RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 020428
(326 letters)
>1vhn_A Putative flavin oxidoreducatase; structural genomics, unknown
function; HET: FMN; 1.59A {Thermotoga maritima} SCOP:
c.1.4.1
Length = 318
Score = 164 bits (418), Expect = 8e-49
Identities = 63/239 (26%), Positives = 102/239 (42%), Gaps = 19/239 (7%)
Query: 5 NKLVLAPMVRVGTLPFRLLAAQYGADITYGEEIIDHKLLKCERRVNEYIGSTDFVEKGTD 64
K+ LAPM FR LA ++GAD + E + L ++ E +
Sbjct: 5 VKVGLAPMAGYTDSAFRTLAFEWGADFAFSEMVSAKGFLMNSQKTEELL----------- 53
Query: 65 SVVFRTCHQERNHVVFQMGTSDAVRALTAAKMVCKDVAAIDINMGCPKSFSVSGGMGAAL 124
ERN V Q+ S+ AA+++ + ID+N GCP V G G AL
Sbjct: 54 -----PQPHERNVAV-QIFGSEPNELSEAARILSEKYKWIDLNAGCPVRKVVKEGAGGAL 107
Query: 125 LSKPELIHDILTMLKRNLDVPVTCKIRLLKSSQDTVELARRIEKTGVSALAVHGRKVADR 184
L I+ L++++ + K RL + E+ R + + GV + +H R V
Sbjct: 108 LKDLRHFRYIVRELRKSVSGKFSVKTRLGWEKNEVEEIYRILVEEGVDEVFIHTRTVVQS 167
Query: 185 PRDPAKWGEIADIVAALSIPVIANGDVFEYDDFQRIKTAAGASSVMAARGALWNASIFS 243
A+W ++ + IP +GD+F +D +R +G ++ ARGA+ IF
Sbjct: 168 FTGRAEWKALSVLEK--RIPTFVSGDIFTPEDAKRALEESGCDGLLVARGAIGRPWIFK 224
>3b0p_A TRNA-dihydrouridine synthase; TIM barrel, oxidoreductase; HET: FMN;
1.70A {Thermus thermophilus} PDB: 3b0u_X* 3b0v_C*
Length = 350
Score = 63.8 bits (156), Expect = 1e-11
Identities = 32/112 (28%), Positives = 50/112 (44%), Gaps = 11/112 (9%)
Query: 78 VVFQMGTSDAVRALTAAKMVCK---DVAAIDINMGCPKSFSV-SGGMGAALLSKPELIHD 133
+ Q+ SD AA++ D I++N+GCP S GG GA LL + +
Sbjct: 60 IALQLAGSDPKSLAEAARIGEAFGYD--EINLNLGCP-SEKAQEGGYGACLLLDLARVRE 116
Query: 134 ILTMLKRNLDVPVTCKIRL----LKSSQDTVELARRIEKTGVSALAVHGRKV 181
IL + + VPVT K+RL ++ + + + + GV VH R
Sbjct: 117 ILKAMGEAVRVPVTVKMRLGLEGKETYRGLAQSVEAMAEAGVKVFVVHARSA 168
>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 = 52.7 bits (126), Expect = 1e-07
Identities = 57/350 (16%), Positives = 106/350 (30%), Gaps = 124/350 (35%)
Query: 23 LAAQYGADITYGEEIIDHKLLKCERRVNEYIGSTDFVEKGTDSVVFRTCHQERNHV--VF 80
LAA+ + + +L+K +K ++S +FR + + +F
Sbjct: 104 LAAKLLQEND-TTLVKTKELIKNYITARIMAKRP--FDKKSNSALFRAVGEGNAQLVAIF 160
Query: 81 --QMGTSDA---------------VRAL--TAAKMVCKDVA-AIDINMGCPKSFSVSGGM 120
Q G +D V L +A+ + + + +D + ++
Sbjct: 161 GGQ-GNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI---- 215
Query: 121 GAALLSKPELIHDILTMLKRNLDVPVTCKIRLLKSSQDTVELARRIEKTGVSALA----- 175
L P D +L +P++C + I GV LA
Sbjct: 216 -LEWLENPSNTPDKDYLLS----IPISCPL---------------I---GVIQLAHYVVT 252
Query: 176 --VHGRKVAD-RPRDPAKWGEIADIVAALSIPVIANGDVFEYDDFQRIKTAA-------G 225
+ G + R G +V A+ IA D ++ F A G
Sbjct: 253 AKLLGFTPGELRSYLKGATGHSQGLVTAV---AIAETD--SWESFFVSVRKAITVLFFIG 307
Query: 226 ASSVMAA-RGALWNA----SIFSSQGK----LHWEDVKREYVRKSIFWENNVKSTKHTLK 276
A +L + S+ +++G L ++ +E V+ + N H
Sbjct: 308 VRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTN-----SH--- 359
Query: 277 EMIMHYSSLELPEGKAIIKSETLADIAKLYEEEKYYQFVNENRFLVNGSR 326
LP GK + +I+ LVNG++
Sbjct: 360 ----------LPAGKQV-------EIS-----------------LVNGAK 375
Score = 42.0 bits (98), Expect = 3e-04
Identities = 47/310 (15%), Positives = 90/310 (29%), Gaps = 107/310 (34%)
Query: 2 DYQNKLVLAPMVRVGTLPFRLL--AAQYGA-----DITYGEEIIDHK--LLKCERRVNEY 52
DY L+ P+ + P + A Y T GE + + + +
Sbjct: 229 DY---LLSIPI----SCPLIGVIQLAHYVVTAKLLGFTPGE-LRSYLKGATGHSQGL--- 277
Query: 53 IGSTDFVEKGTDSVVFRTCHQERNHVVFQMGTSDAVRALTA-------AKMVCKDVAAID 105
+ + + + F ++ V+F +G VR A ++ +D +++
Sbjct: 278 VTAV-AIAETDSWESFFVSVRKAITVLFFIG----VRCYEAYPNTSLPPSIL-ED--SLE 329
Query: 106 INMGCPKS-FSVSGGMGAALLSKPELIHDILTMLKRNLDVP-----------------VT 147
N G P S+S L++ ++ + K N +P V+
Sbjct: 330 NNEGVPSPMLSISN------LTQEQVQDYVN---KTNSHLPAGKQVEISLVNGAKNLVVS 380
Query: 148 ----------CKIRLLKSS----QDTVELARRIEKTGVSALAV----H--------GRKV 181
+R K+ Q + + R K L V H
Sbjct: 381 GPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLIN 440
Query: 182 ADRPRDPAKWGEIADIVAALSIPVIANGDVFEYDDFQRIKTAAGASSVMAARGALWNASI 241
D ++ + + IPV D F+ D + + + V I
Sbjct: 441 KDLVKNNVSFN-----AKDIQIPVY---DTFDGSDLRVLSGSISERIVDC---------I 483
Query: 242 FSSQGKLHWE 251
+ WE
Sbjct: 484 IRLP--VKWE 491
Score = 33.9 bits (77), Expect = 0.092
Identities = 33/186 (17%), Positives = 58/186 (31%), Gaps = 79/186 (42%)
Query: 131 IHDILTMLKRNLDVPVTCKIRLLKSSQDTVELARRIEKTGVSALAVHGRKVADRPRDPAK 190
IH + L + D + L+K+ + R +A RP D
Sbjct: 101 IHALAAKLLQENDTTLVKTKELIKN-------------------YITARIMAKRPFDKKS 141
Query: 191 WGEIADIVAALSIPVIANGDVFEYDDFQRIKTAAGASSVMAARGALWNASIFSSQGKLHW 250
+AL F+ + G + ++A IF QG
Sbjct: 142 -------NSAL---------------FRAVG--EGNAQLVA---------IFGGQG---- 164
Query: 251 EDVKREYVRKSIFWENNVKSTKHTLKEMIMHYSSLELPEGKAIIK--SETLADIAKL-YE 307
+Y F E L+++ Y L +IK +ETL+++ + +
Sbjct: 165 --NTDDY-----FEE---------LRDLYQTYHVLV----GDLIKFSAETLSELIRTTLD 204
Query: 308 EEKYYQ 313
EK +
Sbjct: 205 AEKVFT 210
Score = 28.5 bits (63), Expect = 4.6
Identities = 10/67 (14%), Positives = 21/67 (31%), Gaps = 23/67 (34%)
