIRGLGLDDALEPRQASQGMVGQLAARRAAGVVLEMI 63
Query: 61 KEEV---VMVWPCVMCGRGKNPQKV---KKISTATGREEEPDYDGWLADVTKDLRCP--- 111
+E V G GK + + + T + + +++K
Sbjct: 64 REGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKTEALTQAF 123
Query: 112 --DGELQKRKTVVHTVTLHEIDVINSRTHGFLALFAGDTGEITPEVREQISAKVTEWREE 169
++ + VHTV+LHEIDVINSRT GFLALF+GDTGEI EVREQI+AKV EWREE
Sbjct: 124 RRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREE 183
Query: 170 GKAEIVPGVLFIDEVHMLDIECFSFLNRALESEMSPVVITATNRGVTKIRGTAYSSPHGI 229
GKAEI+PGVLFIDEVHMLDIE FSFLNRALES+M+PV+I ATNRG+T+IRGT+Y SPHGI
Sbjct: 184 GKAEIIPGVLFIDEVHMLDIESFSFLNRALESDMAPVLIMATNRGITRIRGTSYQSPHGI 243
Query: 230 PIDLLDRMVIIPTQPYQDEEIQAILKIRL------MQTDGLRVLTKIALDTSLRYAIQLI 283
PIDLLDR++I+ T PY +++ + IL+IR M D VLT+I L+TSLRYAIQLI
Sbjct: 244 PIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLI 303
Query: 284 TTASVVCRRRKATEICMEDIRKVYALFLDEGRSTQYLREHQNEYMFDSTVTGGAGDTKME 343
T AS+VCR+RK TE+ ++DI++VY+LFLDE RSTQY++E+Q+ ++F+ + G DT +E
Sbjct: 304 TAASLVCRKRKGTEVQVDDIKRVYSLFLDESRSTQYMKEYQDAFLFN-ELKGETMDTSLE 362
Score = 71.9 bits (176), Expect = 7e-14
Identities = 43/64 (67%), Positives = 50/64 (78%)
Query: 350 CPDGELQKRKTVVHTVTLHEIDVINSRTHGFLALFAGDTGEITPEVREQISAKVTEWREE 409
++ + VHTV+LHEIDVINSRT GFLALF+GDTGEI EVREQI+AKV EWREE
Sbjct: 124 RRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREE 183
Query: 410 GHSE 413
G +E
Sbjct: 184 GKAE 187
>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding,
chromatin regulator, growth regulation, hydrolase,
nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo
sapiens} PDB: 2xsz_A*
Length = 456
Score = 292 bits (748), Expect = 1e-94
Identities = 102/266 (38%), Positives = 159/266 (59%), Gaps = 19/266 (7%)
Query: 77 KNPQKVKKISTATGREEEPDYDGWLADVTKDLRCPDGELQKRKTVVHTVTLHEIDVINSR 136
N VK+ ++D + + + P G++ K+K ++ VTLH++DV N+R
Sbjct: 195 ANSGAVKRQGRCDTYAT--EFD---LEAEEYVPLPKGDVHKKKEIIQDVTLHDLDVANAR 249
Query: 137 THG-------FLALFAGDTGEITPEVREQISAKVTEWREEGKAEIVPGVLFIDEVHMLDI 189
G L EIT ++R +I+ V ++ ++G AE+VPGVLF+DEVHMLDI
Sbjct: 250 PQGGQDILSMMGQLMKPKKTEITDKLRGEINKVVNKYIDQGIAELVPGVLFVDEVHMLDI 309
Query: 190 ECFSFLNRALESEMSPVVITATNRGVTKIRGTA-YSSPHGIPIDLLDRMVIIPTQPYQDE 248
ECF++L+RALES ++P+VI A+NRG IRGT +SPHGIP+DLLDR++II T Y +
Sbjct: 310 ECFTYLHRALESSIAPIVIFASNRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQ 369
Query: 249 EIQAILKIRL------MQTDGLRVLTKIALDTSLRYAIQLITTASVVCRRRKATEICMED 302
E++ I+KIR + + L L +I T+LRY++QL+T A+++ + I E
Sbjct: 370 EMKQIIKIRAQTEGINISEEALNHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEH 429
Query: 303 IRKVYALFLDEGRSTQYLREHQNEYM 328
+ ++ LF D S + L + Q++YM
Sbjct: 430 VEEISELFYDAKSSAKILADQQDKYM 455
Score = 92.0 bits (228), Expect = 3e-20
Identities = 25/87 (28%), Positives = 47/87 (54%), Gaps = 7/87 (8%)
