RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 017544
(369 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 = 381 bits (981), Expect = e-134
Identities = 100/217 (46%), Positives = 142/217 (65%), Gaps = 2/217 (0%)
Query: 97 DEFDLDRPTKGFASISEAIEDIRQGKLVIVVDDEDRENEGDLIMAASLVTPEAMAFIVRH 156
+ L F + A+ +R+G+ V+V+DDEDRENEGD+I A +T E MA +RH
Sbjct: 2 AQTLLSSFGTPFERVENALAALREGRGVMVLDDEDRENEGDMIFPAETMTVEQMALTIRH 61
Query: 157 GTGIVCVSMKGEDLERLELPLMVNHKDNEEKLCTAFTVSVDAKYGTTTGVSANDRAKTVL 216
G+GIVC+ + + ++L+LP+MV + N T FTV+++A G TTGVSA DR TV
Sbjct: 62 GSGIVCLCITEDRRKQLDLPMMVEN--NTSAYGTGFTVTIEAAEGVTTGVSAADRITTVR 119
Query: 217 ALACRDSKPEDFNRPGHIFPLKYREGGVLKRAGHTEASVDLAVLAGLEPVAVLCEIVDDD 276
A +KP D NRPGH+FPL+ + GGVL R GHTEA++DL LAG +P VLCE+ +DD
Sbjct: 120 AAIADGAKPSDLNRPGHVFPLRAQAGGVLTRGGHTEATIDLMTLAGFKPAGVLCELTNDD 179
Query: 277 GSMARLPKLRQFAQTENLKIISIADLIRYRRKRDRLV 313
G+MAR P+ +FA N+ +++I DL+ YR+ +R
Sbjct: 180 GTMARAPECIEFANKHNMALVTIEDLVAYRQAHERKA 216
>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 = 377 bits (970), Expect = e-133
Identities = 104/205 (50%), Positives = 140/205 (68%), Gaps = 3/205 (1%)
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 MKGEDLERLELPLMVNHKDNEEKLCTAFTVSVDAKYGTTTGVSANDRAKTVLALACRDSK 224
+ E +LELP M+ + ++ TA+T++ D GTTTG+SA+DRA T +LA +SK
Sbjct: 62 LSEERANQLELPPMLAN--RSDRHGTAYTITCDFAEGTTTGISAHDRALTTRSLANPNSK 119
Query: 225 PEDFNRPGHIFPLKYREGGVLKRAGHTEASVDLAVLAGLEPVAVLCEIV-DDDGSMARLP 283
P+DF +PGHI PL+ G + KR GHTEA+V L+ LAGL+P V+CE+V D+DG M RL
Sbjct: 120 PQDFIKPGHILPLRAVPGLLKKRRGHTEAAVQLSTLAGLQPAGVICELVRDEDGLMMRLD 179
Query: 284 KLRQFAQTENLKIISIADLIRYRRK 308
QF + +KII+I L+ Y K
Sbjct: 180 DCIQFGKKHGIKIININQLVEYISK 204
>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 = 374 bits (964), Expect = e-132
Identities = 108/205 (52%), Positives = 142/205 (69%), Gaps = 4/205 (1%)
Query: 108 FASISEAIEDIRQGKLVIVVDDEDRENEGDLIMAASLVTPEAMAFIVRHGTGIVCVSMKG 167
S+ A+ DI GK VIV+DDEDRENEGDLI AA TPE +AF+VR+ +G +CV + G
Sbjct: 4 LDSVERAVADIAAGKAVIVIDDEDRENEGDLIFAAEKATPEMVAFMVRYTSGYLCVPLDG 63
Query: 168 EDLERLELPLMVNHKDNEEKLCTAFTVSVDAKYGTTTGVSANDRAKTVLALACRDSKPED 227
+RL L M N++K TA+TV+VDA+ G TG+SA+DRA T+ LA S +D
Sbjct: 64 AICDRLGLLPMYAV--NQDKHGTAYTVTVDARNGIGTGISASDRATTMRLLADPTSVADD 121
Query: 228 FNRPGHIFPLKYREGGVLKRAGHTEASVDLAVLAGLEPVAVLCEIVD--DDGSMARLPKL 285
F RPGH+ PL+ ++GGVL+R GHTEA+VDLA +AGL+P +CEIV D+GSMA +L
Sbjct: 122 FTRPGHVVPLRAKDGGVLRRPGHTEAAVDLARMAGLQPAGAICEIVSQKDEGSMAHTDEL 181
Query: 286 RQFAQTENLKIISIADLIRYRRKRD 310
R FA L +I+IADLI +RRK +
Sbjct: 182 RVFADEHGLALITIADLIEWRRKHE 206
>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 = 375 bits (964), Expect = e-131
Identities = 100/228 (43%), Positives = 134/228 (58%), Gaps = 14/228 (6%)
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 SMKGEDLERLELPLMVNHKDNEEKLCTAFTVSVDAK-YGTTTGVSANDRAKTVLALACRD 222
+ E L+LP MV H N + TA+TVSVDA+ TTTG+SA+DRA LA D
Sbjct: 68 PLTPERTTALDLPQMVTH--NADPRGTAYTVSVDAEHPSTTTGISAHDRALACRMLAAPD 125
