RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 008849
(551 letters)
>1g57_A DHBP synthase, 3,4-dihydroxy-2-butanone 4-phosphate synthase;
riboflavine biosynthesis, skeletal rearrangement,
antimicrobial target; 1.40A {Escherichia coli} SCOP:
d.115.1.2 PDB: 1g58_A 1iez_A 3ls6_A 3lrj_A 3lqu_A 3h07_A
Length = 217
Score = 369 bits (951), Expect = e-127
Identities = 100/233 (42%), Positives = 142/233 (60%), Gaps = 18/233 (7%)
Query: 97 DEFDLDRPTKGFASISEAIEDIRQGKLVIVVDDEDRENEGDLIMAASLVTPEAMAFIVRH 156
+ L F + A+ +R+G+ V+V+DDEDRENEGD+I A +T E MA +RH
Sbjct: 2 AQTLLSSFGTPFERVENALAALREGRGVMVLDDEDRENEGDMIFPAETMTVEQMALTIRH 61
Query: 157 GTGIVCVSMKGEDLERLELPLMVNHKDNEEKLCTAFTVSVVLEMGSETCFLILLKEDAKY 216
G+GIVC+ + + ++L+LP+MV + N T FTV++ +A
Sbjct: 62 GSGIVCLCITEDRRKQLDLPMMVEN--NTSAYGTGFTVTI----------------EAAE 103
Query: 217 GTTTGVSANDRAKTVLALACRDSKPEDFNRPGHIFPLKYREGGVLKRAGHTEASVDLAVL 276
G TTGVSA DR TV A +KP D NRPGH+FPL+ + GGVL R GHTEA++DL L
Sbjct: 104 GVTTGVSAADRITTVRAAIADGAKPSDLNRPGHVFPLRAQAGGVLTRGGHTEATIDLMTL 163
Query: 277 AGLEPVAVLCEIVDDDGSMARLPKLRQFAQTENLKIISIADLIRYRRKRDRLV 329
AG +P VLCE+ +DDG+MAR P+ +FA N+ +++I DL+ YR+ +R
Sbjct: 164 AGFKPAGVLCELTNDDGTMARAPECIEFANKHNMALVTIEDLVAYRQAHERKA 216
>2bz1_A GTP cyclohydrolase II; riboflavin biosynthesis, catalytic zinc,
magnesium; 1.54A {Escherichia coli} SCOP: c.144.1.1 PDB:
2bz0_A
Length = 196
Score = 365 bits (940), Expect = e-126
Identities = 91/191 (47%), Positives = 120/191 (62%), Gaps = 1/191 (0%)
Query: 329 VELAAAAPIPTMWGPFKAHCYRSLLDGIEHIAMVKGEIGDGQDILVRVHSECLTGDIFGS 388
++ A A +PT WG F + L G +H+A+V G+I +L RVHSECLTGD S
Sbjct: 3 LKRVAEAKLPTPWGDFLMVGFEELATGHDHVALVYGDISGHTPVLARVHSECLTGDALFS 62
Query: 389 ARCDCGNQLALAMKQIEAAGRGVLVYLRGHEGRGIGLGHKLRAYNLQDDGHDTVEANEEL 448
RCDCG QL A+ QI GRG+L+Y R EGR IGL +K+RAY LQD G+DTVEAN +L
Sbjct: 63 LRCDCGFQLEAALTQIAEEGRGILLYHR-QEGRNIGLLNKIRAYALQDQGYDTVEANHQL 121
Query: 449 GLPVDSREYGIGAQILRDLGVRTMKLMTNNPSKYVGLKGYGLAIAGRIPLLTPITMENKR 508
G D R++ + A + + LGV ++L+TNNP K L G+ I R+PL+ N+
Sbjct: 122 GFAADERDFTLCADMFKLLGVNEVRLLTNNPKKVEILTEAGINIVERVPLIVGRNPNNEH 181
Query: 509 YLETKRAKMGH 519
YL+TK KMGH
Sbjct: 182 YLDTKAEKMGH 192
>1tks_A 3,4-dihydroxy-2-butanone 4-phosphate synthase; riboflavin
biosynthesis, 3,4-dihydroxy-2-B 4-phosphate synthase,
synthetic gene, ISO; 1.60A {Candida albicans} SCOP:
d.115.1.2 PDB: 1tku_A* 2ris_A 2riu_A*
Length = 204
Score = 365 bits (940), Expect = e-126
Identities = 104/221 (47%), Positives = 140/221 (63%), Gaps = 19/221 (8%)
Query: 105 TKGFASISEAIEDIRQGKLVIVVDDEDRENEGDLIMAASLVTPEAMAFIVRHGTGIVCVS 164
T F I EA+E + G+ +IV+DDEDRENEGDLIMAA L+T E MAF+VR+ +G VCV
Sbjct: 2 TNIFTPIEEALEAYKNGEFLIVMDDEDRENEGDLIMAAELITQEKMAFLVRYSSGYVCVP 61
Query: 165 MKGEDLERLELPLMVNHKDNEEKLCTAFTVSVVLEMGSETCFLILLKEDAKYGTTTGVSA 224
+ E +LELP M+ + ++ TA+T++ D GTTTG+SA
Sbjct: 62 LSEERANQLELPPMLAN--RSDRHGTAYTITC----------------DFAEGTTTGISA 103
Query: 225 NDRAKTVLALACRDSKPEDFNRPGHIFPLKYREGGVLKRAGHTEASVDLAVLAGLEPVAV 284
+DRA T +LA +SKP+DF +PGHI PL+ G + KR GHTEA+V L+ LAGL+P V
Sbjct: 104 HDRALTTRSLANPNSKPQDFIKPGHILPLRAVPGLLKKRRGHTEAAVQLSTLAGLQPAGV 163
Query: 285 LCEIV-DDDGSMARLPKLRQFAQTENLKIISIADLIRYRRK 324
+CE+V D+DG M RL QF + +KII+I L+ Y K
Sbjct: 164 ICELVRDEDGLMMRLDDCIQFGKKHGIKIININQLVEYISK 204