Query: 337 AGDTKMEVDKFVQCPDGELQKRKTVVHTVTLHEIDVINSRTHG-------FLALFAGDTG 389
A + +E +++V P G++ K+K ++ VTLH++DV N+R G L
Sbjct: 210 ATEFDLEAEEYVPLPKGDVHKKKEIIQDVTLHDLDVANARPQGGQDILSMMGQLMKPKKT 269
Query: 390 EITPEVREQISAKVTEWREEGHSEKNR 416
EIT ++R +I+ V ++ ++G +E
Sbjct: 270 EITDKLRGEINKVVNKYIDQGIAELVP 296
Score = 73.1 bits (179), Expect = 4e-14
Identities = 25/57 (43%), Positives = 42/57 (73%)
Query: 6 KVQEVREITRVERVGAHSHIRGLGLDDSLEPRKVSQGMVGQLQARRAAGVVLGMIKE 62
K++EV+ T+ +R+ +HSH++GLGLD+S ++ + G+VGQ AR A GV++ +IK
Sbjct: 2 KIEEVKSTTKTQRIASHSHVKGLGLDESGLAKQAASGLVGQENAREACGVIVELIKS 58
>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 = 50.4 bits (120), Expect = 9e-07
Identities = 60/444 (13%), Positives = 122/444 (27%), Gaps = 159/444 (35%)
Query: 86 STATGREEEP--------DYDGWLADVTKDLRCPDGELQKRKTVVHTVT-------LHEI 130
+ ++EP + G+++ ++ + V++ L
Sbjct: 45 TEGFAADDEPTTPAELVGKFLGYVSS-----LVEPSKVGQFDQVLNLCLTEFENCYLEGN 99
Query: 131 DVINSRTHGFLALFAGDTGEITPEVREQISAKVTEWREEGKAEIVPGVLFIDEVHMLDIE 190
D+ H A + + +E I + A I+
Sbjct: 100 DI-----HALAAKLLQENDTTLVKTKELIKNYI-------TARIM--------------- 132
Query: 191 CFSFLNRALESEMSPVVITATNRGVTKI------RGTA----------YSSPHGIPIDLL 234
R + + + + A G ++ +G Y + H + DL+
Sbjct: 133 ----AKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLI 188
Query: 235 DRMVIIPTQPYQDEEIQAILKIRLMQTDGLRVLT-----KIALDTS-LRYA------IQL 282
E I+ L + T GL +L D L I +
Sbjct: 189 KFS-----AETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGV 243
Query: 283 ITTAS--VVCR-----------RRKATEICMEDIRKVYAL----------FLDEGRST-Q 318
I A V + K + + V A+ F R
Sbjct: 244 IQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGL--VTAVAIAETDSWESFFVSVRKAIT 301
Query: 319 YL-----REHQ-------NEYMFDSTVTGGAGD-TKM---------EVDKFVQCPDGELQ 356
L R ++ + + ++ G + M +V +V + L
Sbjct: 302 VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLP 361
Query: 357 KRKTVVHTVTLHEIDVINSRTH----GF-LALFAGDTGEITPEVREQ-ISAKVTEWREEG 410
K V EI ++N + G +L+ + +R+ + + + R
Sbjct: 362 AGKQV-------EISLVNGAKNLVVSGPPQSLYGLNL-----TLRKAKAPSGLDQSRIP- 408
Query: 411 HSEKNRVKLTM-FLRGLIEGTVTA 433
SE+ ++K + FL V +
Sbjct: 409 FSER-KLKFSNRFLP------VAS 425
Score = 43.1 bits (101), Expect = 2e-04
Identities = 25/162 (15%), Positives = 51/162 (31%), Gaps = 63/162 (38%)
Query: 296 TEICMEDIRKVYALFLDEGRSTQYLREHQNEYMFDSTVTGGAGDTKMEVDKFVQCPDGEL 355
+I + + + F G + +RE+ + +F++ DG+L
Sbjct: 1662 LDIVINNPVNLTIHF--GGEKGKRIRENYSAMIFET------------------IVDGKL 1701
Query: 356 QKRKTVVHTVTLHEIDVINSRTHGFLALFAGDTGEITPEVREQ-----IS-AKVTEWREE 409
+ K + + H G L+ T + T Q + A + + +
Sbjct: 1702 KTEK-IFKEINEHSTSYTFRSEKGLLSA----T-QFT-----QPALTLMEKAAFEDLKSK 1750
Query: 410 ----------GHS--E-------------KNRVKLTMFLRGL 426
GHS E ++ V++ F RG+
Sbjct: 1751 GLIPADATFAGHSLGEYAALASLADVMSIESLVEVV-FYRGM 1791
