RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7978
(542 letters)
>3pzx_A Formate--tetrahydrofolate ligase; HET: TOE; 2.20A {Moorella
thermoacetica} PDB: 1fp7_A 1fpm_A* 3qb6_A* 3qus_A*
3rbo_A* 3sin_A* 1eg7_A
Length = 557
Score = 272 bits (698), Expect = 7e-85
Identities = 97/259 (37%), Positives = 137/259 (52%), Gaps = 18/259 (6%)
Query: 287 LNIKCRTSGKIPDAVVLVTTVRALKMHGGGPSVVSGQPLKPEY-TENTRAVLRGEDSFLL 345
++KCR +G PDA V+V TVRALKMHGG P K + TEN A+ G +
Sbjct: 314 YDVKCRYAGFKPDATVIVATVRALKMHGGVP--------KSDLATENLEALREGFANLEK 365
Query: 346 YCKLDSQYLEHPPVTMLI--YYTYTPAEWEIIRKAAKQAGAHDAVVCENWAKGGAGAADL 403
+ + ++ P + I + T T AE ++ + +AGA V +WAKGG G +L
Sbjct: 366 HIENIGKF--GVPAVVAINAFPTDTEAELNLLYELCAKAGAE---VALSWAKGGEGGLEL 420
Query: 404 ADAVIKATELKDKQFKYLYDIHDPLLTKIQTVAREMYGVHKVDCPQPVLEKLQKLERLGY 463
A V++ E + F LY++ + KI +A E+YG V+ + +Q+ E LGY
Sbjct: 421 ARKVLQTLESRPSNFHVLYNLDLSIKDKIAKIATEIYGADGVNYTAEADKAIQRYESLGY 480
Query: 464 GRLTVCMAKTALSLSGDPTIKGVVPPDYVLPIHDVYVSAGAGFVVVIAGDISKMPGLGTR 523
G L V MAKT S S D T G P ++ + + +V +SAG +V I G I MPGL R
Sbjct: 481 GNLPVVMAKTQYSFSDDMTKLG-RPRNFTITVREVRLSAGGRLIVPITGAIMTMPGLPKR 539
Query: 524 PSIYDIDIDTRTGEIEGLF 542
P+ +IDID G I GLF
Sbjct: 540 PAACNIDIDA-DGVITGLF 557
Score = 184 bits (470), Expect = 7e-52
Identities = 73/153 (47%), Positives = 93/153 (60%), Gaps = 18/153 (11%)
Query: 136 SPVPSDIDIARAQDPKDINQLAQEIGLHVSEVSSYGRSKAKISTEVLDRLKRVQDGKYII 195
S VPSDI+IA+A K + +LA+ +G+ EV YG+ KAKIS +V RLK DGK I+
Sbjct: 2 SKVPSDIEIAQAAKMKPVMELARGLGIQEDEVELYGKYKAKISLDVYRRLKDKPDGKLIL 61
Query: 196 -----------------LFLKLLLLDFGY-TFACVRQPSQGPTFGIKGGAAGGGYSQVIP 237
+ L L G C+R+PS GP+FGIKGGAAGGGY+QV+P
Sbjct: 62 VTAITPTPAGEGKTTTSVGLTDALARLGKRVMVCLREPSLGPSFGIKGGAAGGGYAQVVP 121
Query: 238 MEEFNLHLTGDIHAVTAANNLAAAQLDARMFHE 270
ME+ NLH TGDIHAVT A+NL AA +D +
Sbjct: 122 MEDINLHFTGDIHAVTYAHNLLAAMVDNHLQQG 154
>3do6_A Formate--tetrahydrofolate ligase; TM1766, putative
formyltetrahydrofolate synthetase, structural genomics;
HET: MSE; 1.85A {Thermotoga maritima}
Length = 543
Score = 268 bits (688), Expect = 2e-83
Identities = 86/258 (33%), Positives = 141/258 (54%), Gaps = 18/258 (6%)
Query: 287 LNIKCRTSGKIPDAVVLVTTVRALKMHGGGPSVVSGQPLKPEY-TENTRAVLRGEDSFLL 345
++ R G P+A VLV TVRALK HGG EN A+ G + +
Sbjct: 300 IDFVSRVGGFYPNAAVLVATVRALKYHGGAN--------LKNIHEENLEALKEGFKNLRV 351
Query: 346 YCKLDSQYLEHPPVTMLI--YYTYTPAEWEIIRKAAKQAGAHDAVVCENWAKGGAGAADL 403
+ + ++ + PV + + + T T E + K ++ G V E + KG G +L
Sbjct: 352 HVENLRKF--NLPVVVALNRFSTDTEKEIAYVVKECEKLGV-RVAVSEVFKKGSEGGVEL 408
Query: 404 ADAVIKATELKDKQFKYLYDIHDPLLTKIQTVAREMYGVHKVDCPQPVLEKLQKLERLGY 463
A AV +A + D + YLY+++DP+ KI+ +A+E+Y +V+ L+ +++ G+
Sbjct: 409 AKAVAEAAK--DVEPAYLYEMNDPVEKKIEILAKEIYRAGRVEFSDTAKNALKFIKKHGF 466
Query: 464 GRLTVCMAKTALSLSGDPTIKGVVPPDYVLPIHDVYVSAGAGFVVVIAGDISKMPGLGTR 523
L V +AKT S+S DP+++G P Y + D++VSAGAGFVV ++GDI+ MPGL +
Sbjct: 467 DELPVIVAKTPKSISHDPSLRG-APEGYTFVVSDLFVSAGAGFVVALSGDINLMPGLPKK 525
Query: 524 PSIYDIDIDTRTGEIEGL 541
P+ ++D+D +G I G+
Sbjct: 526 PNALNMDVD-DSGNIVGV 542
Score = 168 bits (429), Expect = 3e-46
Identities = 53/138 (38%), Positives = 75/138 (54%), Gaps = 18/138 (13%)
Query: 151 KDINQLAQEIGLHVSEVSSYGRSKAKISTEVLDRLKRVQDGKYII--------------- 195
K I ++A ++ L + YG AKI L L+ +DGK I+
Sbjct: 3 KPIKEIADQLELKDDILYPYGHYIAKIDHRFLKSLENHEDGKLILVTAVTPTPAGEGKTT 62
Query: 196 --LFLKLLLLDFGY-TFACVRQPSQGPTFGIKGGAAGGGYSQVIPMEEFNLHLTGDIHAV 252
+ L + L G + +R+PS GPT G+KGGA GGG S+V+P +E NLH TGD+HAV