>1k4i_A 3,4-dihydroxy-2-butanone 4-phosphate synthase; riboflavin
biosynthesi antimicrobial target, structure-based
design, isomerase; 0.98A {Magnaporthe grisea} SCOP:
d.115.1.2 PDB: 1k49_A 1k4l_A 1k4o_A 1k4p_A
Length = 233
Score = 365 bits (938), Expect = e-125
Identities = 98/243 (40%), Positives = 132/243 (54%), Gaps = 28/243 (11%)
Query: 104 PTKGFASISEAIEDIRQGKLVIVVDDEDRENEGDLIMAASLVTPEAMAFIVRHGTGIVCV 163
P F +I + I+ + G+ V+V+DD RENE DLI+AA VT E MAF+VRH +G++C
Sbjct: 8 PKSNFDAIPDVIQAFKNGEFVVVLDDPSRENEADLIIAAESVTTEQMAFMVRHSSGLICA 67
Query: 164 SMKGEDLERLELPLMVNHKDNEEKLCTAFTVSVVLEMGSETCFLILLKEDAKYGTTTGVS 223
+ E L+LP MV H N + TA+TVSV + TTTG+S
Sbjct: 68 PLTPERTTALDLPQMVTH--NADPRGTAYTVSV---------------DAEHPSTTTGIS 110
Query: 224 ANDRAKTVLALACRDSKPEDFNRPGHIFPLKYREGGVLKRAGHTEASVDLAVLAGLEPVA 283
A+DRA LA D++P F RPGH+FPL+ GGV R GHTEA V+L LAG PVA
Sbjct: 111 AHDRALACRMLAAPDAQPSHFRRPGHVFPLRAVAGGVRARRGHTEAGVELCRLAGKRPVA 170
Query: 284 VLCEIVDDDG-----------SMARLPKLRQFAQTENLKIISIADLIRYRRKRDRLVELA 332
V+ EIVDD M R + FA+ LK+ +I D+I + K + +E
Sbjct: 171 VISEIVDDGQEVEGRAVRAAPGMLRGDECVAFARRWGLKVCTIEDMIAHVEKTEGKLETN 230
Query: 333 AAA 335
+
Sbjct: 231 GSG 233
>3mio_A DHBP synthase, 3,4-dihydroxy-2-butanone 4-phosphate synthase;
riboflavin, ribulose-5-phosphate, FAD, FMN; 1.80A
{Mycobacterium tuberculosis} PDB: 3mgz_A 3mk5_A
Length = 206
Score = 363 bits (935), Expect = e-125
Identities = 108/221 (48%), Positives = 142/221 (64%), Gaps = 20/221 (9%)
Query: 108 FASISEAIEDIRQGKLVIVVDDEDRENEGDLIMAASLVTPEAMAFIVRHGTGIVCVSMKG 167
S+ A+ DI GK VIV+DDEDRENEGDLI AA TPE +AF+VR+ +G +CV + G
Sbjct: 4 LDSVERAVADIAAGKAVIVIDDEDRENEGDLIFAAEKATPEMVAFMVRYTSGYLCVPLDG 63
Query: 168 EDLERLELPLMVNHKDNEEKLCTAFTVSVVLEMGSETCFLILLKEDAKYGTTTGVSANDR 227
+RL L M N++K TA+TV+V DA+ G TG+SA+DR
Sbjct: 64 AICDRLGLLPMYAV--NQDKHGTAYTVTV----------------DARNGIGTGISASDR 105
Query: 228 AKTVLALACRDSKPEDFNRPGHIFPLKYREGGVLKRAGHTEASVDLAVLAGLEPVAVLCE 287
A T+ LA S +DF RPGH+ PL+ ++GGVL+R GHTEA+VDLA +AGL+P +CE
Sbjct: 106 ATTMRLLADPTSVADDFTRPGHVVPLRAKDGGVLRRPGHTEAAVDLARMAGLQPAGAICE 165
Query: 288 IVD--DDGSMARLPKLRQFAQTENLKIISIADLIRYRRKRD 326
IV D+GSMA +LR FA L +I+IADLI +RRK +
Sbjct: 166 IVSQKDEGSMAHTDELRVFADEHGLALITIADLIEWRRKHE 206
>1snn_A DHBP synthase, 3,4-dihydroxy-2-butanone 4-phosphate synthase;
riboflavin biosynthesis, isomerase; HET: 5RP; 1.55A
{Methanocaldococcus jannaschii} SCOP: d.115.1.2 PDB:
1pvy_A* 1pvw_A
Length = 227
Score = 334 bits (858), Expect = e-113
Identities = 62/239 (25%), Positives = 121/239 (50%), Gaps = 39/239 (16%)
Query: 110 SISEAIEDIRQGKLVIVVDDEDRENEGDLIMAASLVTPEAMAFIVRHGTGIVCVSMKGED 169
++ +AIE +++G++++V D ++RE E D+++A+ +TPE + + + G++C ++ +
Sbjct: 3 NVEKAIEALKKGEIILVYDSDEREGETDMVVASQFITPEHIRIMRKDAGGLICTALHPDI 62
Query: 170 LERLELPLMVNH----------------KDNEEKLCTAFTVSVVLEMGSETCFLILLKED 213
+L +P MV+ D ++F++++ +
Sbjct: 63 CNKLGIPFMVDILEFASQKFKVLRELYPNDIPYDEKSSFSITI----------------N 106
Query: 214 AKYGTTTGVSANDRAKTVLALA------CRDSKPEDFNRPGHIFPLKYREGGVLKRAGHT 267
+ T TG++ NDRA T+ LA + ++F PG + L+ EG V R GHT
Sbjct: 107 HR-KTFTGITDNDRAFTIKKLAELVKEGRFNDFGKEFRSPGSVTLLRAAEGLVKNRQGHT 165
Query: 268 EASVDLAVLAGLEPVAVLCEIVDDDGSMARLPKLRQFAQTENLKIISIADLIRYRRKRD 326
E +V LA LA L P+ +CE++ DDG+ + +++A+ NL +S ++I Y +
Sbjct: 166 EMTVALAELANLVPITTICEMMGDDGNAMSKNETKRYAEKHNLIYLSGEEIINYYLDKY 224
