RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7977
(1225 letters)
>3ei3_A DNA damage-binding protein 1; UV-damage, DDB, nucleotide excision
repair, xeroderma pigmentosum, cytoplasm, DNA repair;
HET: DNA PG4; 2.30A {Homo sapiens} PDB: 3ei1_A* 3ei2_A*
3ei4_A* 4a0l_A* 3e0c_A* 3i7k_A* 3i7h_A* 3i7l_A* 3i7n_A*
3i7o_A* 3i7p_A* 3i89_A* 3i8c_A* 3i8e_A* 2b5l_A 2b5m_A
2hye_A* 4a11_A* 4a0k_C* 4a0a_A* ...
Length = 1158
Score = 428 bits (1101), Expect = e-130
Identities = 377/664 (56%), Positives = 457/664 (68%), Gaps = 47/664 (7%)
Query: 79 SERYLLGDLAGRLFMLLLEKEEKMDGTFSVKEPKVELLGEISIPECLTYLDNGVVFVGSR 138
RYLLGD+ GRLFMLLLEKEE+MDGT ++K+ +VELLGE SI ECLTYLDNGVVFVGSR
Sbjct: 286 GSRYLLGDMEGRLFMLLLEKEEQMDGTVTLKDLRVELLGETSIAECLTYLDNGVVFVGSR 345
Query: 139 LGDSQLVKLNRSPDENGTYVSVMESFTNLAPIIDMVVVDLERQGQGQLVTCSGGFKEGSL 198
LGDSQLVKLN +E G+YV ME+FTNL PI+DM VVDLERQGQGQLVTCSG FKEGSL
Sbjct: 346 LGDSQLVKLNVDSNEQGSYVVAMETFTNLGPIVDMCVVDLERQGQGQLVTCSGAFKEGSL 405
Query: 199 RIIRNGIGIEEHACIDLPGIKGIWALSIGSPKNLDNTLVLSFVGHTRVLTLSGAEVEETE 258
RIIRNGIGI EHA IDLPGIKG+W L + D+TLVLSFVG TRVL L+G EVEETE
Sbjct: 406 RIIRNGIGIHEHASIDLPGIKGLWPLRSDPNRETDDTLVLSFVGQTRVLMLNGEEVEETE 465
Query: 259 MGGFTSDQQTFYCGNVDPRTVLQVTPSAAILISTESKARVSSWEPPNGKSISVVSCNKNQ 318
+ GF DQQTF+CGNV + ++Q+T ++ L+S E KA VS W+ P K+ISV SCN +Q
Sbjct: 466 LMGFVDDQQTFFCGNVAHQQLIQITSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQ 525
Query: 319 VLCATGCDVYYLEVHGSEIKQLAHRALEYEVACLDISPLSNEETSSEPAKAQLAAVGLWT 378
V+ A G +YYL++H E++Q++H +E+EVACLDI+PL + S L A+GLWT
Sbjct: 526 VVVAVGRALYYLQIHPQELRQISHTEMEHEVACLDITPLGDSNGLS-----PLCAIGLWT 580
Query: 379 DISARLLSLPSLEEVCKEPLGGEIIPRSILMTCFEGHCYLLVALGDGSMFYFSLDPASGR 438
DISAR+L LPS E + KE LGGEIIPRSILMT FE YLL ALGDG++FYF L+ +G
Sbjct: 581 DISARILKLPSFELLHKEMLGGEIIPRSILMTTFESSHYLLCALGDGALFYFGLNIETGL 640
Query: 439 LTDKKKVTLGTQPTVLKTFRSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLRQVNHMCSL 498
L+D+KKVTLGTQPTVL+TFRSLSTTNVFACSDRPTVIYSSNHKLVFSNVNL++VN+MC L
Sbjct: 641 LSDRKKVTLGTQPTVLRTFRSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPL 700
Query: 499 NAESYPDSLALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDI 558
N++ YPDSLALA +ST T GTIDEIQKLHIRTVPL E+PR+I YQE SQ FGV+++RI++
Sbjct: 701 NSDGYPDSLALANNSTLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEV 760
Query: 559 QEADGST-PVRPSASTQAQNTTSSTISSLSYIKPGSTKQSTANQPADFNMEVEVHNLLII 617
Q+ G T +RPSASTQA +++ S+ S TA F EVEVHNLLII
Sbjct: 761 QDTSGGTTALRPSASTQALSSSVSSSKLFSSS--------TAPHETSFGEEVEVHNLLII 812
Query: 618 DQNTFER------------------NFTSSTDLNLVV-----------AKNNRIEIHTVT 648
DQ+TFE + +V K RI + +
Sbjct: 813 DQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYFIVGTAMVYPEEAEPKQGRIVVFQYS 872
Query: 649 PEGLRPVKEIFLYGKIAVMKFFRG----PTDKKDLLFIITQRTDLNLVVAKNNRIEIHTV 704
L+ V E + G + M F G + L+ T +L N I +
Sbjct: 873 DGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELRTECNHYNNIMALYL 932
Query: 705 TPEG 708
+G
Sbjct: 933 KTKG 936
Score = 241 bits (615), Expect = 2e-65
Identities = 193/303 (63%), Positives = 242/303 (79%), Gaps = 5/303 (1%)
Query: 683 ITQRTDLNLVVAKNNRIEIHTVTPEGLRPVKEIFLYGKIAVMKFFRGPTDKKDLLFIITQ 742
T DLNL++AKN R+EI+ VT EGLRPVKE+ +YGKIAVM+ FR + KDLLFI+T
Sbjct: 41 FTSAEDLNLLIAKNTRLEIYVVTAEGLRPVKEVGMYGKIAVMELFRPKGESKDLLFILTA 100
Query: 743 RYNAMILECRGDIDNLEILTKAHGNVSDRIGKPSENGIIAIIDPEARVIGLRLYNGLFKI 802
