RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2640
(613 letters)
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 261 bits (668), Expect = 3e-79
Identities = 96/291 (32%), Positives = 139/291 (47%), Gaps = 82/291 (28%)
Query: 84 ISVYVCGNTSTTSGLTVTLSR-EGGGDFALEAGALVLADQGVCCIDEFDKMSAQHQNGML 142
+VY G ST +GLT + R +G G++ LEAGALVLAD G+ IDE DKM + +
Sbjct: 353 RAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGALVLADGGIAVIDEIDKMRDEDR---- 408
Query: 143 YTAKAMRGITSRQYTPAFITMSIHPVMGEKRHTMSAQHQALLEAMEQQSISIAKASVVCS 202
++IH EAMEQQ++SIAKA +V
Sbjct: 409 --------------------VAIH------------------EAMEQQTVSIAKAGIVAK 430
Query: 203 LPARTSVIAAANPVGGHYNRAKTVAENLRMGQALLSRFDLVFILLDNPDEHLDTLLSEHV 262
L AR +VIAA NP G Y + V++N+ + +LSRFDL+FIL D P E D L+ ++
Sbjct: 431 LNARAAVIAAGNPKFGRYISERPVSDNINLPPTILSRFDLIFILKDQPGEQ-DRELANYI 489
Query: 263 MASLSGFQSNRNPSHSTQSFTENPNSVQSDIPLSERLKPGPGEELPLIPAPLLHKYLAYA 322
+ SG +I L KY+AYA
Sbjct: 490 LDVHSG-----------------------------------KSTKNIIDIDTLRKYIAYA 514
Query: 323 RKYVSKPELSTEAALLLQEFYLNLRK--HHHSVDATPVTTRQLESLVRLTQ 371
RKYV P++++EA L+ +F++ +RK +T RQLE+L+R+++
Sbjct: 515 RKYV-TPKITSEAKNLITDFFVEMRKKSSETPDSPILITPRQLEALIRISE 564
Score = 104 bits (261), Expect = 1e-23
Identities = 39/121 (32%), Positives = 60/121 (49%), Gaps = 20/121 (16%)
Query: 344 LNLRKHHHSVDATPVTTRQLESLVRLTQDIQAEPNLFKLLVNSLCPSIFGHEMVKAGLLL 403
++ +D ++ + + L +D P + +++S+ PSI+GH +K L L
Sbjct: 254 SSIEVSQKVLDEVIISEEDEKKIKDLAKD----PWIRDRIISSIAPSIYGHWELKEALAL 309
Query: 404 ALFGGCHSTNGS---RGDAHVLIVGDPGLGKSQMLHACCAAKKFISVLQKKAEVQSRSVF 460
ALFGG RGD H+LI+GDPG KSQML +FI + V R+V+
Sbjct: 310 ALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQML-------QFI------SRVAPRAVY 356
Query: 461 T 461
T
Sbjct: 357 T 357
Score = 32.6 bits (75), Expect = 0.44
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 569 ARAKCELREEASKQDAQDVIDIMKWSLID 597
A AK L+ E +++DA+ I+IM+ L
Sbjct: 565 AYAKMALKAEVTREDAERAINIMRLFLES 593
>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family;
helicase, MCM homolog, DNA replication, ATP-binding,
DNA-binding; 1.90A {Methanopyrus kandleri AV19}
Length = 506
Score = 217 bits (553), Expect = 1e-63
Identities = 63/293 (21%), Positives = 96/293 (32%), Gaps = 102/293 (34%)
Query: 84 ISVYVCGNTSTTSGLTVTLSREGGGDFALEAGALVLADQGVCCIDEFDKMSAQHQNGMLY 143
VYV + + LT L + +AL AGA VLAD G+ +D + H+
Sbjct: 265 RGVYVDLRRTELTDLTAVLKEDR--GWALRAGAAVLADGGILAVDHLEGAPEPHR----- 317
Query: 144 TAKAMRGITSRQYTPAFITMSIHPVMGEKRHTMSAQHQALLEAMEQQSISIAKASVVCSL 203
++ EAM++ ++++ +L
Sbjct: 318 -------------------WALM------------------EAMDKGTVTVDGI----AL 336
Query: 204 PARTSVIAAANPVGGHYNRAKTVAENLRMGQALLSRFDLVFILLDNPDEHLDTLLSEHVM 263
AR +V+AA NP G + + + Q LS FDL+ L +P V
Sbjct: 337 NARCAVLAAINP--GEQWPSDPPIARIDLDQDFLSHFDLIAFLGVDPRPGEPEEQDTEV- 393
Query: 264 ASLSGFQSNRNPSHSTQSFTENPNSVQSDIPLSERLKPGPGEELPLIPAPLLHKYLAYAR 323
LL +YL YA
Sbjct: 394 ----------------------------------------------PSYTLLRRYLLYAI 407
Query: 324 KYVSKPELSTEAALLLQEFYLNLRKHHH-----SVDATPVTTRQLESLVRLTQ 371
+ PEL+ EA L+ +Y R+ + PVT RQLES+ RL +
Sbjct: 408 REHPAPELTEEARKRLEHWYETRREEVEERLGMGLPTLPVTRRQLESVERLAK 460
Score = 87.2 bits (216), Expect = 3e-18
Identities = 16/87 (18%), Positives = 27/87 (31%), Gaps = 17/87 (19%)
Query: 375 AEPNLFKLLVNSLCPSIFGHEMVKAGLLLALFGGCHSTNGSRGDAHVLIVGDPGLGKSQM 434
A+ + ++ P + G E V L L LF HVL+ G P + +
Sbjct: 200 ADKDPLTTFARAIAP-LPGAEEVGKMLALQLFSCVGKN---SERLHVLLAGYPVVCSEIL 255