Query: 247 KLHWEDVKREYVRKSIFWENNVKSTKHTLKEMIMHYSSLELPEGKAIIKSETLADIAKLY 306
L + + Y+ N++ H L ++ + L + K +IK+
Sbjct: 85 NLCLTEFENCYLE-----GNDI----HALAAKLLQENDTTLVKTKELIKN---------- 125
Query: 307 EEEKYYQ 313
Y
Sbjct: 126 ----YIT 128
>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 = 47.9 bits (113), Expect = 3e-06
Identities = 41/334 (12%), Positives = 91/334 (27%), Gaps = 96/334 (28%)
Query: 6 KLVLAPMV-----RVGTLPFRLLAAQYGADITYGEEIIDHKLLK-----CERRVNEYIGS 55
K +A V + F++ + + +L+ + +
Sbjct: 163 KTWVALDVCLSYKVQCKMDFKIF---W---LNLKNCNSPETVLEMLQKLLYQIDPNWTSR 216
Query: 56 TDFVEKGTDSVVFRTCHQERNHVVFQMGTSDAVRALTAAKMVCKDVAAIDI----NMGCP 111
+D + H + + + + L +V +V N+ C
Sbjct: 217 SDHSSN-----IKLRIHSIQAELRRLLKSKPYENCL----LVLLNVQNAKAWNAFNLSCK 267
Query: 112 -----KSFSVSGGMGAALLSKPELIH--------DILTMLKRNLDVPVTCKIRLLKSSQD 158
+ V+ + AA + L H ++ ++L + LD
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ----------- 316
Query: 159 TVELARRIEKTGVSALAVHGRKVADRPRDPAKWGEIADIVAALSIPVIANGDVFEYDDFQ 218
+L R + T L++ + D A W D +++ +
Sbjct: 317 --DLPREVLTTNPRRLSIIAESIRD---GLATW------------------DNWKHVNCD 353
Query: 219 RIKTAAGASSVMAARGALWNASIFSSQGKLHWEDVKREYVRKSIFWENNVKSTKHTLKEM 278
++ T I SS L + ++ + R S+F + L +
Sbjct: 354 KLTTI-----------------IESSLNVLEPAEYRKMFDRLSVF-PPSAHIPTILL-SL 394
Query: 279 IMHYSSLELPEGKAIIKSETLADIAKLYEEEKYY 312
I + K + + K +E
Sbjct: 395 IWFDVIKSDVM-VVVNKLHKYSLVEKQPKESTIS 427
Score = 33.3 bits (75), Expect = 0.12
Identities = 14/80 (17%), Positives = 31/80 (38%), Gaps = 10/80 (12%)
Query: 243 SSQGKLHWEDVKREYVRKSIFWEN-NVKSTKHTLKEMIMHYSSLE----LPEGKAIIKSE 297
+ + + ++D+ + F +N + K + K ++ S E + A+ +
Sbjct: 11 TGEHQYQYKDILSVFEDA--FVDNFDCKDVQDMPKSIL---SKEEIDHIIMSKDAVSGTL 65
Query: 298 TLADIAKLYEEEKYYQFVNE 317
L +EE +FV E
Sbjct: 66 RLFWTLLSKQEEMVQKFVEE 85
Score = 33.3 bits (75), Expect = 0.14
Identities = 50/281 (17%), Positives = 89/281 (31%), Gaps = 79/281 (28%)
Query: 72 HQERNHVVFQMGT-----SDAVRALTAA---KMVCKDVAAIDINMGCPKSFSVSGGMGAA 123
H +H+ F+ G D + A CKDV D+ PKS
Sbjct: 1 HHHHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQ--DM----PKS---------- 44
Query: 124 LLSKPELIH-----DILTMLKRNLDVPVTCKIRLLKSSQDTVE-LARRIEKTGVSALAVH 177
+LSK E+ H D ++ R LL ++ V+ + + L
Sbjct: 45 ILSKEEIDHIIMSKDAVSGTLRLFWT-------LLSKQEEMVQKFVEEVLRINYKFLM-- 95
Query: 178 GRKVADRPRDPAKWGEIADIVAALSIPVIANGDVFEYDDFQRIKTAAGASSVMAARGALW 237
+ R P+ + + + VF + R++ + R AL
Sbjct: 96 -SPIKTEQRQPS--MMTRMYIEQRD-RLYNDNQVFAKYNVSRLQP------YLKLRQALL 145
Query: 238 NASIFSSQ----------GKLHW--EDVKREYVRKS-----IFWEN--NVKSTKHTLKEM 278
++ GK W DV Y + IFW N N S + L+ +
Sbjct: 146 ELR--PAKNVLIDGVLGSGK-TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML 202
Query: 279 ------IMH-YSSLELPEGKAIIKSETLAD-IAKLYEEEKY 311
I ++S ++ ++ + +L + + Y
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY 243
>1ep3_A Dihydroorotate dehydrogenase B (PYRD subunit); heterotetramer,
alpha-beta barrel, beta sandwich, FAD domain alpha/beta
NADP domain; HET: FMN FAD; 2.10A {Lactococcus lactis}
SCOP: c.1.4.1 PDB: 1ep2_A* 1ep1_A*
Length = 311
Score = 45.6 bits (109), Expect = 1e-05
Identities = 44/175 (25%), Positives = 67/175 (38%), Gaps = 40/175 (22%)
Query: 82 MGTSDAVRALTAAKMV-CKDVAAIDINMGCPKSFSVSGGMGAALLSKPELIHDILTMLKR 140
G+ +A AK+ +V AI++N+ CP V G G A + PE+ ++ K
Sbjct: 106 AGSEEADYVAVCAKIGDAANVKAIELNISCPN---VKHG-GQAFGTDPEVAAALVKACKA 161
Query: 141 NLDVPVTCKIRLLKSSQDTVELARRIEKTGVSALA----VHGRKVADRPRDPA---KWG- 192
VP+ K L + D V +A+ +E G L + G + + R P G
Sbjct: 162 VSKVPLYVK--LSPNVTDIVPIAKAVEAAGADGLTMINTLMGVRFDLKTRQPILANITGG 219
Query: 193 ------------EIADIVAALSIPVIANG------DVFEYDDFQRIKTAAGASSV 229
I + + IP+I G DV E AGAS+V
Sbjct: 220 LSGPAIKPVALKLIHQVAQDVDIPIIGMGGVANAQDVLEM-------YMAGASAV 267
>1y0e_A Putative N-acetylmannosamine-6-phosphate 2-epimer; mannac-6-P
epimerase, NANE, structural genomics, protein STR
initiative, PSI; 1.95A {Staphylococcus aureus subsp}
SCOP: c.1.2.5
Length = 223
Score = 41.9 bits (98), Expect = 1e-04
Identities = 14/83 (16%), Positives = 32/83 (38%), Gaps = 5/83 (6%)
Query: 152 LLKSSQDTVELARRIEKTGVSALAV----HGRKVADRPRDPAKWGEIADIVAALSIPVIA 207
+ + TVE A+ + G + + + + + D++ ++ VIA
Sbjct: 121 EIMADIATVEEAKNAARLGFDYIGTTLHGYTSYTQGQLLYQNDFQFLKDVLQSVDAKVIA 180
Query: 208 NGDVFEYDDFQRIKTAAGASSVM 230
G+V D ++R+ G +
Sbjct: 181 EGNVITPDMYKRVM-DLGVHCSV 202
>1jub_A Dihydroorotate dehydrogenase A; homodimer, alpha-beta barrel,
flavoprotein, mutant enzyme, oxidoreductase; HET: FMN;
1.40A {Lactococcus lactis} SCOP: c.1.4.1 PDB: 1ovd_A*
1jue_A* 1dor_A* 2bsl_A* 2bx7_A* 2dor_A* 1jqv_A* 1jrb_A*
1jrc_A* 1jqx_A*
Length = 311
Score = 39.5 bits (93), Expect = 9e-04
Identities = 23/158 (14%), Positives = 47/158 (29%), Gaps = 33/158 (20%)
Query: 98 CKDVAAIDINMGCPKSFSVSGGMGAALLSKPELIHDILTMLKRNLDVPVTCKIRLLKSSQ 157
++N+ CP +V G L E +L + P+ K+