Sbjct: 63 TSIGLSMSLNRIGKKSIVTLREPSLGPTLGLKGGATGGGRSRVLPSDEINLHFTGDMHAV 122
Query: 253 TAANNLAAAQLDARMFHE 270
+A+NL AA LD+ + H
Sbjct: 123 ASAHNLLAAVLDSHIKHG 140
>1a4i_A Methylenetetrahydrofolate dehydrogenase / methenyltetrahydrofolate
cyclohydrolase...; THF, bifunctional, oxidoreductase;
HET: NDP; 1.50A {Homo sapiens} SCOP: c.2.1.7 c.58.1.2
PDB: 1dia_A* 1dib_A* 1dig_A*
Length = 301
Score = 202 bits (516), Expect = 5e-61
Identities = 69/105 (65%), Positives = 84/105 (80%), Gaps = 1/105 (0%)
Query: 19 SKTKNIQDVVKSADILVVGIGQPEYVKGDWIKPGAVVIDCGINSVPDASKASGQKLVGDV 78
SKT ++ + V DILVV GQPE VKG+WIKPGA+VIDCGIN VPD K +G+K+VGDV
Sbjct: 197 SKTAHLDEEVNKGDILVVATGQPEMVKGEWIKPGAIVIDCGINYVPDDKKPNGRKVVGDV 256
Query: 79 QYAEAKNVASWITPVPGGVGPMTVAMLMNNTVLSAERYIDRLLKP 123
Y EAK AS+ITPVPGGVGPMTVAMLM +TV SA+R++++ KP
Sbjct: 257 AYDEAKERASFITPVPGGVGPMTVAMLMQSTVESAKRFLEK-FKP 300
>4a26_A Putative C-1-tetrahydrofolate synthase, cytoplasm; oxidoreductase,
hydrolase, leishmaniasis; 2.70A {Leishmania major}
Length = 300
Score = 195 bits (498), Expect = 2e-58
Identities = 51/99 (51%), Positives = 73/99 (73%)
Query: 17 SMSKTKNIQDVVKSADILVVGIGQPEYVKGDWIKPGAVVIDCGINSVPDASKASGQKLVG 76
S + T+++ D +++ADI++ +GQP YVKG+WIK GA V+D G VPD S+ G +LVG
Sbjct: 197 SGTSTEDMIDYLRTADIVIAAMGQPGYVKGEWIKEGAAVVDVGTTPVPDPSRKDGYRLVG 256
Query: 77 DVQYAEAKNVASWITPVPGGVGPMTVAMLMNNTVLSAER 115
DV + EA A+WI+PVPGGVGPMT+AML+ NT+ + +
Sbjct: 257 DVCFEEAAARAAWISPVPGGVGPMTIAMLLENTLEAFKA 295
>1b0a_A Protein (fold bifunctional protein); folate, dehydrogenase,
cyclcohydrolase, channeling, oxidoreductase,hydrolase;
2.56A {Escherichia coli K12} SCOP: c.2.1.7 c.58.1.2
Length = 288
Score = 175 bits (447), Expect = 4e-51
Identities = 50/100 (50%), Positives = 70/100 (70%), Gaps = 6/100 (6%)
Query: 19 SKTKNIQDVVKSADILVVGIGQPEYVKGDWIKPGAVVIDCGINSVPDASKASGQKLVGDV 78
TKN++ V++AD+L+V +G+P ++ GDWIK GA+VID GIN + + K+VGDV
Sbjct: 191 RFTKNLRHHVENADLLIVAVGKPGFIPGDWIKEGAIVIDVGINRLENG------KVVGDV 244
Query: 79 QYAEAKNVASWITPVPGGVGPMTVAMLMNNTVLSAERYID 118
+ +A AS+ITPVPGGVGPMTVA L+ NT+ + Y D
Sbjct: 245 VFEDAAKRASYITPVPGGVGPMTVATLIENTLQACVEYHD 284
>4a5o_A Bifunctional protein fold; oxidoreductase, hydrolase; 2.20A
{Pseudomonas aeruginosa PAO1}
Length = 286
Score = 175 bits (446), Expect = 5e-51
Identities = 52/98 (53%), Positives = 65/98 (66%), Gaps = 6/98 (6%)
Query: 19 SKTKNIQDVVKSADILVVGIGQPEYVKGDWIKPGAVVIDCGINSVPDASKASGQKLVGDV 78
T+++ D V AD++VV G+P VKG+WIK GA+VID GIN D +LVGDV
Sbjct: 193 RFTRDLADHVSRADLVVVAAGKPGLVKGEWIKEGAIVIDVGINRQADG------RLVGDV 246
Query: 79 QYAEAKNVASWITPVPGGVGPMTVAMLMNNTVLSAERY 116
+Y A ASWITPVPGGVGPMT A L+ NT+ +AE
Sbjct: 247 EYEVAAQRASWITPVPGGVGPMTRACLLENTLHAAEHL 284
>3p2o_A Bifunctional protein fold; structural genomics, center for
structural genomics of infec diseases, csgid,
alpha-beta-alpha sandwich; HET: NAD; 2.23A
{Campylobacter jejuni subsp}
Length = 285
Score = 174 bits (444), Expect = 1e-50
Identities = 42/100 (42%), Positives = 63/100 (63%), Gaps = 6/100 (6%)
Query: 19 SKTKNIQDVVKSADILVVGIGQPEYVKGDWIKPGAVVIDCGINSVPDASKASGQKLVGDV 78
KTK++ + AD+++V G ++ D +K G +V+D GIN + K+VGDV
Sbjct: 192 IKTKDLSLYTRQADLIIVAAGCVNLLRSDMVKEGVIVVDVGINRLESG------KIVGDV 245
Query: 79 QYAEAKNVASWITPVPGGVGPMTVAMLMNNTVLSAERYID 118
+ E +S+ITPVPGGVGPMT+AML+ NTV SA+ ++
Sbjct: 246 DFEEVSKKSSYITPVPGGVGPMTIAMLLENTVKSAKNRLN 285
>3ngx_A Bifunctional protein fold; methylenetetrahydrofolate
dehydrogenase/cyclohydrolase; 2.30A {Thermoplasma
