RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 013813
(436 letters)
>1vhn_A Putative flavin oxidoreducatase; structural genomics, unknown
function; HET: FMN; 1.59A {Thermotoga maritima} SCOP:
c.1.4.1
Length = 318
Score = 190 bits (484), Expect = 3e-57
Identities = 74/320 (23%), Positives = 142/320 (44%), Gaps = 28/320 (8%)
Query: 103 PKLIVAPMVDNSELPFRMLCRRYGAEAAYTPMLHSR-IFTESEKYRNEEFATCKEDRPLF 161
K+ +APM ++ FR L +GA+ A++ M+ ++ S+K EE +R +
Sbjct: 5 VKVGLAPMAGYTDSAFRTLAFEWGADFAFSEMVSAKGFLMNSQK--TEELLPQPHERNVA 62
Query: 162 VQFCANDPEILLNAARRVEPYCDYVDINLGCP-QRIARRGNYGAFLMDNLPLVKSLVEKL 220
VQ ++P L AAR + ++D+N GCP +++ + G G L+ +L + +V +L
Sbjct: 63 VQIFGSEPNELSEAARILSEKYKWIDLNAGCPVRKVVKEGA-GGALLKDLRHFRYIVREL 121
Query: 221 ALNLNVPVSCKIRVFPNLQDTIKYAKMLEDAGCSLLAVHGRTRDEKDGKKFRADWNAIKA 280
+++ S K R+ + + ++L + G + +H RT RA+W A+
Sbjct: 122 RKSVSGKFSVKTRLGWEKNEVEEIYRILVEEGVDEVFIHTRTV--VQSFTGRAEWKALSV 179
Query: 281 VKNALRIPVLANGNVRHMEDVQKCLEETGCEGVLSAESLLENPALF----AGFRTAEWIV 336
++ RIP +G++ ED ++ LEE+GC+G+L A + P +F R+ ++
Sbjct: 180 LEK--RIPTFVSGDIFTPEDAKRALEESGCDGLLVARGAIGRPWIFKQIKDFLRSGKYSE 237
Query: 337 GSEEISKDGNLDQADLLVEYLKLCEKYPVPWRMIRSHVHKLLGEW-FRIQPG---VREDL 392
S E +LL++ E+ V +R + + G RE +
Sbjct: 238 PSREEILRTFERHLELLIKT--KGERKAV--VEMRKFLA-----GYTKDLKGARRFREKV 288
Query: 393 NAQNRLTFEFLYNLVDRLRE 412
+ L + +
Sbjct: 289 MKIE--EVQILKEMFYNFIK 306
>3b0p_A TRNA-dihydrouridine synthase; TIM barrel, oxidoreductase; HET: FMN;
1.70A {Thermus thermophilus} PDB: 3b0u_X* 3b0v_C*
Length = 350
Score = 84.6 bits (210), Expect = 3e-18
Identities = 53/173 (30%), Positives = 88/173 (50%), Gaps = 24/173 (13%)
Query: 103 PKLIVAPMVDNSELPFRMLCRRYGAEAA-YTPMLHSR--IFTESEK---YRNEEFATCKE 156
P+L VAPMVD ++ FR L R+ YT M + + E+ +R EE
Sbjct: 4 PRLSVAPMVDRTDRHFRFLVRQVSLGVRLYTEMTVDQAVLRGNRERLLAFRPEE------ 57
Query: 157 DRPLFVQFCANDPEILLNAARRVEPY-CDYVDINLGCPQRIARRGNYGAFLMDNLPLVKS 215
P+ +Q +DP+ L AAR E + D +++NLGCP A+ G YGA L+ +L V+
Sbjct: 58 -HPIALQLAGSDPKSLAEAARIGEAFGYDEINLNLGCPSEKAQEGGYGACLLLDLARVRE 116
Query: 216 LVEKLALNLNVPVSCKIRV-------FPNLQDTIKYAKMLEDAGCSLLAVHGR 261
+++ + + VPV+ K+R+ + L ++ + + +AG + VH R
Sbjct: 117 ILKAMGEAVRVPVTVKMRLGLEGKETYRGLAQSV---EAMAEAGVKVFVVHAR 166
>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 = 55.8 bits (134), Expect = 2e-08
Identities = 80/537 (14%), Positives = 156/537 (29%), Gaps = 179/537 (33%)
Query: 10 PLRVT--SLYPPLPTVKPTMAQTRTRTLHSDPSQDSDDLLCSDSNNHDNQQEQPEHEEPS 67
PL ++ SL L PT SQ + + + +EP+
Sbjct: 8 PLTLSHGSLEHVLLV--PT-------ASFFIASQLQEQFN---KILPEPTEGFAADDEPT 55
Query: 68 SLPETASSSLPSPRGYLSGEARAERAWAHWTKLGRPKL---------------IVAPMVD 112
+ E L GY+S + + ++ L + A ++
Sbjct: 56 TPAELVGKFL----GYVSSLVEPSKV-GQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQ 110
Query: 113 NSELPF---RMLCRRY--GAEAAYTPM-------L-------HSRIFT------ESEKY- 146
++ + L + Y A P L ++++ ++ Y
Sbjct: 111 ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYF 170
Query: 147 ---RN--EEFATCKEDRPLFVQFCANDPEILLNAARRVEP-YCDYVDINLGCPQRIARRG 200
R+ + + D ++F A L+ E + ++I
Sbjct: 171 EELRDLYQTYHVLVGD---LIKFSAETLSELIRTTLDAEKVFTQGLNI------------ 215