Sbjct: 118 SDFSGITELNLSCP---NVPGEP--QLAYDFEATEKLLKEVFTFFTKPLGVKLPPYFDLV 172
Query: 158 DTVELARRIEKTGVSAL-----AVHGRKV---ADRPRDPAKWGE---------------I 194
+A + + ++ + +G + A+ K G +
Sbjct: 173 HFDIMAEILNQFPLTYVNSVNSIGNGLFIDPEAESVVIKPKDGFGGIGGAYIKPTALANV 232
Query: 195 ADIVAAL--SIPVIANGDVFEYDD-FQRIKTAAGASSV 229
L I +I G + D F+ + GA+ +
Sbjct: 233 RAFYTRLKPEIQIIGTGGIETGQDAFEHLL--CGATML 268
>3q58_A N-acetylmannosamine-6-phosphate 2-epimerase; TIM beta/alpha barrel,
ribulose-phosphate binding barrel, carbohydrate
metabolic process; HET: BTB; 1.80A {Salmonella enterica
subsp}
Length = 229
Score = 36.6 bits (84), Expect = 0.005
Identities = 13/75 (17%), Positives = 21/75 (28%), Gaps = 5/75 (6%)
Query: 158 DTVELARRIEKTGVSALAV--HGRKVADRPRDPAKWGEIADIVAALSIPVIANGDVFEYD 215
TV + G+ + G P +P + ++ VIA G
Sbjct: 137 STVNEGISCHQKGIEFIGTTLSGYTGPITPVEPDL--AMVTQLSHAGCRVIAEGRYNTPA 194
Query: 216 DFQRIKTAAGASSVM 230
GA +V
Sbjct: 195 LAANAI-EHGAWAVT 208
>1z41_A YQJM, probable NADH-dependent flavin oxidoreductase YQJ; FMN,
beta-alpha-barrel; HET: FMN; 1.30A {Bacillus subtilis}
SCOP: c.1.4.1 PDB: 1z42_A* 1z44_A* 1z48_A*
Length = 338
Score = 36.3 bits (85), Expect = 0.008
Identities = 14/85 (16%), Positives = 28/85 (32%), Gaps = 3/85 (3%)
Query: 157 QDTVELARRIEKTGVSALAVH--GRKVADRPRDPAKWGEIADIV-AALSIPVIANGDVFE 213
D + A+ +++ GV + AD P A+ + + A G + +
Sbjct: 229 ADHIGFAKWMKEQGVDLIDCSSGALVHADINVFPGYQVSFAEKIREQADMATGAVGMITD 288
Query: 214 YDDFQRIKTAAGASSVMAARGALWN 238
+ I A + R L +
Sbjct: 289 GSMAEEILQNGRADLIFIGRELLRD 313
>1vzw_A Phosphoribosyl isomerase A; histidine biosynthesis, tryptophan
biosynthesis; 1.8A {Streptomyces coelicolor} SCOP:
c.1.2.1 PDB: 2vep_A 2x30_A
Length = 244
Score = 36.0 bits (84), Expect = 0.010
Identities = 19/73 (26%), Positives = 29/73 (39%), Gaps = 9/73 (12%)
Query: 153 LKSSQDTVELARRIEKTGVSALAVHGRKVADRPRDPAKWG----EIADIVAALSIPVIAN 208
+ D E R+ K G + V D +D G + ++ AA PV+A+
Sbjct: 142 TRDGGDLYETLDRLNKEGCARYVV-----TDIAKDGTLQGPNLELLKNVCAATDRPVVAS 196
Query: 209 GDVFEYDDFQRIK 221
G V DD + I
Sbjct: 197 GGVSSLDDLRAIA 209
>1gte_A Dihydropyrimidine dehydrogenase; electron transfer, flavin,
iron-sulfur clusters, pyrimidine catabolism,
5-fluorouracil degradation, oxidoreductase; HET: FMN
FAD; 1.65A {Sus scrofa} SCOP: a.1.2.2 c.1.4.1 c.3.1.1
c.4.1.1 d.58.1.5 PDB: 1gt8_A* 1gth_A* 1h7w_A* 1h7x_A*
Length = 1025
Score = 36.3 bits (84), Expect = 0.013
Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 103 AIDINMGCPKSFSVSGGMGAALLSKPELIHDILTMLKRNLDVPVTCKI 150
A+++N+ CP GMG A PEL+ +I +++ + +P K+
Sbjct: 664 ALELNLSCPHGMG-ERGMGLACGQDPELVRNICRWVRQAVQIPFFAKL 710
>3gr7_A NADPH dehydrogenase; flavin, FMN, beta-alpha-barrel,
oxidoreductase, flavoprotein; HET: FMN; 2.30A
{Geobacillus kaustophilus} PDB: 3gr8_A*
Length = 340
Score = 36.0 bits (84), Expect = 0.014
Identities = 20/85 (23%), Positives = 31/85 (36%), Gaps = 3/85 (3%)
Query: 157 QDTVELARRIEKTGVSALAVH--GRKVADRPRDPAKWGEIADIV-AALSIPVIANGDVFE 213
+D V A+R+++ GV + V A P A+++ IP A G +
Sbjct: 229 KDYVPYAKRMKEQGVDLVDVSSGAIVPARMNVYPGYQVPFAELIRREADIPTGAVGLITS 288
Query: 214 YDDFQRIKTAAGASSVMAARGALWN 238
+ I A V R L N
Sbjct: 289 GWQAEEILQNGRADLVFLGRELLRN 313
>2y88_A Phosphoribosyl isomerase A; aromatic amino acid biosynthesis,
TIM-barrel, His biosynthesis, tryptophan biosynthesis;
HET: 2ER; 1.33A {Mycobacterium tuberculosis} PDB: 2y89_A
2y85_A*
Length = 244
Score = 34.9 bits (81), Expect = 0.022
Identities = 19/77 (24%), Positives = 28/77 (36%), Gaps = 9/77 (11%)
Query: 154 KSSQDTVELARRIEKTGVSALAVHGRKVADRPRDPAKWG----EIADIVAALSIPVIANG 209
D ++ R++ G S V D +D G +A + PVIA+G
Sbjct: 146 TDGGDLWDVLERLDSEGCSRFVV-----TDITKDGTLGGPNLDLLAGVADRTDAPVIASG 200
Query: 210 DVFEYDDFQRIKTAAGA 226
V DD + I T
Sbjct: 201 GVSSLDDLRAIATLTHR 217
>3igs_A N-acetylmannosamine-6-phosphate 2-epimerase 2; energy metabolism,
sugars, csgid, carbohydrate metabolism, isomerase; HET:
MSE 16G; 1.50A {Salmonella enterica subsp}
Length = 232
Score = 34.7 bits (79), Expect = 0.025
Identities = 9/73 (12%), Positives = 17/73 (23%), Gaps = 1/73 (1%)
Query: 158 DTVELARRIEKTGVSALAVHGRKVADRPRDPAKWGEIADIVAALSIPVIANGDVFEYDDF 217
+V+ ++ G + + + VIA G
Sbjct: 137 SSVDDGLACQRLGADIIGTTMSGYTTPDTPEEPDLPLVKALHDAGCRVIAEGRYNSPALA 196
Query: 218 QRIKTAAGASSVM 230
GA +V
Sbjct: 197 AEAI-RYGAWAVT 208
>1jvn_A Glutamine, bifunctional histidine biosynthesis protein hishf;
substrate channeling, amidotransferase, TIM-barrel AS A
SUBS tunnel; HET: 143; 2.10A {Saccharomyces cerevisiae}
SCOP: c.1.2.1 c.23.16.1 PDB: 1ox4_B* 1ox5_A* 1ox6_A
1ox4_A
Length = 555
Score = 35.1 bits (81), Expect = 0.026
Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 7/49 (14%)
Query: 194 IADIVAALSIPVIANGDVFEYDDFQRIKTAAGASSVMAARGALWNASIF 242
I + A+ IPVIA+ + F+ A + + A +F
Sbjct: 488 IEHVKDAVKIPVIASSGAGVPEHFEEAFLKTRADACLG-------AGMF 529
