RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10708
(589 letters)
>1ygs_A SMAD4; tumor suppressor C-terminal domain, TGF-beta signal
mediator, beta-sandwich scaffold with A three-helix
bundle, tumour suppressor; 2.10A {Homo sapiens} SCOP:
b.26.1.1 PDB: 1u7f_B* 1mr1_A 1u7v_B*
Length = 234
Score = 320 bits (821), Expect = e-107
Identities = 205/233 (87%), Positives = 221/233 (94%)
Query: 357 PEYWCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERA 416
PEYWCS+AYFE+D QVGETFKVPSSCP VT+DGYVDPSGG+RFCLG LSNVHRT+ ERA
Sbjct: 2 PEYWCSIAYFEMDVQVGETFKVPSSCPIVTVDGYVDPSGGDRFCLGQLSNVHRTEAIERA 61
Query: 417 RLHIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFD 476
RLHIGKGVQL+ +GEGDVW+ CLSDH+VFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFD
Sbjct: 62 RLHIGKGVQLECKGEGDVWVRCLSDHAVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFD 121
Query: 477 LRQCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLC 536
LRQC+RQMQQQAATAQAAAAAQAAAVAG+IPGP SVGGIAPAISLSAAAGIGVDDLRRLC
Sbjct: 122 LRQCHRQMQQQAATAQAAAAAQAAAVAGNIPGPGSVGGIAPAISLSAAAGIGVDDLRRLC 181
Query: 537 ILRLSFVKGWGPDYPRQSIKETPCWVEVHLHRALQLLDEVLHTMPIDGHRALE 589
ILR+SFVKGWGPDYPRQSIKETPCW+E+HLHRALQLLDEVLHTMPI + L+
Sbjct: 182 ILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTMPIADPQPLD 234
Score = 81.1 bits (199), Expect = 2e-17
Identities = 44/53 (83%), Positives = 48/53 (90%)
Query: 277 YFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERAR 329
YFE+D QVGETFKVPSSCP VT+DGYVDPSGG+RFCLG LSNVHRT+ ERAR
Sbjct: 10 YFEMDVQVGETFKVPSSCPIVTVDGYVDPSGGDRFCLGQLSNVHRTEAIERAR 62
>1dd1_A SMAD4; B-sheet sandwich helix-turn-helix, signaling protein; 2.62A
{Homo sapiens} SCOP: b.26.1.1 PDB: 1g88_A
Length = 268
Score = 321 bits (823), Expect = e-107
Identities = 208/247 (84%), Positives = 226/247 (91%)
Query: 343 SPTGSSGLLSNQPPPEYWCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLG 402
+ +SN P PEYWCS+AYFE+D QVGETFKVPSSCP VT+DGYVDPSGG+RFCLG
Sbjct: 22 NELAFQPPISNHPAPEYWCSIAYFEMDVQVGETFKVPSSCPIVTVDGYVDPSGGDRFCLG 81
Query: 403 ALSNVHRTDQSERARLHIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAGRAPGDA 462
LSNVHRT+ ERARLHIGKGVQL+ +GEGDVW+ CLSDH+VFVQSYYLDREAGRAPGDA
Sbjct: 82 QLSNVHRTEAIERARLHIGKGVQLECKGEGDVWVRCLSDHAVFVQSYYLDREAGRAPGDA 141
Query: 463 VHKIYPSAYIKVFDLRQCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLS 522
VHKIYPSAYIKVFDLRQC+RQMQQQAATAQAAAAAQAAAVAG+IPGP SVGGIAPAISLS
Sbjct: 142 VHKIYPSAYIKVFDLRQCHRQMQQQAATAQAAAAAQAAAVAGNIPGPGSVGGIAPAISLS 201
Query: 523 AAAGIGVDDLRRLCILRLSFVKGWGPDYPRQSIKETPCWVEVHLHRALQLLDEVLHTMPI 582
AAAGIGVDDLRRLCILR+SFVKGWGPDYPRQSIKETPCW+E+HLHRALQLLDEVLHTMPI
Sbjct: 202 AAAGIGVDDLRRLCILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTMPI 261
Query: 583 DGHRALE 589
+ L+
Sbjct: 262 ADPQPLD 268
Score = 80.7 bits (198), Expect = 4e-17
Identities = 44/53 (83%), Positives = 48/53 (90%)
Query: 277 YFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERAR 329
YFE+D QVGETFKVPSSCP VT+DGYVDPSGG+RFCLG LSNVHRT+ ERAR
Sbjct: 44 YFEMDVQVGETFKVPSSCPIVTVDGYVDPSGGDRFCLGQLSNVHRTEAIERAR 96
>1khx_A SMAD2; TGF-beta signaling, phosphorylation, receptor kinase
signaling, cancer, transcription; HET: SEP; 1.80A {Homo
sapiens} SCOP: b.26.1.1 PDB: 1mk2_A 1u7v_A* 1dev_A
1u7f_A* 1mjs_A 1khu_A 3dit_A
Length = 227
Score = 230 bits (588), Expect = 2e-72
Identities = 93/241 (38%), Positives = 127/241 (52%), Gaps = 40/241 (16%)
Query: 342 FSPTGSSGLLS--NQPPPEYWCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRF 399
SP S L P +WCS+AY+EL+ +VGETF S P++T+DG+ DPS RF
Sbjct: 14 LSPVNHSLDLQPVTYSEPAFWCSIAYYELNQRVGETFHA--SQPSLTVDGFTDPSNSERF 71
Query: 400 CLGALSNVHRTDQSERARLHIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDREAGRAP 459
CLG LSNV+R E R HIG+GV+L G G+V+ CLSD ++FVQS ++ G P
Sbjct: 72 CLGLLSNVNRNATVEMTRRHIGRGVRLYYIG-GEVFAECLSDSAIFVQSPNCNQRYGWHP 130
Query: 460 GDAVHKIYPSAYIKVFDLRQCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAI 519
V KI P +K+F+ ++ + Q A