acidophilum} PDB: 3ngl_A
Length = 276
Score = 173 bits (441), Expect = 2e-50
Identities = 42/102 (41%), Positives = 62/102 (60%), Gaps = 7/102 (6%)
Query: 19 SKTKNIQDVVKSADILVVGIGQPEYVKGDWIKPGAVVIDCGINSVPDASKASGQKLVGDV 78
SKTK+I + +S+ I+VV +G+P ++ + + PG+VVID GIN V D K+VGD
Sbjct: 182 SKTKDIGSMTRSSKIVVVAVGRPGFLNREMVTPGSVVIDVGINYVND-------KVVGDA 234
Query: 79 QYAEAKNVASWITPVPGGVGPMTVAMLMNNTVLSAERYIDRL 120
+ + ITPVPGGVGP+T ++ N V +AE + L
Sbjct: 235 NFEDLSEYVEAITPVPGGVGPITATNILENVVKAAEFQKNNL 276
>3l07_A Bifunctional protein fold; structural genomics, IDP01849,
methylenetetrahydrofolate dehydrogenase; 1.88A
{Francisella tularensis}
Length = 285
Score = 172 bits (439), Expect = 5e-50
Identities = 43/98 (43%), Positives = 59/98 (60%), Gaps = 7/98 (7%)
Query: 19 SKTKNIQDVVKSADILVVGIGQPEYVKGDWIKPGAVVIDCGINSVPDASKASGQKLVGDV 78
T +++ ADIL+V +G+P ++ D +K GAVVID GIN V K+VGDV
Sbjct: 193 RFTTDLKSHTTKADILIVAVGKPNFITADMVKEGAVVIDVGINHVDG-------KIVGDV 245
Query: 79 QYAEAKNVASWITPVPGGVGPMTVAMLMNNTVLSAERY 116
+A K+ + ITPVPGGVGPMT+ L+ NT A+
Sbjct: 246 DFAAVKDKVAAITPVPGGVGPMTITELLYNTFQCAQEL 283
>2c2x_A Methylenetetrahydrofolate dehydrogenase- methenyltetrahydrofolate
cyclohydrolase; NADP; 2.0A {Mycobacterium tuberculosis}
PDB: 2c2y_A
Length = 281
Score = 162 bits (413), Expect = 3e-46
Identities = 36/97 (37%), Positives = 55/97 (56%), Gaps = 8/97 (8%)
Query: 19 SKTKNIQDVVKSADILVVGIGQPEYVKGDWIKPGAVVIDCGINSVPDASKASGQKLVGDV 78
+ T+++ + + ADI+V +G + D ++PGA VID G++ D LVGDV
Sbjct: 192 TGTRDLPALTRQADIVVAAVGVAHLLTADMVRPGAAVIDVGVSRTDD-------GLVGDV 244
Query: 79 QYAEAKNVASWITPVPGGVGPMTVAMLMNNTVLSAER 115
+ +A ++P PGGVGP+T A L+ N V AER
Sbjct: 245 HP-DVWELAGHVSPNPGGVGPLTRAFLLTNVVELAER 280
>1edz_A 5,10-methylenetetrahydrofolate dehydrogenase; nucleotide-binding
domain, monofunctional, oxidoreductase; 2.80A
{Saccharomyces cerevisiae} SCOP: c.2.1.7 c.58.1.2 PDB:
1ee9_A*
Length = 320
Score = 115 bits (290), Expect = 8e-29
Identities = 20/103 (19%), Positives = 36/103 (34%), Gaps = 19/103 (18%)
Query: 15 NPSMSKTKNIQDVVKSADILVVGIGQPEY-VKGDWIKPGAVVIDCGINSVPDASKASGQK 73
+ ++ +D+++ G+ Y ++IK GAV I+
Sbjct: 230 DLGEYSEDLLKKCSLDSDVVITGVPSENYKFPTEYIKEGAVCINFACTKNFS-------- 281
Query: 74 LVGDVQYAEAKNVASWITPVPGGVGPMTVAMLMNNTVLSAERY 116
+ K AS P+ G V T+AML+ N +
Sbjct: 282 -------DDVKEKASLYVPMTGKV---TIAMLLRNMLRLVRNV 314
>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 = 59.9 bits (144), Expect = 1e-09
Identities = 65/525 (12%), Positives = 150/525 (28%), Gaps = 165/525 (31%)
Query: 32 DILVVGIGQPEYVKGDWIKPGAVVIDCGINSVPDA-----SKASGQKLVGDVQYAEAKNV 86
DIL V + +V + DC V D SK ++
Sbjct: 20 DILSVF--EDAFVD-N--------FDC--KDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66
Query: 87 ASWITPVPGGVGPMTVAMLMNNTVLSAERYIDRLLKPSWNLHTLPLNLQSPVPSDIDIAR 146
W L++ +++++ +L+ ++ P+ + PS +
Sbjct: 67 LFWT--------------LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY 112
Query: 147 AQDPKDINQLAQEIGLHVSEVSSYGRSKAKISTEVLDRLKRVQDGKYIILF--------- 197
+ ++L + + Y S+ + ++ L ++ K +++
Sbjct: 113 IEQ---RDRLYND----NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW 165
Query: 198 LKL-LLLDFGYTFACVRQPSQGPTFGIKGGAAGGGYSQVIPMEEFNLHLTGDI-----HA 251
+ L + L + V+ F + + + +++ + + H+
Sbjct: 166 VALDVCLSYK-----VQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220
Query: 252 VTAANNLAAAQLDARMFHEATQTDQQLYSR--LV------PTIL---NIKCRTSGKIPDA 300
+ + Q + R + + Y LV N+ C+
Sbjct: 221 SNIKLRIHSIQAELRRLLK-----SKPYENCLLVLLNVQNAKAWNAFNLSCKI------- 268