Score = 39.6 bits (92), Expect = 0.002
Identities = 46/280 (16%), Positives = 91/280 (32%), Gaps = 94/280 (33%)
Query: 230 PIDLLDR---MVIIPTQPYQDEEIQAILKIRLM--QTDGLR------VLTKIA--LDTSL 276
P +L+ + V +P + + +L + L + L + K+ DT+L
Sbjct: 57 PAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTL 116
Query: 277 RYAIQLITT---ASVVCRR-----------RKATEICMEDIRKVYALFLDEGRSTQYLRE 322
+LI A ++ +R R E + + + A+F +G + Y E
Sbjct: 117 VKTKELIKNYITARIMAKRPFDKKSNSALFRAVGE---GNAQ-LVAIFGGQGNTDDYFEE 172
Query: 323 HQNEYMFDSTVTGGAGDT-KMEVDKFVQCPDGELQKR-KTVVHTVTLHE--IDVIN---- 374
++ Y T + V ++ L + +T + + ++++
Sbjct: 173 LRDLY-----------QTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLEN 221
Query: 375 -SRTHG--FLA-----------------LFAGDTGEITP-EVREQISAKVTEWREEGHSE 413
S T +L + TP E+R + T GHS+
Sbjct: 222 PSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG-AT-----GHSQ 275
Query: 414 KNRVKLTMFLRGLIEGTVTAKTLSSPN------KLLKMLF 447
GL+ A+T S + K + +LF
Sbjct: 276 -----------GLVTAVAIAETDSWESFFVSVRKAITVLF 304
Score = 35.0 bits (80), Expect = 0.060
Identities = 42/253 (16%), Positives = 68/253 (26%), Gaps = 98/253 (38%)
Query: 2 IAAAK-----VQEVREITRVE-RVGAHSH-------IRGLGLDDSLEPRKVSQG----MV 44
IA VR+ V +G + + L+DSLE ++G M+
Sbjct: 283 IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLE---NNEGVPSPML 339
Query: 45 GQLQARRAAGVVLGMIKEEVVMVWPCVMCGRGKNPQKVKKISTA----------TGREEE 94
+ + +E+V V P K++ + +G +
Sbjct: 340 ----------SISNLTQEQVQDY---VNKTNSHLPAG-KQVEISLVNGAKNLVVSGPPQS 385
Query: 95 PDYDGWLADVTKDLR---CPDGELQ------KRKTVV-----------HTVTLHE-IDVI 133
L + LR P G Q +RK H+ L D+I
Sbjct: 386 ------LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLI 439
Query: 134 NSRTHGFLALFAG--------DT----------GEITPEVREQISAKVTEWREEGKAEIV 175
N F DT G I+ + + I +W
Sbjct: 440 NKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKW--------- 490
Query: 176 PGVLFIDEVHMLD 188
H+LD
Sbjct: 491 ETTTQFKATHILD 503
>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 = 50.2 bits (119), Expect = 1e-06
Identities = 42/417 (10%), Positives = 110/417 (26%), Gaps = 131/417 (31%)
Query: 101 LADVTKDLRCPDGELQKRKTVVHTVTLHEIDVI------NSRTHGFLALFAGDTGEITPE 154
+ C D + + + + EID I S T E+ +
Sbjct: 26 EDAFVDNFDCKDVQDMPKSIL----SKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81
Query: 155 VREQISAK-----VTEWREEGKAEIVPGVLFIDEVHML--DIECFS--FLNRALESEMSP 205
E++ ++ + E + + ++I++ L D + F+ ++R
Sbjct: 82 FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSR-------L 134
Query: 206 VVITATNRGVTKIRGTAYSSPHGIPIDLLDRMV-----IIPTQPYQDEEIQAI------- 253
+ + ++R G ++ + ++Q
Sbjct: 135 QPYLKLRQALLELRPAKNVLIDG--------VLGSGKTWVALDVCLSYKVQCKMDFKIFW 186
Query: 254 LKIRLMQTDGLRVLTKIALDTSLRYAIQLITTASVVCRRRKATEICMEDIRKVYALFLDE 313
L ++ + + + L Y Q+ + ++ + I+ E
Sbjct: 187 LNLKNCNSPETV----LEMLQKLLY--QIDPNWTSRSDHSSNIKLRIHSIQ-------AE 233