Query: 435 LHACCAAKKFISVLQKKAEVQSRSVFT 461
+ + R V+
Sbjct: 256 H-------HVL------DHLAPRGVYV 269
Score = 35.2 bits (81), Expect = 0.065
Identities = 9/40 (22%), Positives = 16/40 (40%), Gaps = 1/40 (2%)
Query: 569 ARAKCELREEASKQDAQDVIDIMKWSLIDTSLNGGGG-ID 607
A A+ L ++ +D +++ W L GG I
Sbjct: 461 AHARMRLSDDVEPEDVDIAAELVDWYLETAMQIPGGDEIR 500
>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 = 73.5 bits (180), Expect = 1e-13
Identities = 77/463 (16%), Positives = 138/463 (29%), Gaps = 160/463 (34%)
Query: 20 DFIERH-NHLYNVAE--IEERRCYL--VDIKVLMNDQIFNDQWKTFLQNLSNEPQH---- 70
D I+ L + ++ + + ++I +W L+N SN P
Sbjct: 186 DLIKFSAETLSELIRTTLDAEKVFTQGLNIL----------EW---LENPSNTPDKDYLL 232
Query: 71 --TINC--LGL-AMHHYIISVYVCGNT-----STTSGLTVTLSREGGGDFALEAGALVLA 120
I+C +G+ + HY+++ + G T S G T G + A A+
Sbjct: 233 SIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT------GHSQGLVTAVAIAET 286
Query: 121 DQGVCCIDEFDKMSAQHQNGMLYTAKAMR-----GITSRQYTPAFITMSIHPVMGEKRHT 175
D + F KA+ G+ + P
Sbjct: 287 DSW----ESFFVSVR----------KAITVLFFIGVRCYEAYP----------------- 315
Query: 176 MSAQHQALLEAMEQQSISIAKAS-----VVCSLPART--SVIAAAN---PVGGHYNRAKT 225
+ +L ++ + S+ + + +L + N P G
Sbjct: 316 ----NTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQ------ 365
Query: 226 VAENLRMGQALLSRFDLVFILLDNPDEHLDTLLSEHVMA----SLSGFQSN----RNPSH 277
V I L N ++L V++ SL G + PS
Sbjct: 366 -----------------VEISLVNGAKNL-------VVSGPPQSLYGLNLTLRKAKAPSG 401
Query: 278 STQSFTENPNSVQSDIPLSERLKPGPGEE-LPLIPAPLLH-KYLAYARKYVSKPELSTEA 335
QS IP SER K LP + +P H L A ++K +L
Sbjct: 402 LDQS----------RIPFSER-KLKFSNRFLP-VASP-FHSHLLVPASDLINK-DLVKNN 447
Query: 336 ALLLQEFYLNLRKH-HHSVDATPVTTRQLESLV--RLTQDIQAEPNLFKLLVNSLCPSI- 391
+ +++ + + D + R L + R+ I P ++ I
Sbjct: 448 VSFNAK---DIQIPVYDTFDGS--DLRVLSGSISERIVDCIIRLPVKWETTTQFKATHIL 502
Query: 392 -FGHEMVKA-GLLLALFGGCHSTNGSRGDAHVLIVGDPGLGKS 432
FG G+L + +G G V++ G +
Sbjct: 503 DFGPGGASGLGVLTH-----RNKDG-TG-VRVIVAGTLDINPD 538
Score = 65.5 bits (159), Expect = 4e-11
Identities = 72/410 (17%), Positives = 135/410 (32%), Gaps = 122/410 (29%)
Query: 276 SHSTQSFTENPNSVQSDIPLS-------ERLK-------PGPGEEL-----PLIPAPLLH 316
++ST+ T + S++ + + +L+ P P E P PA L+
Sbjct: 3 AYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVG 62
Query: 317 KYLAYARKYVSKPELSTEAALL---LQEF---YL---NLRKHHHSVDAT---PVTTRQLE 364
K+L Y V ++ +L L EF YL ++ H++ A T ++
Sbjct: 63 KFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI----HALAAKLLQENDTTLVK 118
Query: 365 SLVRLTQDIQAEPNLFKLLVNSLCPSIFGHEMVKAGL--LLALFGGCHSTNGSRGDAHV- 421
+ + I A + ++F V G L+A+FGG +G+
Sbjct: 119 TKELIKNYITARIMAKRPFDKKSNSALFRA--VGEGNAQLVAIFGG-------QGNTDDY 169
Query: 422 ---LIVGDPGLGKSQMLHACCAAKKFISVLQKKAEVQSRSVFTVTELKQLATSANISVDN 478
L + L+ + L K + L +L + + +
Sbjct: 170 FEEL----------RDLYQ--TYHVLVGDLIKFSA---------ETLSELIRTT-LDAEK 207
Query: 479 FFT-------FLTSLN---DQGFLLK-----KGKQLYQLMSAKKFISVLQKK-AEVQSRS 522
FT +L + + D+ +LL + QL +L E++S
Sbjct: 208 VFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYL 267
Query: 523 VFTVTELKQLATSANISV----DNFFT----FLTSLNDQGFLL-KKGKQLYQLMSARAK- 572
+ L T+ I+ ++FF +T L F + + + Y S
Sbjct: 268 KGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVL----FFIGVRCYEAYPNTSLPPSI 323
Query: 573 ----CELREEA----------SKQDAQDVIDIMKWSL-----IDTSL-NG 602
E E +++ QD ++ L ++ SL NG
Sbjct: 324 LEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNG 373
Score = 61.2 bits (148), Expect = 8e-10
