RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8413
(796 letters)
>1h2v_C 80 kDa nuclear CAP binding protein; CAP-binding-complex, RNP
domain, MIF4G domain, RNA maturation, RNA export,
nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP:
a.118.1.14 a.118.1.14 a.118.1.14 PDB: 1n52_A* 1n54_A
3fex_A 3fey_A 1h6k_A 1h2t_C* 1h2u_A*
Length = 771
Score = 771 bits (1991), Expect = 0.0
Identities = 431/778 (55%), Positives = 568/778 (73%), Gaps = 11/778 (1%)
Query: 23 RVPENQELEDRFEVLIVKVGERSTTSLESHLDGLAKVLETDLATYRVKILRILTDCATKY 82
+ + E ED E LI KVGE+S SLES+L+GLA VLE DL Y+ KILR+L A
Sbjct: 1 KTSDANETEDHLESLICKVGEKSACSLESNLEGLAGVLEADLPNYKSKILRLLCTVARLL 60
Query: 83 PEKCCIYTTLVGLLNAKNYNFGGEFVELMVKTFKDALKNCQWNAARYALRFLADLVNCHV 142
PEK IYTTLVGLLNA+NYNFGGEFVE M++ K++LK +N A Y +RFL+DLVNCHV
Sbjct: 61 PEKLTIYTTLVGLLNARNYNFGGEFVEAMIRQLKESLKANNYNEAVYLVRFLSDLVNCHV 120
Query: 143 ISTNSLLQLLENMLDASKEDGVPNVRKDWYVYAVLSCLPWVGRELYEKKEQALALLLLNI 202
I+ S++ + EN + ++E+ VP VR+DWYVYA LS LPWVG+ELYEKK+ + + N
Sbjct: 121 IAAPSMVAMFENFVSVTQEEDVPQVRRDWYVYAFLSSLPWVGKELYEKKDAEMDRIFANT 180
Query: 203 ELYLNKRSKKHVAALQVWSSDKPHPQEEYLDCLWAQIVKLRQDNWTDHHIYRPYTVFDSR 262
E YL +R K HV LQVW++DKPHPQEEYLDCLWAQI KL++D W + HI RPY FDS
Sbjct: 181 ESYLKRRQKTHVPMLQVWTADKPHPQEEYLDCLWAQIQKLKKDRWQERHILRPYLAFDSI 240
Query: 263 LSVALQHNLPNIILPPHHDSLIYPMPSVVFRMFDYTDCPEEPSISPLPGAHSIERFLIEE 322
L ALQHNLP PPH + +YPMP V+FRMFDYTD PE P +PG+HS+ERF+IEE
Sbjct: 241 LCEALQHNLPPFTPPPHTEDSVYPMPRVIFRMFDYTDDPEGPV---MPGSHSVERFVIEE 297
Query: 323 HLLQIIEMNYFERKDCATQLLKYNMK--IPLEYCIVEIIFGELFRLPTPKYLEIFYGSVL 380
+L II+ ++ ERK CA QL+ Y K IPL Y IVE+IF ELF+LP P ++++ Y ++L
Sbjct: 298 NLHCIIKSHWKERKTCAAQLVSYPGKNKIPLNYHIVEVIFAELFQLPAPPHIDVMYTTLL 357
Query: 381 IELCKMKPDTMPQVLAQATVILFMRIESMNTACFDRFVAWFAYHLSNFQFQWSWEDWESA 440
IELCK++P ++PQVLAQAT +L+MR+++MNT C DRF+ WF++HLSNFQF+WSWEDW
Sbjct: 358 IELCKLQPGSLPQVLAQATEMLYMRLDTMNTTCVDRFINWFSHHLSNFQFRWSWEDWSDC 417
Query: 441 LKLDLEHPKPKFIHEVLNKCVRLSYHQRIKEIVPPQFAPLLPLKPEPHFKYNQEGGEHLP 500
L D E PKPKF+ EVL KC+RLSYHQRI +IVPP F+ L P P +KY E LP
Sbjct: 418 LSQDPESPKPKFVREVLEKCMRLSYHQRILDIVPPTFSALCPSNPTCIYKYGDESSNSLP 477
Query: 501 GFVYAQELINAIKKKQSSPNEIMAILNKIPSSSMDEDGADPI--NPLKIDVFTQVLLYLG 558
G A L A K K + +EI +IL +P+ + D+D + NPLKI+VF Q LL+L
Sbjct: 478 GHSVALCLAVAFKSKA-TNDEIFSILKDVPNPNQDDDDDEGFSFNPLKIEVFVQTLLHLA 536
Query: 559 SKSFSHSFAALSKFYKVLKEHIGHTEESQSYVLKSLFELWHDHQQMMAVLIDKMLKTQLL 618
+KSFSHSF+AL+KF++V K + ++E + +VL+ +FE+W +H QM+AVL+DKM++TQ++
Sbjct: 537 AKSFSHSFSALAKFHEVFK-TLAESDEGKLHVLRVMFEVWRNHPQMIAVLVDKMIRTQIV 595
Query: 619 HCSSVANWIFSKEMQPEFTKLYVWEILHLTIKKMSKYVNRVGKELLDAKERLKHVSSESE 678