Sbjct: 131 A-TVCKIPPGCNLKIFNNQEFAALLAQSVNQGFEA------------------------- 164
Query: 520 SLSAAAGIGVDDLRRLCILRLSFVKGWGPDYPRQSIKETPCWVEVHLHRALQLLDEVLHT 579
V L R+C +R+SFVKGWG +Y RQ++ TPCW+E+HL+ LQ LD+VL
Sbjct: 165 ---------VYQLTRMCTIRMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQ 215
Query: 580 M 580
M
Sbjct: 216 M 216
Score = 69.8 bits (170), Expect = 1e-13
Identities = 28/53 (52%), Positives = 36/53 (67%), Gaps = 2/53 (3%)
Query: 277 YFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERAR 329
Y+EL+ +VGETF S P++T+DG+ DPS RFCLG LSNV+R E R
Sbjct: 39 YYELNQRVGETFHA--SQPSLTVDGFTDPSNSERFCLGLLSNVNRNATVEMTR 89
>3gmj_D Protein mothers against DPP; MH2,SMAD,MAD, cytoplasm, developmental
protein, nucleus, phosphoprotein, transcription; 2.80A
{Drosophila melanogaster}
Length = 245
Score = 225 bits (573), Expect = 6e-70
Identities = 83/247 (33%), Positives = 119/247 (48%), Gaps = 39/247 (15%)
Query: 336 LQTSCLFSPTGSSGLLSNQPPPEYWCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPS- 394
L + P +W S+AY+EL+ +VGE F + +V +DG+ +PS
Sbjct: 27 NDGGQLLDAQMGDVAQVSYSEPAFWASIAYYELNCRVGEVFHCNN--NSVIVDGFTNPSN 84
Query: 395 GGNRFCLGALSNVHRTDQSERARLHIGKGVQLDLRGEGDVWLHCLSDHSVFVQSYYLDRE 454
+R CLG LSNV+R E R HIGKGV L G+V+ CLSD ++FVQS + +
Sbjct: 85 NSDRCCLGQLSNVNRNSTIENTRRHIGKGVHLY-YVTGEVYAECLSDSAIFVQSRNCNYQ 143
Query: 455 AGRAPGDAVHKIYPSAYIKVFDLRQCYRQMQQQAATAQAAAAAQAAAVAGHIPGPHSVGG 514
G P V KI P +K+F+ ++ + + Q
Sbjct: 144 HGFHP-STVCKIPPGCSLKIFNNQEFAQLLSQSVNN------------------------ 178
Query: 515 IAPAISLSAAAGIGVDDLRRLCILRLSFVKGWGPDYPRQSIKETPCWVEVHLHRALQLLD 574
V +L ++C +R+SFVKGWG +Y RQ + TPCW+E+HLH LQ LD
Sbjct: 179 ----------GFEAVYELTKMCTIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLD 228
Query: 575 EVLHTMP 581
+VL M
Sbjct: 229 KVLTQMG 235
Score = 66.3 bits (161), Expect = 2e-12
Identities = 32/121 (26%), Positives = 46/121 (38%), Gaps = 21/121 (17%)
Query: 210 LSNQPPPEYWCSVAYFELDTQVGETFKVPSSCPNTHPGAIDSVWEPYPMYIARTRVNEPG 269
L+ PPP Y PS N++ M
Sbjct: 7 LAGTPPPAY------------------SPSEDGNSNNPNDGGQLLDAQMGDVAQVSYSEP 48
Query: 270 NTSILLPYFELDTQVGETFKVPSSCPNVTIDGYVDPS-GGNRFCLGALSNVHRTDQSERA 328
+ Y+EL+ +VGE F + +V +DG+ +PS +R CLG LSNV+R E
Sbjct: 49 AFWASIAYYELNCRVGEVFHCNN--NSVIVDGFTNPSNNSDRCCLGQLSNVNRNSTIENT 106
Query: 329 R 329
R
Sbjct: 107 R 107
Score = 46.7 bits (110), Expect = 8e-06
Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 187 STAPVLPTTGGMDVDGEAGSSGLLSNQPPPEYWCSVAYFELDTQVGETFKVPSSC 241
P GG +D + G +S P +W S+AY+EL+ +VGE F ++
Sbjct: 20 DGNSNNPNDGGQLLDAQMGDVAQVS-YSEPAFWASIAYYELNCRVGEVFHCNNNS 73
>3qsv_A SMAD4, mothers against decapentaplegic homolog 4; MH1,
transcription factor, DNA binding; HET: DNA; 2.71A {Mus
musculus}
Length = 132
Score = 157 bits (398), Expect = 6e-46
Identities = 88/92 (95%), Positives = 92/92 (100%)
Query: 70 EKRDELDSLITAITTNGSHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDLHKNE 129
EK+DELDSLITAITTNG+HPSKCVTIQRTLDGRLQVAGRKGFPHVIYAR+WRWPDLHKNE
Sbjct: 41 EKKDELDSLITAITTNGAHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARLWRWPDLHKNE 100
Query: 130 LKHLKYCQYAFDLKCDSVCVNPYHYERVVSPG 161
LKH+KYCQYAFDLKCDSVCVNPYHYERVVSPG
Sbjct: 101 LKHVKYCQYAFDLKCDSVCVNPYHYERVVSPG 132
>3kmp_A SMAD1-MH1; protein-DNA complex, SMAD1, SBE DNA, MH1 domain, beta
hairpin, nucleus, transcription; 2.70A {Mus musculus}
Length = 124
Score = 140 bits (355), Expect = 7e-40
Identities = 50/91 (54%), Positives = 65/91 (71%), Gaps = 2/91 (2%)
Query: 70 EKRDELDSLITAITTNGSHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDL-HKN 128
+K+ ++ L A++ G PS CVTI R+LDGRLQV+ RKG PHVIY R+WRWPDL +
Sbjct: 35 KKKGAMEELEKALSCPGQ-PSNCVTIPRSLDGRLQVSHRKGLPHVIYCRVWRWPDLQSHH 93
Query: 129 ELKHLKYCQYAFDLKCDSVCVNPYHYERVVS 159
ELK L+ C++ F K VC+NPYHY+RV S
Sbjct: 94 ELKPLECCEFPFGSKQKEVCINPYHYKRVES 124
>1ozj_A SMAD 3; MAD homology domain 1, DNA recognition, TGF-beta signaling,
zinc-binding module, transcription/DNA complex; 2.40A
{Homo sapiens} SCOP: d.164.1.1 PDB: 1mhd_A*
Length = 144