Query: 301 VVLVTTVR----ALKMHGGGPSVVSGQPLKPEYTE-NTRAVLRGEDSFLLYCKLDSQYLE 355
L+TT R + + +S T +++L +YL+
Sbjct: 269 --LLTT-RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL-------------LKYLD 312
Query: 356 HPPVTMLIYYTYTPAEWEIIRKAAKQAGAHDAVVCENWAKGGAGAADLADAVIKATELKD 415
P L P E ++I A ++D
Sbjct: 313 CRP-QDL------PRE----------------------VLTT---NPRRLSII-AESIRD 339
Query: 416 -----KQFKYLYDIHDPLLTKIQT--------VAREMY---GV--HKVDCPQPVLEKL-Q 456
+K++ D L T I++ R+M+ V P +L +
Sbjct: 340 GLATWDNWKHVN--CDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWF 397
Query: 457 KLERLGYGRLTVCMAKTALSLSGDPTIKGVVPPDYVLPIHDVYVS 501
+ + + + K +L + P + + I +Y+
Sbjct: 398 DVIKSDVMVVVNKLHKYSL-VEKQ-------PKESTISIPSIYLE 434
Score = 38.7 bits (89), Expect = 0.005
Identities = 45/315 (14%), Positives = 88/315 (27%), Gaps = 110/315 (34%)
Query: 56 IDCGI------NSVPDASKASGQKLVGDVQY------AEAKNV-ASWITPVPG------- 95
+ C I V D A+ + + E K++ ++ P
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323
Query: 96 GVGPMTVAM---LMNNTVLSAERY----IDRL----------LKPS------WNLHTLPL 132
P +++ + + + + + + D+L L+P+ L P
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP 383
Query: 133 NLQSPVPSDI--------------DIAR--------AQDPKD----INQLAQEI------ 160
+ + +P+ + + + PK+ I + E+
Sbjct: 384 S--AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLEN 441
Query: 161 --GLHVSEVSSYGRSKAKISTEVLDRLKRVQDGKYIILFLKLLLLDFGYTFACVRQPSQG 218
LH S V Y K S D + D Y + G+ + P +
Sbjct: 442 EYALHRSIVDHYNIPKTFDSD---DLIPPYLDQ-YFYSHI-------GHHLKNIEHPERM 490
Query: 219 PTFGIKGGAAGGGYSQVIPMEEFNLH-LTGDIHAVTAANNLAAAQL----DARMFHEATQ 273
F M + L I + A N + + L + +
Sbjct: 491 TLF---------------RMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYIC 535
Query: 274 TDQQLYSRLVPTILN 288
+ Y RLV IL+
Sbjct: 536 DNDPKYERLVNAILD 550
>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 = 59.3 bits (143), Expect = 2e-09
Identities = 75/488 (15%), Positives = 138/488 (28%), Gaps = 158/488 (32%)
Query: 126 NLHTL-PLNLQS-------PVPSDIDIARAQ--D------PKDINQLAQEIGLHVSEVSS 169
+ ++ PL L VP+ +Q + P+ A + E ++
Sbjct: 2 DAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAAD-----DEPTT 56
Query: 170 YGRSKAKISTEVLDRLKRVQDGKYIILFLKLLLLDFGYTFACVRQPSQGPTFGIKGGAAG 229
K V ++ + G++ + L L L +F +
Sbjct: 57 PAELVGKFLGYVSSLVEPSKVGQFDQV-LNLCLTEFENCY-------------------- 95
Query: 230 GGYSQVIPMEEFNLHLTG-DIHAVTAA------NNLAAAQLDARMFHEATQTDQQLYSRL 282
L G DIHA+ A L + + + A ++ + +
Sbjct: 96 ---------------LEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKK 140
Query: 283 VPTILNIKCRTSGKIPDAVVLVTTVRALKMHGG-GPSVV----------SGQPLKPEYTE 331
+ L + G + GG G + + L + +
Sbjct: 141 SNSAL-FRAVGEGNAQLVAIF----------GGQGNTDDYFEELRDLYQTYHVLVGDLIK 189
Query: 332 NTRAVLRG-----EDSFLLYCK-LD-SQYLEHPPVTMLIYY-TYTPAEWEIIRKAAKQAG 383
+ L D+ ++ + L+ ++LE+P T Y P +I Q
Sbjct: 190 FSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLI--GVIQL- 246
Query: 384 AHDAVVCE----------NWAKGGAG-AADLADAVIKATELKDKQF-----KYLYDIHDP 427
AH V + ++ KG G + L AV A + F K +
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAI-----T 301
Query: 428 LLTKIQTVAREMYGVHKVDCPQPVLE--KLQKLERLGYGRLTVCMAKTALSLSG------ 479
+L I E Y P L L+ G + M LS+S
Sbjct: 302 VLFFIGVRCYEAY-------PNTSLPPSILEDSLENNEGVPS-PM----LSISNLTQEQV 349
Query: 480 DPTIKGV---VPPDYVLPI-----HDVYVSAG-----AGFVVVI------AG-DISKMPG 519
+ +P + I V +G G + + +G D S++P
Sbjct: 350 QDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPF 409