Identities = 80/524 (15%), Positives = 153/524 (29%), Gaps = 186/524 (35%)
Query: 184 LEAMEQQSISIAKASVVCSLPARTSVIAAAN------------PVGGHY--NRAKTVAEN 229
++A + ++++ S+ L T+ A+ P G + T AE
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE- 59
Query: 230 LRMGQALLSRFDLVFI---LLDNPDEHLDTLLSEHVMASLSGFQSN---RNPSHS-TQSF 282
L+ +F L ++ + + D +L+ L+ F++ N H+
Sbjct: 60 ------LVGKF-LGYVSSLVEPSKVGQFDQVLN----LCLTEFENCYLEGNDIHALAAKL 108
Query: 283 TENPNSVQSDIPLSERLKPGPGEELPLIPAPLLHKYLAYARKYVSKPELSTEAALLLQ-- 340
+ ++D L + + L+ Y+ AR +P + L +
Sbjct: 109 LQ-----ENDTTLVKTKE-------------LIKNYIT-ARIMAKRPFDKKSNSALFRAV 149
Query: 341 -----------------EFYLN-LRK-----HHHSVDATPVTTRQLESLVRLTQDIQAEP 377
+ Y LR H D + L L+R T D
Sbjct: 150 GEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLD----- 204
Query: 378 NLFKLLVNSLCPSIFGHEM-VKAGLLLALFGGCHSTNGSRGDAHVLI---VGDPGLGKSQ 433
+F + + L + D L+ + P +G Q
Sbjct: 205 ----------AEKVFTQGLNILEWL---------ENPSNTPDKDYLLSIPISCPLIGVIQ 245
Query: 434 MLHACCAAKKFISVLQKK-AEVQSRSVFTVTELKQLATSANISV----DNFFT----FLT 484
+ H AK +L E++S + L T+ I+ ++FF +T
Sbjct: 246 LAHYVVTAK----LLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAIT 301
Query: 485 SLNDQGFLL-KKGKQLYQLMSAKKFISVLQK-------------------KAEVQSRSVF 524
L F + + + Y S S+L+ + +VQ
Sbjct: 302 VL----FFIGVRCYEAYPNTSLP--PSILEDSLENNEGVPSPMLSISNLTQEQVQDY--- 352
Query: 525 TVTEL-KQLATSANISV------DNFFTFLT----SLNDQGF--LLKKGK------QLYQ 565
V + L + + N ++ SL G L+K K Q
Sbjct: 353 -VNKTNSHLPAGKQVEISLVNGAKNL--VVSGPPQSL--YGLNLTLRKAKAPSGLDQSRI 407
Query: 566 LMSARAK--------------CELREEASKQDAQDVI-DIMKWS 594
S R L AS +D++ + + ++
Sbjct: 408 PFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFN 451
Score = 50.8 bits (121), Expect = 1e-06
Identities = 71/366 (19%), Positives = 117/366 (31%), Gaps = 137/366 (37%)
Query: 154 RQYTPAFITMSIHPVMGEKRHTMSAQHQALLEAMEQQSISIAKASVVCSLPARTSVIAAA 213
+ Y A I KR + AL A+ + + + +
Sbjct: 124 KNYITARIMA--------KRPFDKKSNSALFRAVGEGNAQLV---AIF------------ 160
Query: 214 NPVGGHYNRAKTVAENLRMGQALLSRFD----LVFILLDNPDEHLDTLLSEHVMASLSGF 269
GG N E LR + LV L+ E L L+ + A F
Sbjct: 161 ---GGQGNTDDYFEE-LR------DLYQTYHVLVGDLIKFSAETLSELIRTTLDAE-KVF 209
Query: 270 QSNRNPSHSTQSFTENPNSVQSD-----IPLSERLKPGPGEELPLIP-APLLHKYLAYAR 323
N + ENP++ IP+S PLI L H Y+ A+
Sbjct: 210 TQGLNI----LEWLENPSNTPDKDYLLSIPIS----------CPLIGVIQLAH-YVVTAK 254
Query: 324 KYVSKP-ELSTE------------AALLL------QEFYLNLRKH--------HHSVDAT 356
P EL + A+ + + F++++RK +A
Sbjct: 255 LLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAY 314
Query: 357 PVTTRQLESL----------------VR-LTQDIQAEPNLFKLLVNSLCPSIFGHEMVKA 399
P T+ L + LTQ+ Q + + K NS P+ + V+
Sbjct: 315 PNTSLPPSILEDSLENNEGVPSPMLSISNLTQE-QVQDYVNK--TNSHLPA---GKQVE- 367
Query: 400 GLLLALFGGCHSTNGSRGDAHVLIVGDPGLGKSQMLHACCAAKKFISVLQK-KAEV---Q 455
++L NG++ ++++ G P +S L+ L+K KA Q
Sbjct: 368 ---ISLV------NGAK---NLVVSGPP---QS--LYG------LNLTLRKAKAPSGLDQ 404
Query: 456 SRSVFT 461
SR F+
Sbjct: 405 SRIPFS 410
Score = 47.4 bits (112), Expect = 2e-05
Identities = 45/312 (14%), Positives = 88/312 (28%), Gaps = 88/312 (28%)
Query: 232 MGQALLSRFDLVFILLDNPDEHLDTLLSEHVMASLSGFQSNRNPSHSTQSFTENPNSVQS 291
MG L + + D H S+ N NP + T F
Sbjct: 1631 MGMDLYKTSKAAQDVWNRADNHFKDTYGF----SILDIVIN-NPVNLTIHFG-------- 1677
Query: 292 DIPLSERLKPGPGEELPLIPAPLLHKYLAYARKYVSKPELSTEAALLLQEFYLNLRKHHH 351
G + + Y A + + + + + +E + +
Sbjct: 1678 ----------GEKGK------RIRENYSAM--IFETIVDGKLKTEKIFKEINEHSTSYTF 1719
Query: 352 SVDATPVTTRQLESLVRLTQDIQAEPNLFKLLVNSLCPSIFGHEMVKAGLL--LALFGGC 409