+YNA ILE + ++++I+T+AHGNV DRIG+PSE GII IIDPE R+IGLRLY+GLFK+
Sbjct: 101 KYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGIIGIIDPECRMIGLRLYDGLFKV 160
Query: 803 IPLEKDNFELKASSIRMEELEIQDVQFLHGCQNPTIICIHQDVNGRHVKTHEISLKEKEF 862
IPL++DN ELKA +IR+EEL + DV+FL+GCQ PTI ++QD GRHVKT+E+SL+EKEF
Sbjct: 161 IPLDRDNKELKAFNIRLEELHVIDVKFLYGCQAPTICFVYQDPQGRHVKTYEVSLREKEF 220
Query: 863 TKTPWKQDNIEMEASLVIPVPEPLGGAIIIGQESILYHSGKSYVAVAPQIIKSSTIVCYA 922
K PWKQ+N+E EAS+VI VPEP GGAIIIGQESI YH+G Y+A+AP IIK STIVC+
Sbjct: 221 NKGPWKQENVEAEASMVIAVPEPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHN 280
Query: 923 KVDANGERYLLGDLAGRLFMLLLEKEEKMDGTFSVKEPKVELLGEHCKGPVVEMSSLSYI 982
+VD NG RYLLGD+ GRLFMLLLEKEE+MDGT ++K+ +VELLGE L+Y+
Sbjct: 281 RVDPNGSRYLLGDMEGRLFMLLLEKEEQMDGTVTLKDLRVELLGE-----TSIAECLTYL 335
Query: 983 KPG 985
G
Sbjct: 336 DNG 338
Score = 227 bits (579), Expect = 7e-61
Identities = 194/530 (36%), Positives = 260/530 (49%), Gaps = 35/530 (6%)
Query: 688 DLNLVVAKNNRIEIHTVTPEGLRPVKEIFLYGKIAVMKFFRGPTDKKDLLFIITQRYNAM 747
+VVA + + P+ LR + + ++A + + +
Sbjct: 523 SSQVVVAVGRALYYLQIHPQELRQISHTEMEHEVACLDITPLGDSNGLSPLCAIGLWTDI 582
Query: 748 ILECRGDIDNLEILTKAHGNVSDRIGKPSENGIIAIIDPEARVIGLRLYNGLFKIIPLEK 807
I L H + P + + L +G L
Sbjct: 583 SAR----ILKLPSFELLHKEMLGGEIIPRSILMTTFESSHYLLCALG--DGALFYFGLNI 636
Query: 808 DNFELKASSIRMEELEIQDVQFLHGCQNPTIICIHQDVNGRHVKTHEISLKEKEFTKTPW 867
+ L + ++ + + I + +
Sbjct: 637 ETGLLSDRKKVTLGTQPTVLRTFRSLSTTNVFACSD-------RPTVIYSSNHKLVFSNV 689
Query: 868 KQDNIEMEASLVIPVPEPLGGAIIIGQESILYHSGKSYVAVAPQIIKSSTIVCYAKVDAN 927
+ L +S+ + + I + V
Sbjct: 690 NLKEVNYMCPLNSD----------GYPDSLALANNSTLTIGT---IDEIQKLHIRTVPLY 736
Query: 928 GE-RYLLGDLAGRLFMLLLEKEEKMDGTFSVKEPKVELLGEHCKGPVVEMSSLSYIKPGS 986
R + + F +L + E D + + + V S
Sbjct: 737 ESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSKLFSSS---- 792
Query: 987 TKQSTANQPADFNMEVEVHNLLIIDQNTFEILHAHQLFPGEYALSLISSKFGEDPNTYFV 1046
TA F EVEVHNLLIIDQ+TFE+LHAHQ EYALSL+S K G+DPNTYF+
Sbjct: 793 ----TAPHETSFGEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYFI 848
Query: 1047 LGTAVVHPEENEPKQGRIIIFHYDDGKLQQIAEKEIKGACYSMCEFNGKLLASINSTVRL 1106
+GTA+V+PEE EPKQGRI++F Y DGKLQ +AEKE+KGA YSM EFNGKLLASINSTVRL
Sbjct: 849 VGTAMVYPEEAEPKQGRIVVFQYSDGKLQTVAEKEVKGAVYSMVEFNGKLLASINSTVRL 908
Query: 1107 FEWTNEKELRLECSHFNNIIALFLKVKGDFILVGDLMRSLTLLQYKTMEGSFEEISRDYN 1166
+EWT EKELR EC+H+NNI+AL+LK KGDFILVGDLMRS+ LL YK MEG+FEEI+RD+N
Sbjct: 909 YEWTTEKELRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKPMEGNFEEIARDFN 968
Query: 1167 PNWMTSIEILDDELFLGAENSYNLFICQKDSAATSDEDRTHLQEVGTVHL 1216
PNWM+++EILDD+ FLGAEN++NLF+CQKDSAAT+DE+R HLQEVG HL
Sbjct: 969 PNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHL 1018
Score = 60.4 bits (145), Expect = 3e-09
Identities = 42/81 (51%), Positives = 58/81 (71%), Gaps = 2/81 (2%)
Query: 625 NFTSSTDLNLVVAKNNRIEIHTVTPEGLRPVKEIFLYGKIAVMKFFRGPTDKKDLLFIIT 684
+FTS+ DLNL++AKN R+EI+ VT EGLRPVKE+ +YGKIAVM+ FR + KDLLFI+T
Sbjct: 40 HFTSAEDLNLLIAKNTRLEIYVVTAEGLRPVKEVGMYGKIAVMELFRPKGESKDLLFILT 99
Query: 685 QRTDLNLV--VAKNNRIEIHT 703
+ + ++ I+I T
Sbjct: 100 AKYNACILEYKQSGESIDIIT 120
Score = 60.0 bits (144), Expect = 4e-09
Identities = 45/70 (64%), Positives = 49/70 (70%)
Query: 1 EGSLRIIRNGIGIEEHACIDLPGIKGIWALSIGSPKNLDNTLVLSFVGHTRVLTLSGAEW 60
EGSLRIIRNGIGI EHA IDLPGIKG+W L + D+TLVLSFVG TRVL L+G E
Sbjct: 402 EGSLRIIRNGIGIHEHASIDLPGIKGLWPLRSDPNRETDDTLVLSFVGQTRVLMLNGEEV 461