Query: 314 GRSTQYLREHQNEYM-----FDSTVTGGAGDTKMEVDKF-VQCPDGELQKRKTVVHTVTL 367
R + ++N + ++ + F + C K ++ T
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKA----------WNAFNLSC--------KILLTTRFK 275
Query: 368 HEIDVINS--RTH--------GF-----LALFAGDTGEITPEVREQ-----------ISA 401
D +++ TH +L ++ + I+
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE 335
Query: 402 KVTE-------WREEGHSEKNRVKLTMFLRGLIEGTVTAKTLSSPN---KLLKMLFI 448
+ + W+ + + + L L P K+ L +
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTI-IESSLNVL-----------EPAEYRKMFDRLSV 380
Score = 41.8 bits (97), Expect = 4e-04
Identities = 75/498 (15%), Positives = 145/498 (29%), Gaps = 155/498 (31%)
Query: 16 VERVGAHSHIR-GLGLDDSLEPRK--VSQGMVG------QLQARRAAGVVLGM------- 59
V R+ + +R L L P K + G++G L + V M
Sbjct: 131 VSRLQPYLKLRQAL---LELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWL 187
Query: 60 -------IKEEVVMVW------PCVMCGRGKNPQKVKKISTATGREE------EPDY--- 97
+ + M+ R + + K+ + + E Y
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI-KLRIHSIQAELRRLLKSKPYENC 246
Query: 98 -----DGWLADVTK--DLRCPDGELQKRKTVVHTVTLHEIDVINSRTHGFLALFAGDTGE 150
+ A +L C K ++ T D +++ T ++L
Sbjct: 247 LLVLLNVQNAKAWNAFNLSC--------KILLTTRFKQVTDFLSAATTTHISLDHHSMT- 297
Query: 151 ITPEVREQISAKVTEWREEG-KAEIV---P------GVLFIDEVHMLD----IECFSFLN 196
+TP+ + + K + R + E++ P D + D + C L
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK-LT 356
Query: 197 RALES---EMSPVVITATNRGVTKIRGTAYSS----PHG--IPIDLLDRMVIIPTQPYQD 247
+ES + P A R + + P IP LL +I D
Sbjct: 357 TIIESSLNVLEP----AEYRKM-------FDRLSVFPPSAHIPTILL--SLIWFDVIKSD 403
Query: 248 EE--IQAILKIRLMQTDG-----------LRVLTKIALDTSLRYAIQLITTASVVCRRRK 294
+ + K L++ L + K+ + +L S+V
Sbjct: 404 VMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH--------RSIVDHYNI 455
Query: 295 ATEICMEDIRKVYALFLDEGRSTQYLREH-------QNEYMF----------------DS 331
+D+ Y + ++ H + +F DS
Sbjct: 456 PKTFDSDDLIPPY----LDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDS 511
Query: 332 T---VTGGAGDTKMEVDKF-----VQCPDGELQKRKTVVHTVTLHEIDVINSRTHGFL-- 381
T +G +T ++ + P E + ++ + E ++I S+ L
Sbjct: 512 TAWNASGSILNTLQQLKFYKPYICDNDPKYE-RLVNAILDFLPKIEENLICSKYTDLLRI 570
Query: 382 ALFAGDTGEITPEVREQI 399
AL A + I E +Q+
Sbjct: 571 ALMA-EDEAIFEEAHKQV 587
>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 386
Score = 38.1 bits (88), Expect = 0.004
Identities = 33/211 (15%), Positives = 58/211 (27%), Gaps = 26/211 (12%)
Query: 114 ELQKRKTVVHTVTLHEIDVINSRT-HGFLALFAGDTGEITPEVREQISAKVTEWREEGKA 172
+L K+ + I+ T + LA P I+ + +
Sbjct: 68 KLHKK--FLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRD 125
Query: 173 EIVPGVLFIDEVHML------DIECFSFLNRALESEMSPVVITATNRGVTKIRGTAYSSP 226
V+ +DE+ DI + ++ I TN
Sbjct: 126 YGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLLDPRVKS 185