+ + L+ TQ Q P L L+ + F ++ GL+ A F G
Sbjct: 1720 RSE---------KGLLSATQFTQ--PALT--LM-EK--AAF-EDLKSKGLIPADATFAG- 1761
Query: 410 HS---------TNGS------------RGDA--HVLIVGDPGLGKSQML-------HACC 439
HS RG + + G M+ A
Sbjct: 1762 HSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASF 1821
Query: 440 AAKKFISVLQKKAEVQSRSVFTV---TELKQLATSANIS-VDNFFTFLTSLNDQGFLLKK 495
+ + V+++ + V V E +Q + ++ +D L + Q + +
Sbjct: 1822 SQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIE 1881
Query: 496 GKQLYQLMSAKK 507
L + +S ++
Sbjct: 1882 ---LQKSLSLEE 1890
>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 = 64.5 bits (156), Expect = 8e-11
Identities = 76/408 (18%), Positives = 128/408 (31%), Gaps = 108/408 (26%)
Query: 253 HLDTLLSEHVMASLSGFQSNRN-PSHSTQSFTENPNSVQSDIPLSER--LKPGPGEELPL 309
H+D EH ++ S +F +N + D+ + L + + +
Sbjct: 6 HMDFETGEHQY-------QYKDILSVFEDAFVDNFDC--KDVQDMPKSILSKEEIDHIIM 56
Query: 310 IPAPLLHKYLAYARKYVSKPELSTEAAL--LLQEFY--LNLRKHHHSVDATPVTTRQLES 365
+ + +SK E + + +L+ Y L + +T +E
Sbjct: 57 SKDAVSGTLRLFW-TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ 115
Query: 366 LVRLTQDIQAEPNLFKLLVNSLCPSIFGHEMVKAGLL-LALFGGCHSTNGSRGDAHVLIV 424
RL D Q K V+ L P + ++ LL L R +VLI
Sbjct: 116 RDRLYNDNQVFA---KYNVSRLQP----YLKLRQALLEL------------RPAKNVLID 156
Query: 425 GDPGLGKSQMLHACCAAKKFISVLQKKAEVQSRSVFTV------------TELKQLATSA 472
G G GK+ A V +VQ + F + T L+ L
Sbjct: 157 GVLGSGKT-----WVAL----DVCLSY-KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL 206
Query: 473 NISVDNFFTFLTSLNDQGFLLKKG-----KQLYQLMSAKKFISVLQKKAEVQSRSVFTVT 527
N+ TS +D +K +L +L+ +K + + L VQ+ +
Sbjct: 207 YQIDPNW----TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF 262
Query: 528 EL--KQLATSANISVDNFFTFLT----SLND--QGFLLKKGKQLYQLMSARAKC------ 573
L K L T+ V +F + T SL+ + K L K
Sbjct: 263 NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL------LKYLDCRPQ 316
Query: 574 ELREEASK-------------QDAQDVID----IMKWSL---IDTSLN 601
+L E +D D + L I++SLN
Sbjct: 317 DLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364
Score = 62.9 bits (152), Expect = 2e-10
Identities = 77/508 (15%), Positives = 150/508 (29%), Gaps = 164/508 (32%)
Query: 3 ISYKKDGPTDTKIKSCLDFIERHNHLYN---------VAEIEE----RRC--------YL 41
I ++ P+ +IE+ + LYN V+ ++ R+ +
Sbjct: 98 IKTEQRQPSMMTRM----YIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV 153
Query: 42 V------------------DIKVL--MNDQIFNDQWKTF------------LQNLSNEPQ 69
+ KV M+ +IF W LQ L
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF---WLNLKNCNSPETVLEMLQKLL---- 206
Query: 70 HTINCLGLAMHHYIISVYVCGNTSTTSGLTVTLSREGGGDFALEAGALVLADQGVC---C 126
+ I+ + + ++ + + S + L L + + L LVL + V
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIH-SIQAELRRLLKSKPYEN-CL----LVLLN--VQNAKA 258
Query: 127 IDEFDKMSAQHQNGMLYTAKAMRGITSRQYTPAFITMSI---HPVMGEKRHTMS-AQHQA 182
+ F+ +S + +L +T+R + H + T++ + ++
Sbjct: 259 WNAFN-LSCK----IL--------LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 183 LLEA---MEQQSISIAKASVVCSL-PARTSVIAAANPVGG-------HYNRAKTVAENLR 231
LL Q + V + P R S+IA + G H N K + +
Sbjct: 306 LLLKYLDCRPQDLP----REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK-LTTIIE 360
Query: 232 MGQALLS------RFDLVFILLDNPDEHLDTLLSEHVMASLSGFQSNRNPSHSTQSFT-- 283
+L FD + + P + +++ + +
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVF---PP---SAHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414
Query: 284 ----ENPNSVQSDIP-LSERLKPGPGEELPLIPAPLLHKYL--AY--ARKY----VSKPE 330