Query: 223 SKPEDFNRPGHIFPLKYREGGVLKRAGHTEASVDLAVLAGLEPVAVLCEIVDDDG----- 277
++P F RPGH+FPL+ GGV R GHTEA V+L LAG PVAV+ EIVDD
Sbjct: 126 AQPSHFRRPGHVFPLRAVAGGVRARRGHTEAGVELCRLAGKRPVAVISEIVDDGQEVEGR 185
Query: 278 ------SMARLPKLRQFAQTENLKIISIADLIRYRRKRDRLVELAAAA 319
M R + FA+ LK+ +I D+I + K + +E +
Sbjct: 186 AVRAAPGMLRGDECVAFARRWGLKVCTIEDMIAHVEKTEGKLETNGSG 233
>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 = 345 bits (887), Expect = e-120
Identities = 62/223 (27%), Positives = 121/223 (54%), Gaps = 23/223 (10%)
Query: 110 SISEAIEDIRQGKLVIVVDDEDRENEGDLIMAASLVTPEAMAFIVRHGTGIVCVSMKGED 169
++ +AIE +++G++++V D ++RE E D+++A+ +TPE + + + G++C ++ +
Sbjct: 3 NVEKAIEALKKGEIILVYDSDEREGETDMVVASQFITPEHIRIMRKDAGGLICTALHPDI 62
Query: 170 LERLELPLMVNH----------------KDNEEKLCTAFTVSVDAKYGTTTGVSANDRAK 213
+L +P MV+ D ++F+++++ + T TG++ NDRA
Sbjct: 63 CNKLGIPFMVDILEFASQKFKVLRELYPNDIPYDEKSSFSITINHR-KTFTGITDNDRAF 121
Query: 214 TVLALA------CRDSKPEDFNRPGHIFPLKYREGGVLKRAGHTEASVDLAVLAGLEPVA 267
T+ LA + ++F PG + L+ EG V R GHTE +V LA LA L P+
Sbjct: 122 TIKKLAELVKEGRFNDFGKEFRSPGSVTLLRAAEGLVKNRQGHTEMTVALAELANLVPIT 181
Query: 268 VLCEIVDDDGSMARLPKLRQFAQTENLKIISIADLIRYRRKRD 310
+CE++ DDG+ + +++A+ NL +S ++I Y +
Sbjct: 182 TICEMMGDDGNAMSKNETKRYAEKHNLIYLSGEEIINYYLDKY 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 = 63.3 bits (153), Expect = 5e-11
Identities = 48/370 (12%), Positives = 108/370 (29%), Gaps = 116/370 (31%)
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-EDIRQGKLVIVVDDEDRE---NEGDLI 139
+ F ++ R F + I + RQ ++ + E R+ N+ +
Sbjct: 74 KQEEMVQKFVE-----EVLRINYKF--LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126
Query: 140 MAASLVTPEAMAFI------VRHGTGIVCVSMKGEDLERLELPLMVNHKDNEEKLCTAFT 193
++ + + +R ++ + G
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLG-------------------------- 160
Query: 194 VSVDAKYGTTTGVSANDRAKTVLAL-ACRDSKPEDFNRPGHIFPLKYREGGVLKRAGHTE 252
+G KT +AL C K + IF L +
Sbjct: 161 ----------SG-------KTWVALDVCLSYKVQCKM-DFKIFWLNL---------KNCN 193
Query: 253 ASVDLAVLAGLEPVAVLCEIVDDDGSMARLPKLRQFAQTENLKIISIADLIRYRRKRDRL 312
+ + LE + L +D + + + +++ + L++ + + L
Sbjct: 194 SPETV-----LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ-AELRRLLKSKPYENCL 247
Query: 313 VELAAAAPI------PTMWGPFKAHC-------YRSLLDGI-----EHIAMVKVCIHLNY 354
+ + W F C ++ + D + HI++ + L
Sbjct: 248 L-------VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300
Query: 355 Q---ALLVKF 361
+LL+K+
Sbjct: 301 DEVKSLLLKY 310
>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 = 55.2 bits (134), Expect = 3e-09
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 313 VELAAAAPIPTMWGPFKAHCYRSLLDGIEHIAMVK 347
++ A A +PT WG F + L G +H+A+V
Sbjct: 3 LKRVAEAKLPTPWGDFLMVGFEELATGHDHVALVY 37
>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 = 47.4 bits (112), Expect = 6e-06
Identities = 49/325 (15%), Positives = 85/325 (26%), Gaps = 142/325 (43%)
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--S 110
+ EI ++ + F ++ L P +KG FA S