>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 = 73.3 bits (179), Expect = 9e-14
Identities = 63/472 (13%), Positives = 131/472 (27%), Gaps = 142/472 (30%)
Query: 25 HFVKPFSADGCLSIKNVGRIKTAALVSGEGD-VISYPNNNKKYTAIETQSDTIGFGTLGA 83
F F + K+V + + L E D +I + + + + F TL +
Sbjct: 24 VFEDAFVDN--FDCKDVQDMPKSILSKEEIDHIIMSKDA-------VSGTLRL-FWTLLS 73
Query: 84 EITPKTSDFFPNDDEFDLDRPTKGFASISEAI-EDIRQGKLVIVVDDEDRENEGDLIMAA 142
+ F ++ R F + I + RQ ++ + E R+ L
Sbjct: 74 KQEEMVQKFVE-----EVLRINYKF--LMSPIKTEQRQPSMMTRMYIEQRDR---LYNDN 123
Query: 143 SLVTPEAMAFIVRHGTGIVCVSMKGEDLERLELPLMVNHKDNEEKLCTAFTVSVVLE-MG 201
+ + R + +L L+ + K V+++ +
Sbjct: 124 QVFAKY---NVSRL-----------QPYLKLRQALL---ELRPAKN-------VLIDGVL 159
Query: 202 SETCFLILLKEDAKYGTTTGVSANDRAKTVLAL-ACRDSKPEDFNRPGHIFPLKYREGGV 260
G+ G KT +AL C K + IF L
Sbjct: 160 ---------------GS--G-------KTWVALDVCLSYKVQCKM-DFKIFWLNL----- 189
Query: 261 LKRAGHTEASVDLAVLAGLEPVAVLCEIVDDDGSMARLPKLRQFAQTENLKIISIADLIR 320
+ + + LE + L +D + + + +++ + L++
Sbjct: 190 ----KNCNSPETV-----LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ-AELRRLLK 239
Query: 321 YRRKRDRLVELAAAAPI------PTMWGPFKAHC-------YRSLLDGI-----EHIAMV 362
+ + L+ + W F C ++ + D + HI++
Sbjct: 240 SKPYENCLL-------VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD 292
Query: 363 KGEIGDGQDILVRVHSECLTGDIFGSARCDC-GNQLALAMKQIEAAGRGVLVYLRGHEGR 421
+ D + + + L R N L++ I + +R
Sbjct: 293 HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSI--IAES-------IR----- 338
Query: 422 GIGLGHKLRAYNLQDDGHDTVEANEELGL----PVDSREYGIGAQILRDLGV 469
N + D + E L P + R+ L V
Sbjct: 339 ----DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM------FDRLSV 380
Score = 36.0 bits (82), Expect = 0.034
Identities = 29/192 (15%), Positives = 60/192 (31%), Gaps = 27/192 (14%)
Query: 347 HCYRSLLDGIEHIAMVKG-EIGDGQDILVRVHSECLTGDIFGSARCDCGNQLALAMKQIE 405
+ Y+ +L E A V + D QD+ + S+ I S D + +
Sbjct: 16 YQYKDILSVFED-AFVDNFDCKDVQDMPKSILSKEEIDHIIMSK--DAVSGTLRLFWTLL 72
Query: 406 AAG-RGVLVYLRGHEGRGIG-LGHKLRAYNLQDDGHDTVEANEELGLPVDSREYGIGAQI 463
+ V ++ L ++ Q T E+ R Y Q+
Sbjct: 73 SKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSM-MTRMYIEQR-----DRLYN-DNQV 125
Query: 464 LRDLGVRTMKLMTN--------NPSKYVGLKGYGLAIAGRIPLLTPITMENKRYLETKRA 515
V ++ P+K V + G+ +G+ T + ++ + +
Sbjct: 126 FAKYNVSRLQPYLKLRQALLELRPAKNVLI--DGVLGSGK----TWVALDVCLSYKVQCK 179
Query: 516 KMGHVYGLNSGS 527
++ LN +
Sbjct: 180 MDFKIFWLNLKN 191
>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 = 53.1 bits (127), Expect = 2e-07
Identities = 70/417 (16%), Positives = 129/417 (30%), Gaps = 153/417 (36%)
Query: 136 GDLIMAASLVTPEAMAFIVRHGTGIVCVSMKGEDLER-LELPLMVNHKDNEEKLCTAFTV 194
GDLI ++ E ++ ++R V +G ++ LE P ++ +++ L + +
Sbjct: 185 GDLIKFSA----ETLSELIRTTLDAEKVFTQGLNILEWLENP---SNTPDKDYLLSI-PI 236
Query: 195 SVVL-EMGSETCFLILLKEDAKYGTTTG-VSANDRAKTV--------LALACRDSKPEDF 244
S L + +++ K G T G + + + T +A+A DS E F
Sbjct: 237 SCPLIGVIQLAHYVVTAK---LLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSW-ESF 292
Query: 245 NRPG--------HI-------FPLKYREGGVLKRA---GHTEASVDLAVLAGLEPVAVLC 286
I +P +L+ + S L++ + L V
Sbjct: 293 FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI-SNLTQEQVQD 351
Query: 287 EIVDDDGSMARLPKLRQFAQTENLKIISIA---------------DLIRYRRKRDRLVEL 331