C++VANWIFS E+ +FT+L+VWEILH TI+KM+K+V ++ KEL +AKE+L
Sbjct: 596 DCAAVANWIFSSELSRDFTRLFVWEILHSTIRKMNKHVLKIQKELEEAKEKLARQHKRRS 655
Query: 679 EESDGEGGKKNEEKISEEVVEKIEEKLEAAQADQKNLFLIIFQRFIMILSEHLVRCDTDG 738
++ D ++ + EE +E+++EK+E+AQ++QKNLFL+IFQRFIMIL+EHLVRC+TDG
Sbjct: 656 DDDDRSS--DRKDGVLEEQIERLQEKVESAQSEQKNLFLVIFQRFIMILTEHLVRCETDG 713
Query: 739 VDFNTHWYKWTIGRLQQVLLAHHEQVQKYSSTLETLLFTQDLEPHILDVFHQFLALNA 796
T WYK I RLQQ+ L HH+ +Q+Y TLE LLFT +L+PHIL VF QF AL A
Sbjct: 714 TSVLTPWYKNCIERLQQIFLQHHQIIQQYMVTLENLLFTAELDPHILAVFQQFCALQA 771
>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 = 74.1 bits (181), Expect = 1e-13
Identities = 89/572 (15%), Positives = 171/572 (29%), Gaps = 143/572 (25%)
Query: 8 HEEDDGYERAYKKRRRVPENQE--LEDRFEVLIVKVGERSTTSLESHLDGLAKVLETDLA 65
H + + E Y+ + + ++ +++ F+ V+ +S S E +D + +
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDN-FDCKDVQDMPKSILSKEE-IDHIIMSKDAVSG 63
Query: 66 TYRVKILRILTDCATKYPEKCCIYTTLVGLLNAKNYNF---------------GGEFVEL 110
T R L E+ + V + NY F ++E
Sbjct: 64 TLR------LFWTLLSKQEE--MVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ 115
Query: 111 MVKTFKDALKNCQWNAARYALRFLADLVNCHVISTNSLLQL-------LENMLDASKEDG 163
+ + D ++N +R L+ L +LL+L ++ +L + K
Sbjct: 116 RDRLYNDNQVFAKYNVSR--LQPYLKL-------RQALLELRPAKNVLIDGVLGSGKTWV 166
Query: 164 VPNVRKDWYVYAVLSCLP----WVGRELYEKKEQALAL---LLLNIELYLNKRSKKHVAA 216
+V Y V + W+ + E L + LL I+ RS
Sbjct: 167 ALDVCLS---YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 217 LQVWSSDKPHP-----QEEYLDCLWAQIVKLR--QDNWT----DHH-----IYRPYTVFD 260
S + + Y +CL +V L Q+ + R V D
Sbjct: 224 KLRIHSIQAELRRLLKSKPYENCL---LV-LLNVQNAKAWNAFNLSCKILLTTRFKQVTD 279
Query: 261 SRLSVALQHNLPNIILPPHHDSLIYPMPSVVFRMF---DYTDCPEE-PSISPL------- 309
+ H I L H +L + + D P E + +P
Sbjct: 280 FLSAATTTH----ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE 335
Query: 310 ---PGAHSIERF--LIEEHLLQIIEM-----------NYFERKDCATQLLKYNMKIP--- 350
G + + + + + L IIE F+ + + + IP
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD--RLS--VFPPSAHIPTIL 391
Query: 351 -------LEYCIVEIIFGELFRLP----TPKYLEIFYGSVLIELCKMKPDTMPQ----VL 395
+ V ++ +L + PK I S+ +EL K+K + ++
Sbjct: 392 LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL-KVKLENEYALHRSIV 450
Query: 396 AQATVILFMRIESMNTACFDRFVAWF-AYHLSNFQFQWSWEDWE--SALKLDLEHPKPKF 452
+ + + D++ +HL N + E + LD + K
Sbjct: 451 DHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHP---ERMTLFRMVFLDFRFLEQKI 507
Query: 453 IHEVLNKCVRLS----------YHQRIKEIVP 474
H+ S Y I + P
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYKPYICDNDP 539
Score = 59.5 bits (143), Expect = 4e-09
Identities = 95/714 (13%), Positives = 195/714 (27%), Gaps = 233/714 (32%)