Query: 520 LGTRPSIY 527
+
Sbjct: 410 SERKLKFS 417
Score = 50.0 bits (119), Expect = 2e-06
Identities = 49/295 (16%), Positives = 82/295 (27%), Gaps = 106/295 (35%)
Query: 256 NNLAAAQLDARMFHEATQTDQQLYSRLVPTILNIKCRTSGKIPDAVVLVTTVRALKMHGG 315
AAQ +++ A D +IL+I + L +H G
Sbjct: 1637 KTSKAAQ---DVWNRA---DNHFKDTYGFSILDI-VINNPV------------NLTIHFG 1677
Query: 316 GPSVVSGQPLKPEYTENTR-----AVLRGEDSFLLYCKLDSQY-LEHPPVTMLIYYT-YT 368
G G+ ++ Y+ L+ E F + + Y L+ T +T
Sbjct: 1678 GEK---GKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKG--LLSATQFT 1732
Query: 369 -PA-------EWEIIRKA------AKQAGAH-----DAVVCENWAKGGAGAADLADAVIK 409
PA +E ++ A AG H A+ A + V
Sbjct: 1733 QPALTLMEKAAFEDLKSKGLIPADATFAG-HSLGEYAALASL------ADVMSIESLV-- 1783
Query: 410 ATELKDKQFKYLYDIHDPLLTK----IQT-VAREMYGVHKVDCPQPVLEKLQKLERLGYG 464
++ +Q V R+ G R YG
Sbjct: 1784 -----------------EVVFYRGMTMQVAVPRDELG------------------RSNYG 1808
Query: 465 RLTVCMAKTALSLSGDPTIKGVVPPDYVLPIHDVYVSA----GAGFVVVIAGDIS 515
+ + + A S S + ++ VV + V V V AGD+
Sbjct: 1809 MIAINPGRVAASFSQE-ALQYVV--ERVGKRTGWLVEIVNYNVENQQYVAAGDLR 1860
>3d4o_A Dipicolinate synthase subunit A; NP_243269.1, structural GEN joint
center for structural genomics, JCSG, protein structu
initiative, PSI-2; HET: MSE TAR; 2.10A {Bacillus
halodurans}
Length = 293
Score = 49.2 bits (117), Expect = 2e-06
Identities = 15/96 (15%), Positives = 28/96 (29%), Gaps = 16/96 (16%)
Query: 21 TKNIQDVVKSADILVVGIGQPEYVKG----DWIKPGAVVIDCGINSVPDASKASGQKLVG 76
++ D+ + I P V + VID AS
Sbjct: 204 ISKAAQELRDVDVCINTI--PALVVTANVLAEMPSHTFVIDL----------ASKPGGTD 251
Query: 77 DVQYAEAKNVASWITPVPGGVGPMTVAMLMNNTVLS 112
+ A + +PG V P T ++ + ++
Sbjct: 252 FRYAEKRGIKALLVPGLPGIVAPKTAGRILADVLVK 287
>2rir_A Dipicolinate synthase, A chain; structural genomics, APC1343,
PSI-2, structure initiative; HET: MSE NAP; 2.79A
{Bacillus subtilis}
Length = 300
Score = 37.8 bits (88), Expect = 0.007
Identities = 19/104 (18%), Positives = 39/104 (37%), Gaps = 19/104 (18%)
Query: 21 TKNIQDVVKSADILVVGIGQPEYVKGDWI---KPGAVVIDCGINSVPDASKASGQKLVGD 77
T +++ VK D + + + + P +++D AS D
Sbjct: 206 TDELKEHVKDID-ICINTIPSMILNQTVLSSMTPKTLILDL----------ASRPGGT-D 253
Query: 78 VQYAEAKNV-ASWITPVPGGVGPMTVAMLMNNTVLSAERYIDRL 120
+YAE + + A +PG V P T ++ N + + + +
Sbjct: 254 FKYAEKQGIKALLAPGLPGIVAPKTAGQILANVLS---KLLAEI 294
>2eo2_A Adult MALE hypothalamus cDNA, riken FULL-length enriched library,
clone:A230045M11...; FTHFSDC1, structural genomics,
NPPSFA; NMR {Mus musculus}
Length = 71
Score = 33.5 bits (77), Expect = 0.014
Identities = 10/16 (62%), Positives = 14/16 (87%)
Query: 271 ATQTDQQLYSRLVPTI 286
+TQTD+ LY+RLVP +
Sbjct: 8 STQTDKALYNRLVPLV 23
>1x57_A Endothelial differentiation-related factor 1; HMBF1alpha,
helix-turn-helix, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: a.35.1.12
Length = 91
Score = 30.5 bits (69), Expect = 0.27
Identities = 16/68 (23%), Positives = 28/68 (41%), Gaps = 7/68 (10%)
Query: 155 QLAQEIGLHVSEVSSYGRSKAKISTEVLDRLKRVQDGKYIILFLKLLLLDFGYTFACVRQ 214
LA +I ++ Y +A + +VL +++R + LKL D G +
Sbjct: 31 DLATKINEKPQVIADYESGRAIPNNQVLGKIERA-------IGLKLRGKDIGKPIEKGPR 83
Query: 215 PSQGPTFG 222
GP+ G
Sbjct: 84 AKSGPSSG 91
>3mlf_A Transcriptional regulator; structural genomics, helix-turn-helix
XRE-family like protei transcription regulator, PSI-2;
2.60A {Staphylococcus aureus subsp}
Length = 111
Score = 29.7 bits (66), Expect = 0.79
Identities = 13/73 (17%), Positives = 24/73 (32%)