Score = 139 bits (351), Expect = 4e-39
Identities = 54/91 (59%), Positives = 70/91 (76%), Gaps = 2/91 (2%)
Query: 71 KRDELDSLITAITTNGSHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDLHK-NE 129
K +LD L AITT +KC+TI R+LDGRLQV+ RKG PHVIY R+WRWPDLH +E
Sbjct: 44 KTGQLDELEKAITTQNV-NTKCITIPRSLDGRLQVSHRKGLPHVIYCRLWRWPDLHSHHE 102
Query: 130 LKHLKYCQYAFDLKCDSVCVNPYHYERVVSP 160
L+ ++ C++AF++K D VCVNPYHY+RV +P
Sbjct: 103 LRAMELCEFAFNMKKDEVCVNPYHYQRVETP 133
>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 = 48.7 bits (115), Expect = 5e-06
Identities = 72/520 (13%), Positives = 139/520 (26%), Gaps = 151/520 (29%)
Query: 31 GGGGAVSPPHQNGYT----STSSSSGGTSGSPGPGY----KSDNEEQEKRDELDSLITAI 82
G G+ G T S + K+ N + + L L+ I
Sbjct: 157 GVLGS-------GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209
Query: 83 TTNG-SHPSKCVTIQRTLDGRLQVAGRKGFPHVIYARIWRWPDLHKNEL---------KH 132
N S I+ + + R+ + ++N L K
Sbjct: 210 DPNWTSRSDHSSNIKLRIH---SIQAEL-------RRLLKSKP-YENCLLVLLNVQNAKA 258
Query: 133 LKYCQYAFDLKCDSVCVNPYHYERVVSPGIDLSGLSLQSGSNRLVKDEYSAGVTSTAPVL 192
AF+L C ++ L + + V D SA T+ +
Sbjct: 259 WN----AFNLSC-----------KI-----------LLTTRFKQVTDFLSAATTTHISLD 292
Query: 193 PTTGGMDVDGEAGSSGLLSNQPPPEYWCSVAYFELDTQVGETFKVPSSCPNTHPGAIDSV 252
+ + LL + +L P T+P + +
Sbjct: 293 HHSMTLT---PDEVKSLLLK------YLDCRPQDL----------PREVLTTNPRRLSII 333
Query: 253 ----------WEPYPMYIARTRVNEPGNTSI--LLPY-----------FELDTQVGET-- 287
W+ + ++ ++ +S+ L P F +
Sbjct: 334 AESIRDGLATWDNWK-HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL 392
Query: 288 ----FKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERARFSKESGLQTSCLFS 343
F V S V ++ S + + ++ + + E L S +
Sbjct: 393 SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDH 452
Query: 344 PTGSSGLLSNQ--PPPE--YWCS-VAYFELDTQVGETFKVPSSCPNVTIDGYVD------ 392
S+ PP Y+ S + + + + E + V ++D
Sbjct: 453 YNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM---TLFRMV----FLDFRFLEQ 505
Query: 393 ---PSGGNRFCLGALSNVHRTDQSERARLHIGKGVQLDLRGEGDVWLHCLSDHS-VFVQS 448
G++ N Q + + +I R + L L + S
Sbjct: 506 KIRHDSTAWNASGSILNT--LQQLKFYKPYICDNDPKYERLVNAI-LDFLPKIEENLICS 562
Query: 449 YYLD--REAGRAPGDAVHKIYPSAYIKVFDLRQCYRQMQQ 486
Y D R A A +A I+ A ++Q+Q+
Sbjct: 563 KYTDLLRIALMAEDEA---IFEEA----------HKQVQR 589
>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 = 40.4 bits (94), Expect = 0.002
Identities = 86/508 (16%), Positives = 141/508 (27%), Gaps = 185/508 (36%)
Query: 167 LSLQSGSNR---LV-----------KDEYSAGVTSTAPVLPT-TGGMDVDGEAGSS---- 207
L+L GS LV +++++ +LP T G D E +
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQEQFNK-------ILPEPTEGFAADDEPTTPAELV 61
Query: 208 ----GLLSNQPPPEYWCSVAYFELDTQVGETFK-----------VPSSCPNTHPGAIDSV 252
G +S+ P + ++ F+ + + + +
Sbjct: 62 GKFLGYVSSLVEPS--KVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKT 119
Query: 253 WEP---YPMYIARTRVNEP---GNTSILL---------------------PYF-ELDTQV 284
E Y AR P + S L YF EL +
Sbjct: 120 KELIKNY--ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEEL--R- 174
Query: 285 GETFKVPSSCPNVTIDGYVDPSGGNRFCLGALSNVHRTDQSERARFSKESGLQ-TSCLFS 343
+ ++ + + S LS + RT F++ GL L +
Sbjct: 175 -DLYQTYHVL----VGDLIKFSAE------TLSELIRTTLDAEKVFTQ--GLNILEWLEN 221
Query: 344 PTGSSGLLSNQPPPEYWCSVAYFELDTQVGETFKVPSSCPNVTIDGYVDPSGGNRFCLGA 403
P SN P +Y S +P SCP + +
Sbjct: 222 P-------SNTPDKDYLLS---------------IPISCPLI--------------GVIQ 245
Query: 404 LSNVHRTDQSERARLHIGKGVQLDLRGEGDVWLHCLSDHS------VFV------QSYY- 450
L++ T A+L G GE +L + HS V + +S++
Sbjct: 246 LAHYVVT-----AKLL---GFT---PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFV 294
Query: 451 LDREAGRAP---GDAVHKIYPSAYIKVFDLRQCYRQMQQQAA-------TAQAAAAAQAA 500
R+A G ++ YP+ + L + + Q
Sbjct: 295 SVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVN 354
Query: 501 AVAGHIPGPHSVGGIAPAISL--SAAAGI--G-VDDLRRLCI-LRLSFVKGWGPDYPRQS 554
H+P V ISL A + G L L + LR K P QS
Sbjct: 355 KTNSHLPAGKQV-----EISLVNGAKNLVVSGPPQSLYGLNLTLR----KAKAPSGLDQS 405
Query: 555 IKETPCWVEVHLHRALQLLDEVLHTMPI 582