Query: 227 HGIPIDLLDRMVIIPTQPYQDEEIQAILKIRLMQTDGLRVLTKIALD----------TSL 276
+ I PY EE++ IL R VL +
Sbjct: 186 SLSEEE-------IIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDA 238
Query: 277 RYAIQLITTASVVCRRRKATEICMEDIRKVY 307
R A+ L+ + + R K T++ E +
Sbjct: 239 RRALDLLRVSGEIAERMKDTKVKEEYVYMAK 269
>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA
replication initiation, DNA BIND protein, AAA+ ATPase;
HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11
c.37.1.20 PDB: 1w5t_A*
Length = 412
Score = 36.0 bits (82), Expect = 0.024
Identities = 14/82 (17%), Positives = 25/82 (30%), Gaps = 13/82 (15%)
Query: 240 IPTQPYQDEEIQAILKIRLMQTDGLRVLTKIALDT-------------SLRYAIQLITTA 286
+ Y+ E+ IL+ R V L+ S R AI + A
Sbjct: 210 LHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGSARRAIVALKMA 269
Query: 287 SVVCRRRKATEICMEDIRKVYA 308
+ + + +RK +
Sbjct: 270 CEMAEAMGRDSLSEDLVRKAVS 291
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 35.1 bits (81), Expect = 0.045
Identities = 26/158 (16%), Positives = 48/158 (30%), Gaps = 43/158 (27%)
Query: 177 GVLFIDEVHMLDIECFSFLNRALESEMSP----------------------VVITATNRG 214
GVLFIDE+ L ++ L A++ + P V++ A N
Sbjct: 203 GVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNL- 261
Query: 215 VTKIRGTAYSSPHGIPIDLLDRMVIIPTQPYQDEEIQAILKIRLM----------QTDGL 264
+ + L R+ + Y + ++ R + +
Sbjct: 262 ---------DTVDKMHPALRSRIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGKI 312
Query: 265 RVLTKIALDTSLRYAIQLITTAS-VVCRRRKATEICME 301
TK A++ +R A + + R R I
Sbjct: 313 PHFTKEAVEEIVREAQKRAGRKGHLTLRLRDLGGIVRA 350
>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA
replication initation factor, cell cycle control factor;
HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11
c.37.1.20
Length = 389
Score = 34.4 bits (78), Expect = 0.070
Identities = 25/175 (14%), Positives = 50/175 (28%), Gaps = 32/175 (18%)
Query: 178 VLFIDEVHMLDIECFSFLNRALESEMSP-------VVITATNRGVTKIRGTAYSSPHGIP 230
L +D+ L + S R + V++ + + + +
Sbjct: 128 FLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMG--- 184
Query: 231 IDLLDRMVIIPTQPYQDEEIQAILKIRLMQTDGLRVLTKIALD----------------T 274
+I PY ++I IL R ++ L
Sbjct: 185 ------KYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRG 238
Query: 275 SLRYAIQLITTASVVCRRRKATEICMEDIRKVYALFLDEGRSTQYLREHQNEYMF 329
R AI ++ ++ ++ I ED+RK L + +E +F
Sbjct: 239 DARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKEVLFGISEEVLIGLPLHEKLF 293
>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural
genomics, center for structural genomics; 2.80A
{Escherichia coli}
Length = 145
Score = 31.3 bits (72), Expect = 0.24
Identities = 8/38 (21%), Positives = 12/38 (31%), Gaps = 1/38 (2%)
Query: 177 GVLFIDEVHMLDIECFSFLNRALESEMSPV-VITATNR 213
G L + L E L + E P +I +