Query: 133 FLADLVNCHVISTNSLLQLLENMLDASKED-----GVPNVRKDWYVYAVLSCLPWVGREL 187
F+ + +C + + +++L SKE+ + L W L
Sbjct: 29 FVDNF-DC-----KDVQDMPKSIL--SKEEIDHIIMSKDAVSGTLR------LFWT---L 71
Query: 188 YEKKEQALALLLLNIELYLNKRSKKHVAALQVWSSDKPHPQEEYLDCLWAQIVKLRQDNW 247
K+E+ + +E L K ++ ++ Y++ R +
Sbjct: 72 LSKQEEMVQKF---VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ--------RDRLY 120
Query: 248 TDHHIYRPYTVFDSRLSVALQHNLPNIILPPHHDSLIYPMP----SV----VFRMFDYTD 299
D+ ++ Y V + + L+ L L P + LI + + V +
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLE--LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQC 178
Query: 300 CPEEPSISPLPGAH--SIERFLIEEHLLQIIEMNYFERKDCATQLLKYNMKIPLEYCIVE 357
+ +++ E +L++++ ++ T ++ I L ++
Sbjct: 179 KMDF-------KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ 231
Query: 358 IIFGELFRLP-------------TPKYLEIFYGSVLIELCKMKPDTMPQVLAQATVILFM 404
L + K F S CK IL
Sbjct: 232 AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS-----CK---------------IL-- 269
Query: 405 RIESMNTACFDRFVAWFAYHLSNFQFQWSWEDWESALKLDLEHPKPKFIHEVLNKCVRLS 464
+ + D A H+S + E +L K +
Sbjct: 270 -LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK--------------SLLLKYL--- 311
Query: 465 YHQRIKEIVPPQ---FAPLL------PLKPEP-HFKYNQEGGEHLPGFVYAQELINAIKK 514
R +++ P + P ++ + + V +L I+
Sbjct: 312 -DCRPQDL-PREVLTTNPRRLSIIAESIRDGLATWDNWKH--------VNCDKLTTIIES 361
Query: 515 --KQSSPNEI------MAILN---KIPSSSMDEDGADPINPLKIDVFTQVL-LYLGSKSF 562
P E +++ IP T +L L
Sbjct: 362 SLNVLEPAEYRKMFDRLSVFPPSAHIP--------------------TILLSLIWFDVIK 401
Query: 563 SHSFAALSKFYKVLKEHIGHTEESQSYVLKSLFELW--------HDHQQMMAVLIDKMLK 614
S ++K +K SL E + V ++
Sbjct: 402 SDVMVVVNKLHK-----------------YSLVEKQPKESTISIPSIYLELKVKLENEYA 444
Query: 615 TQLLHCSSVANWIFSKEMQPE-FTKL----YVWEIL--HLTIKKMSKYVNRVGKELLD-- 665
LH S V ++ K + Y + + HL + + + LD
Sbjct: 445 ---LHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFR 501
Query: 666 -AKERLKHVSSESEEESDGEGGKKN---EEKISEEVVEKIEEKLEAAQADQKNLFLIIFQ 721
+++++H S+ + G N + K + + + K E +
Sbjct: 502 FLEQKIRHDST----AWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILD------- 550
Query: 722 RFIMILSEHLVRCD-TDGVDFNTHWYKWTIGRLQQVLLAHHE--------QVQK 766
F+ + E+L+ TD L+ L+A E QVQ+
Sbjct: 551 -FLPKIEENLICSKYTD--------------LLRIALMAEDEAIFEEAHKQVQR 589
Score = 50.6 bits (120), Expect = 2e-06
Identities = 45/268 (16%), Positives = 88/268 (32%), Gaps = 59/268 (22%)
Query: 43 ERSTTSLESHLDGLAKVLETDLATYRVKILRILTDCATKYPEKCCIYTTLVGLLNAKNYN 102
++ TT +ES L+ VLE L + + P L +
Sbjct: 353 DKLTTIIESSLN----VLEPAEYRKMFDRLSVFPP-SAHIPTI-----LLSLIWFDVIK- 401
Query: 103 FGGEFVELMVKTF-KDALKNCQWNAARYALRFLADLVNCHVISTNSL-LQLLE--NMLDA 158