P R L+ + L P+
Sbjct: 406 --RIP-----FSERKLKFSNRFL---PV 423
Score = 36.6 bits (84), Expect = 0.027
Identities = 56/313 (17%), Positives = 99/313 (31%), Gaps = 90/313 (28%)
Query: 78 LITAITTNGSHPSKCVTIQRTLDGRLQ---VAGRKGFPHVIYARIWRWPDLHKNELKHLK 134
++TA G P + + + G Q A V A W + K +
Sbjct: 250 VVTAKLL-GFTPGELRSYLKGATGHSQGLVTA-------VAIAETDSWESFFVSVRKAIT 301
Query: 135 Y-------CQYAF-------DLKCDSVCVNPYHYERVVSPGIDLSGLSLQSGSNRLVKDE 180
C A+ + DS+ + E V SP + +S L+ +++
Sbjct: 302 VLFFIGVRCYEAYPNTSLPPSILEDSL----ENNEGVPSPMLSISNLT---------QEQ 348
Query: 181 YSAGVTSTAPVLPTTGGMDVDGEAGSSGLLSNQP-------PPEYWCSVAYFELDTQVGE 233
V T LP +++ S L N PP+ + + L+ +
Sbjct: 349 VQDYVNKTNSHLPAGKQVEI------S--LVNGAKNLVVSGPPQ-----SLYGLNLTL-R 394
Query: 234 TFKVPSSCPNTHPGAIDSVWEPY----PMYIAR-TRVNEPGNTSILLPYFEL----DTQV 284
K PS D P+ + R V P ++ +L+P +L +
Sbjct: 395 KAKAPSGL--------DQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKN 446
Query: 285 GETFKVPS-SCPNV--TIDGYVDPSGGNRFCLGALSNVHRTDQ--SERARFSKESGLQTS 339
+F P V T DG D + + D ++ + + +
Sbjct: 447 NVSFNAKDIQIP-VYDTFDGS-DLRVLSGSISERI-----VDCIIRLPVKWETTTQFKAT 499
Query: 340 CL--FSPTGSSGL 350
+ F P G+SGL
Sbjct: 500 HILDFGPGGASGL 512
Score = 36.6 bits (84), Expect = 0.028
Identities = 32/186 (17%), Positives = 55/186 (29%), Gaps = 63/186 (33%)
Query: 48 SSSSGGTSGSPGP-----GYKSDNEEQEKRDELDSLITAITTNGSHPSKCVTIQRTLDGR 102
S G P P ++++ + TN P+ +
Sbjct: 325 EDSLENNEGVPSPMLSISNLT--------QEQVQDYVNK--TNSHLPA---------GKQ 365
Query: 103 LQVA---GRK-----GFPHVIYA------RIWRWPDLHKNELKHLK---YCQYAFDLKCD 145
++++ G K G P +Y + L ++ + + F L
Sbjct: 366 VEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRF-LP-- 422
Query: 146 SVCVNPYHYERVVSPGIDLSGLSLQSGSNRLVKDEYSAGVTSTA-----PVLPTTGGMDV 200
V P+H S L S+ + KD V+ A PV T G D+
Sbjct: 423 -VAS-PFH-----SH-------LLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDL 468
Query: 201 DGEAGS 206
+GS
Sbjct: 469 RVLSGS 474
Score = 36.6 bits (84), Expect = 0.029
Identities = 18/65 (27%), Positives = 26/65 (40%), Gaps = 17/65 (26%)
Query: 489 AT--AQAA-AAAQAAAVA-----GHIPGP-----HSVGGIAPAISLSAAAG-IGVDDLRR 534
AT Q A + AA G IP HS+G A A L++ A + ++ L
Sbjct: 1728 ATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYA-A--LASLADVMSIESLVE 1784
Query: 535 LCILR 539
+ R
Sbjct: 1785 VVFYR 1789
Score = 35.4 bits (81), Expect = 0.059
Identities = 78/395 (19%), Positives = 108/395 (27%), Gaps = 146/395 (36%)
Query: 129 ELKHLKYCQYAFDLKCDSVCVNPYHYERVVSPGIDLSGLSLQSGSNRLVKDEYSAGVTST 188
EL+ L Y Y +V I S +L L++ A
Sbjct: 172 ELRDL----YQ-------------TYHVLVGDLIKFSAETLSE----LIRTTLDA----- 205
Query: 189 APVLPTTGGMDVDGEAGSSGLLSN---QPPPEYWCSVA-------------YF----ELD 228
V G+++ L N P +Y S+ Y L
Sbjct: 206 EKVFTQ--GLNI------LEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLG 257
Query: 229 TQVGETFKVPSSCPNTHPGAI---------DSVWEPYPM----------YI-ARTRVNEP 268
GE H + DS WE + + +I R P
Sbjct: 258 FTPGELRSYLKGA-TGHSQGLVTAVAIAETDS-WESFFVSVRKAITVLFFIGVRCYEAYP 315
Query: 269 GNTSILLPYFELDTQVGETFKVPS---SCPNVT---IDGYVD------PSG--------- 307
NTS+ E + E VPS S N+T + YV+ P+G
Sbjct: 316 -NTSLPPSILEDSLENNEG--VPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN 372
Query: 308 --------GNRFCLGALSNVHR-------TDQSERARFSKESGLQTSCLFSPTGS---SG 349
G L L+ R DQS R FS+ L+ S F P S S
Sbjct: 373 GAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQS-RIPFSER-KLKFSNRFLPVASPFHSH 430
Query: 350 LLSNQPPPEYWCSVAYFELD-TQVGETFKVPS-SCPNV--TIDGYVDPSGGNRFCLGAL- 404
LL + D + +F P V T DG D + +
Sbjct: 431 LLVP--------ASDLINKDLVKNNVSFNAKDIQIP-VYDTFDGS-DLRVLSGSISERIV 480
Query: 405 -----SNVHRTDQSERARLHIGKGVQLDLRGEGDV 434
V ++ HI LD G G
Sbjct: 481 DCIIRLPVKWETTTQFKATHI-----LDF-GPGGA 509
Score = 35.4 bits (81), Expect = 0.062
Identities = 31/165 (18%), Positives = 44/165 (26%), Gaps = 68/165 (41%)
Query: 453 REAGRAPGDAV---HKI--YPSAYIKVFDLRQCYRQMQQQAATAQA----AAA------- 496
+ G P DA H + Y +A L A+ A +
Sbjct: 1748 KSKGLIPADATFAGHSLGEY-AA------L----------ASLADVMSIESLVEVVFYRG 1790