Query: 126 NLHTLPLNLQSPVPSDIDIARAQDPKDINQLAQEIGLHVSEVSSYGRSKAKISTEVLDRL 185
+L T L QS + R +L + + + + I +L +
Sbjct: 12 DLGTENLYFQSNAMKTLKELRTDYGLTQKELGDLFKVSSRTIQNMEKDSTNIKDSLLSKY 71
Query: 186 KRVQDGKYIILFL 198
+ KY +FL
Sbjct: 72 MSAFNVKYDDIFL 84
>2gf2_A Hibadh, 3-hydroxyisobutyrate dehydrogenase; structural genomics,
structural genomics consortium, SGC, oxidoreductase;
2.38A {Homo sapiens} PDB: 2i9p_A*
Length = 296
Score = 31.1 bits (71), Expect = 0.93
Identities = 18/86 (20%), Positives = 29/86 (33%), Gaps = 17/86 (19%)
Query: 22 KNIQDVVKSADILVVGIGQPEYVKG---------DWIKPGAVVIDCGINSVPDASKASGQ 72
+ DV + AD ++ + +K G+++ID P SK +
Sbjct: 48 SSPADVAEKADRIITMLPTSINAIEAYSGANGILKKVKKGSLLIDSSTID-PAVSKELAK 106
Query: 73 KLVGDVQYAEAKNVASWITPVPGGVG 98
+ E PV GGVG
Sbjct: 107 E-------VEKMGAVFMDAPVSGGVG 125
>2h78_A Hibadh, 3-hydroxyisobutyrate dehydrogenase; APC6014, pseudomonas
aeruginosa PA01, PSI-2, structural genomics; HET: PG4;
2.20A {Pseudomonas aeruginosa} PDB: 3cum_A 3obb_A*
3q3c_A*
Length = 302
Score = 31.1 bits (71), Expect = 0.93
Identities = 18/86 (20%), Positives = 38/86 (44%), Gaps = 17/86 (19%)
Query: 22 KNIQDVVKSADILVVGIGQPEYVKG---------DWIKPGAVVIDCGINSVPDASKASGQ 72
++ +D V+ AD+++ + ++V+G I PG +V++C + P +++
Sbjct: 51 RSARDAVQGADVVISMLPASQHVEGLYLDDDGLLAHIAPGTLVLECSTIA-PTSARKIHA 109
Query: 73 KLVGDVQYAEAKNVASWITPVPGGVG 98
A + +A PV GG
Sbjct: 110 A-------ARERGLAMLDAPVSGGTA 128
>3kxa_A NGO0477 protein, putative uncharacterized protein; NEW protein
fold, OPPF, STRU genomics, oxford protein production
facility; 2.80A {Neisseria gonorrhoeae}
Length = 141
Score = 29.5 bits (66), Expect = 1.3
Identities = 8/31 (25%), Positives = 14/31 (45%)
Query: 155 QLAQEIGLHVSEVSSYGRSKAKISTEVLDRL 185
+LA GL +S SK + + + +L
Sbjct: 86 ELATAAGLPQPYLSRIENSKQSLQDKTVQKL 116
>2opi_A L-fuculose-1-phosphate aldolase; L-fuculose-1-phosphate aldolas
structural genomics, PSI-2, protein structure
initiative; 2.50A {Bacteroides thetaiotaomicron}
Length = 212
Score = 29.9 bits (68), Expect = 1.4
Identities = 10/52 (19%), Positives = 17/52 (32%), Gaps = 11/52 (21%)
Query: 367 YTPAEWEIIRKAAKQAGAHDAVVCEN-----WAKGGAGAADLADAVIKATEL 413
Y P E+ + + H++V+ N K D +AT
Sbjct: 132 YRPGSPELAKAVVEAMLKHNSVLLTNHGQVVCGK------DFDQVYERATFF 177
>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 = 29.5 bits (65), Expect = 1.6
Identities = 9/34 (26%), Positives = 17/34 (50%), Gaps = 6/34 (17%)
Query: 453 EK--LQKLERLGYGRLTVCMAKTALSLSGDPTIK 484
EK L+KL+ L + +A +L+ T++
Sbjct: 18 EKQALKKLQ----ASLKLYADDSAPALAIKATME 47
Score = 29.5 bits (65), Expect = 1.7
Identities = 10/41 (24%), Positives = 12/41 (29%), Gaps = 18/41 (43%)
Query: 185 LKRVQDGKYIILFLKLLLLDFGYTFACVRQPSQGPTFGIKG 225
LK++Q LKL Y P IK
Sbjct: 22 LKKLQAS------LKL------YA------DDSAPALAIKA 44
>3cky_A 2-hydroxymethyl glutarate dehydrogenase; rossmann fold, two domain
enzyme, oxidoreductase; 2.30A {Eubacterium barkeri}
Length = 301
Score = 29.8 bits (68), Expect = 2.2
Identities = 18/85 (21%), Positives = 29/85 (34%), Gaps = 17/85 (20%)
Query: 23 NIQDVVKSADILVVGIGQPEYVKG---------DWIKPGAVVIDCGINSVPDASKASGQK 73
N Q V ++DI+ + V+ K G V++D S P ++ +
Sbjct: 53 NNQKVAAASDIIFTSLPNAGIVETVMNGPGGVLSACKAGTVIVDMSSVS-PSSTLKMAKV 111
Query: 74 LVGDVQYAEAKNVASWITPVPGGVG 98
A K + PV GG
Sbjct: 112 -------AAEKGIDYVDAPVSGGTK 129
>3trb_A Virulence-associated protein I; mobIle and extrachromosomal element
functions, DNA binding P; 2.00A {Coxiella burnetii}
Length = 104
Score = 28.1 bits (63), Expect = 2.3