V ++V K +L Q + ++ + + + + +L +++ N+
Sbjct: 402 ---SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT 458
Query: 159 SKEDGVPNVRKDWYVYAVLSCLPWVGRELYEKKEQALALLLLNIELYLNKR--SKKHVAA 216
D + D Y Y+ +G L E + L ++L+ R +K
Sbjct: 459 FDSDDLIPPYLDQYFYS------HIGHHLK-NIEHPERMTLFR-MVFLDFRFLEQKIRHD 510
Query: 217 LQVWSSDKPHPQEEYLDCLWAQIVKLRQDNWTDHHIYRPYTVFDS-----RLSVALQHNL 271
W++ L+ L Y+PY + D+ RL A+ L
Sbjct: 511 STAWNASGS-----ILNTL------------QQLKFYKPY-ICDNDPKYERLVNAILDFL 552
Query: 272 P----NIILPPHHD----SLIYPMPSVV 291
P N+I + D +L+ ++
Sbjct: 553 PKIEENLICSKYTDLLRIALMAEDEAIF 580
Score = 30.6 bits (68), Expect = 2.4
Identities = 14/91 (15%), Positives = 32/91 (35%), Gaps = 26/91 (28%)
Query: 693 ISEEVVEKIEEKLEAAQADQKNLFLI---------IFQRFIMILSEHLVRCDTDGVDFNT 743
+S+E ++ I + + A L L + Q+F+ E ++R +
Sbjct: 46 LSKEEIDHI---IMSKDAVSGTLRLFWTLLSKQEEMVQKFV----EEVLRIN-------- 90
Query: 744 HWYKWTIGRLQQVLLAHHEQVQKYSSTLETL 774
YK+ + ++ + Y + L
Sbjct: 91 --YKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 52.4 bits (125), Expect = 5e-07
Identities = 78/569 (13%), Positives = 152/569 (26%), Gaps = 207/569 (36%)
Query: 126 AARYALRFLADLVNCHVISTNSLLQLLENMLDASKEDGVPNVRKDWYVYAVLSCLPWVGR 185
++ L +++ LV Q+L L + + D ++A+ + L
Sbjct: 61 VGKF-LGYVSSLVEPS--KVGQFDQVLNLCLTEFENCYLEG--ND--IHALAAKLLQEND 113
Query: 186 ELYEKKEQAL-----ALLLLNIELYLNKRSKKHVAALQVWSSDKPHP-------Q---EE 230
K ++ + A ++ KK +AL + Q ++
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPF-----DKKSNSALFRAVGEGNAQLVAIFGGQGNTDD 168
Query: 231 YLDCLWAQIVKLRQDNWTDHHIYRPYTVFDSRLSVALQHNLPNIILPPHHDSLIYPMPSV 290
Y + +LR +Y+ Y V L L +I ++
Sbjct: 169 YFE-------ELR-------DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT---- 210
Query: 291 VFRMFDYTDCPEEPSISP-----------LPGAHSIERFLIEEHLLQIIEMNYFERKDCA 339
+ + + E PS +P P LI
Sbjct: 211 --QGLNILEWLENPSNTPDKDYLLSIPISCP--------LI-----------------GV 243
Query: 340 TQLLKYNMKIPLEYCIVEIIFGELFRLPTPKYLEIFYGSVLIELCKMKPDTMPQVLAQAT 399
QL Y V +L P + L AT
Sbjct: 244 IQLAHY--------------------------------VVTAKLLGFTPGELRSYLKGAT 271
Query: 400 VILFMRIESMNTACFDRFVAWFAYHLSNFQFQWSWEDWESALKLDLE------------H 447
+ + TA +A ++ SWE + +++ + +
Sbjct: 272 G----HSQGLVTA---VAIA-----ETD-----SWESFFVSVRKAITVLFFIGVRCYEAY 314
Query: 448 PKPKFIHEVLNKCVRLSYHQRIKEIVPPQFAPLLP---LKPEPHFKYNQEGGEHLPG--- 501
P +L + + E VP +P+L L E Y + HLP
Sbjct: 315 PNTSLPPSILEDSLENN------EGVP---SPMLSISNLTQEQVQDYVNKTNSHLPAGKQ 365
Query: 502 -----------FV---YAQEL--INAIKKKQSSPNEIMAILNKIPSSSMDEDGA---DPI 542
V Q L +N +K +P+ + ++IP S + P+
Sbjct: 366 VEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ--SRIPFSERKLKFSNRFLPV 423