Query: 61 GFHLLRGFSS 70
L GF
Sbjct: 462 EETELMGFVD 471
>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 = 62.6 bits (151), Expect = 7e-10
Identities = 83/560 (14%), Positives = 165/560 (29%), Gaps = 163/560 (29%)
Query: 596 QSTANQPA-DFNMEVEVHNLLIIDQNTFERNFTSSTDLNLVVAKNNRIEIHTVTPEGL-- 652
++ QP+ M +E + L D F N+ +R++ + + L
Sbjct: 99 KTEQRQPSMMTRMYIEQRDRLYNDNQVF-------AKYNV-----SRLQPYLKLRQALLE 146
Query: 653 -RPVKEIFLY-----GK----IAVMKFFR--------------GPTDKKDLLFIITQRTD 688
RP K + + GK + V ++ + + + + Q+
Sbjct: 147 LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL 206
Query: 689 LNLVVAKNNRIEIHTVTPEGLRPVKEIFLYGKIAVMKFFRGPTDKKDLLFII-----TQR 743
+ +R + + + ++ + + + + LL ++ +
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQA-------ELRRLLKSKPYENCLL-VLLNVQNAKA 258
Query: 744 YNAMILECRGDIDNLEIL-TKAHGNVSDRIGKPSENGIIAIIDPEARVIGLRLYNGLFKI 802
+NA L C+ IL T V+D + + I++
Sbjct: 259 WNAFNLSCK-------ILLTTRFKQVTDFLS-AATTTHISLDHHSM-------------- 296
Query: 803 IPLEKDNFE---LKASSIRMEEL--EIQDVQFLHGCQNPTIICIHQDVNGRHVKTHEISL 857
L D + LK R ++L E+ NP + I I+
Sbjct: 297 -TLTPDEVKSLLLKYLDCRPQDLPREVLTT-------NPRRLSI-------------IAE 335
Query: 858 KEKEFTKT--PWKQDNIE-----MEASLVIPVPEPLGGAIIIGQESILYHSGKSYVAVAP 910
++ T WK N + +E+SL + P ++ ++ ++V P
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEY-------RK--MFDR----LSVFP 382
Query: 911 Q--IIKSSTIVCY-AKVDANGERYLLGDLAGRLFMLLLEKEEK------MDGTFSVKEPK 961
I + + V + ++ L L+EK+ K +K
Sbjct: 383 PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY---SLVEKQPKESTISIPSIYLELKVKL 439
Query: 962 VELLGEHCKGPVVEMSSLSYIKPGSTKQSTANQPADFN--MEVEVHNLLIIDQNTFEILH 1019
H +V+ Y P + P H+L I+
Sbjct: 440 ENEYALHRS--IVD----HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHP-----E 488
Query: 1020 AHQLFPGEYA-LSLISSKF----------GEDPNTYFVLGTAVVHPEENEPKQGRII--I 1066
LF + + K G NT L + +N+PK R++ I
Sbjct: 489 RMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAI 548
Query: 1067 FHYDDGKLQQIAEKEIKGAC 1086
+ L +I E I
Sbjct: 549 LDF----LPKIEENLICSKY 564
Score = 62.2 bits (150), Expect = 1e-09
Identities = 89/537 (16%), Positives = 172/537 (32%), Gaps = 164/537 (30%)
Query: 734 KDLLFIITQRYNAMILECRGDIDNL--EILTKAHGNVSDRIGKPSENGIIAIIDPEARVI 791
KD+L + + +C+ D+ ++ IL+K + I D +
Sbjct: 19 KDILSVFEDAFVDN-FDCK-DVQDMPKSILSKE--EIDHIIMSK---------DAVSGT- 64
Query: 792 GLRLYNGLFKIIPLEKDNFELKASSIR---MEELEIQDVQFLHGCQNPTIICIHQDVNGR 848
LRL+ K + +EE+ + +FL +P I +
Sbjct: 65 -LRLF-----------WTLLSKQEEMVQKFVEEVLRINYKFL---MSP----IKTEQRQP 105
Query: 849 HVKTHE-ISLKEKEFTKT-PWKQDNI-------EMEASLVIPVPEPLGGAIIIGQESILY 899
+ T I +++ + + + N+ ++ +L+ P +L
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN----------VLI 155
Query: 900 H----SGKSYVAVAPQIIKSSTIVCYAKVDANGERYLLGDLAGRLFMLLLEKEEKMD-GT 954
SGK++VA+ + S + C KMD
Sbjct: 156 DGVLGSGKTWVAL--DVCLSYKVQC-----------------------------KMDFKI 184
Query: 955 FSVKEPKVELLGEHCKGP--VVEM-SSLSY-IKPGSTKQS--TANQPADFN--------- 999
F + L +C P V+EM L Y I P T +S ++N +
Sbjct: 185 FWLN------LK-NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL 237
Query: 1000 MEVEVHN--LLIID--QNTFEILHAHQLFPGEYALS---LISSKFGEDPNTYFVLGTAVV 1052
++ + + LL++ QN + +A F LS L++++F + T F+
Sbjct: 238 LKSKPYENCLLVLLNVQNA-KAWNA---F----NLSCKILLTTRFKQ--VTDFLSAATTT 287
Query: 1053 HPEENEPKQGRIIIFHYDDGK--LQQIAEKEIKGACYSMCEFNGKLLASINSTVRLFEWT 1110
H + D+ K L + + + + N + L+ I ++R T