>1qo2_A Molecule: N-((5-phosphoribosyl)-formimino)-5-aminoimidazol-
4-carboxamid ribonucleotid...; isomerase, histidine
biosynthesis; 1.85A {Thermotoga maritima} SCOP: c.1.2.1
PDB: 2cff_A 2w79_A
Length = 241
Score = 34.5 bits (80), Expect = 0.027
Identities = 10/71 (14%), Positives = 24/71 (33%), Gaps = 9/71 (12%)
Query: 155 SSQDTVELARRIEKTGVSALAVHGRKVADRPRDPAKWG----EIADIVAALSIPVIANGD 210
D V L +R+++ G+ + + +D I + V+A G
Sbjct: 142 EEIDPVSLLKRLKEYGLEEI-----VHTEIEKDGTLQEHDFSLTKKIAIEAEVKVLAAGG 196
Query: 211 VFEYDDFQRIK 221
+ + + +
Sbjct: 197 ISSENSLKTAQ 207
>2e6f_A Dihydroorotate dehydrogenase; chagas disease, pyrimidine
biosynthesis, fumarate reductase, energy metabolism,
redox homeostasis, flavoprotein; HET: FMN OXC; 1.26A
{Trypanosoma cruzi} PDB: 2e6a_A* 2e6d_A* 2e68_A* 2djl_A*
2djx_A* 3c3n_A* 2b4g_A* 3c61_A* 3mhu_A* 3mjy_A*
Length = 314
Score = 34.8 bits (81), Expect = 0.032
Identities = 26/167 (15%), Positives = 45/167 (26%), Gaps = 43/167 (25%)
Query: 94 AKMVCKDVAAIDINMGCPKSFSVSGGMGAALLSKPELIHDILTMLKRNLDVPVTCKIRLL 153
A + + +++N+ CP +V G + E + L + +P +
Sbjct: 116 APVAQEKGVLLELNLSCP---NVPGKP--QVAYDFEAMRTYLQQVSLAYGLPF-----GV 165
Query: 154 KSS--QDTVELARRIEKTGVSALA---------VHGRKV---ADRPRDPAKWGE------ 193
K D L +G + ++ K G
Sbjct: 166 KMPPYFDIAHFDTAAAVLNEFPLVKFVTCVNSVGNGLVIDAESESVVIKPKQGFGGLGGK 225
Query: 194 ---------IADIVAALS-IPVIANGDVFEYDD-FQRIKTAAGASSV 229
+ V G V+ +D F I AGAS V
Sbjct: 226 YILPTALANVNAFYRRCPDKLVFGCGGVYSGEDAFLHIL--AGASMV 270
>3gz3_A Dihydroorotate dehydrogenase, putative; dhodh, oxidoreductase; HET:
FMN ORO; 1.90A {Leishmania major} PDB: 3gye_A*
Length = 354
Score = 34.1 bits (79), Expect = 0.052
Identities = 25/162 (15%), Positives = 46/162 (28%), Gaps = 33/162 (20%)
Query: 94 AKMVCKDVAAIDINMGCPKSFSVSGGMGAALLSKPELIHDILTMLKRNLDVPVTCKIRLL 153
A + + +++N+ CP +V G + + + LT + K+
Sbjct: 149 AAVATEKGVILELNLSCP---NVPGKP--QVAYDFDAMRQCLTAVSEVYPHSFGVKMPPY 203
Query: 154 KSSQDTVELARRI-EKTGVSALAV-----HGRKV---ADRPRDPAKWGE----------- 193
A + E V + +G + + K G
Sbjct: 204 FDFAHFDAAAEILNEFPKVQFITCINSIGNGLVIDAETESVVIKPKQGFGGLGGRYVLPT 263
Query: 194 ----IADIVAALSI-PVIANGDVFEYDD-FQRIKTAAGASSV 229
I + G V+ +D F + AGAS V
Sbjct: 264 ALANINAFYRRCPGKLIFGCGGVYTGEDAFLHVL--AGASMV 303
>3hgj_A Chromate reductase; TIM barrel, oxidoreductase; HET: FMN; 2.00A
{Thermus scotoductus} PDB: 3hf3_A*
Length = 349
Score = 34.0 bits (79), Expect = 0.053
Identities = 23/86 (26%), Positives = 36/86 (41%), Gaps = 4/86 (4%)
Query: 157 QDTVELARRIEKTGVSALAVHGRKVADRPRDPAKWG---EIADIV-AALSIPVIANGDVF 212
+DT+ ARR+++ GV L V R R P G AD V + + A G +
Sbjct: 239 EDTLAFARRLKELGVDLLDCSSGGVVLRVRIPLAPGFQVPFADAVRKRVGLRTGAVGLIT 298
Query: 213 EYDDFQRIKTAAGASSVMAARGALWN 238
+ + + A A V+ R L +
Sbjct: 299 TPEQAETLLQAGSADLVLLGRVLLRD 324
>2z6i_A Trans-2-enoyl-ACP reductase II; fatty acid synthesis, antibiotics,
oxidoreductase, flavoprotein; HET: FMN; 1.70A
{Streptococcus pneumoniae} PDB: 2z6j_A*
Length = 332
Score = 33.4 bits (77), Expect = 0.074
Identities = 17/51 (33%), Positives = 25/51 (49%)
Query: 159 TVELARRIEKTGVSALAVHGRKVADRPRDPAKWGEIADIVAALSIPVIANG 209
+V LA+R+EK G A+ G + + + A+SIPVIA G
Sbjct: 119 SVALAKRMEKIGADAVIAEGMEAGGHIGKLTTMTLVRQVATAISIPVIAAG 169
>3l5l_A Xenobiotic reductase A; TIM barrel, oxidoreductase; HET: BU3 FMN;
1.03A {Pseudomonas putida} PDB: 3l5m_A* 3n19_B* 3n16_A*
3l68_A* 3l67_A* 3l65_A* 3l66_A* 3n14_A* 2h8z_A* 2h90_A*
2h8x_A*
Length = 363
Score = 33.6 bits (78), Expect = 0.076
Identities = 20/88 (22%), Positives = 32/88 (36%), Gaps = 8/88 (9%)
Query: 157 QDTVELARRIEKTGVSAL-----AVHGRKVADRPRDPAKWGEIADIV-AALSIPVIANGD 210
++++ELARR + G+ L + P PA G IA+ V +PV +
Sbjct: 246 EESIELARRFKAGGLDLLSVSVGFTIPD--TNIPWGPAFMGPIAERVRREAKLPVTSAWG 303
Query: 211 VFEYDDFQRIKTAAGASSVMAARGALWN 238
+ A V R L +
Sbjct: 304 FGTPQLAEAALQANQLDLVSVGRAHLAD 331
>1ps9_A 2,4-dienoyl-COA reductase; iron-sulfur, TIM barrel, flavodoxin,
flavin, electron transfer, hydride transfer,
oxidoreductase; HET: FAD FMN NAP MDE; 2.20A {Escherichia
coli} SCOP: c.1.4.1 c.3.1.1 c.4.1.1
Length = 671
Score = 33.5 bits (77), Expect = 0.096
Identities = 16/86 (18%), Positives = 32/86 (37%), Gaps = 16/86 (18%)
Query: 157 QDTVELARRIEKTGVSALAV----HGRKVAD--RPRDPAKWGEIADIV-AALSIPVIANG 209
+TVELA+ IE G + + H ++ P + + + +S+P++
Sbjct: 228 AETVELAQAIEAAGATIINTGIGWHEARIPTIATPVPRGAFSWVTRKLKGHVSLPLVTTN 287
Query: 210 DVFEYDDFQRIKTAAGASSVMAARGA 235
RI A +++ A
Sbjct: 288 ---------RINDPQVADDILSRGDA 304
>3bo9_A Putative nitroalkan dioxygenase; TM0800, structural genomics center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: MSE 2PE; 2.71A {Thermotoga maritima MSB8}
Length = 326
Score = 33.0 bits (76), Expect = 0.11
Identities = 13/51 (25%), Positives = 25/51 (49%)
Query: 159 TVELARRIEKTGVSALAVHGRKVADRPRDPAKWGEIADIVAALSIPVIANG 209
+ LAR +E+ G A+ G + + + + + +++IPVIA G
Sbjct: 133 SDSLARMVERAGADAVIAEGMESGGHIGEVTTFVLVNKVSRSVNIPVIAAG 183