+ + + + LP +Q + I+ L L +
Sbjct: 352 YV---NKTNSHLPAGKQ---------VEISLVNGAKNLVVSGPPQSLYGLNL---TLRKA 396
Query: 332 AAAA---------------------PIPTMWGPFKAHCYRSLL----DGIEHIAMVKGEI 366
A + P+ + PF H LL D I +
Sbjct: 397 KAPSGLDQSRIPFSERKLKFSNRFLPVAS---PF--HS--HLLVPASDLINKDLVKNNVS 449
Query: 367 GDGQDILVRVHSECLTGDIFGSARCDCGNQLALAM-KQI-------EAA----------- 407
+ +DI + V+ T D GS ++ + I E
Sbjct: 450 FNAKDIQIPVYD---TFD--GSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDF 504
Query: 408 ------GRGVLVYLRGHEGRGIGLGHKLRAYNLQDDGHDTVEANEELGLPVDSREYG 458
G GVL + R +G G+ + + A T++ N P D +YG
Sbjct: 505 GPGGASGLGVLTH-RNKDGTGVRV---IVA--------GTLDIN-----PDD--DYG 542
Score = 43.9 bits (103), Expect = 2e-04
Identities = 49/339 (14%), Positives = 83/339 (24%), Gaps = 154/339 (45%)
Query: 32 ADGCL------SIKNVGR---IKTAALVSGEGDVISYPNNNKKYTAI--ETQSD-TIGFG 79
AD SI ++ + GE N Y+A+ ET D +
Sbjct: 1649 ADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIREN----YSAMIFETIVDGKLKTE 1704
Query: 80 TLGAEITPKTSDF-FPNDDEFDLDR-----P--------------TKG-------FA--- 109
+ EI ++ + F ++ L P +KG FA
Sbjct: 1705 KIFKEINEHSTSYTFRSEKGL-LSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHS 1763
Query: 110 --------------SISEAIEDIRQ-GKLVIVVDDEDRENEGDLIMAASLVTPEAMAFIV 154
SI +E + G + V D + M A + P +A
Sbjct: 1764 LGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIA--INPGRVA--- 1818
Query: 155 RHGTGIVCVSMKGEDLERLELPLMVNHKDNEEKLCTAFTVSVVLEMGSETCFLILLKEDA 214
S E L+ VV +G T +L
Sbjct: 1819 --------ASFSQEALQY-----------------------VVERVGKRTGWL------- 1840
Query: 215 KYGTTTGVS-ANDRAKTVLALACRDSKPEDFNRPGHIFPLKYREGGVLKRAGHTEASVDL 273
V N +N Y V AG A
Sbjct: 1841 -------VEIVN------------------YNVENQQ----Y----VA--AGDLRA---- 1861
Query: 274 AVLAGLEPVAVLCEIVDDDGSMA-RLPKLRQFAQTENLK 311
+ + +++ + +L++ E ++
Sbjct: 1862 --------LDTVTNVLNFIKLQKIDIIELQKSLSLEEVE 1892
Score = 33.5 bits (76), Expect = 0.26
Identities = 29/182 (15%), Positives = 53/182 (29%), Gaps = 77/182 (42%)
Query: 256 REGGVLKR----AGHT--E--ASVDLAVLAGLEPVAVLCEIVDDDGSMARLPKLRQFAQT 307
+ G++ AGH+ E A LA LA
Sbjct: 1748 KSKGLIPADATFAGHSLGEYAA---LASLAD----------------------------- 1775
Query: 308 ENLKIISIADLIRYRRKRDRLVELAAAAPIPTMWGPFKAHCYRSLLDGIEHIAMVKGEIG 367
++SI L+ R +++A Y G+ IA+ G +
Sbjct: 1776 ----VMSIESLVEVVFYRGMTMQVAVPR------DELGRSNY-----GM--IAINPGRVA 1818
Query: 368 DG------QDILVRVHSECLTGDI-----FGSARCDCGNQLALA--MKQIEAAGRGVLVY 414
Q ++ RV TG + + Q A ++ ++ VL +
Sbjct: 1819 ASFSQEALQYVVERVGKR--TGWLVEIVNYNVE----NQQYVAAGDLRALDTVTN-VLNF 1871
Query: 415 LR 416
++
Sbjct: 1872 IK 1873
>1lh0_A OMP synthase; loop closure, monomer closure, orotate
phosphoribosyltransferase; HET: ORO PRP; 2.00A
{Salmonella typhimurium} SCOP: c.61.1.1 PDB: 1opr_A*
1sto_A* 1oro_A
Length = 213
Score = 37.5 bits (87), Expect = 0.005
Identities = 24/151 (15%), Positives = 50/151 (33%), Gaps = 28/151 (18%)
Query: 188 LCTAFTVSVVLEMGSETCFLILLKEDAKYGTTTGVSANDRAKTVLALACRDSKPEDFNRP 247
+ T V++ + + KE +G + + V+ + +D
Sbjct: 77 IATTTAVALAEHHDKDLPYCFNRKEAKDHGEGGSLVGSALQGRVMLV-------DD---- 125
Query: 248 GHIFPLKYREGGVLKRAGHTEASVDLAVLAGLEPVAVLCEIVD-DDGSMARLPKLRQFAQ 306
V+ S+++ G VL +D + + +++ +
Sbjct: 126 ------------VITAGTAIRESMEIIQAHGATLAGVLI-SLDRQERGRGEISAIQEVER 172
Query: 307 TENLKIISIA---DLIRYRRKRDRLVELAAA 334