Sbjct: 1705 KIFKEINEHSTSYTFRSEKGL-LSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHS 1763
Query: 111 ISE--A---------IED------IRQGKLVIVVDDEDRENEGDLIMAASLVTPEAMAFI 153
+ E A IE R G + V D + M A + P +A
Sbjct: 1764 LGEYAALASLADVMSIESLVEVVFYR-GMTMQVAVPRDELGRSNYGMIA--INPGRVA-- 1818
Query: 154 VRHGTGIVCVSMKGEDLERLELPLMVNHKDNEEKLC--TAFTVSVDAKYGTTTGVSANDR 211
S E L+ + E++ T + V + N
Sbjct: 1819 ---------ASFSQEALQYV-----------VERVGKRTGWLVEI-----------VN-- 1845
Query: 212 AKTVLALACRDSKPEDFNRPGHIFPLKYREGGVLKRAGHTEASVDLAVLAGLEPVAVLCE 271
+N Y V AG A + +
Sbjct: 1846 ----------------YNVENQQ----Y----VA--AGDLRA------------LDTVTN 1867
Query: 272 IVDDDGSMA-RLPKLRQFAQTENLK 295
+++ + +L++ E ++
Sbjct: 1868 VLNFIKLQKIDIIELQKSLSLEEVE 1892
Score = 30.0 bits (67), Expect = 1.6
Identities = 15/86 (17%), Positives = 25/86 (29%), Gaps = 44/86 (51%)
Query: 240 REGGVLKR----AGHT--E--ASVDLAVLAGLEPVAVLCEIVDDDGSMARLPKLRQFAQT 291
+ G++ AGH+ E A LA LA
Sbjct: 1748 KSKGLIPADATFAGHSLGEYAA---LASLAD----------------------------- 1775
Query: 292 ENLKIISIADLIRYRRKRDRLVELAA 317
++SI L+ R +++A
Sbjct: 1776 ----VMSIESLVEVVFYRGMTMQVAV 1797
>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 = 32.8 bits (75), Expect = 0.11
Identities = 17/79 (21%), Positives = 32/79 (40%), Gaps = 5/79 (6%)
Query: 244 VLKRAGHTEASVDLAVLAGLEPVAVLCEIVD-DDGSMARLPKLRQFAQTENLKIISIA-- 300
V+ S+++ G VL +D + + +++ + K+ISI
Sbjct: 126 VITAGTAIRESMEIIQAHGATLAGVLI-SLDRQERGRGEISAIQEVERDYGCKVISIITL 184
Query: 301 -DLIRYRRKRDRLVELAAA 318
DLI Y ++ + E AA
Sbjct: 185 KDLIAYLEEKPDMAEHLAA 203
>3n2l_A OPRT, oprtase, orotate phosphoribosyltransferase; pyrimidine
ribonucleotide biosynthesis, infectious diseases; 2.10A
{Vibrio cholerae}
Length = 238
Score = 32.5 bits (74), Expect = 0.15
Identities = 23/163 (14%), Positives = 47/163 (28%), Gaps = 41/163 (25%)
Query: 160 IVCVSMKGEDLERLELPLMVNHKDNEEKLCTAFTVSVDAKYGTTTGVSANDRAKTVLALA 219
++ D ++ P N K+ +G + + V+ +
Sbjct: 103 ATTTAVALADHHDVDTPYCFNRKE-------------AKNHGEGGNLVGSKLEGRVMLV- 148
Query: 220 CRDSKPEDFNRPGHIFPLKYREGGVLKRAGHTEASVDLAVLAGLEPVAVLCEIVD-DDGS 278
+D V+ S++L + VL +D +
Sbjct: 149 ------DD----------------VITAGTAIRESMELIQANKADLAGVLV-AIDRQEKG 185
Query: 279 MARLPKLRQFAQTENLKIISIA---DLIRYRRKRDRLVELAAA 318
L +++ + +ISI DLI Y ++ E A
Sbjct: 186 KGELSAIQEVERDFGCAVISIVSLTDLITYLEQQGNNTEHLEA 228
>3egc_A Putative ribose operon repressor; structural genomics, unknown
function, DNA-binding, transcri transcription
regulation, PSI-2; 2.35A {Burkholderia thailandensis}
Length = 291
Score = 31.7 bits (73), Expect = 0.31
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 = 31.5 bits (72), Expect = 0.39
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
>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 = 0.40
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
>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 = 31.4 bits (72), Expect = 0.46
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 = 31.0 bits (71), Expect = 0.55