>3kru_A NADH:flavin oxidoreductase/NADH oxidase; homotetramer, dimer of
dimers, TIM barrel, thermophilic, OLD enzyme; HET: FMN;
1.60A {Thermoanaerobacter pseudethanolicus AT} PDB:
3krz_A*
Length = 343
Score = 32.5 bits (75), Expect = 0.16
Identities = 19/85 (22%), Positives = 28/85 (32%), Gaps = 4/85 (4%)
Query: 157 QDTVELARRIEKTGVSALAVH--GRKVADRPRDPAKWGEIADIV-AALSIPVIANGDVFE 213
VE I K V + V G D P + A+ + +I A G +
Sbjct: 230 DMMVEYINMI-KDKVDLIDVSSGGLLNVDINLYPGYQVKYAETIKKRCNIKTSAVGLITT 288
Query: 214 YDDFQRIKTAAGASSVMAARGALWN 238
+ + I + A V R L N
Sbjct: 289 QELAEEILSNERADLVALGRELLRN 313
>3kts_A Glycerol uptake operon antiterminator regulatory; structural
genomics, PSI-2, protein structur initiative; HET: UNL;
2.75A {Listeria monocytogenes str}
Length = 192
Score = 31.6 bits (72), Expect = 0.23
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 194 IADIVAALSIPVIANGDVFEYDDFQRIKTAAGASSVMAARGALWNA 239
+ + L IPVIA G + + ++ A+GA +V + LW
Sbjct: 142 VQKMTQKLHIPVIAGGLIETSEQVNQVI-ASGAIAVTTSNKHLWEG 186
>1thf_D HISF protein; thermophIle, TIM-barrel, histidine biosynthesis,
lyase, phosphate-binding sites; 1.45A {Thermotoga
maritima} SCOP: c.1.2.1 PDB: 2wjz_A 2a0n_A* 1gpw_A
1vh7_A 2rkx_A 3iio_A 3iip_A* 3iiv_A
Length = 253
Score = 31.7 bits (73), Expect = 0.27
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 8/49 (16%)
Query: 194 IADIVAALSIPVIANGDVFEYDDFQRIKTAAGASSVMAARGALWNASIF 242
I + ++P+IA+G + + F AGA + +A AS+F
Sbjct: 187 IRFVRPLTTLPIIASGGAGKMEHFLEAFL-AGADAALA-------ASVF 227
>3tdn_A FLR symmetric alpha-beta TIM barrel; symmetric superfold, de novo
protein; 1.40A {Synthetic construct} PDB: 3og3_A 3tdm_A
Length = 247
Score = 31.7 bits (73), Expect = 0.27
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 194 IADIVAALSIPVIANGDVFEYDDFQRIKTAAGASSVMAARGALWN 238
I + ++P+IA+G + + F GA V A+ N
Sbjct: 192 IRFVRPLTTLPIIASGGAGKMEHFLEAFL-RGADKVSINTAAVEN 235
>1ka9_F Imidazole glycerol phosphtate synthase; riken structural
genomics/proteomics initiative, RSGI, structural
genomics, transferase; 2.30A {Thermus thermophilus}
SCOP: c.1.2.1
Length = 252
Score = 31.7 bits (73), Expect = 0.28
Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 8/49 (16%)
Query: 194 IADIVAALSIPVIANGDVFEYDDFQRIKTAAGASSVMAARGALWNASIF 242
+ A+ +PVIA+G + F AGA + +A AS+F
Sbjct: 188 TRMVAEAVGVPVIASGGAGRMEHFLEAFQ-AGAEAALA-------ASVF 228
>3cwo_X Beta/alpha-barrel protein based on 1THF and 1TMY; XRAY, CHEY, HISF,
half barrel, de novo protein; 3.10A {Thermotoga
maritima} PDB: 2lle_A
Length = 237
Score = 31.3 bits (72), Expect = 0.29
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 8/49 (16%)
Query: 194 IADIVAALSIPVIANGDVFEYDDFQRIKTAAGASSVMAARGALWNASIF 242
I + ++P+IA+G + + F AGA + +A AS+F
Sbjct: 166 IRFVRPLTTLPIIASGGAGKMEHFLEAFL-AGADAALA-------ASVF 206
>1h5y_A HISF; histidine biosynthesis, TIM-barrel; 2.0A {Pyrobaculum
aerophilum} SCOP: c.1.2.1
Length = 253
Score = 31.3 bits (72), Expect = 0.30
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 8/49 (16%)
Query: 194 IADIVAALSIPVIANGDVFEYDDFQRIKTAAGASSVMAARGALWNASIF 242
I + ++ IPVIA+G + F AGA +V+A AS+F
Sbjct: 190 IRRVADSVRIPVIASGGAGRVEHFYEAAA-AGADAVLA-------ASLF 230
>2w6r_A Imidazole glycerol phosphate synthase subunit HISF; lyase, fusion
protein, cobalamin, precorrin, novel fold, VIT; 2.10A
{Thermotoga maritima}
Length = 266
Score = 31.4 bits (72), Expect = 0.30
Identities = 13/49 (26%), Positives = 23/49 (46%), Gaps = 8/49 (16%)
Query: 194 IADIVAALSIPVIANGDVFEYDDFQRIKTAAGASSVMAARGALWNASIF 242
I + ++P+IA+G + + F AGA + +A AS+F
Sbjct: 192 IRFVRPLTTLPIIASGGAGKMEHFLEAFL-AGADAALA-------ASVF 232
>3bw2_A 2-nitropropane dioxygenase; TIM barrel, oxidoreductase; HET: FMN;
2.10A {Streptomyces ansochromogenes} PDB: 3bw4_A*
3bw3_A*
Length = 369
Score = 31.5 bits (72), Expect = 0.31
Identities = 24/88 (27%), Positives = 33/88 (37%), Gaps = 21/88 (23%)
Query: 159 TVELARRIEKTGVSALAV--------HGRKVADRPRDPAKWGE---IADIVAALSIPVIA 207
T E AR +E G A+ G D A G +A + A+ IPV+A
Sbjct: 154 TPEEARAVEAAGADAVIAQGVEAGGHQGTHRDSSEDDGAGIGLLSLLAQVREAVDIPVVA 213
Query: 208 NGDVFEYDDFQRIKTAAGASSVMAARGA 235
G I ++V+AA GA
Sbjct: 214 AGG---------IMRGGQIAAVLAA-GA 231
>1yxy_A Putative N-acetylmannosamine-6-phosphate 2-epimer; structural
genomics, epimerase, PSI, structure initiative; 1.60A
{Streptococcus pyogenes} SCOP: c.1.2.5
Length = 234
Score = 30.3 bits (68), Expect = 0.78
Identities = 11/74 (14%), Positives = 26/74 (35%), Gaps = 2/74 (2%)
Query: 158 DTVELARRIEKTGVSALAVHGRKVADRPRDPAKWG-EIADIVAALSIPVIANGDVFEYDD 216
T + + G+ + R A + + + I VIA G + ++
Sbjct: 141 STFDEGLVAHQAGIDFVGTTLSGYTPYSRQEAGPDVALIEALCKAGIAVIAEGKIHSPEE 200
Query: 217 FQRIKTAAGASSVM 230
++I G + ++
Sbjct: 201 AKKIN-DLGVAGIV 213
>2gjl_A Hypothetical protein PA1024; 2-nitropropane dioxygenase,
2-nitropropane, FMN, oxidoreduct; HET: FMN; 2.00A