Query: 497 -AQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLCILRLSFVKGWGPDYPRQSI 555
AV G + G IA AA + L+ + +
Sbjct: 1791 MTMQVAVPRDELGRSNYGMIAINPG-RVAASFSQEALQYVV---------------ERVG 1834
Query: 556 KETPCWVEV--------------HLHRALQLLDEVLH---TMPID 583
K T VE+ L RAL + VL+ ID
Sbjct: 1835 KRTGWLVEIVNYNVENQQYVAAGDL-RALDTVTNVLNFIKLQKID 1878
>2g38_B PPE family protein; protein-protein complex, structural genomics,
PSI, protein S initiative, TB structural genomics
consortium, TBSGC; 2.20A {Mycobacterium tuberculosis}
SCOP: a.25.4.2
Length = 198
Score = 32.4 bits (73), Expect = 0.25
Identities = 13/79 (16%), Positives = 20/79 (25%)
Query: 451 LDREAGRAPGDAVHKIYPSAYIKVFDLRQCYRQMQQQAATAQAAAAAQAAAVAGHIPGPH 510
L G V ++ +A V L Q+ + A A +P
Sbjct: 49 LLSLMDAWAGPVVMQLMEAAKPFVRWLTDLCVQLSEVERQIHEIVRAYEWAHHDMVPLAQ 108
Query: 511 SVGGIAPAISLSAAAGIGV 529
A L +G
Sbjct: 109 IYNNRAERQILIDNNALGQ 127
Score = 28.5 bits (63), Expect = 4.3
Identities = 3/50 (6%), Positives = 10/50 (20%), Gaps = 4/50 (8%)
Query: 481 YRQMQQQAATA----QAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAG 526
Y + + + + + P +S +
Sbjct: 139 YDDFWDEDGEVMRDYRLRVSDALSKLTPWKAPPPIAHSTVLVAPVSPSTA 188
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae}
SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 32.1 bits (72), Expect = 0.63
Identities = 7/53 (13%), Positives = 10/53 (18%)
Query: 10 PNPPAPASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPGY 62
A QP Q G + + S +P
Sbjct: 16 YGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQ 68
>1dx0_A Prion protein; brain, repeat; NMR {Bos taurus} SCOP: d.6.1.1 PDB:
1dx1_A 1qlx_A 1qlz_A
Length = 219
Score = 31.4 bits (70), Expect = 0.69
Identities = 11/52 (21%), Positives = 15/52 (28%)
Query: 10 PNPPAPASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPG 61
P +P ++ G GG PH G+ G G G
Sbjct: 20 PGQGSPGGNRYPPQGGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQPHGGGWG 71
Score = 28.3 bits (62), Expect = 6.3
Identities = 11/53 (20%), Positives = 12/53 (22%)
Query: 10 PNPPAPASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPGY 62
N P GGG PH G+ G G G
Sbjct: 12 WNTGGSRYPGQGSPGGNRYPPQGGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQ 64
>3r12_A Deoxyribose-phosphate aldolase; TIM beta/alpha-barrel, structural
genomics, joint center for structural genomics, JCSG;
HET: MSE CIT; 1.75A {Thermotoga maritima} PDB: 1o0y_A*
3r13_A*
Length = 260
Score = 31.1 bits (71), Expect = 0.85
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 134 KYCQYAFDLKCDSVCVNPYHYERVVS 159
K C A + + VCVNP + +
Sbjct: 63 KLCLEARENRFHGVCVNPCYVKLARE 88
>1n7k_A Deoxyribose-phosphate aldolase; A.pernix, tetramer, alpha-beta TIM
barrel, riken S genomics/proteomics initiative, RSGI,
structural genomics,; 2.00A {Aeropyrum pernix} SCOP:
c.1.10.1
Length = 234
Score = 31.0 bits (71), Expect = 0.91
Identities = 3/26 (11%), Positives = 8/26 (30%)
Query: 133 LKYCQYAFDLKCDSVCVNPYHYERVV 158
+ A D + P + ++
Sbjct: 39 RNLVREASDYGFRCAVLTPVYTVKIS 64
>3ngj_A Deoxyribose-phosphate aldolase; lyase, structural genomics,
structural genomics center for infectious disease,
ssgcid; 1.70A {Entamoeba histolytica}
Length = 239
Score = 30.6 bits (70), Expect = 1.1
Identities = 10/26 (38%), Positives = 11/26 (42%)
Query: 134 KYCQYAFDLKCDSVCVNPYHYERVVS 159
K C A + K SVCVNP
Sbjct: 47 KLCSEAAEYKFASVCVNPTWVPLCAE 72
>2j0p_A HEMS, hemin transport protein HEMS; conformational changes, HAEM,
iron, trans ION transport, proteobacteria, iron
transport; HET: HEM 12P; 1.7A {Yersinia enterocolitica}
SCOP: e.62.1.1 PDB: 2j0r_A*
Length = 345
Score = 31.1 bits (70), Expect = 1.1
Identities = 16/90 (17%), Positives = 31/90 (34%), Gaps = 13/90 (14%)
Query: 420 IGKGVQLDLRGEGDVWLHC--LSDHSVFVQSYYL---DREAGRAPGDAVHKIYP---SAY 471
I LDLR + W L++ + + + D + GDA+HK+Y +
Sbjct: 93 ILNPRNLDLRLFLNQWASAFTLTEETRHGVRHSIQFFDHQ-----GDALHKVYVTEQTDM 147
Query: 472 IKVFDLRQCYRQMQQQAATAQAAAAAQAAA 501
L + + + +A +