Sbjct: 288 HISLDHHSMT----LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLAT 343
Query: 1111 NEKELRLECSHFNNIIALFLKVKGDFILVGDLMRSLTLLQYKTMEGSFEEISRDYN-PN- 1168
+ + C II L V L R + + + F + P
Sbjct: 344 WDNWKHVNCDKLTTIIESSLNV-----LEPAEYRKM----FDRL-SVFPP---SAHIPTI 390
Query: 1169 -----WMTSIEILDDELFLGAENSYNLFICQKDSAATSDED-----RTHLQEVGTVH 1215
W I+ D + + + Y+L Q + S + L+ +H
Sbjct: 391 LLSLIWFDVIKS-DVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH 446
Score = 50.6 bits (120), Expect = 3e-06
Identities = 51/363 (14%), Positives = 95/363 (26%), Gaps = 104/363 (28%)
Query: 48 GHTRVLTLSGA-EWGFHLLRGFSSLGSLW----NGWSERYLLGDLAGRLFMLLLEKEEKM 102
G T + L + F W N S +L L L+ + +
Sbjct: 162 GKT-WVALDVCLSYKVQCKMDF---KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217
Query: 103 DGTFSVKEPKVELLGEISI-------PECLTYLDNGV-------VF-VGSRLGDSQLVKL 147
D + ++K + E+ CL L N V F + ++ L+
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN-VQNAKAWNAFNLSCKI----LL-- 270
Query: 148 NRSPDENGTYVSVMESFTNLAPIIDMVVVDLERQGQGQLVTCSGGFKEG-SLRIIRNGIG 206
T T + D + L S ++ +
Sbjct: 271 --------T--------TRFKQVTD--FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD 312
Query: 207 IEEHACIDLP---------GIKGIWALSIGSPKNLDNTLVLSFVGHTRVLTLSGAEVEET 257
DLP + I DN ++ T ++ S +E
Sbjct: 313 CRPQ---DLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA 369
Query: 258 EMGGFTSDQQTFY-CG----NVD-PRTVLQV-----TPSAAILISTE--SKARVSSWEPP 304
E ++ F + P +L + S +++ + + V
Sbjct: 370 EY------RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 305 NGKSISVVSCNKNQVLCATGCDVYY-LEVHGSEIKQLAHRAL--EYEVACL----DISPL 357
+ SI +Y L+V L HR++ Y + D+ P
Sbjct: 424 STISIP---------------SIYLELKVKLENEYAL-HRSIVDHYNIPKTFDSDDLIPP 467
Query: 358 SNE 360
+
Sbjct: 468 YLD 470
Score = 44.1 bits (103), Expect = 3e-04
Identities = 76/481 (15%), Positives = 139/481 (28%), Gaps = 135/481 (28%)
Query: 90 RLFMLLLEKEEKMDGTF--SVKEPKVELLGEISIPECLTYLDNGVVFVGSR---LGDSQ- 143
RLF LL K+E+M F V + L E +++ R D+Q
Sbjct: 66 RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV 125
Query: 144 LVKLNRSPDENGTYVSVMESFTNLAPIIDMVVVDLERQGQGQLVTCSGGFKEGSL--RII 201
K N S + Y+ + ++ L P ++++ G G + + +
Sbjct: 126 FAKYNVSRLQ--PYLKLRQALLELRPAKNVLI-----DGV-------LGSGKTWVALDVC 171
Query: 202 RNGIGIEEHACIDLPGIKGI-WALSIGSPKNLDNTLVLSFVGHTRVLTLSGAEVEETEMG 260
+ ++ + I W L++ + + + L EM
Sbjct: 172 LS-YKVQCK----MDF--KIFW-LNLKNCNSPETVL---------------------EM- 201
Query: 261 GFTSDQQTFYCGNVDPRTVLQVTPSAAILISTES-KARVSSW--EPPNGKSISVVSCNKN 317
Q +DP + S+ I + S +A + P + V+
Sbjct: 202 -----LQKL-LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL---- 251
Query: 318 QVLCATGCDVYYLEV-----HGSEI------KQLAHRALEYEVACLDISPLSNEETSSEP 366
+V + +I KQ+ + + S T E
Sbjct: 252 --------NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE- 302
Query: 367 AKAQLAAVGLWTDISARLLSLPSLEEVCK-EPLGGEIIPRSILMTCFEGHCYLLVALGDG 425
K+ L + D + LP EV P II S + DG
Sbjct: 303 VKSLLL---KYLDCRPQ--DLP--REVLTTNPRRLSIIAES---------------IRDG 340
Query: 426 -SMFYFSLDPASGRLTDKKKVTLGTQ-PTVLKT-FRSLS--------TTNVFA---CSDR 471
+ + +LT + +L P + F LS T + +
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI 400
Query: 472 PTVIYSSNHKLV-FSNVNLRQVNHMCSLNAESYPDSLALATDSTFTFGTIDEIQKLHIRT 530
+ + +KL +S V + S+ S+ L ++ LH
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKESTISIP------SIYLELKV-----KLENEYALHRSI 449
Query: 531 V 531
V
Sbjct: 450 V 450