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
>2rgy_A Transcriptional regulator, LACI family; 11011J, NYSGXRC,
transctiptional regulator, SUG binding protein,
structural genomics, PSI-2; 2.05A {Burkholderia
phymatum}
Length = 290
Score = 31.0 bits (71), Expect = 0.60
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
>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 = 0.77
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
>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 = 0.81
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
>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 = 1.1
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
>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 = 1.2
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
>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 = 1.2
Identities = 19/99 (19%), Positives = 28/99 (28%), Gaps = 18/99 (18%)
Query: 231 PGHIFPLKYREGGV---LKRAGH------TEASVDLAVLAGLEPVAVLCEIVDDDGSMAR 281
GH +PL + + AGH E G EPVA
Sbjct: 31 HGHTYPLL----PLATAARAAGHEVTFATGEGFAGTLRKLGFEPVA-----TGMPVFDGF 81
Query: 282 LPKLRQFAQTENLKIISIADLIRYRRKRDRLVELAAAAP 320
L LR T++ + ++ L + V
Sbjct: 82 LAALRIRFDTDSPEGLTPEQLSELPQIVFGRVIPQRVFD 120
>3h7m_A Sensor protein; histidine kinase sensor domain, kinase,
phosphoprotein, transferase; 2.40A {Geobacter
sulfurreducens}
Length = 234
Score = 29.1 bits (66), Expect = 1.9
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 = 28.9 bits (65), Expect = 2.8
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
>2h0a_A TTHA0807, transcriptional regulator; repressor, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; 2.80A {Thermus thermophilus}
Length = 276
Score = 28.3 bits (64), Expect = 3.7
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
>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 = 3.8
Identities = 9/38 (23%), Positives = 15/38 (39%)
Query: 81 LGAEITPKTSDFFPNDDEFDLDRPTKGFASISEAIEDI 118
LG EI+P T + FD D + + ++
Sbjct: 183 LGDEISPDTFRLRKKGEIFDKDVYRRDLGDPLKKYREV 220
>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 = 28.7 bits (65), Expect = 3.9
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
>2jsx_A Protein NAPD; TAT, proofreading, cytoplasm, chaperone; NMR
{Escherichia coli K12} PDB: 2pq4_A
Length = 95
Score = 26.6 bits (59), Expect = 4.0
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 114 AIEDIRQGKLVIVVDDEDRENEGDLIMA 141
A+ D G+L++VV+ ED E I +
Sbjct: 35 AVSDAPSGQLIVVVEAEDSETLIQTIES 62
>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 = 4.2
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 = 4.2
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
>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 = 28.1 bits (63), Expect = 5.1
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
>3li9_A Hypothetical sensory transduction histidine kinas; PDC fold,
signaling protein; HET: BTB; 1.70A {Methanosarcina
mazei} PDB: 3li8_A* 3lia_A*
Length = 291