{Pseudomonas aeruginosa PAO1} PDB: 2gjn_A*
Length = 328
Score = 30.4 bits (69), Expect = 0.83
Identities = 15/57 (26%), Positives = 26/57 (45%), Gaps = 10/57 (17%)
Query: 159 TVELARRIEKTGVSALAVHGRKVADRPRDPAKWGEIA------DIVAALSIPVIANG 209
V A + E+ GV A+++ G + A P + +I L +P+IA+G
Sbjct: 127 AVRHALKAERLGVDAVSIDGFECAGHPGE----DDIPGLVLLPAAANRLRVPIIASG 179
>1p0k_A Isopentenyl-diphosphate delta-isomerase; terpene biosynthesis,
dimethylallyl diphosphate, flavoprotein; 1.90A {Bacillus
subtilis} SCOP: c.1.4.1 PDB: 1p0n_A*
Length = 349
Score = 30.1 bits (68), Expect = 0.94
Identities = 34/196 (17%), Positives = 67/196 (34%), Gaps = 43/196 (21%)
Query: 86 DAVRALTAAKMVCKDVAAIDINMGCPKSFSVSGGMGAALLSKPELIHDILTMLKRNLDVP 145
A +A A +M+ A+ I++ + + G + + + + + VP
Sbjct: 128 TAAQAKEAVEMI--GANALQIHLNVIQEIVMPEGDRSFSGAL-----KRIEQICSRVSVP 180
Query: 146 VTCKIRLLKSSQDTVELARRIEKTGVSALAV--HG---------RKVADRPRDPAKWGE- 193
V K + A ++ + G +A+ + +G + + WG
Sbjct: 181 VIVKE---VGFGMSKASAGKLYEAGAAAVDIGGYGGTNFSKIENLRRQRQISFFNSWGIS 237
Query: 194 ----IADIVAAL-SIPVIANG------DVFEYDDFQRIKTAA-GASSVMAARGALWNASI 241
+A+I + + +IA+G DV K A GAS A L +
Sbjct: 238 TAASLAEIRSEFPASTMIASGGLQDALDVA--------KAIALGASCTGMAGHFLKALTD 289
Query: 242 FSSQGKLHW-EDVKRE 256
+G L + + E
Sbjct: 290 SGEEGLLEEIQLILEE 305
>3bc8_A O-phosphoseryl-tRNA(SEC) selenium transferase; disorder-order
transition, phosphate-loop, pyridoxal phospha
selenocysteine synthase (SECS, sepsecs); HET: LLP; 1.65A
{Mus musculus} SCOP: c.67.1.9 PDB: 3bca_A* 3bcb_A*
Length = 450
Score = 30.0 bits (67), Expect = 1.1
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 158 DTVELARRIEKTGVSA-LAVHGRKVADRPRDPAKWGEIADIVAALSIPVIANG 209
D + +I++ G L +H PR P + E+A I A IP + N
Sbjct: 183 DLKAVEAKIQELGPEHILCLHSTTACFAPRVPDRLEELAVICANYDIPHVVNN 235
>1wui_L Periplasmic [NIFE] hydrogenase large subunit; high resolution
[NIFE]hydrogenase, oxidoreductase, NI-A state, unready
state; HET: NFC; 1.04A {Desulfovibrio vulgaris str}
SCOP: e.18.1.1 PDB: 1ubj_L 1ubh_L 1ubl_L 1ubm_L 1ubo_L
1ubr_L 1ubt_L 1ubu_L 1wuh_L* 1ubk_L* 1wuj_L 1wuk_L
1wul_L 1h2r_L 1h2a_L
Length = 534
Score = 29.7 bits (66), Expect = 1.4
Identities = 25/112 (22%), Positives = 38/112 (33%), Gaps = 20/112 (17%)
Query: 151 RLLKSSQDTVELARR-----IEKTGVSALAVH---GRKVADRPRDPAKWGEIADIVAALS 202
++L + + + K GV A+ GR A R + A E ++
Sbjct: 372 QVLIAYSQGHPKVKAVTDAVLAKLGVGPEALFSTLGRTAA-RGIETAVIAEYVGVMLQEY 430
Query: 203 IPVIANGDVFEYDDFQRIKTAAGASSVMAARGALWNASIFSSQGKLHWEDVK 254
IA GD ++ K A G V A RG L HW ++
Sbjct: 431 KDNIAKGDNVICAPWEMPKQAEGVGFVNAPRGGLS-----------HWIRIE 471
>1p4c_A L(+)-mandelate dehydrogenase; TIM barrel, hydroxy acid oxidizing
enzyme, oxidoreductase; HET: FMN MES; 1.35A {Pseudomonas
putida} SCOP: c.1.4.1 PDB: 1huv_A* 1p5b_A* 3giy_A*
2a7p_A* 2a85_A* 2a7n_A*
Length = 380
Score = 29.5 bits (67), Expect = 1.4
Identities = 21/88 (23%), Positives = 33/88 (37%), Gaps = 19/88 (21%)
Query: 159 TVELARRIEKTGVSALAV--HGRKVADRPRDPAKWGEIADIVAALSIPVIANG------D 210
+ E A R G + + HG + D P + +A VA PV+ + D
Sbjct: 235 SAEDADRCIAEGADGVILSNHGGRQLDCAISPME--VLAQSVAKTGKPVLIDSGFRRGSD 292
Query: 211 VFEYDDFQRIKT-AAGASSVMAARGALW 237
+ K A GA +V+ R L+
Sbjct: 293 IV--------KALALGAEAVLLGRATLY 312
>3rd5_A Mypaa.01249.C; ssgcid, structural genomics, seattle structural
genomics CEN infectious disease, oxidoreductase; HET:
EPE; 1.50A {Mycobacterium paratuberculosis}
Length = 291
Score = 29.5 bits (67), Expect = 1.4
Identities = 10/21 (47%), Positives = 12/21 (57%), Gaps = 2/21 (9%)
Query: 159 TVELARRIEKTG--VSALAVH 177
T EL RR+ G + ALA H
Sbjct: 176 TSELQRRLTAAGSPLRALAAH 196
>3zzh_A Acetylglutamate kinase; transferase, arginine biosynthesis; HET:
ARG NLG; 2.10A {Saccharomyces cerevisiae} PDB: 3zzg_A
3zzf_A*
Length = 307
Score = 29.5 bits (67), Expect = 1.6
Identities = 15/90 (16%), Positives = 25/90 (27%), Gaps = 35/90 (38%)
Query: 161 ELARRIEKTGVSALAVHGRKVADRPRDPAKWG-----------EIADIVAALSIPVIA-- 207
+L +E+ GV A + D K+ I + A ++P++
Sbjct: 129 KLVTALEQLGVRARPITSGVFTADYLDKDKYKLVGNIKSVTKEPIEASIKAGALPILTSL 188
Query: 208 -----------NGDVFEYDDFQRIKTAAGA 226
N D AAG
Sbjct: 189 AETASGQMLNVNAD-----------VAAGE 207
>1t3k_A Arath CDC25, dual-specificity tyrosine phosphatase; cell cycle,
phosphorylation, plant, hydrolase; NMR {Arabidopsis
thaliana} SCOP: c.46.1.1
Length = 152
Score = 28.8 bits (64), Expect = 1.7
Identities = 9/51 (17%), Positives = 19/51 (37%), Gaps = 1/51 (1%)
Query: 72 HQERNHVVFQMGTSDAVRALTAAKMVCKDVAAIDINMGCPKSFSVSGGMGA 122
++++ +VF S VR T A+ + + + G + G
Sbjct: 82 VKDKDTLVFHSALSQ-VRGPTCARRLVNYLDEKKEDTGIKNIMILERGFNG 131
>1yq9_H Periplasmic [NIFE] hydrogenase large subunit; oxidoreductase; 2.35A
{Desulfovibrio gigas} SCOP: e.18.1.1 PDB: 2frv_L 1frv_B
Length = 536
Score = 29.3 bits (65), Expect = 1.7
Identities = 21/108 (19%), Positives = 33/108 (30%), Gaps = 13/108 (12%)