+ P IP + LK E LH+ + Y + + + P
Sbjct: 415 SLVEKQPKESTISIPSIYLELKVKLENE------YALHRSIVDHYNIPKTFDSDDLIPPY 468
Query: 331 LS----------------TEAALLLQEFYLNLR----KHHHSVDATPVTTRQLESLVRLT 370
L E L + +L+ R K H A + L +L +L
Sbjct: 469 LDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLK 528
Query: 371 ---QDIQAEPNLFKLLVNSLCPSIFGHE 395
I ++ LVN++ + E
Sbjct: 529 FYKPYICDNDPKYERLVNAILDFLPKIE 556
Score = 32.9 bits (74), Expect = 0.38
Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 9/60 (15%)
Query: 1 YIISYKKDGPTDTKIKSCLDFIERHNHLYNVAEIEERRCYLVDIKVLMNDQ--IFNDQWK 58
YI D + + + LDF+ + N+ I + L+ I LM + IF + K
Sbjct: 533 YIC--DNDPKYERLVNAILDFLPKIEE--NL--ICSKYTDLLRI-ALMAEDEAIFEEAHK 585
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 37.8 bits (88), Expect = 0.010
Identities = 14/73 (19%), Positives = 22/73 (30%), Gaps = 10/73 (13%)
Query: 369 LTQDIQAEPNLFKLLVNSLCPSIFGHEMVKAGLLLALFGGCHSTNGSRGDAHVLIVGDPG 428
+ L +SL ++ LLA S V ++G PG
Sbjct: 2 MMAHPHLLAERISRLSSSLEKGLYERSHAIRLCLLAAL--------SGE--SVFLLGPPG 51
Query: 429 LGKSQMLHACCAA 441
+ KS + A
Sbjct: 52 IAKSLIARRLKFA 64
Score = 32.4 bits (74), Expect = 0.47
Identities = 13/73 (17%), Positives = 22/73 (30%), Gaps = 18/73 (24%)
Query: 182 ALLEAMEQQSISIAKASVVCSLPARTSVIAAANPV--GGHYNRAKTVAENLRMGQALLSR 239
LL A+ ++ +P R V A+ +AL R
Sbjct: 128 TLLTAINERQFRNGAHVE--KIPMRLLVAASNELPEADSSL-------------EALYDR 172
Query: 240 FDLVFILLDNPDE 252
L+ + LD +
Sbjct: 173 M-LIRLWLDKVQD 184
>2r44_A Uncharacterized protein; putative ATPase, structural genomics,
joint center for struc genomics, JCSG; HET: MSE PG4;
2.00A {Cytophaga hutchinsonii atcc 33406}
Length = 331
Score = 36.4 bits (85), Expect = 0.020
Identities = 14/63 (22%), Positives = 26/63 (41%), Gaps = 10/63 (15%)
Query: 369 LTQDIQAEPNLFKLLVNSLCPSIFGHEMVKAGLLLALFGGCHSTNGSRGDAHVLIVGDPG 428
+ N K +++ + + G + + LL+ + T G H+L+ G PG
Sbjct: 7 AEEKSLYYRNKIKEVIDEVGKVVVGQKYMINRLLIGIC-----TGG-----HILLEGVPG 56
Query: 429 LGK 431
L K
Sbjct: 57 LAK 59
Score = 29.4 bits (67), Expect = 3.6
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 182 ALLEAMEQQSISIAKASVVCSLPARTSVIAAANPV 216
ALLE M+++ ++I + L V+A NPV
Sbjct: 128 ALLECMQEKQVTIGDTTY--PLDNPFLVLATQNPV 160
>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop,
rossman fold, AAA+, photosynthesis, metal transport;
2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB:
2x31_G
Length = 350
Score = 35.5 bits (82), Expect = 0.043
Identities = 26/159 (16%), Positives = 43/159 (27%), Gaps = 54/159 (33%)
Query: 106 GGGDFALEAGALVLADQGVCCIDEFDKMSAQHQNGMLYTAKAMRGITSRQYTPAFITMSI 165
G+ A E G L A++G IDE + +
Sbjct: 129 SKGEKAFEPGLLARANRGYLYIDECNLLE------------------------------- 157
Query: 166 HPVMGEKRHTMSAQHQALLEAMEQQSISIAKASVVCSLPARTSVIAAANPVGGHYNRAKT 225
H + LL+ + + + + PAR ++ + NP
Sbjct: 158 -------DHIVDL----LLDVAQSGENVVERDGLSIRHPARFVLVGSGNP---------- 196
Query: 226 VAENLRMGQALLSRFDLVFILLDNPDEHLDTLLSEHVMA 264
E + LL RF L +L D +
Sbjct: 197 --EEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDT 233
Score = 34.8 bits (80), Expect = 0.075
Identities = 17/46 (36%), Positives = 20/46 (43%), Gaps = 11/46 (23%)
Query: 391 IFGHEMVKAGLLL-ALFGGCHSTNGSRGDAHVLIVGDPGLGKSQML 435
I G E +K LLL A+ G VL+ GD G GKS
Sbjct: 26 IVGQEDMKLALLLTAVDPGIG---------GVLVFGDRGTGKS-TA 61
>2cvh_A DNA repair and recombination protein RADB; filament formation,
homologous recombination, ATPase domain,
hyperthermophIle; HET: DNA; 2.20A {Thermococcus
kodakarensis} PDB: 2cvf_A*