Sbjct: 148 PAWEALLAQFITTENPELQLEPLSAPEVTE 177
>1ub3_A Aldolase protein; schiff base, deoxyribose phosphate,
carbinolamine, structural genomics, riken structural
genomics/proteomics initiative; HET: HPD; 1.40A {Thermus
thermophilus} SCOP: c.1.10.1 PDB: 1j2w_A*
Length = 220
Score = 30.6 bits (70), Expect = 1.1
Identities = 5/26 (19%), Positives = 11/26 (42%)
Query: 134 KYCQYAFDLKCDSVCVNPYHYERVVS 159
K + A + +C+ P + V +
Sbjct: 23 KAAEEALEYGFYGLCIPPSYVAWVRA 48
>1deq_A Fibrinogen (alpha chain); coiled-coil, blood clotting; 3.50A {Bos
taurus} SCOP: i.9.1.1
Length = 390
Score = 30.6 bits (68), Expect = 1.4
Identities = 12/56 (21%), Positives = 18/56 (32%), Gaps = 4/56 (7%)
Query: 10 PNPPAPASSQPQQSTSAGSNPGGGGAVSP----PHQNGYTSTSSSSGGTSGSPGPG 61
NP + PG G +P P G + G++G+ PG
Sbjct: 281 VNPGSYGPGSSGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPG 336
Score = 29.4 bits (65), Expect = 3.1
Identities = 15/53 (28%), Positives = 19/53 (35%), Gaps = 1/53 (1%)
Query: 10 PNPPAPASSQPQQSTSAGSNPGGGGAVSPPHQN-GYTSTSSSSGGTSGSPGPG 61
+ A S Q + A +P G S + N G SS G P PG
Sbjct: 250 GDGHARGDSVSQGTGLAPGSPRKPGTSSIGNVNPGSYGPGSSGTWNPGRPEPG 302
Score = 29.1 bits (64), Expect = 4.6
Identities = 9/52 (17%), Positives = 17/52 (32%), Gaps = 1/52 (1%)
Query: 10 PNPPAPASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPG 61
P P + + P + + G P G + G++G+ G
Sbjct: 312 PEPGSAGTWNPGRPEPGSAGTWNPGRPEPG-SAGTWNPGRPEPGSAGTWNTG 362
Score = 29.1 bits (64), Expect = 4.7
Identities = 12/53 (22%), Positives = 15/53 (28%), Gaps = 1/53 (1%)
Query: 10 PNPPAPASSQPQQSTSAGSNPGGGGAVSP-PHQNGYTSTSSSSGGTSGSPGPG 61
NP P PG G +P + G T + GS G
Sbjct: 307 WNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTW 359
Score = 28.7 bits (63), Expect = 5.4
Identities = 8/58 (13%), Positives = 14/58 (24%), Gaps = 6/58 (10%)
Query: 10 PNPPAPASSQPQQSTSAGS------NPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPG 61
P +P + + + G S + +S SP G
Sbjct: 330 AGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNTGSSGSSSFRPDSSGHGNIRPSSPDWG 387
Score = 28.7 bits (63), Expect = 5.6
Identities = 13/52 (25%), Positives = 17/52 (32%), Gaps = 4/52 (7%)
Query: 10 PNPPAPASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPG 61
+P P +S PG G +P G S+ G P PG
Sbjct: 268 GSPRKPGTSSIGNVNPGSYGPGSSGTWNP----GRPEPGSAGTWNPGRPEPG 315
Score = 28.7 bits (63), Expect = 5.7
Identities = 12/53 (22%), Positives = 17/53 (32%), Gaps = 1/53 (1%)
Query: 10 PNPPAPASSQPQQSTSAG-SNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPG 61
P P P S+ + G P + T + SSG +S P
Sbjct: 322 PGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNTGSSGSSSFRPDSS 374
>2l6f_A Focal adhesion kinase 1, linker1, paxillin, linke paxillin; FAT,
FAK, LD2, LD4, fusion protein, chimera protei
transferase,cell adhesion; NMR {Gallus gallus} PDB:
2l6g_A 2l6h_A
Length = 215
Score = 30.3 bits (67), Expect = 1.5
Identities = 19/83 (22%), Positives = 32/83 (38%), Gaps = 13/83 (15%)
Query: 14 APASSQPQQSTSAGSNPGGGGAVSP-------------PHQNGYTSTSSSSGGTSGSPGP 60
+ S+P + + G GG+ S N + + S SGG+ GS G
Sbjct: 132 MISQSRPHGGSGGSGSGGSGGSGSNLSELDRLLLELNAVQHNPPSGSGSGSGGSGGSGGS 191
Query: 61 GYKSDNEEQEKRDELDSLITAIT 83
G + ELD L+ +++
Sbjct: 192 GGSGGSGGSSATRELDELMASLS 214
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 30.8 bits (69), Expect = 1.7
Identities = 8/49 (16%), Positives = 12/49 (24%)
Query: 12 PPAPASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGP 60
A S G++ TS + TS + P
Sbjct: 1510 AYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSP 1558
>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication,
ring E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus;
2.60A {Saccharomyces cerevisiae}
Length = 371
Score = 30.3 bits (67), Expect = 1.8
Identities = 7/57 (12%), Positives = 16/57 (28%)
Query: 4 SSHMNVPNPPAPASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGP 60
+ ++ PP P + + S + + +S +S P
Sbjct: 8 ITVRSMEGPPTVQQQSPSVIRQSPTQRRKTSTTSSTSRAPPPTNPDASSSSSSFAVP 64