Sbjct: 78 GTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDT 115
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.5 bits (68), Expect = 0.74
Identities = 5/22 (22%), Positives = 10/22 (45%)
Query: 153 PEVREQISAKVTEWREEGKAEI 174
+ Q + +WREE + +
Sbjct: 77 ADRLTQEPESIRKWREEQRKRL 98
>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 = 28.8 bits (63), Expect = 2.2
Identities = 8/38 (21%), Positives = 15/38 (39%), Gaps = 10/38 (26%)
Query: 128 HEIDVINSRTHGFLALFAGDTGEITPEVREQISAKVTE 165
+ + + L L+A D+ P + I A + E
Sbjct: 20 QALKKLQAS----LKLYADDSA---PAL--AIKATM-E 47
Score = 28.8 bits (63), Expect = 2.2
Identities = 8/38 (21%), Positives = 15/38 (39%), Gaps = 10/38 (26%)
Query: 368 HEIDVINSRTHGFLALFAGDTGEITPEVREQISAKVTE 405
+ + + L L+A D+ P + I A + E
Sbjct: 20 QALKKLQAS----LKLYADDSA---PAL--AIKATM-E 47
>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase
domains, sensor 1, sensor 2, transferase; HET: DNA;
2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*
Length = 250
Score = 28.7 bits (65), Expect = 3.7
Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 13/57 (22%)
Query: 181 IDEVHMLDIECFSFLNRALESEMSPVV-ITATNRGVTKIRGTAYSSPHGIPIDLLDR 236
IDEVHML F+ L + LE V + AT + P +P+ +L R
Sbjct: 132 IDEVHMLSRHSFNALLKTLEEPPEHVKFLLAT------------TDPQKLPVTILSR 176
>1sgm_A Putative HTH-type transcriptional regulator YXAF; structural
genomics, PSI, protein structure initiative; 2.00A
{Bacillus subtilis} SCOP: a.4.1.9 a.121.1.1
Length = 191
Score = 28.0 bits (63), Expect = 4.9
Identities = 14/68 (20%), Positives = 25/68 (36%), Gaps = 9/68 (13%)
Query: 381 LALFAGDTGEITPEVREQISAKVTEW--------REEGHSEKNRVKLTMFLRGLIEG-TV 431
+ L A +T I+ +R W E G +E+ +L + +IEG +
Sbjct: 106 VGLLASETALISEPLRTVCMKVFKSWEAVFARKLMENGFAEEEANQLGTLINSMIEGGIM 165
Query: 432 TAKTLSSP 439
+ T
Sbjct: 166 LSLTNKDK 173
>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase,
nucleotide-binding, Pro serine protease, stress
response; HET: ADP; 3.40A {Bacillus subtilis} PDB:
1x37_A
Length = 543
Score = 28.6 bits (65), Expect = 5.2
Identities = 12/31 (38%), Positives = 15/31 (48%)
Query: 225 SPHGIPIDLLDRMVIIPTQPYQDEEIQAILK 255
+ IP L DRM II Y + E I+K
Sbjct: 233 NLATIPGPLRDRMEIINIAGYTEIEKLEIVK 263
>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic
subunit]; helicase, flavivirus, DEAD-BOX, ATPase,
rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP:
c.37.1.14 c.37.1.14 PDB: 1ymf_A*
Length = 440
Score = 28.3 bits (63), Expect = 5.2
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 4/44 (9%)
Query: 177 GVLFIDEVHMLDIECFSFLNRALESEMSP----VVITATNRGVT 216
V+ +DE H LD + A + +++TAT G +
Sbjct: 101 EVIIMDEAHFLDPASIAARGWAAHRARANESATILMTATPPGTS 144
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 27.6 bits (62), Expect = 5.3