K+ISI DLI Y ++ + E AA
Sbjct: 173 DYGCKVISIITLKDLIAYLEEKPDMAEHLAA 203
>3n2l_A OPRT, oprtase, orotate phosphoribosyltransferase; pyrimidine
ribonucleotide biosynthesis, infectious diseases; 2.10A
{Vibrio cholerae}
Length = 238
Score = 37.2 bits (86), Expect = 0.009
Identities = 24/151 (15%), Positives = 48/151 (31%), Gaps = 28/151 (18%)
Query: 188 LCTAFTVSVVLEMGSETCFLILLKEDAKYGTTTGVSANDRAKTVLALACRDSKPEDFNRP 247
+ T V++ +T + KE +G + + V+ + +D
Sbjct: 102 IATTTAVALADHHDVDTPYCFNRKEAKNHGEGGNLVGSKLEGRVMLV-------DD---- 150
Query: 248 GHIFPLKYREGGVLKRAGHTEASVDLAVLAGLEPVAVLCEIVD-DDGSMARLPKLRQFAQ 306
V+ S++L + VL +D + L +++ +
Sbjct: 151 ------------VITAGTAIRESMELIQANKADLAGVLV-AIDRQEKGKGELSAIQEVER 197
Query: 307 TENLKIISIA---DLIRYRRKRDRLVELAAA 334
+ISI DLI Y ++ E A
Sbjct: 198 DFGCAVISIVSLTDLITYLEQQGNNTEHLEA 228
>1pb7_A N-methyl-D-aspartate receptor subunit 1; ligand binding receptor,
NR1, ligand binding protein; 1.35A {Rattus norvegicus}
SCOP: c.94.1.1 PDB: 1pbq_A* 1y1m_A 1y1z_A 1y20_A 2a5t_A*
1pb8_A 1pb9_A
Length = 292
Score = 31.5 bits (71), Expect = 0.64
Identities = 16/115 (13%), Positives = 35/115 (30%), Gaps = 10/115 (8%)
Query: 49 LVSGEGDVISYPNNNKKYTAIETQSDTIGFGTLGAEITPKTSDFFPNDDEFDLDRPTKGF 108
LV + + + + + T+ + +I + +
Sbjct: 149 LVKKGTRITGINDPRLRNPSDKFIYATVKQSS--VDIYFRRQVELSTMYRH---MEKHNY 203
Query: 109 ASISEAIEDIRQGKLVIVVDDE-----DRENEGDLIMAASLVTPEAMAFIVRHGT 158
S +EAI+ +R KL + D + + DL+ L +R +
Sbjct: 204 ESAAEAIQAVRDNKLHAFIWDSAVLEFEASQKCDLVTTGELFFRSGFGIGMRKDS 258
>3egc_A Putative ribose operon repressor; structural genomics, unknown
function, DNA-binding, transcri transcription
regulation, PSI-2; 2.35A {Burkholderia thailandensis}
Length = 291
Score = 31.4 bits (72), Expect = 0.67
Identities = 15/79 (18%), Positives = 29/79 (36%), Gaps = 15/79 (18%)
Query: 108 FASISEAIEDI--RQGKLVIVVD-DEDRENEGD------------LIMAASLVTPEAMAF 152
FA ++ +E +G V++ + ED E + LI+A S + +
Sbjct: 23 FAEVASGVESEARHKGYSVLLANTAEDIVREREAVGQFFERRVDGLILAPSEGEHDYLRT 82
Query: 153 IVRHGTGIVCVSMKGEDLE 171
+ IV V+ +
Sbjct: 83 ELPKTFPIVAVNRELRIPG 101
>4f3p_A Glutamine-binding periplasmic protein; ssgcid, structural genomics,
GLUT seattle structural genomics center for infectious
disease; 2.40A {Burkholderia pseudomallei}
Length = 249
Score = 31.1 bits (71), Expect = 0.68
Identities = 16/109 (14%), Positives = 35/109 (32%), Gaps = 23/109 (21%)
Query: 63 NKKYTAIETQSD----TIG--FGTLGAEITPKTSDFFPNDDEFDLDRPTKGFASISEAIE 116
T I++ D I GT + + + F +I +A
Sbjct: 116 QANNTTIKSIDDLNGKVIAAKTGTATIDWI---KAHLKPKE-------IRQFPNIDQAYL 165
Query: 117 DIRQGKLVIVVDDE-------DRENEGDLIMAASLVTPEAMAFIVRHGT 158
+ G++ + D + E +G + +A + V+ + G+
Sbjct: 166 ALEAGRVDAAMHDTPNVLFFVNNEGKGRVKVAGAPVSGDKYGIGFPKGS 214
>3bil_A Probable LACI-family transcriptional regulator; structural
genomics, unknown function, PSI-2, protein structure
initiative; 2.50A {Corynebacterium glutamicum atcc
13032}
Length = 348
Score = 31.0 bits (71), Expect = 0.91
Identities = 11/81 (13%), Positives = 26/81 (32%), Gaps = 15/81 (18%)
Query: 108 FASISEAIEDI--RQGKLVIVVD-DEDRENEGD------------LIMAASLVTPEAMAF 152
FA++ I+ + G I+ + +ED +I + +
Sbjct: 81 FAAMVTEIQSTASKAGLATIITNSNEDATTMSGSLEFLTSHGVDGIICVPNEECANQLED 140
Query: 153 IVRHGTGIVCVSMKGEDLERL 173
+ + G +V V + +