>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 = 58.1 bits (140), Expect = 2e-08
Identities = 52/246 (21%), Positives = 87/246 (35%), Gaps = 78/246 (31%)
Query: 945 LEKEEKMDGTFSVKEPKVELLGEHCKGPVVEMSSLSYIKPGSTKQSTAN-QPADFNMEVE 1003
+ E +DG E + + EH +S ++ +T QPA ME
Sbjct: 1691 MIFETIVDGK-LKTEKIFKEINEH-------STSYTFRSEKGLLSATQFTQPALTLMEKA 1742
Query: 1004 VHNLL----IIDQN-TFEILHA-HQLFPGEY-ALSLISSKFG-EDPNTYFVLGTAVVHPE 1055
L +I + TF A H L GEY AL+ ++ E VV
Sbjct: 1743 AFEDLKSKGLIPADATF----AGHSL--GEYAALASLADVMSIES-------LVEVVF-- 1787
Query: 1056 ENEPKQGRIIIFHYDDGKLQQIA--EKEIKGACYSMCEFN-GKLLASINSTV------RL 1106
R G Q+A E+ + Y M N G++ AS + R+
Sbjct: 1788 ------YR--------GMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERV 1833
Query: 1107 FEWTNEKELRLECSHFN----------NIIAL--------FLKVKGDFILVGDLMRSLTL 1148
+ T +E ++N ++ AL F+K++ I + +L +SL+L
Sbjct: 1834 GKRTGWL---VEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQK--IDIIELQKSLSL 1888
Query: 1149 LQYKTM 1154
+ +
Sbjct: 1889 EEVEGH 1894
Score = 57.0 bits (137), Expect = 5e-08
Identities = 73/539 (13%), Positives = 148/539 (27%), Gaps = 203/539 (37%)
Query: 548 TFGVITTRIDI-----------QEADGSTPVRPSASTQAQNTTSSTISS----LSYIKPG 592
+ G + + + QE P+ A + ++ L Y+
Sbjct: 12 SHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYV--- 68
Query: 593 STKQSTANQPADFNMEVEVHNLLIIDQNTFERNFTSSTDLNLVVAKNNRIEIHTVTPEGL 652
S+ +P+ +V NL + FE + D++ + AK + L
Sbjct: 69 ----SSLVEPSKVGQFDQVLNLCL---TEFENCYLEGNDIHALAAK-----LLQENDTTL 116
Query: 653 RPVKEI---FLYGKIAVMKFFRGPTDKKDLLFIITQRTDLNLVVAKNNRIEIHTV----- 704
KE+ ++ +I + F ++ LF R ++ +
Sbjct: 117 VKTKELIKNYITARIMAKRPFDKKSN--SALF----RA------VGEGNAQLVAIFGGQG 164
Query: 705 TPEG----LR---------------------------PVKEIFLYGK-IAVMKFFRGPTD 732
+ LR + ++ + + ++++ P++
Sbjct: 165 NTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSN 224
Query: 733 KKDLLFI-----------ITQ--RYNAMILECRGDIDNLEILTKAHGNVSDRIGKPS--E 777
D ++ + Q Y ++ + +L G + + +
Sbjct: 225 TPDKDYLLSIPISCPLIGVIQLAHY---VVTAK-------LLGFTPGELRSYLKGATGHS 274
Query: 778 NGIIAIIDPEARVI---------------GLRLYNGLFKI------------IPLE---- 806
G++ A I + + LF I +P
Sbjct: 275 QGLVT-----AVAIAETDSWESFFVSVRKAITV---LFFIGVRCYEAYPNTSLPPSILED 326
Query: 807 -KDNFELKAS---SIR---MEELE--IQDVQFLHGCQNPTI-ICIHQDVNGR--HVKT-H 853
+N E S SI E+++ + H + I + VNG V +
Sbjct: 327 SLENNEGVPSPMLSISNLTQEQVQDYVNKTN-SHLPAGKQVEISL---VNGAKNLVVSGP 382
Query: 854 EISLK------EKEFTKTPWKQDNIEM-EASLVI-----PVPEPLGGAIIIGQESILYHS 901
SL K + Q I E L PV P +HS
Sbjct: 383 PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP-------------FHS 429
Query: 902 GKSYVAVAPQIIKS---STIVCYAKVD--------ANGE--RYLLGDLAGRLFMLLLEK 947
+ A +I V + D +G R L G ++ R+ ++
Sbjct: 430 --HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRL 486
Score = 40.0 bits (93), Expect = 0.005
Identities = 58/323 (17%), Positives = 105/323 (32%), Gaps = 117/323 (36%)
Query: 693 VAKN--NRIEIHTVTPEGLRPVKEIFLYGKIAVMKFFRGPTDKKDLLFIITQRYNAMILE 750
A++ NR + H G + +I + + + F G K+ I + Y+AMI E
Sbjct: 1641 AAQDVWNRADNHFKDTYGFS-ILDIVINNPVNLTIHFGGEKGKR-----IRENYSAMIFE 1694
Query: 751 --CRGDIDNLEILTKAHGNVSDRIGKPSENGII--------AI----------------I 784
G + +I + + + + + SE G++ A+ I
Sbjct: 1695 TIVDGKLKTEKIFKEINEHSTSYTFR-SEKGLLSATQFTQPALTLMEKAAFEDLKSKGLI 1753
Query: 785 DPEARVIGLRL--YNGLF---KIIPLEKDNFELKASSIRMEELEIQDVQFLHG--CQNPT 837
+A G L Y L ++ +E E+ V F G Q