Length = 220
Score = 34.1 bits (79), Expect = 0.096
Identities = 3/21 (14%), Positives = 6/21 (28%)
Query: 421 VLIVGDPGLGKSQMLHACCAA 441
+ G GK+ +
Sbjct: 23 TQVYGPYASGKTTLALQTGLL 43
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 31.5 bits (72), Expect = 0.35
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 415 SRGDAHVLIVGDPGLGKSQMLHACCAA 441
+ + + G+ G GKS +L A A
Sbjct: 33 HKHGQFIYVWGEEGAGKSHLLQAWVAQ 59
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 32.0 bits (72), Expect = 0.62
Identities = 22/134 (16%), Positives = 44/134 (32%), Gaps = 5/134 (3%)
Query: 420 HVLIVGDPGLGKSQMLHACCAAKKFISVLQKKAEVQSRSVFTVTELKQLATSANISVDNF 479
L++G +GKS +L A + I + ++ + + +K+L ++ +
Sbjct: 33 LTLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITREELIKELQSTISPFQKFQ 92
Query: 480 FTFLTSLNDQGFLLKKGKQLYQLMSAKKFISVLQKKAEVQSRSVFTVTELKQLATSANIS 539
F SLN + L+ K S ++ L E + E + L +
Sbjct: 93 SKFKISLNLKFLTLEPRKL-----SLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRG 147
Query: 540 VDNFFTFLTSLNDQ 553
D
Sbjct: 148 GKELLALFAYAYDS 161
>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase,
winged-helix domain, ATP hydrolysis, walker A, walker B,
sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga
maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A*
1in8_A* 1in7_A* 1j7k_A*
Length = 334
Score = 31.8 bits (73), Expect = 0.65
Identities = 11/19 (57%), Positives = 13/19 (68%), Gaps = 2/19 (10%)
Query: 415 SRGDA--HVLIVGDPGLGK 431
RG+ HVL+ G PGLGK
Sbjct: 46 MRGEVLDHVLLAGPPGLGK 64
>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide,
hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP:
a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*
Length = 324
Score = 31.8 bits (73), Expect = 0.69
Identities = 9/19 (47%), Positives = 13/19 (68%), Gaps = 2/19 (10%)
Query: 415 SRGDA--HVLIVGDPGLGK 431
+R + H+L+ G PGLGK
Sbjct: 33 ARKEPLEHLLLFGPPGLGK 51
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 31.4 bits (72), Expect = 0.80
Identities = 8/19 (42%), Positives = 10/19 (52%), Gaps = 2/19 (10%)
Query: 415 SRGDA--HVLIVGDPGLGK 431
R + H+L G GLGK
Sbjct: 50 KRNECLDHILFSGPAGLGK 68
>1r7j_A Conserved hypothetical protein SSO10A; winged helix-turn-helix,
two-stranded antiparallel coiled CO structural genomics,
PSI; 1.47A {Sulfolobus solfataricus} SCOP: a.4.5.49 PDB:
1xsx_A
Length = 95
Score = 29.4 bits (66), Expect = 0.85
Identities = 13/73 (17%), Positives = 31/73 (42%), Gaps = 12/73 (16%)
Query: 468 LATSANISVDNFFTFLTSLNDQGFLLK---------KGKQLYQLMSAKKFISVLQKKAEV 518
+ AN+S ++ L D + + KG++L L +KF + + ++
Sbjct: 26 IMYGANLSYALTGRYIKMLMDLEIIRQEGKQYMLTKKGEEL--LEDIRKFNEMRKNMDQL 83
Query: 519 QSRSVFTVTELKQ 531
+ + +V ++Q
Sbjct: 84 K-EKINSVLSIRQ 95
>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 516
Score = 31.4 bits (71), Expect = 0.86
Identities = 15/95 (15%), Positives = 32/95 (33%), Gaps = 27/95 (28%)
Query: 420 HVLIVGDPGLGKSQMLHACCAAKKF------------ISVLQKKAE--VQSRSVFTVTEL 465
++ G PG+GK+ H + ++L + + + SV +
Sbjct: 79 AAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKH 138
Query: 466 KQLATSANIS--------VDNFFTFLTSLNDQGFL 492
+ A + N VD ++ D+G +
Sbjct: 139 NEEAQNLNGKHFVIIMDEVDG----MSG-GDRGGV 168
>1nlf_A Regulatory protein REPA; replicative DNA helicase structural
changes, replication; 1.95A {Escherichia coli} SCOP:
c.37.1.11 PDB: 1g8y_A 1olo_A
Length = 279
Score = 30.1 bits (67), Expect = 1.9
Identities = 6/21 (28%), Positives = 8/21 (38%)