Query: 543 N-----PLKIDVFTQVLLYLGSKSFSHSFAALSKFYKVLKEHIGHTEESQSYVLKSLFEL 597
L + + L + SF A ++ + T +
Sbjct: 424 ASPFHSHLLVPASDLINKDLVKNNV--SFNAKD-----IQIPVYDTFD------------ 464
Query: 598 WHDHQQMMAVLIDKMLKTQLLHCSSVANW 626
D + + + +++ + W
Sbjct: 465 GSDLRVLSGSISERI--VDCI-IRLPVKW 490
Score = 41.6 bits (97), Expect = 0.001
Identities = 82/552 (14%), Positives = 147/552 (26%), Gaps = 201/552 (36%)
Query: 24 VPEN-----QELEDRFEVLIVKVGERSTTSLESHLDGLAKVLET----DLATYRVKILRI 74
VP +L+++F L +G A E +L +
Sbjct: 22 VPTASFFIASQLQEQF-----------NKILPEPTEGFAADDEPTTPAELVG------KF 64
Query: 75 LTDCATKY-PEKCCIYTTLVGL-LNA--KNYNFGGE---FV-ELMVKTFKDALKNCQWNA 126
L ++ P K + ++ L L Y G + +L+ + +K +
Sbjct: 65 LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIK 124
Query: 127 ARYALRFLAD--LVNCHVISTNSLLQLLENMLDASKEDGVPNVRKDWYVYAVL----SCL 180
R +A NS L A E + A+ +
Sbjct: 125 NYITARIMAKRPFDKKS----NSAL------FRAVGEGNAQ-------LVAIFGGQGNTD 167
Query: 181 PWVG--RELYEKKEQALALLLLNIELYLNKRSKKHVAA---------LQVWSSDK-PHPQ 228
+ R+LY+ + L+ L++ + + A + W + P
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
Query: 229 EEYLD---------CLWAQ----IVKLRQDNWTDHHIYRPYTV----------------- 258
++YL + Q +V + +T R Y
Sbjct: 228 KDYLLSIPISCPLIGV-IQLAHYVVTAKLLGFT-PGELRSYLKGATGHSQGLVTAVAIAE 285
Query: 259 ------FDSRLSVAL----------QHNLPNIILPP--HHDSLIY------PMPSV---- 290
F + A+ PN LPP DSL PM S+
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLT 345
Query: 291 ---VFRMFDYTDC--PEEPSI------SP----LPG-AHSIERFLIEEHLLQIIEMNYFE 334
V + T+ P + + G S+ + L
Sbjct: 346 QEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNL--TL---------- 393
Query: 335 RKDCATQLLKYNMKIPLEYCIVEIIFGELFRLPTP--KYLEIF--YGSVLIELCKMKP-- 388
RK A L + +IP F E R ++L + + S L + P
Sbjct: 394 RKAKAPSGLDQS-RIP---------FSE--RKLKFSNRFLPVASPFHSHL-----LVPAS 436
Query: 389 DTMPQVLAQATVILFMRIESMNTACFDRFVAWFAYHLSNFQ----------FQWSWE--- 435
D + + L + V + + +D F S+ +
Sbjct: 437 DLINKDLVKNNVSF--NAKDIQIPVYDTFDG------SDLRVLSGSISERIVDCIIRLPV 488
Query: 436 DWESALKLDLEH 447
WE+ + H
Sbjct: 489 KWETTTQFKATH 500
Score = 39.6 bits (92), Expect = 0.005
Identities = 34/207 (16%), Positives = 62/207 (29%), Gaps = 76/207 (36%)
Query: 455 EVLNKC---VRLSYHQRIKEIVPPQFAPLLPLKPEPHFKYNQEGG----EHLPGFVYAQE 507
+V N+ + +Y I +IV P+ HF E G E+ ++
Sbjct: 1644 DVWNRADNHFKDTYGFSILDIVINN-----PVNLTIHF--GGEKGKRIRENYSAMIFETI 1696
Query: 508 LINAIKKKQSSPNEIMAILNKIPSSSMDEDGADPINPLKIDVFTQVLLYLGSKSFSHSFA 567
+ +K + +I +N+ +S L FTQ L A
Sbjct: 1697 VDGKLKTE-----KIFKEINEHSTSYTFRS---EKGLLSATQFTQPAL------TLMEKA 1742
Query: 568 ALSKFYKVLKEH---------IGHTEESQS---Y--------------VLKSLF------ 595
A ++ LK GH S Y +++ +F