Sbjct: 141 LQKQGMPVVLVDRELPGDSTI 161
>3kke_A LACI family transcriptional regulator; structural genomics,
DNA-binding, transcription regulation, PSI-2; 2.20A
{Mycobacterium smegmatis str}
Length = 303
Score = 30.6 bits (70), Expect = 1.2
Identities = 8/71 (11%), Positives = 18/71 (25%), Gaps = 15/71 (21%)
Query: 108 FASISEAIEDI--RQGKLVIVVD-DEDRENEGD------------LIMAASLVTPEAMAF 152
FA + ++ V++ D +++ + M
Sbjct: 30 FADMFSGVQMAASGHSTDVLLGQIDAPPRGTQQLSRLVSEGRVDGVLLQRREDFDDDMLA 89
Query: 153 IVRHGTGIVCV 163
V G V +
Sbjct: 90 AVLEGVPAVTI 100
>4dz1_A DALS D-alanine transporter; D-alanine binding, periplasmic,
transport protein; 1.90A {Salmonella enterica} PDB:
3r39_A 4f3s_A
Length = 259
Score = 30.4 bits (69), Expect = 1.3
Identities = 8/86 (9%), Positives = 28/86 (32%), Gaps = 10/86 (11%)
Query: 79 GTLGAEITPKTSDFFPNDDEFDLDRPTKGFASISEAIEDIRQGKLVIVVDDE------DR 132
G +++ + + K + + +E + D++ G L + +E
Sbjct: 145 GMAYSDLIKNDLEPKGYYSLSKV----KLYPTYNETMADLKNGNLDLAFIEEPVYFTFKN 200
Query: 133 ENEGDLIMAASLVTPEAMAFIVRHGT 158
+ + + + + + G+
Sbjct: 201 KKKMPIESRYVFKNVDQLGIAFKKGS 226
>2rgy_A Transcriptional regulator, LACI family; 11011J, NYSGXRC,
transctiptional regulator, SUG binding protein,
structural genomics, PSI-2; 2.05A {Burkholderia
phymatum}
Length = 290
Score = 30.6 bits (70), Expect = 1.3
Identities = 9/87 (10%), Positives = 27/87 (31%), Gaps = 21/87 (24%)
Query: 108 FASISEAIEDI--RQGKLVIVV----DDEDRENEGD------------LIMAASLVTPEA 149
+ +I + + + V+V + RE + +++ + + E
Sbjct: 23 YGTILKQTDLELRAVHRHVVVATGCGESTPREQALEAVRFLIGRDCDGVVVISHDLHDED 82
Query: 150 MAFIVRHGTGIVCVSMKGEDLERLELP 176
+ + R +V + + L
Sbjct: 83 LDELHRMHPKMVFL---NRAFDALPDA 106
>2pyy_A Ionotropic glutamate receptor bacterial homologue; GLUR0 ligand
binding domain, transport protein; HET: GLU; 2.10A
{Nostoc punctiforme}
Length = 228
Score = 30.3 bits (69), Expect = 1.3
Identities = 13/77 (16%), Positives = 29/77 (37%), Gaps = 11/77 (14%)
Query: 89 TSDFFPNDDEFDLDRPTKGFASISEAIEDIRQGKLVIVVDDE-------DRENEGDLIMA 141
T+ + + + I EA + ++ K VV D E +G + +
Sbjct: 122 TAATYLREHHISV----LEVPKIEEAYKALQTKKADAVVFDAPVLLFYAANEGKGKVEIV 177
Query: 142 ASLVTPEAMAFIVRHGT 158
S++ E+ I+ + +
Sbjct: 178 GSILREESYGIILPNNS 194
>3otg_A CALG1; calicheamicin, TDP, structural genomics, PSI-2, protein STRU
initiative, center for eukaryotic structural genomics,
CESG fold; HET: TYD; 2.08A {Micromonospora echinospora}
PDB: 3oth_A*
Length = 412
Score = 30.0 bits (68), Expect = 1.9
Identities = 19/99 (19%), Positives = 28/99 (28%), Gaps = 18/99 (18%)
Query: 247 PGHIFPLKYREGGV---LKRAGH------TEASVDLAVLAGLEPVAVLCEIVDDDGSMAR 297
GH +PL + + AGH E G EPVA
Sbjct: 31 HGHTYPLL----PLATAARAAGHEVTFATGEGFAGTLRKLGFEPVA-----TGMPVFDGF 81
Query: 298 LPKLRQFAQTENLKIISIADLIRYRRKRDRLVELAAAAP 336
L LR T++ + ++ L + V
Sbjct: 82 LAALRIRFDTDSPEGLTPEQLSELPQIVFGRVIPQRVFD 120
>3k4u_A Binding component of ABC transporter; structural genomics, protein
structure INI NEW YORK structural genomix research
consortium, nysgxrc; HET: LYS; 2.62A {Wolinella
succinogenes}
Length = 245
Score = 29.9 bits (68), Expect = 1.9
Identities = 11/59 (18%), Positives = 30/59 (50%), Gaps = 7/59 (11%)
Query: 106 KGFASISEAIEDIRQGKLVIVVDDE-------DRENEGDLIMAASLVTPEAMAFIVRHG 157
K + + +EA++++ GK + + D ++ +G L+ + +T E + + ++ G