Identities = 9/37 (24%), Positives = 15/37 (40%), Gaps = 4/37 (10%)
Query: 178 VLFIDEVHMLD----IECFSFLNRALESEMSPVVITA 210
L +D+V L FS NR S +++ +
Sbjct: 86 YLAVDQVEKLGNEEQALLFSIFNRFRNSGKGFLLLGS 122
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 28.3 bits (64), Expect = 5.5
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 10/44 (22%)
Query: 142 ALFAGDTGEITPEVREQISAKVTEWREEGKAEIVPGVLFIDEVH 185
A+ +G E+RE I + + R G+ I LF+DEVH
Sbjct: 83 AVTSG-----VKEIREAI-ERARQNRNAGRRTI----LFVDEVH 116
>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp,
clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A
{Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B*
3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*
Length = 373
Score = 28.0 bits (63), Expect = 7.4
Identities = 8/12 (66%), Positives = 8/12 (66%)
Query: 181 IDEVHMLDIECF 192
IDEVHML F
Sbjct: 125 IDEVHMLSRHSF 136
>2gno_A DNA polymerase III, gamma subunit-related protein; structural
genomics, joint center for structural genomics, J
protein structure initiative; HET: DNA; 2.00A
{Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20
Length = 305
Score = 27.4 bits (61), Expect = 9.1
Identities = 0/12 (0%), Positives = 4/12 (33%)
Query: 181 IDEVHMLDIECF 192
+ + + +
Sbjct: 88 VHDCERMTQQAA 99
>2a5h_A L-lysine 2,3-aminomutase; radical SAM, four-iron-four-sulfur
cluster, 4Fe4S, FS4, SAM, adenosylmethionine, alpha-beta
channel; HET: SAM LYS PLP; 2.10A {Clostridium
subterminale}
Length = 416
Score = 27.6 bits (61), Expect = 9.5
Identities = 36/185 (19%), Positives = 64/185 (34%), Gaps = 29/185 (15%)
Query: 273 DTSLRYAIQLITTASVVC-RRRKATEICMEDIRKVYALFLDEGRSTQYLREHQNEYMFDS 331
D L + + C RRR A + + +D Y+R + D
Sbjct: 115 DRVLLLITDMCSMYCRHCTRRRFAGQSDDSMPMERIDKAID------YIRNTPQ--VRDV 166
Query: 332 TVTGG----AGDTKME--VDKFVQCPDGELQKRKTVVHTV-----TLHEIDVINSRTHGF 380
++GG D +E + K + P E+ + + V T ++++ +
Sbjct: 167 LLSGGDALLVSDETLEYIIAKLREIPHVEIVRIGSRTPVVLPQRITPELVNMLKKYHPVW 226
Query: 381 LALFAGDTGEITPEVREQISAKVTEWREEGHSEKNRVKLTMFLRGLIEGTVTAKTLSSPN 440
L EIT E + G N+ ++ LRG+ + K L N
Sbjct: 227 LNTHFNHPNEITEESTRACQL----LADAGVPLGNQ---SVLLRGVNDCVHVMKELV--N 277
Query: 441 KLLKM 445
KL+K+
Sbjct: 278 KLVKI 282
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
0.319 0.135 0.388
Gapped
Lambda K H
0.267 0.0874 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,007,042
Number of extensions: 446175
Number of successful extensions: 905
Number of sequences better than 10.0: 1
Number of HSP's gapped: 894
Number of HSP's successfully gapped: 52
Length of query: 448
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 351
Effective length of database: 3,993,456
Effective search space: 1401703056
Effective search space used: 1401703056
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: 59 (26.2 bits)