Sbjct: 1754 PADATFAGHSLGEYAALASLADVMSIE-SLVEV--------------V-FYRGMTMQV-- 1795
Query: 838 IICIHQDVNGRHVKTHEISLKEKEFTKTPWKQDNIEMEASLVIPVPEPLGGAIIIG--QE 895
+ +D GR N M A + P G + QE
Sbjct: 1796 --AVPRDELGR---------------------SNYGMIA--INP------GRVAASFSQE 1824
Query: 896 SILYHSGKSYVAVAPQIIKSSTIVCYAKVDAN----GERYLL-GDLAG--RLFMLL-LEK 947
++ Y V ++ K + + N ++Y+ GDL + +L K
Sbjct: 1825 ALQY--------VVERVGKRTGWLVEI---VNYNVENQQYVAAGDLRALDTVTNVLNFIK 1873
Query: 948 EEKMD-----GTFSVKEPKVELL 965
+K+D + S++E + L
Sbjct: 1874 LQKIDIIELQKSLSLEEVEGHLF 1896
Score = 39.6 bits (92), Expect = 0.007
Identities = 120/644 (18%), Positives = 187/644 (29%), Gaps = 217/644 (33%)
Query: 244 TRVLTLSGAEVEETEMGGF-TSDQQTFYCGNVDPRTVLQVTPSAAILISTESKARVSSWE 302
TR LTLS +E F + LQ + + TE A + E
Sbjct: 6 TRPLTLSHGSLEHV----LLVPTASFFIA------SQLQEQFNKILPEPTEGFA--ADDE 53
Query: 303 PPNGKSISVVSCNKNQVLCATGCDVYYL-----EVHGSEIKQ---LAHRAL-EYEVACL- 352
P + L +L V S++ Q + + L E+E L
Sbjct: 54 P-----TTPAE------LVGK-----FLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLE 97
Query: 353 --DI----SPLSNEETSSEPAKAQLAAVGLWTDISARLLSLPSLEEVCKEPLGGEIIPRS 406
DI + L E ++ +L I+AR+++ K P + S
Sbjct: 98 GNDIHALAAKLLQENDTTLVKTKELIK----NYITARIMA--------KRPFDKK--SNS 143
Query: 407 ILMTCFEGHCYLLVALGDGSMFYFSLDPASGRLTDKKKVTLGTQPTVLKTF---RSLSTT 463
L F V G+ + G Q F R L T
Sbjct: 144 AL---FRA-----VGEGNAQLV----------------AIFGGQGNTDDYFEELRDLYQT 179
Query: 464 NVFACSDRPTVIYSSNH--KLVFSNVNLRQV-NHMCSL-----NAESYPDSLALATDSTF 515
+ + +S+ +L+ + ++ +V ++ N + PD L +
Sbjct: 180 --YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS-IPI 236
Query: 516 TFGTIDEIQKLHIRTVP--LGEAPRR--------------------IAYQESSQTFGVIT 553
+ I IQ H LG P IA +S ++F V
Sbjct: 237 SCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSV 296
Query: 554 TR-IDI--------QEADGSTPVRPSASTQAQNTTSSTISS-LSYIKPGSTKQ-----ST 598
+ I + EA +T + PS + S LS I + +Q +
Sbjct: 297 RKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS-ISNLTQEQVQDYVNK 355
Query: 599 ANQ--PADFNMEVEVHNLLIIDQNTFERNF------TSSTDLNLVVAKN--------NRI 642
N PA +E+ + N +N S LNL + K +RI
Sbjct: 356 TNSHLPAGKQVEISLVNG--------AKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRI 407
Query: 643 EIHTVTPEGLRPVKEI--FL---------YGKIAVMKFFRGPTD--KKDLLFIITQRTDL 689
P R +K FL A D K ++ F D+
Sbjct: 408 ------PFSERKLKFSNRFLPVASPFHSHLLVPASDLI---NKDLVKNNVSF---NAKDI 455
Query: 690 NLVVAKNNRIEIHTVTPEGLRPVKEIFLYGKIAVMKFFRGPTD-KKDLLFIITQRYNAMI 748
+ V T LR + + +I R P + F T I
Sbjct: 456 QIPV-------YDTFDGSDLRVLSGS-ISERIVDC-IIRLPVKWETTTQFKATH-----I 501
Query: 749 LEC-RGDIDNLEILTKAHGNVSDRIGKPSENGIIAIIDPEARVI 791
L+ G L +LT H N G G+ RVI
Sbjct: 502 LDFGPGGASGLGVLT--HRNKD---GT----GV--------RVI 528
Score = 38.5 bits (89), Expect = 0.018
Identities = 85/601 (14%), Positives = 167/601 (27%), Gaps = 264/601 (43%)
Query: 761 LTKAHGNVSDRIGKPSENGIIAIIDPEARVIGLRLYNGLFKIIPLEKDNF---------- 810
LT +HG++ + P+ + IA +L KI+P + F
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIA----------SQLQEQFNKILPEPTEGFAADDEPTTPA 58
Query: 811 ELKAS-----SIRMEELEI---QDV----------QFLHGCQNPTIICIHQDVNGRHVKT 852
EL S +E ++ V +L G D+
Sbjct: 59 ELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEG----------NDI------- 101
Query: 853 HEI--SLKEKEFTKTPWKQDNIE--MEASLVIPVPEP------L------GGAIII---- 892
H + L ++ T ++ I+ + A ++ P L G A ++
Sbjct: 102 HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG 161