Query: 148 CKIRLLKSSQDTVELARRIEKTGVSALA-VHGRKVADRPRDPAKWGEIADIVAALSIPVI 206
+ + + V+L + G AL GR A R + ++ +
Sbjct: 378 AYAKKHEPTVKAVDLVLKTLGVGPEALFSTLGRTAA-RGIQCLTAAQEVEVWLDKLEANV 436
Query: 207 ANGDVFEYDDFQRIKTAAGASSVMAARGALWNASIFSSQGKLHWEDVK 254
G Y D+Q + G V A RG L HW +
Sbjct: 437 KAGKDDLYTDWQYPTESQGVGFVNAPRGMLS-----------HWIVQR 473
>3hl2_A O-phosphoseryl-tRNA(SEC) selenium transferase; selenocysteine,
sepsecs, protein-RNA complex, alternative splicing,
cytoplasm, protein biosynthesis, pyridoxal phosphate,
selenium; HET: PLR SEP; 2.81A {Homo sapiens}
Length = 501
Score = 29.3 bits (65), Expect = 2.1
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 158 DTVELARRIEKTGVSA-LAVHGRKVADRPRDPAKWGEIADIVAALSIPVIANG 209
D + ++++ G L +H PR P + E+A I A IP I N
Sbjct: 201 DLKAVEAKVQELGPDCILCIHSTTSCFAPRVPDRLEELAVICANYDIPHIVNN 253
>3k30_A Histamine dehydrogenase; 6-S-cysteinyl-FMN, ADP binding site,
oxidoreductase; HET: FMN ADP; 2.70A {Pimelobacter
simplex}
Length = 690
Score = 29.2 bits (66), Expect = 2.3
Identities = 11/81 (13%), Positives = 20/81 (24%), Gaps = 16/81 (19%)
Query: 158 DTVELARRIEKTGVSALAV-----HGRKVADRPRDPAKWGEIADIV-AALSIPVIANGDV 211
D + R + + G V R + E + + PV+ G
Sbjct: 245 DIEGVLRELGE-LPDLWDFAMGSWEGDSVTSRFAPEGRQEEFVAGLKKLTTKPVVGVG-- 301
Query: 212 FEYDDFQRIKTAAGASSVMAA 232
R + + A
Sbjct: 302 -------RFTSPDAMVRQIKA 315
>4ab7_A Protein Arg5,6, mitochondrial; transferase, arginine biosynthesis,
amino acid kinase domain GCN5-related acetyltransferase,
GNAT; HET: NLG; 3.25A {Saccharomyces cerevisiae} PDB:
3zzi_A*
Length = 464
Score = 28.5 bits (64), Expect = 3.2
Identities = 11/58 (18%), Positives = 22/58 (37%), Gaps = 11/58 (18%)
Query: 161 ELARRIEKTGVSALAVHGRKVADRPRDPAKW---GEIA----DIVAAL----SIPVIA 207
+L +E+ GV A + D K+ G I + + A ++P++
Sbjct: 129 KLVTALEQLGVRARPITSGVFTADYLDKDKYKLVGNIKSVTKEPIEASIKAGALPILT 186
>1zkd_A DUF185; NESG, RPR58, structural genomics, PSI, protein structure
INI northeast structural genomics consortium, unknown
function; 2.10A {Rhodopseudomonas palustris} SCOP:
c.66.1.52
Length = 387
Score = 28.1 bits (63), Expect = 4.0
Identities = 8/61 (13%), Positives = 22/61 (36%), Gaps = 10/61 (16%)
Query: 101 VAAIDINMGCPKSFSV---SGGMGAALLSKPELIHDILTMLKRNLDVPVTCKIRLLKSSQ 157
A++ P++ + G G ++ D L L+ + + + L++ +
Sbjct: 69 SASVWKAADEPQTLRLIEIGPGRG-------TMMADALRALRVLPILYQSLSVHLVEINP 121
Query: 158 D 158
Sbjct: 122 V 122
>1ne2_A Hypothetical protein TA1320; structural genomics, conserved
hypothetical protein, PSI, protein structure initiative;
1.75A {Thermoplasma acidophilum} SCOP: c.66.1.32
Length = 200
Score = 27.7 bits (61), Expect = 4.7
Identities = 8/35 (22%), Positives = 14/35 (40%)
Query: 76 NHVVFQMGTSDAVRALTAAKMVCKDVAAIDINMGC 110
V GT + + A + + + V A DI+
Sbjct: 52 GRSVIDAGTGNGILACGSYLLGAESVTAFDIDPDA 86
>3rim_A Transketolase, TK; TPP, transferase; HET: TPP; 2.49A {Mycobacterium
tuberculosis}
Length = 700
Score = 28.2 bits (64), Expect = 4.8
Identities = 5/20 (25%), Positives = 6/20 (30%)
Query: 21 RLLAAQYGADITYGEEIIDH 40
R + D G DH
Sbjct: 150 RYERGLFDPDAEPGASPFDH 169
>3s6k_A Acetylglutamate kinase; synthase, transferase; 2.80A {Xanthomonas
campestris PV}
Length = 467
Score = 27.7 bits (62), Expect = 5.9
Identities = 14/67 (20%), Positives = 23/67 (34%), Gaps = 14/67 (20%)
Query: 152 LLKSSQDTVELARRIEKTGVSALAVHGRKVADRPRDPAKWG-----------EIADIVAA 200
S+ VE +++ G A ++ G + +G I + A
Sbjct: 136 FQASNLKLVEA---LQQNGARATSITGGVFEAEYLNRDTYGLVGEVKAVNLAPIEASLQA 192
Query: 201 LSIPVIA 207
SIPVI
Sbjct: 193 GSIPVIT 199
>3pxx_A Carveol dehydrogenase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid, NAD,
tuberculosis; HET: NAD; 2.00A {Mycobacterium avium}
Length = 287
Score = 27.2 bits (61), Expect = 6.5
Identities = 24/118 (20%), Positives = 37/118 (31%), Gaps = 25/118 (21%)
Query: 142 LDVPVTCKIRLLKSSQDTVELARRIEKTGVSALAVHGRKVADRPRDPAKWGE-IADIVAA 200
+ + L +S+D E +EKTG A D RD A +A+ VA
Sbjct: 42 ICHDIETNEYPLATSRDLEEAGLEVEKTGRKAYTAE----VD-VRDRAAVSRELANAVAE 96
Query: 201 ---LSIPVIAN------GDVFEYDDFQRI---------KTAAGASSVMAARGALWNAS 240
L + V+AN G F T A + + ++
Sbjct: 97 FGKLDV-VVANAGICPLGAHLPVQAFADAFDVDFVGVINTVHAALPYLTSGASIITTG 153
>2qr6_A IMP dehydrogenase/GMP reductase; NP_599840.1, G reductase domain,
structural genomics, joint center for STR genomics,
JCSG; HET: MSE; 1.50A {Corynebacterium glutamicum atcc
13032}
Length = 393
Score = 27.5 bits (61), Expect = 6.8
Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 13/48 (27%)
Query: 194 IADIVAALS----------IPVIANGDVFEYDDFQRIKT-AAGASSVM 230
IAD+ AA + +IA+G + D +K A GA +V+
Sbjct: 259 IADVAAARRDYLDETGGRYVHIIADGSIENSGDV--VKAIACGADAVV 304
>1eep_A Inosine 5'-monophosphate dehydrogenase; alpha-beta barrel, TIM
barrel, IMPDH, IMP dehydrogenase, LOO purine
biosynthesis, oxidoreductase; 2.40A {Borrelia
burgdorferi} SCOP: c.1.5.1
Length = 404