Score = 27.7 bits (61), Expect = 7.0
Identities = 13/86 (15%), Positives = 23/86 (26%), Gaps = 6/86 (6%)
Query: 47 AALVSGEGDVISYPNNNKKY-TAIETQSDTIGFGTLGAEITPKTSDFFPNDDEFDLDRPT 105
A +VS G +S+P + D ++I D
Sbjct: 191 AFMVSNTGIFLSHPTQKNWIGEKSLSDFDVEEIKNAASDIREGIGGHVEIKDPITGKTVI 250
Query: 106 KGFASISEAIEDIRQGKLVIVVDDED 131
+ + V+VV E+
Sbjct: 251 MFYEPVKTG-----DFSFVLVVPKEE 271
>3qfk_A Uncharacterized protein; structural genomics, center for structural
genomics of infec diseases, csgid, phosphoesterase,
hydrolase; HET: MSE AKG; 2.05A {Staphylococcus aureus
subsp}
Length = 527
Score = 27.7 bits (62), Expect = 7.3
Identities = 13/56 (23%), Positives = 17/56 (30%), Gaps = 11/56 (19%)
Query: 89 TSD----FFPNDDEFDLDRPTKGFASISEAIEDIR-QGKLVIVVDDEDRENEGDLI 139
SD FP D G + IE R Q +D+ GD +
Sbjct: 25 VSDVHGYIFPTDFTSRNQYQPMGLLLANHVIEQDRRQYDQSFKIDN------GDFL 74
>2q07_A Uncharacterized protein AF0587; monomer, structural genomics,
PSI-2, protein structure initiative; 2.04A
{Archaeoglobus fulgidus dsm 4304} SCOP: b.122.1.1
c.18.1.4 d.17.6.5
Length = 306
Score = 27.5 bits (60), Expect = 7.6
Identities = 14/84 (16%), Positives = 30/84 (35%), Gaps = 7/84 (8%)
Query: 50 VSGEGDVISYPNNNKKYTAIETQSDTIGFGTLGAEITPKTSDFFPNDDEFDLDRPTKG-- 107
V+G + K+ ++ + A + + + +F++ KG
Sbjct: 189 VAGRYPELELLEGKKRLARVDRIYGMLDIYEKIAAYLLEKNIYTVEIGDFEV----KGTI 244
Query: 108 FAS-ISEAIEDIRQGKLVIVVDDE 130
FA + A E IR +V+ +
Sbjct: 245 FAGGVLRADEKIRPNDVVVFHNSR 268
>2e28_A Pyruvate kinase, PK; allosteric, transferase; 2.40A {Geobacillus
stearothermophilus}
Length = 587
Score = 27.5 bits (62), Expect = 8.0
Identities = 18/93 (19%), Positives = 39/93 (41%), Gaps = 12/93 (12%)
Query: 110 SISEAIEDIRQGKLVIVVDDEDRENEGDLIMAASLVTPEAMAFIVRHGTGIVCVSMKGED 169
+ EA + + G ++V D + + AA+++T E + H +V +S
Sbjct: 498 TAEEARQKMVDGG-ILVTVSTDADMMPAIEKAAAIITEEGG--LTSHA-AVVGLS----- 548
Query: 170 LERLELPLMVNHKDNEEKLCTAFTVSVDAKYGT 202
L +P++V ++ ++VD +G
Sbjct: 549 ---LGIPVIVGVENATTLFKDGQEITVDGGFGA 578
>3mpk_A Virulence sensor protein BVGS; venus flytrap, sensor domain,
signaling protein; 2.04A {Bordetella pertussis} PDB:
3mpl_A
Length = 267
Score = 27.3 bits (61), Expect = 8.6
Identities = 14/60 (23%), Positives = 25/60 (41%), Gaps = 8/60 (13%)
Query: 106 KGFASISEAIEDIRQGKLVIVVDDE-------DRENEGDLIMAASL-VTPEAMAFIVRHG 157
+ SEA+ + G+ VV + +R G L +A++L + P +A G
Sbjct: 164 VTADNPSEAMLMVANGQADAVVQTQISASYYVNRYFAGKLRIASALDLPPAEIALATTRG 223
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
0.320 0.136 0.399
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: 5,792,419
Number of extensions: 373493
Number of successful extensions: 1068
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1055
Number of HSP's successfully gapped: 47
Length of query: 369
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 274
Effective length of database: 4,049,298
Effective search space: 1109507652
Effective search space used: 1109507652
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.1 bits)