>1mzh_A Deoxyribose-phosphate aldolase; alpha-beta barrel, structural
genomics, PSI, protein structure initiative; 2.00A
{Aquifex aeolicus} SCOP: c.1.10.1
Length = 225
Score = 29.8 bits (68), Expect = 1.8
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 134 KYCQYAFDLKCDSVCVNPYHYERVVS 159
++ + +L +VCVNPYH + S
Sbjct: 24 EFVLKSEELGIYAVCVNPYHVKLASS 49
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 29.6 bits (66), Expect = 1.9
Identities = 13/63 (20%), Positives = 20/63 (31%), Gaps = 8/63 (12%)
Query: 276 PYFELDTQVGETFKVPSSCPN---VTIDGYVDPSGGNRFCL--GALSNVHRTDQ-SE-RA 328
+ + G + +CP S G+ C G + + D SE R
Sbjct: 6 SIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALCGLVLSDKLVDTRSEWRT 65
Query: 329 RFS 331
FS
Sbjct: 66 -FS 67
Score = 28.9 bits (64), Expect = 3.7
Identities = 11/74 (14%), Positives = 22/74 (29%), Gaps = 16/74 (21%)
Query: 350 LLSNQPPPEYWCSVAYFELDTQVGETFKVPSSCPN---VTIDGYVDPSGGNRFCL--GAL 404
+++ + + + G + +CP S G+ C G +
Sbjct: 1 MMTRESIDKR---------AGRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALCGLV 51
Query: 405 SNVHRTDQ-SE-RA 416
+ D SE R
Sbjct: 52 LSDKLVDTRSEWRT 65
>2opj_A O-succinylbenzoate-COA synthase; TIM barrel, structural genomics,
protein structure initiative; 1.60A {Thermobifida fusca}
PDB: 2qvh_A*
Length = 327
Score = 29.7 bits (67), Expect = 2.4
Identities = 11/43 (25%), Positives = 19/43 (44%), Gaps = 2/43 (4%)
Query: 487 QAATAQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGV 529
+A A+AA V + +GG+ A+ L+ G+ V
Sbjct: 184 RAEDPLRVRDAEAADVV--VLKVQPLGGVRAALRLAEECGLPV 224
>2b5u_A Colicin E3; high resolution colicin E3, ribosome inactivation,
ribosome inhibitor, hydrolase; HET: CIT; 2.30A
{Escherichia coli} SCOP: b.101.1.1 b.110.1.1 h.4.9.1
PDB: 1jch_A* 1ujw_B* 2ysu_B 1e44_B 2xfz_Y* 2xg1_Y*
Length = 551
Score = 30.0 bits (66), Expect = 2.9
Identities = 14/68 (20%), Positives = 24/68 (35%), Gaps = 2/68 (2%)
Query: 4 SSHMNVPNPPAPASSQPQQST--SAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPG 61
S ++N + S+ +NP GGG+ S H G + + G + G G
Sbjct: 17 SGNINGGPTGLGVGGGASDGSGWSSENNPWGGGSGSGIHWGGGSGHGNGGGNGNSGGGSG 76
Query: 62 YKSDNEEQ 69
+
Sbjct: 77 TGGNLSAV 84
>1vcv_A Probable deoxyribose-phosphate aldolase; DERA, hyperthermophIle,
archaea, lyase; 2.00A {Pyrobaculum aerophilum} SCOP:
c.1.10.1
Length = 226
Score = 28.8 bits (65), Expect = 4.0
Identities = 7/26 (26%), Positives = 11/26 (42%)
Query: 134 KYCQYAFDLKCDSVCVNPYHYERVVS 159
+ A +L + CVNP + V
Sbjct: 21 AGARKAEELGVAAYCVNPIYAPVVRP 46
>3ndo_A Deoxyribose-phosphate aldolase; ssgcid, NIH, niaid, SBRI, UW,
emerald biostructures, ALS collaborative
crystallography; HET: GOL; 1.25A {Mycobacterium
smegmatis} PDB: 3ng3_A
Length = 231
Score = 28.7 bits (65), Expect = 4.2
Identities = 7/20 (35%), Positives = 9/20 (45%)
Query: 134 KYCQYAFDLKCDSVCVNPYH 153
A DL +VCV+P
Sbjct: 33 ALVDEAADLGVFAVCVSPPL 52
>3sze_A Serine protease ESPP; parallel beta-helix, hydrolase; 2.50A
{Escherichia coli O157}
Length = 968
Score = 29.2 bits (64), Expect = 4.2
Identities = 12/60 (20%), Positives = 21/60 (35%), Gaps = 11/60 (18%)
Query: 20 PQQSTSAGSNPGGGGAVSPPHQNGYTS---------TSSSSGGTSGSPGPGYKSDNEEQE 70
P S G V +G+ + +S G +GS Y DN++++
Sbjct: 164 PFNEVSYKPEMLNGSFVHIDDWSGWLILTNNQFDEFNNIASQGDAGSALFVY--DNQKKK 221
>3oa3_A Aldolase; structural genomics, seattle structural genomics center
for infectious disease, ssgcid, pathogenic fungus; 1.60A
{Coccidioides immitis}
Length = 288
Score = 28.8 bits (65), Expect = 4.5
Identities = 8/26 (30%), Positives = 11/26 (42%)
Query: 134 KYCQYAFDLKCDSVCVNPYHYERVVS 159
C A + +VCV P + R V
Sbjct: 78 VLCAEAKEYGFATVCVRPDYVSRAVQ 103
>2xpw_A Tetracycline repressor protein class D; transcription,
transcription regulator, helix-turn-helix, ME
coordination; HET: OTC MES; 1.44A {Escherichia coli}
PDB: 1bjy_A* 1bj0_A 1du7_A* 1ork_A* 2fj1_A* 1bjz_A*
2o7o_A* 2x6o_A* 2x9d_A* 2xps_A* 2xpt_A* 2vke_A* 2xpu_A*
2xpv_A* 2tct_A* 2xb5_A* 2trt_A* 2xrl_A* 1qpi_A* 1a6i_A
...