Score = 27.5 bits (62), Expect = 7.1
Identities = 17/41 (41%), Positives = 23/41 (56%), Gaps = 6/41 (14%)
Query: 194 IADIVAALS---IPVIANGDV-FEYDDFQRIKTAAGASSVM 230
I D+ A + I +IA+G + F D + I AAGA SVM
Sbjct: 245 ICDVYEACNNTNICIIADGGIRFSGDVVKAI--AAGADSVM 283
>3s6g_A N-acetylglutamate kinase / N-acetylglutamate SYNT; synthase,
transferase; HET: COA; 2.67A {Maricaulis maris} PDB:
3s7y_A 3s6h_A*
Length = 460
Score = 27.3 bits (61), Expect = 7.2
Identities = 14/67 (20%), Positives = 22/67 (32%), Gaps = 14/67 (20%)
Query: 152 LLKSSQDTVELARRIEKTGVSALAVHGRKVADRPRDPAKW---GEIA----DIVAAL--- 201
L +++ V+ I G A AV D K GE D+V +
Sbjct: 133 LTQANLALVDA---IRDAGGRAAAVPRGVFEADIVDADKLGRVGEPRHIHLDLVGSAARA 189
Query: 202 -SIPVIA 207
++A
Sbjct: 190 GQAAILA 196
>3ffs_A Inosine-5-monophosphate dehydrogenase; beta-alpha barrel, TIM fold,
oxidoreductase; 3.19A {Cryptosporidium parvum}
Length = 400
Score = 27.1 bits (61), Expect = 8.1
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 6/41 (14%)
Query: 194 IADIVAALS---IPVIANGDV-FEYDDFQRIKTAAGASSVM 230
I + S IP+IA+G + + D + + A GASSVM
Sbjct: 235 IEKCSSVASKFGIPIIADGGIRYSGDIGKAL--AVGASSVM 273
>4fxs_A Inosine-5'-monophosphate dehydrogenase; structural genomics, IMPDH,
IMP, mycophenolic acid, MOA; HET: IMP MOA; 2.24A {Vibrio
cholerae o1 biovar el tor}
Length = 496
Score = 27.4 bits (62), Expect = 8.2
Identities = 17/48 (35%), Positives = 20/48 (41%), Gaps = 20/48 (41%)
Query: 194 IADIVAALS---IPVIANGDVFEYDDFQRIKT--------AAGASSVM 230
IAD + IPVIA+G I+ AAGAS VM
Sbjct: 323 IADAAGVANEYGIPVIADGG---------IRFSGDISKAIAAGASCVM 361
>2yjt_D ATP-dependent RNA helicase SRMB, regulator of ribonuclease activity
A; hydrolase inhibitor-hydrolase complex, DEAD box RNA
helicase; 2.90A {Escherichia coli}
Length = 170
Score = 26.4 bits (59), Expect = 8.7
Identities = 5/24 (20%), Positives = 11/24 (45%)
Query: 157 QDTVELARRIEKTGVSALAVHGRK 180
+ ELA + + G++ + G
Sbjct: 41 ERVHELANWLREAGINNCYLEGEM 64
>1zfj_A Inosine monophosphate dehydrogenase; IMPDH, CBS domains,
oxidoreductase; HET: IMP; 1.90A {Streptococcus pyogenes}
SCOP: c.1.5.1 d.37.1.1
Length = 491
Score = 27.0 bits (61), Expect = 8.7
Identities = 13/48 (27%), Positives = 17/48 (35%), Gaps = 20/48 (41%)
Query: 194 IADIVAALS---IPVIANGDVFEYDDFQRIKT--------AAGASSVM 230
I D A +IA+G IK AAG ++VM
Sbjct: 325 IYDAAAVAREYGKTIIADGG---------IKYSGDIVKALAAGGNAVM 363
>3usb_A Inosine-5'-monophosphate dehydrogenase; structural genomics, center
for structural genomics of infec diseases, csgid, TIM
barrel, CBS-domain; HET: MSE IMP; 2.38A {Bacillus
anthracis} PDB: 3tsd_A* 3tsb_A*
Length = 511
Score = 27.1 bits (61), Expect = 9.0
Identities = 15/48 (31%), Positives = 17/48 (35%), Gaps = 20/48 (41%)
Query: 194 IADIVAALS---IPVIANGDVFEYDDFQRIKT--------AAGASSVM 230
+ D IPVIA+G IK AAGA VM
Sbjct: 348 VYDCATEARKHGIPVIADGG---------IKYSGDMVKALAAGAHVVM 386
>1vrd_A Inosine-5'-monophosphate dehydrogenase; TM1347, structural G joint
center for structural genomics, JCSG, protein structu
initiative, PSI; 2.18A {Thermotoga maritima} SCOP:
c.1.5.1
Length = 494
Score = 27.1 bits (61), Expect = 9.0
Identities = 12/41 (29%), Positives = 21/41 (51%), Gaps = 6/41 (14%)
Query: 194 IADIVAALS---IPVIANGDV-FEYDDFQRIKTAAGASSVM 230
+ + +P+IA+G + + D + + AAGA SVM
Sbjct: 329 VMECSEVARKYDVPIIADGGIRYSGDIVKAL--AAGAESVM 367
>1me8_A Inosine-5'-monophosphate dehydrogenase; alpha beta barrel,
oxidoreductase; HET: RVP; 1.90A {Tritrichomonas foetus}
SCOP: c.1.5.1 PDB: 1ak5_A* 1me7_A* 1me9_A* 1meh_A*
1mei_A* 1mew_A* 1pvn_A* 1lrt_A*
Length = 503
Score = 27.1 bits (61), Expect = 9.4
Identities = 10/45 (22%), Positives = 18/45 (40%), Gaps = 3/45 (6%)
Query: 187 DPAKWGEIADIVAALSIPVIANGDV-FEYDDFQRIKTAAGASSVM 230
D + IPV ++G + ++Y + A GA +M
Sbjct: 337 DVVAERNKYFEETGIYIPVCSDGGIVYDYHMTLAL--AMGADFIM 379
>4fo4_A Inosine 5'-monophosphate dehydrogenase; structural genomics, IMPDH,
IMP, mycophenolic acid, MOA; HET: IMP MOA; 2.03A {Vibrio
cholerae o1 biovar el tor} PDB: 4ff0_A* 4fez_A
Length = 366
Score = 26.8 bits (60), Expect = 9.7
Identities = 19/41 (46%), Positives = 23/41 (56%), Gaps = 6/41 (14%)
Query: 194 IADIVAALS---IPVIANGDV-FEYDDFQRIKTAAGASSVM 230
IAD + IPVIA+G + F D + I AAGAS VM
Sbjct: 200 IADAAGVANEYGIPVIADGGIRFSGDISKAI--AAGASCVM 238
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
0.319 0.134 0.387
Gapped
Lambda K H
0.267 0.0848 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,127,011
Number of extensions: 317320
Number of successful extensions: 1054
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1023
Number of HSP's successfully gapped: 95
Length of query: 326
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 232
Effective length of database: 4,077,219
Effective search space: 945914808
Effective search space used: 945914808
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: 57 (25.5 bits)