Sbjct: 140 KTYDTEAEAVQEVLNGKADMFIFDLPFNVAFMAQKGQGYLVHLDTSLTYEPLGWAIKKG 198
>3gqv_A Enoyl reductase; medium-chain reductase (MDR superfamily), rossmann
fold, NAD binding, oxidoreductase; HET: NAP; 1.74A
{Aspergillus terreus} PDB: 3b6z_A* 3b70_A*
Length = 371
Score = 30.1 bits (68), Expect = 2.1
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 6/35 (17%)
Query: 106 KGFASISEAIEDIRQG-----KLVIVVDDEDRENE 135
GF I + +E +R+G KLV+ ++ E+
Sbjct: 334 GGFDHIKQGMELVRKGELSGEKLVVRLEG-PLEHH 367
>3h7m_A Sensor protein; histidine kinase sensor domain, kinase,
phosphoprotein, transferase; 2.40A {Geobacter
sulfurreducens}
Length = 234
Score = 29.1 bits (66), Expect = 3.3
Identities = 8/59 (13%), Positives = 18/59 (30%), Gaps = 7/59 (11%)
Query: 106 KGFASISEAIEDIRQGKLVIVVDDE-------DRENEGDLIMAASLVTPEAMAFIVRHG 157
+ ++A+ + G V +L+ A + + + VR G
Sbjct: 142 VLTPTPADALRLLAAGGCDYAVVAMVPGMYIIRENRLTNLVPVARSIAAQRYGYAVRQG 200
>3gve_A YFKN protein; alpha-beta-BETA-alpha sandwich, structural genomics,
PSI-2, structure initiative; HET: CIT; 1.25A {Bacillus
subtilis subsp}
Length = 341
Score = 28.5 bits (64), Expect = 5.5
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 11/56 (19%)
Query: 89 TSD----FFPNDDEFDLDRPTKGFASISEAIEDIR-QGKLVIVVDDEDRENEGDLI 139
T+D D D + G A ++ I+ R Q ++VD+ GDLI
Sbjct: 17 TTDIHANMMDYDYYSDKETADFGLARTAQLIQKHREQNPNTLLVDN------GDLI 66
>2jsx_A Protein NAPD; TAT, proofreading, cytoplasm, chaperone; NMR
{Escherichia coli K12} PDB: 2pq4_A
Length = 95
Score = 27.0 bits (60), Expect = 5.6
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 114 AIEDIRQGKLVIVVDDEDRENEGDLIMA 141
A+ D G+L++VV+ ED E I +
Sbjct: 35 AVSDAPSGQLIVVVEAEDSETLIQTIES 62
>1kut_A Phosphoribosylaminoimidazole-succinocarboxamide synthase;
structural genomics, saicar synthetase, PSI, protein
structure initiative; 2.20A {Thermotoga maritima} SCOP:
d.143.1.1
Length = 230
Score = 28.3 bits (64), Expect = 5.8
Identities = 9/38 (23%), Positives = 15/38 (39%)
Query: 81 LGAEITPKTSDFFPNDDEFDLDRPTKGFASISEAIEDI 118
LG EI+P T + FD D + + ++
Sbjct: 183 LGDEISPDTFRLRKKGEIFDKDVYRRDLGDPLKKYREV 220
>3mjd_A Orotate phosphoribosyltransferase; IDP02311, csgid, structural
genomics, center for structural genomics of infectious
diseases; 1.90A {Francisella tularensis}
Length = 232
Score = 28.2 bits (63), Expect = 7.0
Identities = 18/134 (13%), Positives = 45/134 (33%), Gaps = 27/134 (20%)
Query: 188 LCTAFTVSVVLEMGSETCFLILLKEDAKYGTT-TGVSANDRAKTVLALACRDSKPEDFNR 246
L A + + L+ + + KE +G V A+ K VL + +D
Sbjct: 95 LVAAISTVLALKYNIDMPYAFDRKEAKDHGEGGVFVGADMTNKKVLLI-------DD--- 144
Query: 247 PGHIFPLKYREGGVLKRAGHTEASVDLAVLAGLEPVAVLCEIVD--DDGSMARLPKLRQF 304
V+ S + + + V+ +D + + + ++
Sbjct: 145 -------------VMTAGTAFYESYNKLKIINAKIAGVVL-SIDRQEKAKDSDISATKKI 190
Query: 305 AQTENLKIISIADL 318
+Q N+ ++++ +
Sbjct: 191 SQDFNIPVLAVTNF 204
>1o20_A Gamma-glutamyl phosphate reductase; TM0293, structural genom JCSG,
PSI, protein structure initiative, joint center for S
genomics; 2.00A {Thermotoga maritima} SCOP: c.82.1.1
Length = 427
Score = 28.3 bits (64), Expect = 7.2
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 124 VIVVDDEDRENE-GDLIMAASLV--TPEAMAFIVRHGTG 159
V+ ++D E DLI+A +V EA+ I ++ TG
Sbjct: 311 VVPATEDDWPTEYLDLIIAIKVVKNVDEAIEHIKKYSTG 349