Query: 421 VLIVGDPGLGKSQMLHACCAA 441
+V G GKS + A
Sbjct: 33 GALVSPGGAGKSMLALQLAAQ 53
>2fna_A Conserved hypothetical protein; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus}
SCOP: a.4.5.11 c.37.1.20
Length = 357
Score = 30.0 bits (67), Expect = 2.4
Identities = 17/133 (12%), Positives = 46/133 (34%), Gaps = 5/133 (3%)
Query: 420 HVLIVGDPGLGKSQMLHACCAAKKFISVLQKKAEVQSRSVFTVTE-LKQLATSANISVDN 478
L++G GKS ++ + + + R+ + + L +L N V
Sbjct: 32 ITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLELQKEINKLVKR 91
Query: 479 FFTFLTSLNDQGFLLKKGKQLYQLMSAKKFISVLQKKAEVQS----RSVFTVTELKQLAT 534
+ L +L + ++ G ++ + K +S + + + E ++L
Sbjct: 92 LPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVK 151
Query: 535 SANISVDNFFTFL 547
+++ +
Sbjct: 152 LRGVNLLPALAYA 164
>1s4n_A Glycolipid 2-alpha-mannosyltransferase; alpha/beta fold,
nucleotide-binding domain, rossmann fold; HET: NAG BMA
MAN NDG; 2.01A {Saccharomyces cerevisiae} SCOP:
c.68.1.16 PDB: 1s4o_A* 1s4p_A*
Length = 348
Score = 30.0 bits (67), Expect = 2.5
Identities = 11/72 (15%), Positives = 26/72 (36%), Gaps = 7/72 (9%)
Query: 5 YKKDGPTDTKIKSCLDFIERHNHLYNVAE----IEER--RCYLVDIKVLMNDQIFNDQWK 58
K K+C + R+ L + +E + + + V +ND+ F +++K
Sbjct: 17 TPSFANKAGKPKACYVTLVRNKELKGLLSSIKYVENKINKKFPYPW-VFLNDEPFTEEFK 75
Query: 59 TFLQNLSNEPQH 70
+ +
Sbjct: 76 EAVTKAVSSEVK 87
>1htr_B Gastricsin; aspartyl protease; 1.62A {Homo sapiens} SCOP: b.50.1.2
PDB: 1avf_A
Length = 329
Score = 29.6 bits (67), Expect = 2.7
Identities = 9/57 (15%), Positives = 20/57 (35%), Gaps = 6/57 (10%)
Query: 69 QHTINCLGLAMHHYIISVYVCGNTSTTSGLTVTLSREGGGDFALEAGALVLADQGVC 125
++++ C + LT + G +F L + +L++ G C
Sbjct: 234 LQATGAQEDEYGQFLVN---CNSIQNLPSLTFII---NGVEFPLPPSSYILSNNGYC 284
>1p8j_A Furin precursor; prohormone convertase, SPC1, PACE, P-domain;
HET: DKA AR7 NAG FUL BMA MAN GAL FUC; 2.60A {Mus
musculus} SCOP: b.18.1.20 c.41.1.1
Length = 471
Score = 29.7 bits (66), Expect = 3.2
Identities = 8/25 (32%), Positives = 9/25 (36%), Gaps = 5/25 (20%)
Query: 49 NDQIFNDQWKTFLQNLSNEPQHTIN 73
D F QW LS Q +N
Sbjct: 7 TDPKFPQQW-----YLSGVTQRDLN 26
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 28.9 bits (65), Expect = 4.7
Identities = 10/44 (22%), Positives = 20/44 (45%), Gaps = 7/44 (15%)
Query: 421 VLIVGDPGLGKS----QMLHACCAAKK---FISVLQKKAEVQSR 457
VL+ G PG GK+ Q L + ++++ + +V+
Sbjct: 26 VLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVALEEHPVQVRQN 69
>1yg9_A Aspartic protease BLA G 2; allegren, hydrolase, allergen; HET: NAG;
1.30A {Blattella germanica} PDB: 2nr6_A* 3liz_A*
Length = 330
Score = 28.8 bits (65), Expect = 5.6
Identities = 8/57 (14%), Positives = 18/57 (31%), Gaps = 3/57 (5%)
Query: 69 QHTINCLGLAMHHYIISVYVCGNTSTTSGLTVTLSREGGGDFALEAGALVLADQGVC 125
I C+ I C + +T + G +F + + + + +C
Sbjct: 236 NEAIGCVVEKTTTRRICKLDCSKIPSLPDVTFVI---NGRNFNISSQYYIQQNGNLC 289
>1dpj_A Proteinase A; proteinase A, hydrolase-hydrolase inhibitor COM; HET:
BMA MAN NAG; 1.80A {Saccharomyces cerevisiae} SCOP:
b.50.1.2 PDB: 1dp5_A* 1fmu_A* 1fmx_A* 1fq5_A* 1fq4_A*
1fq6_A* 1fq7_A* 1fq8_A* 2jxr_A* 1g0v_A*
Length = 329
Score = 28.8 bits (65), Expect = 6.0
Identities = 9/58 (15%), Positives = 12/58 (20%), Gaps = 6/58 (10%)
Query: 69 QHTINCLGLAMHHYIISVYVCGNTSTTSGLTVTLSREGGGDFALEAGALVLADQGVCC 126
I Y + C L G +F + L G C
Sbjct: 235 NAEIGAKKGWTGQYTLD---CNTRDNLPDLIFNF---NGYNFTIGPYDYTLEVSGSCI 286
>3bos_A Putative DNA replication factor; P-loop containing nucleoside