Length = 207
Score = 28.5 bits (64), Expect = 4.7
Identities = 13/93 (13%), Positives = 27/93 (29%), Gaps = 4/93 (4%)
Query: 499 AAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLCILRLSFVKGWGPD--YPRQSIK 556
A G P + + G + D F G + ++
Sbjct: 96 AKVHLGTRPDEKQYDTVETQLRFMTENGFSLRDGLYAISAVSHFTLGAVLEQQEHTAALT 155
Query: 557 ETPCWVEVHLHRALQLLDEVLHTMPIDGHRALE 589
+ P + +L L+ +++ DG +A
Sbjct: 156 DRPAAPDENLPPLLREALQIMD--SDDGEQAFL 186
>3csl_A HASR protein; outer membrane protein, beta-barrel, hemophore
receptor, TON heme, iron, metal-binding, secreted; HET:
HEM; 2.70A {Serratia marcescens} PDB: 3csn_A 3ddr_A*
Length = 865
Score = 29.4 bits (65), Expect = 4.9
Identities = 10/41 (24%), Positives = 18/41 (43%), Gaps = 7/41 (17%)
Query: 489 ATAQAAAAAQAAAVAGHIP-GPHSVGGIAPAIS-LSAAAGI 527
A A+A++A A +I P + A+ + AG+
Sbjct: 1 AQAEASSAQAAQQKNFNIAAQP-----LQSAMLRFAEQAGM 36
>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 = 28.0 bits (61), Expect = 5.7
Identities = 5/16 (31%), Positives = 8/16 (50%), Gaps = 4/16 (25%)
Query: 509 PHSVGGIAPAISLSAA 524
S APA+++ A
Sbjct: 34 DDS----APALAIKAT 45
>2wzl_A Phosphoprotein; viral protein, rabies, virion, chaperone,
nucleoprotein, RNA replication; 2.10A {Mokola virus}
Length = 303
Score = 28.0 bits (62), Expect = 8.8
Identities = 9/66 (13%), Positives = 19/66 (28%)
Query: 8 NVPNPPAPASSQPQQSTSAGSNPGGGGAVSPPHQNGYTSTSSSSGGTSGSPGPGYKSDNE 67
N+ + Q T ++ G ++ + P +S +
Sbjct: 132 NIMTSGERDTKSIQIQTEPTASVSSGNESRHDSESMHDPNDKKDHTPDHDVVPDIESSTD 191
Query: 68 EQEKRD 73
+ E RD
Sbjct: 192 KGEIRD 197
>2vpr_A Tetracycline resistance repressor protein; transcription,
metal-binding, antibiotic resistance, transcr regulator;
HET: TDC; 2.49A {Pasteurella multocida}
Length = 207
Score = 27.8 bits (62), Expect = 9.1
Identities = 7/47 (14%), Positives = 9/47 (19%)
Query: 499 AAAVAGHIPGPHSVGGIAPAISLSAAAGIGVDDLRRLCILRLSFVKG 545
AG P + AG + F G
Sbjct: 97 GKIHAGTRPSESQFETSEQQLQFLCDAGFSLSQAVYALSSIAHFTLG 143
>1t5j_A Hypothetical protein MJ1187; putative hydrolase, structural
genomics, PSI, protein structure initiative; 2.70A
{Methanocaldococcus jannaschii} SCOP: a.209.1.1
Length = 313
Score = 28.0 bits (63), Expect = 9.5
Identities = 12/87 (13%), Positives = 22/87 (25%), Gaps = 12/87 (13%)
Query: 476 DLRQCYRQMQQQAAT------AQAAAAAQAAAVAGHIPGPHSVGGIAPAISLSAAAGIGV 529
+L++ ++ + + A A A A A V+ ++ L
Sbjct: 140 NLKKLKEEVIKASKITHNNKTAIAGALAIAFFVS------SALKDRKDFSLLDECYNYIK 193
Query: 530 DDLRRLCILRLSFVKGWGPDYPRQSIK 556
D L DY
Sbjct: 194 DIDEEFAKKLLEIKNFNNLDYIYDYFG 220
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.316 0.133 0.415
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,242,696
Number of extensions: 564426
Number of successful extensions: 1600
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1555
Number of HSP's successfully gapped: 86
Length of query: 589
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 490
Effective length of database: 3,937,614
Effective search space: 1929430860
Effective search space used: 1929430860
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (26.9 bits)