Query: 893 GQ--------E-SILYHSGKSYVAVAPQIIKSSTIVCY--AKVDANGER-YLLG-DLAGR 939
GQ E LY + V +IK S + + E+ + G ++
Sbjct: 162 GQGNTDDYFEELRDLYQTYHVLVG---DLIKFSAETLSELIRTTLDAEKVFTQGLNI--- 215
Query: 940 LFMLLLEKEEKMDGTFSVKEPKVELLGEHCK--GPVVEMSSLS-YI--------KPGSTK 988
+ LE P + L P++ + L+ Y+ PG +
Sbjct: 216 --LEWLENPS--------NTPDKDYL-LSIPISCPLIGVIQLAHYVVTAKLLGFTPGELR 264
Query: 989 Q------------------STANQPADF--NMEVEVHNLLIIDQNTFEI-LHAHQLFP-- 1025
+ + F ++ + L F I + ++ +P
Sbjct: 265 SYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVL-------FFIGVRCYEAYPNT 317
Query: 1026 -------------GE----YALSLIS------SKFGEDPNTY-----------------F 1045
E LS+ + + N++
Sbjct: 318 SLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNL 377
Query: 1046 VL-GTAVVHPE--------------ENEPKQGRI---------------II--FH--Y-- 1069
V+ G P+ + Q RI + FH
Sbjct: 378 VVSG----PPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLV 433
Query: 1070 --DDGKLQQIAEKEIKGACYSM-----CEFNGKLLASINSTV--RLFE--------WTNE 1112
D + + + + + F+G L ++ ++ R+ + W E
Sbjct: 434 PASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKW--E 491
Query: 1113 KELRLECSHFNNIIALFLKVKGDFILVG-DLMRSLTLLQYKTMEGS-FEEI---SRDYNP 1167
+ + +H I+ DF G L +L ++ +G+ I + D NP
Sbjct: 492 TTTQFKATH---IL--------DF---GPGGASGLGVLTHRNKDGTGVRVIVAGTLDINP 537
Query: 1168 N 1168
+
Sbjct: 538 D 538
Score = 37.3 bits (86), Expect = 0.042
Identities = 62/342 (18%), Positives = 97/342 (28%), Gaps = 139/342 (40%)
Query: 516 TFG-TIDEIQKLHIRTVPL-------GEAPRRIAYQESSQTFGVITTRIDIQEADGSTPV 567
T+G +I +I + P+ GE +RI S+ F I DG
Sbjct: 1656 TYGFSILDI----VINNPVNLTIHFGGEKGKRIRENYSAMIFETI--------VDGKLKT 1703
Query: 568 RPSASTQAQNTTSSTISSLSYIKPGSTKQSTAN-QPADFNMEVEVHNLLIIDQNTFERNF 626
+++TS T S +T QPA ME L
Sbjct: 1704 EKIFKEINEHSTSYTFRS-----EKGLLSATQFTQPALTLMEKAAFEDL----------- 1747
Query: 627 TSSTDLNLVVAKNNRIEIHTVTPEGLRPVKEIF----L--YGKIA----VMKFFRGPTDK 676
K+ +GL P F L Y +A VM
Sbjct: 1748 -----------KS----------KGLIPADATFAGHSLGEYAALASLADVMSI------- 1779
Query: 677 KDLLFIITQRTDLNLVVAKNNRIEIHTVTPEGLRPVKEIFLYGKIAVMKFFRGPTDKKDL 736
+ L+ ++ R + P YG IA+ + ++
Sbjct: 1780 ESLVEVVFYRGMT-----------MQVAVPRDELGRSN---YGMIAINPGRVAASFSQEA 1825
Query: 737 LFIITQRYNAM---ILE------------CRGDIDNLEILTKAHGNVSDRIGKPSENGII 781
L + +R ++E GD+ L+ +T NV + I
Sbjct: 1826 LQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVT----NVLNFIKLQK----- 1876
Query: 782 AIIDPEARVIGLRLYNGLFKIIPLEKDNFELKASSIRMEELE 823
ID II L+K S+ +EE+E
Sbjct: 1877 --ID----------------IIELQK--------SLSLEEVE 1892
>2oaj_A Protein SNI1; WD40 repeat, beta propeller, endocytosis/exocytosis
complex; 2.40A {Saccharomyces cerevisiae}
Length = 902
Score = 39.9 bits (92), Expect = 0.006
Identities = 42/271 (15%), Positives = 90/271 (33%), Gaps = 18/271 (6%)
Query: 192 GFKEGSLRII--RNGIGIEEHACIDLPGIKGIWALSIGSPKNLDNTLVLSFVGHTRVLTL 249
+ GSL +I R I ++ G + I + G++ +L +
Sbjct: 592 AYAAGSLMLIDRRGPAIIYMENIREISGAQSACVTCIEF-----VIMEYGDDGYSSILMV 646
Query: 250 SGAEVEETEMGGFT-SDQQTFYCGNVDPRTVLQVTPSAAILISTESKARVSSWEPPNGKS 308
G ++ E + F +D V P I ++ P ++
Sbjct: 647 CGTDMGEVITYKILPASGGKFDVQLMDITNVTSKGPIHKIDAFSKETKSSCLATIPKMQN 706
Query: 309 ISVVSCNKNQVLCATGCDVYYLEVHGSEIKQLAHRALEYEVACLDISPLSNEETSSEPAK 368
+S C VL D+ + + S + H+ +Y +A +S +S + K
Sbjct: 707 LSKGLCIPGIVLITGFDDIRLITLGKS---KSTHKGFKYPLAATGLSYIS-TVEKNNDRK 762
Query: 369 AQLAAVGLWTDISARLLSLPSLEEVCKEPLGGEIIPRSILMTCFEGHCYLLVALGDGSMF 428