>2h0a_A TTHA0807, transcriptional regulator; repressor, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; 2.80A {Thermus thermophilus}
Length = 276
Score = 27.9 bits (63), Expect = 7.5
Identities = 10/78 (12%), Positives = 22/78 (28%), Gaps = 15/78 (19%)
Query: 108 FASISEAIEDI--RQGKLVIVVD-DEDRENEGD------------LIMAASLVTPEAMAF 152
+ + E IE + Q + + + LI+A+ +T
Sbjct: 14 YRRLVEGIEGVLLEQRYDLALFPILSLARLKRYLENTTLAYLTDGLILASYDLTERFEEG 73
Query: 153 IVRHGTGIVCVSMKGEDL 170
+ +V V +
Sbjct: 74 RLPTERPVVLVDAQNPRY 91
>1vlu_A Gamma-glutamyl phosphate reductase; YOR323C, structural GENO JCSG,
protein structure initiative, PSI, joint center for S
genomics; 2.29A {Saccharomyces cerevisiae} SCOP:
c.82.1.1
Length = 468
Score = 28.3 bits (64), Expect = 7.7
Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 3/57 (5%)
Query: 106 KGFASISEAIEDIRQGKLVIVVDDEDRENE-GDLIMAASLV--TPEAMAFIVRHGTG 159
+ + + Q K V +++D + E L +AA V T A+ I H +
Sbjct: 311 FDKLNELGKLTEAIQCKTVDADEEQDFDKEFLSLDLAAKFVTSTESAIQHINTHSSR 367
>3jyf_A 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'- nucleotidase
bifunctional periplasmic...; APC63187.2; HET: EPE TAM;
2.43A {Klebsiella pneumoniae subsp}
Length = 339
Score = 28.1 bits (63), Expect = 8.2
Identities = 14/56 (25%), Positives = 21/56 (37%), Gaps = 11/56 (19%)
Query: 89 TSD----FFPNDDEFDLDRPTKGFASISEAIEDIR-QGKLVIVVDDEDRENEGDLI 139
T+D D D G + IE R + K ++VD+ GD+I
Sbjct: 14 TTDLHSNMMDFDYYKDAATEKFGLVRTASLIEQARAEVKNSVLVDN------GDVI 63
>1l3w_A EP-cadherin, C-cadherin; cell adhesion, calcium binding,
extracellular, ECT metal binding protein; HET: NAG NDG;
3.08A {Xenopus laevis} SCOP: b.1.6.1 b.1.6.1 b.1.6.1
b.1.6.1 b.1.6.1
Length = 546
Score = 28.0 bits (63), Expect = 8.9
Identities = 7/93 (7%), Positives = 21/93 (22%), Gaps = 5/93 (5%)
Query: 108 FASISEAIEDIRQGKLVIVVDDEDRENEGDLIMAASLVTPEAMAFIVRHGTGIVCV--SM 165
+ + D V+ + D D + + G +
Sbjct: 446 PSPRVFTMCDQNPEPQVLTISDADIPPNTYPYKVSLSHGSDLTWKAELDSKGTSMLLSPT 505
Query: 166 KGEDLERLELPLMVNHKDNEEKLCTA-FTVSVV 197
+ + +++ D + +V
Sbjct: 506 QQLKKGDYSIYVLL--SDAQNNPQLTVVNATVC 536
>3hv1_A Polar amino acid ABC uptake transporter substrate binding protein;
protein structure initiative II(PSI II), nysgxrc; 1.90A
{Streptococcus thermophilus lmg 18311}
Length = 268
Score = 27.7 bits (62), Expect = 9.0
Identities = 14/108 (12%), Positives = 39/108 (36%), Gaps = 17/108 (15%)
Query: 64 KKYTAIETQSD----TIG--FGTLGAEITPKTSDFFPNDDEFDLDRPTKGFASISEAIED 117
KK + I++ + T+G G+ G + + + ++ +++ ++A+ D
Sbjct: 114 KKSSGIDSVAGMAGKTLGAQAGSSGYDAFNASPKILKDVVA---NQKVVQYSTFTQALID 170
Query: 118 IRQGKLVIVVDDE--------DRENEGDLIMAASLVTPEAMAFIVRHG 157
+ G++ ++ D + + E+ A R
Sbjct: 171 LNSGRIDGLLIDRVYANYYLEKSGVLDQYNVMPAGYEGESFAVGARKV 218
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 0.137 0.397
Gapped
Lambda K H
0.267 0.0750 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,683,006
Number of extensions: 576267
Number of successful extensions: 1487
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1468
Number of HSP's successfully gapped: 40
Length of query: 551
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 453
Effective length of database: 3,965,535
Effective search space: 1796387355
Effective search space used: 1796387355
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: 60 (26.8 bits)