Identities = 6/42 (14%), Positives = 17/42 (40%), Gaps = 2/42 (4%)
Query: 149 DPKDINQ--LAQEIGLHVSEVSSYGRSKAKISTEVLDRLKRV 188
++ LA+ + + + V++ I+ + RL +
Sbjct: 24 FLDKMSANQLAKHLAIPTNRVTAILNGARSITADTALRLAKF 65
>1x7d_A Ornithine cyclodeaminase; binds NAD+, binds L-ornithine, binds
L-proline, 2 bundle, beta barrel, rossmann fold, lyase;
HET: NAD ORN MES; 1.60A {Pseudomonas putida} SCOP:
c.2.1.13 PDB: 1u7h_A*
Length = 350
Score = 30.0 bits (68), Expect = 2.3
Identities = 7/40 (17%), Positives = 15/40 (37%), Gaps = 5/40 (12%)
Query: 21 TKNIQDVVKSADILV----VGIGQPEYVKGDWIKPGAVVI 56
++ + VK DI+ + D ++PG +
Sbjct: 185 ASSVAEAVKGVDIITTVTADKAYAT-IITPDMLEPGMHLN 223
>1y7y_A C.AHDI; helix-turn-helix, DNA-binding protein, transcriptional
regulator, transcription regulator; 1.69A {Aeromonas
hydrophila} SCOP: a.35.1.3
Length = 74
Score = 27.2 bits (61), Expect = 2.5
Identities = 9/31 (29%), Positives = 13/31 (41%)
Query: 155 QLAQEIGLHVSEVSSYGRSKAKISTEVLDRL 185
LA GL S V R + +S + +L
Sbjct: 31 TLAFLSGLDRSYVGGVERGQRNVSLVNILKL 61
>1omo_A Alanine dehydrogenase; two-domain, beta-sandwich-dimer,
rossmann-fold NAD domain, human MU crystallin homolog;
HET: NAD; 2.32A {Archaeoglobus fulgidus} SCOP: c.2.1.13
PDB: 1vll_A
Length = 322
Score = 29.5 bits (67), Expect = 2.6
Identities = 7/37 (18%), Positives = 15/37 (40%), Gaps = 1/37 (2%)
Query: 21 TKNIQDVVKSADILVVGIGQPE-YVKGDWIKPGAVVI 56
+ + D+LV + VK +W++ G +
Sbjct: 178 SVQPAEEASRCDVLVTTTPSRKPVVKAEWVEEGTHIN 214
>2eby_A Putative HTH-type transcriptional regulator YBAQ; hypothetical
protein, JW0472, structural genomics, NPPSFA; 2.25A
{Escherichia coli}
Length = 113
Score = 27.8 bits (62), Expect = 3.6
Identities = 13/42 (30%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 149 DPKDINQ--LAQEIGLHVSEVSSYGRSKAKISTEVLDRLKRV 188
+P D+ LA+ + +H + VS+ + K++TE+ RL +V
Sbjct: 21 EPLDLKINELAELLHVHRNSVSALINNNRKLTTEMAFRLAKV 62
>3qsg_A NAD-binding phosphogluconate dehydrogenase-like P; structural
genomics, PSI-biology, midwest center for structu
genomics; 1.90A {Alicyclobacillus acidocaldarius subsp}
Length = 312
Score = 29.0 bits (65), Expect = 3.7
Identities = 12/81 (14%), Positives = 21/81 (25%), Gaps = 15/81 (18%)
Query: 25 QDVVKSADILV--VGIGQ-PEYVKG--DWIKPGAVVIDCGINSV-PDASKASGQKLVGDV 78
+V D++ V E + + GA+ D S P +A G
Sbjct: 78 AEVAGECDVIFSLVTAQAALEVAQQAGPHLCEGALYADF--TSCSPAVKRAIGDV----- 130
Query: 79 QYAEAKNVASWITPVPGGVGP 99
++ V
Sbjct: 131 --ISRHRPSAQYAAVAVMSAV 149
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 28.4 bits (63), Expect = 4.5
Identities = 5/48 (10%), Positives = 14/48 (29%)
Query: 303 LVTTVRALKMHGGGPSVVSGQPLKPEYTENTRAVLRGEDSFLLYCKLD 350
++ ++ GP +V + L+ + + L
Sbjct: 65 MLDALQYASREAAGPLIVPVSISDTARHRRLMSGLKDRGLSVHHFTLI 112
>2cvz_A Dehydrogenase, 3-hydroxyisobutyrate dehydrogenase; valine
catabolism, NADP+, structural GEN riken structural
genomics/proteomics initiative; HET: NDP; 1.80A {Thermus
thermophilus} SCOP: a.100.1.1 c.2.1.6 PDB: 1wp4_A*
Length = 289
Score = 28.7 bits (65), Expect = 4.5
Identities = 14/79 (17%), Positives = 26/79 (32%), Gaps = 14/79 (17%)
Query: 26 DVVKSADILVVGIGQPEYVKG------DWIKPGAVVIDCGINSVPDASKASGQKLVGDVQ 79
+ V A ++ + V +++ G +D P+AS+ ++
Sbjct: 51 ERVAEARVIFTCLPTTREVYEVAEALYPYLREGTYWVDATSGE-PEASRRLAER------ 103
Query: 80 YAEAKNVASWITPVPGGVG 98
K V PV GG
Sbjct: 104 -LREKGVTYLDAPVSGGTS 121
>1vpd_A Tartronate semialdehyde reductase; structural genomics, MCSG,
protein structure initiative, PSI, midwest center for