+ L + R+ ++P +E E + I + I + + + + + +
Sbjct: 763 NLTVIITLEINGHLRVFTIPDFKEQMSEHIPFPIAAKYITESSVLRNGDIAIRVSEFQAS 822
Query: 429 YFSL---DPASGRLTDK---KKVTLGTQPTV 453
FS ++D + + +P V
Sbjct: 823 LFSTVKEQDTLAPVSDTLYINGIRIPYRPQV 853
>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 = 33.4 bits (75), Expect = 0.21
Identities = 10/59 (16%), Positives = 17/59 (28%), Gaps = 30/59 (50%)
Query: 946 EKEEKMDGTFSVKEPKVELLGEHCKGPVVEMSSLSYIKPGSTKQSTANQPA-DFNMEVE 1003
EK+ ++K K++ +SL S PA +E
Sbjct: 18 EKQ-------ALK--KLQ-------------ASLKLYADDSA-------PALAIKATME 47
Score = 30.3 bits (67), Expect = 1.9
Identities = 9/41 (21%), Positives = 19/41 (46%), Gaps = 14/41 (34%)
Query: 859 EKEFTKTPWKQDNIEMEASLVIPVPE--PLGGAIIIGQESI 897
EK+ K +++ASL + + P A+ I + ++
Sbjct: 18 EKQALK--------KLQASLKLYADDSAP---ALAI-KATM 46
>3hfq_A Uncharacterized protein LP_2219; Q88V64_lacpl, NESG, LPR118,
structural genomics, PSI-2, protein structure
initiative; 1.96A {Lactobacillus plantarum}
Length = 347
Score = 30.5 bits (69), Expect = 3.5
Identities = 10/65 (15%), Positives = 23/65 (35%), Gaps = 4/65 (6%)
Query: 389 SLEEVCKEPLGGEIIPRSILMTCFEGHCYLLVAL-GDGSMFYFSLDPASGRLTDKKKVTL 447
L + + G+ PR +++V + ++ D SG+L+ +K
Sbjct: 274 HLTLIQQISTEGDF-PRD--FDLDPTEAFVVVVNQNTDNATLYARDLTSGKLSLLQKDVT 330
Query: 448 GTQPT 452
+
Sbjct: 331 VPEGV 335
>2if5_A Zinc finger and BTB domain-containing protein 7A; POZ domain, POK,
proto oncogene, transcription F transcription; 2.00A
{Homo sapiens} PDB: 2nn2_A
Length = 120
Score = 27.9 bits (63), Expect = 7.8
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 6/46 (13%)
Query: 622 FERNFTSSTDLNLVVAKNNRIEIHTVTPEGLRPVKEIFLY-GKIAV 666
F++ FTS VV + N EI V+ E L + + F Y + V
Sbjct: 51 FKKLFTS----GAVVDQQNVYEIDFVSAEALTALMD-FAYTATLTV 91
>1ri6_A Putative isomerase YBHE; 7-bladed propeller, enzyme, PSI, protein
structure initiative, NEW YORK SGX research center for
structural genomics; 2.00A {Escherichia coli} SCOP:
b.69.11.1
Length = 343
Score = 29.3 bits (66), Expect = 8.9
Identities = 11/54 (20%), Positives = 18/54 (33%), Gaps = 3/54 (5%)
Query: 400 GEIIPRSILMTCFEGHCYLLVAL-GDGSMFYFSLDPASGRLTDKKKVTLGTQPT 452
E PR YL+ A + + + G L +K + +G P
Sbjct: 275 TETQPRG--FNVDHSGKYLIAAGQKSHHISVYEIVGEQGLLHEKGRYAVGQGPM 326
>1w4t_A Arylamine N-acetyltransferase; 5- aminosalicylic acid, NAT,
xenobiotic metabolism, acyltransferase; 1.95A
{Pseudomonas aeruginosa} SCOP: d.3.1.5
Length = 299
Score = 28.9 bits (64), Expect = 9.4
Identities = 12/59 (20%), Positives = 24/59 (40%), Gaps = 3/59 (5%)
Query: 477 SSNHKLVFSNVNLRQVNHMCSLNA---ESYPDSLALATDSTFTFGTIDEIQKLHIRTVP 532
SS+H S+ + + +HM L +Y + + + +D + H+R V
Sbjct: 3 SSHHHHHHSSGLVPRGSHMTPLTPEQTHAYLHHIGIDDPGPPSLANLDRLIDAHLRRVA 61
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
0.318 0.136 0.396
Gapped
Lambda K H
0.267 0.0645 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 18,437,026
Number of extensions: 1146931
Number of successful extensions: 2034
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2023
Number of HSP's successfully gapped: 26
Length of query: 1225
Length of database: 6,701,793
Length adjustment: 104
Effective length of query: 1121
Effective length of database: 3,798,009
Effective search space: 4257568089
Effective search space used: 4257568089
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 (21.7 bits)
S2: 63 (28.2 bits)