Sbjct: 1743 A----FEDLKSKGLIPADATFAGH-----SLGEYAALASLADVMSIESLVEVVFYRGMTM 1793
Query: 596 -------ELWHDHQQMMAVLIDKMLKT 615
EL + M+A+ ++ +
Sbjct: 1794 QVAVPRDELGRSNYGMIAINPGRVAAS 1820
Score = 36.6 bits (84), Expect = 0.042
Identities = 45/298 (15%), Positives = 81/298 (27%), Gaps = 107/298 (35%)
Query: 555 LYLGSKSFSHSF---AALSKFYKVLKEHIGHTEESQSYVLKSLFELWHDHQQMMAV-LID 610
L L S H A L+E + D + L+
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTE------GFAADDEPTTPAELVG 62
Query: 611 KMLKTQLLHCSSVANWIFSKEMQPEFTKLYVWEILHLTIKKM-SKYVNRVGKELLDAKER 669
K L + SS ++P + ++L+L + + + Y+ G ++
Sbjct: 63 KFLG----YVSS--------LVEPSKVGQFD-QVLNLCLTEFENCYLE--GNDI------ 101
Query: 670 LKH-VSSESEEESDGEGGKKNE--------EKISEEVVEKIEEK--LEAAQADQKNLFLI 718
H ++++ +E+D K E +++ +K A L
Sbjct: 102 --HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVA- 158
Query: 719 IF------------------------QRFIMILSEHLVRCDTDGVDFNTHWYK------W 748
IF I +E L +D + + W
Sbjct: 159 IFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW 218
Query: 749 ---------------------TIGRLQQVLLAHHEQVQKYSSTLETLLFT-QDLEPHI 784
IG +Q LAH Y T + L FT +L ++
Sbjct: 219 LENPSNTPDKDYLLSIPISCPLIGVIQ---LAH------YVVTAKLLGFTPGELRSYL 267
Score = 30.4 bits (68), Expect = 3.0
Identities = 64/371 (17%), Positives = 108/371 (29%), Gaps = 130/371 (35%)
Query: 184 GRELYEKKEQALALLLLNIELYLNKRSKKHVAALQVWSSDKPHPQEEYLDCLWAQIVKLR 243
G +LY+ + AA VW+ H ++ Y + IV
Sbjct: 1632 GMDLYKTSK----------------------AAQDVWNRADNHFKDTYGFSI-LDIVI-- 1666
Query: 244 QDNWTDHHIYRPYTVFDSRLSVALQHNLPNIILPPHHDSLIYPMPSVVFRMFDYTDCPEE 303
+N + I+ F ++ N +I D + +F+ +
Sbjct: 1667 -NNPVNLTIH-----FGGEKGKRIRENYSAMIFETIVDGKLKTEK--IFKEIN----EHS 1714
Query: 304 PSISPLPGAHSIERFLIEEHLLQIIEMNYFERKDCATQLLKYNMKIP----LEYCIVEII 359
S + F E+ LL + F TQ P +E E +
Sbjct: 1715 TSYT----------FRSEKGLLSATQ---F------TQ--------PALTLMEKAAFEDL 1747
Query: 360 FGELFRLPTPKYLEIFYG-SVLIE---LCKMKPDTMPQVLAQATVILFMRIESMNTACFD 415
+P F G S L E L + D M + ++F R +M A
Sbjct: 1748 -KSKGLIPADAT---FAGHS-LGEYAALASLA-DVMS--IESLVEVVFYRGMTMQVA--- 1796
Query: 416 RFVAWFAYHLSNFQFQWSWEDWESALKLDLEHPKPKFIHEVLNKCVRLSYHQ--RIKEIV 473
V SN+ + ++ F E L V + + EIV
Sbjct: 1797 --VPRDELGRSNY----------GMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIV 1844
Query: 474 PPQFAPLLPLKPEPHFKYNQEG------GEHLPGFVYAQELINAIKKKQSSPNEIMAI-L 526
YN E G+ L ++N IK ++ I +
Sbjct: 1845 ----------------NYNVENQQYVAAGD-LRALDTVTNVLNFIKLQK--------IDI 1879
Query: 527 NKIPSS-SMDE 536
++ S S++E
Sbjct: 1880 IELQKSLSLEE 1890
Score = 29.6 bits (66), Expect = 5.0
Identities = 28/157 (17%), Positives = 47/157 (29%), Gaps = 56/157 (35%)