triphosphate hydrolases, struct genomics; HET: MSE CDP;
1.75A {Shewanella amazonensis} PDB: 3sc3_A
Length = 242
Score = 28.3 bits (64), Expect = 7.2
Identities = 5/17 (29%), Positives = 10/17 (58%)
Query: 423 IVGDPGLGKSQMLHACC 439
+ G G++ ++HA C
Sbjct: 57 LWGPVKSGRTHLIHAAC 73
>1hf2_A MINC, septum site-determining protein MINC; cell division protein,
FTSZ, bacterial cell division, beta helix; 2.2A
{Thermotoga maritima} SCOP: b.80.3.1 c.102.1.1
Length = 210
Score = 28.0 bits (62), Expect = 7.6
Identities = 13/92 (14%), Positives = 27/92 (29%), Gaps = 1/92 (1%)
Query: 177 SAQHQALLEAMEQQSISIAKASVVCSLPARTSVIAAANPVGGHYNRAKTVAENLRMGQAL 236
S ++ + + + +V S + K + N+R GQ +
Sbjct: 56 SQDIPRIVSHLRNLGLEV-SQILVGSTVEGKENDLKVQSRTTVESTGKVIKRNIRSGQTV 114
Query: 237 LSRFDLVFILLDNPDEHLDTLLSEHVMASLSG 268
+ D++ N + S V G
Sbjct: 115 VHSGDVIVFGNVNKGAEILAGGSVVVFGKAQG 146
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 28.1 bits (63), Expect = 7.7
Identities = 10/30 (33%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 421 VLIVGDPGLGKSQMLHACC--AAKKFISVL 448
+ + G G+GK+ +L A AK+ +S L
Sbjct: 57 LYLHGSFGVGKTYLLAAIANELAKRNVSSL 86
>3psg_A Pepsinogen; hydrolase(acid proteinase zymogen); 1.65A {Sus scrofa}
SCOP: b.50.1.2 PDB: 2psg_A 4pep_A* 3pep_A* 1f34_A*
1psa_A* 1yx9_A 5pep_A 1flh_A 1qrp_E* 1psn_A* 1pso_E*
3utl_A
Length = 370
Score = 28.1 bits (63), Expect = 8.0
Identities = 12/57 (21%), Positives = 20/57 (35%), Gaps = 6/57 (10%)
Query: 69 QHTINCLGLAMHHYIISVYVCGNTSTTSGLTVTLSREGGGDFALEAGALVLADQGVC 125
Q I + +IS C + + + T+ G + L A +L D C
Sbjct: 276 QSDIGASENSDGEMVIS---CSSIDSLPDIVFTI---DGVQYPLSPSAYILQDDDSC 326
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 28.1 bits (63), Expect = 8.1
Identities = 5/21 (23%), Positives = 10/21 (47%), Gaps = 4/21 (19%)
Query: 421 VLIVGDPGLGKS----QMLHA 437
+ + G+PG GK+ +
Sbjct: 26 IALTGEPGTGKTIFSLHFIAK 46
>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP;
2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB:
3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A*
3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*
Length = 525
Score = 28.4 bits (63), Expect = 8.9
Identities = 7/21 (33%), Positives = 10/21 (47%), Gaps = 4/21 (19%)
Query: 421 VLIVGDPGLGKS----QMLHA 437
L+ G G GK+ Q L+
Sbjct: 42 TLVSGTSGTGKTLFSIQFLYN 62
Score = 28.0 bits (62), Expect = 9.8
Identities = 6/22 (27%), Positives = 9/22 (40%), Gaps = 1/22 (4%)
Query: 421 VLIVGDPGLGKSQM-LHACCAA 441
+L G G GK+ + A
Sbjct: 284 ILATGATGTGKTLLVSRFVENA 305
>1am5_A Pepsin, acid proteinase; aspartyl protease, hydrolase; 2.16A {Gadus
morhua} SCOP: b.50.1.2
Length = 324
Score = 28.0 bits (63), Expect = 9.5
Identities = 9/48 (18%), Positives = 16/48 (33%), Gaps = 6/48 (12%)
Query: 79 MHHYIISVYVCGNTSTTSGLTVTLSREGGGDFALEAGALVLADQGVCC 126
+ + C + + +T T+ G L A + DQ C
Sbjct: 240 QGEMMGN---CASVQSLPDITFTI---NGVKQPLPPSAYIEGDQAFCT 281
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 0.132 0.379
Gapped
Lambda K H
0.267 0.0803 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,939,999
Number of extensions: 530470
Number of successful extensions: 1376
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1345
Number of HSP's successfully gapped: 79
Length of query: 613
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 514
Effective length of database: 3,937,614
Effective search space: 2023933596
Effective search space used: 2023933596
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 (26.8 bits)