structural genomics; HET: MSE TLA; 1.65A {Salmonella
typhimurium} SCOP: a.100.1.1 c.2.1.6
Length = 299
Score = 28.3 bits (64), Expect = 5.9
Identities = 19/85 (22%), Positives = 32/85 (37%), Gaps = 17/85 (20%)
Query: 23 NIQDVVKSADILVVGIGQPEYVKG---------DWIKPGAVVIDCGINSVPDASKASGQK 73
+ + + D+++ + +VK + KPG V+ID + P AS+
Sbjct: 54 TAKAIAEQCDVIITMLPNSPHVKEVALGENGIIEGAKPGTVLIDMSSIA-PLASREISDA 112
Query: 74 LVGDVQYAEAKNVASWITPVPGGVG 98
+AK V PV GG
Sbjct: 113 -------LKAKGVEMLDAPVSGGEP 130
>2eez_A Alanine dehydrogenase; TTHA0216, structural genomic NPPSFA,
national project on protein structural and function
analyses; 2.71A {Thermus thermophilus}
Length = 369
Score = 28.6 bits (65), Expect = 6.4
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 8/51 (15%)
Query: 15 NPSMSKTKNIQDVVKSADI-----LVVGIGQPEYVKGDWI---KPGAVVID 57
+ NI+ V+ AD+ LV G P+ V D + K GAV++D
Sbjct: 214 ITLTATEANIKKSVQHADLLIGAVLVPGAKAPKLVTRDMLSLMKEGAVIVD 264
>1pjc_A Protein (L-alanine dehydrogenase); oxidoreductase, NAD; HET: NAD;
2.00A {Phormidium lapideum} SCOP: c.2.1.4 c.23.12.2 PDB:
1pjb_A* 1say_A
Length = 361
Score = 28.2 bits (64), Expect = 6.6
Identities = 13/51 (25%), Positives = 21/51 (41%), Gaps = 8/51 (15%)
Query: 15 NPSMSKTKNIQDVVKSADI-----LVVGIGQPEYVKGDWI---KPGAVVID 57
S + I+ V AD+ LV G P V + + G+V++D
Sbjct: 215 ELLYSNSAEIETAVAEADLLIGAVLVPGRRAPILVPASLVEQMRTGSVIVD 265
>4ezb_A Uncharacterized conserved protein; structural genomics, protein
structure initiative, NEW YORK structural genomix
research consortium; 2.10A {Sinorhizobium meliloti}
Length = 317
Score = 28.4 bits (63), Expect = 6.7
Identities = 22/102 (21%), Positives = 31/102 (30%), Gaps = 17/102 (16%)
Query: 26 DVVKSADI---LVVGIGQPEYVKG--DWIKPGAVVIDCGINSV-PDASKASGQKLVG-DV 78
+ AD+ LVVG + AV ID NSV PD + +
Sbjct: 83 AGIACADVVLSLVVGAATKAVAASAAPHLSDEAVFIDL--NSVGPDTKALAAGAIATGKG 140
Query: 79 QYAEAKNVASWITPVPGGVGPMTVAMLMNNTVLSAERYIDRL 120
+ E V V P + + A +RL
Sbjct: 141 SFVEG--------AVMARVPPYAEKVPILVAGRRAVEVAERL 174
>2v5m_A Dscam; neurobiology SPL immunoglobulin domain, cell adhesion,
membrane, development protein; HET: NAG; 1.95A
{Drosophila melanogaster} PDB: 2v5s_A* 2v5r_A*
Length = 388
Score = 28.4 bits (63), Expect = 7.0
Identities = 10/41 (24%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 469 CMAKTAL--SLSGDPTIKGVVPPDYVLPIHDVYVSAGAGFV 507
C+A+ +S D ++ VV Y ++ +V G V
Sbjct: 82 CLARNQFGSIISRDVHVRAVVAQYYEADVNKEHVIRGNSAV 122
>2vhw_A Alanine dehydrogenase; NAD, secreted, oxidoreductase; HET: NAI;
2.0A {Mycobacterium tuberculosis} PDB: 2vhx_A* 2vhy_A
2vhz_A* 2vhv_A* 2voe_A 2voj_A*
Length = 377
Score = 28.2 bits (64), Expect = 7.6
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 8/51 (15%)
Query: 15 NPSMSKTKNIQDVVKSADI-----LVVGIGQPEYVKGDWI---KPGAVVID 57
+ S ++ VK AD+ LV G P+ V + KPGAV++D
Sbjct: 216 HTRYSSAYELEGAVKRADLVIGAVLVPGAKAPKLVSNSLVAHMKPGAVLVD 266
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 0.406
Gapped
Lambda K H
0.267 0.0589 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,569,038
Number of extensions: 543827
Number of successful extensions: 1546
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1505
Number of HSP's successfully gapped: 63
Length of query: 542
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 444
Effective length of database: 3,965,535
Effective search space: 1760697540
Effective search space used: 1760697540
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 (27.2 bits)