Query: 21 RRRVPENQE---LEDRFEVLIVKVGERSTTSLESHLDGLAKVLETDLATYRVKI----LR 73
+ R+P ++ +RF L V S L + ++ DL V ++
Sbjct: 404 QSRIPFSERKLKFSNRF--LPVASPFHS-----HLLVPASDLINKDLVKNNVSFNAKDIQ 456
Query: 74 ILTDCATKYPEKCCIYTTLVGLLNAKNY-NFGGEFVELMVKTFKDAL--KNCQWNA---- 126
I P +Y T + + G E +V D + +W
Sbjct: 457 I--------P----VYDT----FDGSDLRVLSGSISERIV----DCIIRLPVKWETTTQF 496
Query: 127 -ARYALRF-------LADLVN-------CHVISTNSL 148
A + L F L L + VI +L
Sbjct: 497 KATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTL 533
>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 = 0.027
Identities = 8/35 (22%), Positives = 16/35 (45%), Gaps = 10/35 (28%)
Query: 762 EQVQKYSSTLETLLFTQDLEPHILDVFHQFLALNA 796
+ ++K ++L+ L+ D P LA+ A
Sbjct: 20 QALKKLQASLK--LYADDSAPA--------LAIKA 44
Score = 32.6 bits (73), Expect = 0.26
Identities = 8/32 (25%), Positives = 15/32 (46%), Gaps = 9/32 (28%)
Query: 370 KYLEIFYGSVLIELCKM-KPDTMPQVLAQATV 400
K L+ S+ K+ D+ P + +AT+
Sbjct: 23 KKLQ---ASL-----KLYADDSAPALAIKATM 46
Score = 28.0 bits (61), Expect = 8.7
Identities = 6/24 (25%), Positives = 10/24 (41%), Gaps = 6/24 (25%)
Query: 467 QRIKEI------VPPQFAPLLPLK 484
Q +K++ AP L +K
Sbjct: 20 QALKKLQASLKLYADDSAPALAIK 43
>3sp1_A Cysteinyl-tRNA synthetase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid, LYME
disease; HET: AMP; 2.55A {Borrelia burgdorferi}
Length = 501
Score = 31.4 bits (72), Expect = 1.3
Identities = 13/67 (19%), Positives = 24/67 (35%), Gaps = 6/67 (8%)
Query: 652 MSKYVNRVGKELLDAKERLKHVSSESEEESDGEGGKKNEEKISEEVVEKIEEKLEA---- 707
+ K N L + S + E + + ++ I E + IEE+ A
Sbjct: 411 IIKSDNLSFVSKLRLAFIFDEIMSLNLREEILKNLQNHDVVIDENMKALIEERRIAKCEK 470
Query: 708 --AQADQ 712
+AD+
Sbjct: 471 NFKRADE 477
>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3 ligase;
1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2 PDB:
1n87_A
Length = 61
Score = 27.7 bits (62), Expect = 2.3
Identities = 7/26 (26%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 301 PEEPSISPLPGAHSIERFLIEEHLLQ 326
P P +SP E+ L+E+++
Sbjct: 13 PRRPVLSPKSR-TIFEKSLLEQYVKD 37
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.7 bits (66), Expect = 2.8
Identities = 10/55 (18%), Positives = 23/55 (41%), Gaps = 16/55 (29%)
Query: 667 KERLKHVSSESEEESDGEGGKKNEEKISEEVVEKIE-------EKLEAAQADQKN 714
++RL +E D K E++ E+ + +E E++E + + +
Sbjct: 95 RKRL--------QELD-AASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRI 140
>1qy5_A Endoplasmin; GRP94, NECA, HSP90, chaperone; HET: NEC; 1.75A {Canis
lupus familiaris} SCOP: d.122.1.1 PDB: 1qy8_A* 1qye_A*
1u0y_A* 1yt2_A*
Length = 269
Score = 29.5 bits (67), Expect = 4.2
Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 4/75 (5%)
Query: 630 KEMQPEFTKLYVWEILHLTIKKMSKYVNRVGKELLDAKERLKHVSSESEEESDGEGGKKN 689
KE ++ L + I +L +KK S+++N + +K E EE + E +
Sbjct: 184 KEEASDY--LELDTIKNL-VKKYSQFIN-FPIYVWSSKTETVEEPMEEEEAAKEEKEDSD 239
Query: 690 EEKISEEVVEKIEEK 704
+E EE E+ + K
Sbjct: 240 DEAAVEEEEEEKKPK 254
>1pb6_A Hypothetical transcriptional regulator YCDC; helix-loop-helix,
dimer, structural genomics, PSI, protein structure
initiative; 2.50A {Escherichia coli} SCOP: a.4.1.9
a.121.1.1 PDB: 3loc_A*
Length = 212
Score = 28.9 bits (65), Expect = 4.6
Identities = 13/81 (16%), Positives = 30/81 (37%), Gaps = 5/81 (6%)
Query: 590 VLKSLFELWHDHQQMMAVLIDKMLKTQLLHCSSVANWIFSKEMQPEFTKLYVWEILHLTI 649
VL+ + ++W + + + S++ P+ ++L+ E+L
Sbjct: 69 VLRQILDIWLAPLKAFREDFAPLAA---IKEYIRLKLEVSRD-YPQASRLFCMEMLAGA- 123
Query: 650 KKMSKYVNRVGKELLDAKERL 670
+ + K L+D K L
Sbjct: 124 PLLMDELTGDLKALIDEKSAL 144
>2qtq_A Transcriptional regulator, TETR family; transcription regulator,
DNA/RNA-binding 3-helical bundle FO turn helix motif,
HTH motif; HET: MSE; 1.85A {Novosphingobium
aromaticivorans} PDB: 2rha_A*
Length = 213
Score = 28.8 bits (65), Expect = 5.0
Identities = 5/38 (13%), Positives = 12/38 (31%)
Query: 633 QPEFTKLYVWEILHLTIKKMSKYVNRVGKELLDAKERL 670
P +L + + + + ++ L A R
Sbjct: 108 YPYLNRLLMRLVRDSDEAEAKRIADQYLLPLHRAYNRF 145
>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 = 29.4 bits (66), Expect = 5.5
Identities = 13/71 (18%), Positives = 32/71 (45%)
Query: 645 LHLTIKKMSKYVNRVGKELLDAKERLKHVSSESEEESDGEGGKKNEEKISEEVVEKIEEK 704
LH I ++ + + +L +E L+ + E+E+ + + + E + ++E
Sbjct: 1072 LHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQED 1131
Query: 705 LEAAQADQKNL 715
LE+ +A +
Sbjct: 1132 LESEKAARNKA 1142
>2j01_L 50S ribosomal protein L7; ribosome, tRNA, paromomycin, mRNA,
translation; 2.8A {Thermus thermophilus} PDB: 2j03_L
3i8i_I
Length = 125
Score = 27.8 bits (62), Expect = 6.3
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 684 EGGKKNEEKISEEVVEKIEEKLEAAQA 710
E G +E +S++ E+I++KLEA A
Sbjct: 94 EKGGPVKEGVSKQEAEEIKKKLEAVGA 120
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
0.321 0.136 0.415
Gapped
Lambda K H
0.267 0.0450 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 12,497,861
Number of extensions: 763679
Number of successful extensions: 1856
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1826
Number of HSP's successfully gapped: 40
Length of query: 796
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 695
Effective length of database: 3,881,772
Effective search space: 2697831540
Effective search space used: 2697831540
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 (21.9 bits)
S2: 61 (28.0 bits)