Query: 201 NYGAFLMDNLPLVKSLVEKLALNLNVPVSCK-IRVFPNLQDTIKYAKMLEDAGCS----- 254
+L + P + L ++P+SC I V +Q Y + G +
Sbjct: 216 --LEWLEN--PSNTPDKDYLL---SIPISCPLIGV---IQ-LAHYVVTAKLLGFTPGELR 264
Query: 255 --LLAVHGRTRD---------EKDGKKFRADWNAIKAVKNALRI--------PVLA---- 291
L G ++ + F + KA+ I P +
Sbjct: 265 SYLKGATGHSQGLVTAVAIAETDSWESFFV--SVRKAITVLFFIGVRCYEAYPNTSLPPS 322
Query: 292 -------NGN--------VRHM--EDVQKCLEETGCEGVLSAESLLENPALFAGFRTAEW 334
N + ++ E VQ + +T L A +E +L G +
Sbjct: 323 ILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSH--LPAGKQVE-ISLVNGAKNL-- 377
Query: 335 IV-GS-----------EEISKDGNLDQADLLVEYLKLCEKYPVPWR--MIRSHVH-KLLG 379
+V G + LDQ+ + + + K R + S H LL
Sbjct: 378 VVSGPPQSLYGLNLTLRKAKAPSGLDQSR--IPFSE--RKLKFSNRFLPVASPFHSHLLV 433
Query: 380 EWFRIQPGVREDLNAQNRLTFEFLYNLVDRLRELGVRIPLYK-KDADDAEILADDLA 435
+ +DL N F +++ +IP+Y D D +L+ ++
Sbjct: 434 P---ASDLINKDLVKNN---VSF------NAKDI--QIPVYDTFDGSDLRVLSGSIS 476
Score = 48.5 bits (115), Expect = 4e-06
Identities = 84/509 (16%), Positives = 134/509 (26%), Gaps = 233/509 (45%)
Query: 11 LR-VTSLYPPLPTVKPTMAQTRTRTLHSDPSQDSDDLLCSDSNNHDNQQEQPEH------ 63
LR + Y L V + + S + L + ++
Sbjct: 173 LRDLYQTYHVL--VGDLI-------------KFSAETLSELIRTTLDAEKVFTQGLNILE 217
Query: 64 --EEPSSLPET---ASS--SLP-------------------SP---RGYLSGE------- 87
E PS+ P+ S S P +P R YL G
Sbjct: 218 WLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGL 277
Query: 88 --ARA---ERAWAHWTKLGRPKLIV-----------APMVDNSELPFRML--CRRYGAEA 129
A A +W + R + V P N+ LP +L E
Sbjct: 278 VTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYP---NTSLPPSILEDSLENN-EG 333
Query: 130 AYTPMLH----SRIFTESE-KYRNEEFATCKEDRPLFVQFCANDPEILLNAARRVEPYCD 184
+PML ++ + N + + + L+N A+
Sbjct: 334 VPSPMLSISNLTQEQVQDYVNKTNSHLP---AGKQVEIS--------LVNGAKN------ 376
Query: 185 YVDINLGCPQRIARRGNYGAFLMDNLPLVKSLVEKLALNLNVPVSCKIRVFPNL-QDTIK 243
V ++ G P +SL LNL + K + L Q I
Sbjct: 377 LV---------VS--GP---------P--QSLY---GLNLTL---RKAKAPSGLDQSRIP 408
Query: 244 YAKMLEDAGCSLLAV----H----GRTRD--EKDGKKFRADWNAIKAVKNALRIPVLA-- 291
+++ L V H D KD K +NA ++IPV
Sbjct: 409 FSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNA-----KDIQIPVYDTF 463
Query: 292 NGNVRHMEDVQKCLEETGCEGVLSAESLLENPALFAGFRTAEWIVGSEEISKDGNLDQAD 351
+G D++ + S+ E R + I+
Sbjct: 464 DG-----SDLRVL-----------SGSISE--------RIVDCII--------------- 484
Query: 352 LLVEYLKLCEKYPVPW----RMIRSHVHKL-LGEWFRIQPGVREDLNAQNRLTFEFLYNL 406
+ PV W + +H+ L G PG L L
Sbjct: 485 ----------RLPVKWETTTQFKATHI--LDFG------PGGASGLG-----------VL 515
Query: 407 VDRLRE-LGVRIPLYKKDADDAEILADDL 434
R ++ GVR+ I+A L
Sbjct: 516 THRNKDGTGVRV-----------IVAGTL 533
Score = 28.1 bits (62), Expect = 7.2
Identities = 30/166 (18%), Positives = 56/166 (33%), Gaps = 57/166 (34%)
Query: 175 AARRVEPYCDYVDINLGCPQRIARRGNYGAFLMDNLPLVKSLVEKLALNLNVPVSCKIRV 234
AA+ V + D + + YG ++D +V + L ++ +IR
Sbjct: 1641 AAQDV---WNRADNHF--------KDTYGFSILD---IVINNPVNLTIHFGGEKGKRIRE 1686
Query: 235 FPNLQDTIKYAKMLEDAGCSLLAVHGRTRDEKDGKK---------FRADWNAIKAVKN-- 283
Y+ M+ + G+ + EK K+ FR++ + A +
Sbjct: 1687 --------NYSAMIFETIVD-----GKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQ 1733
Query: 284 -ALRIPVLANGNVRHMEDVQKCLEETGCEGVLSAESLLENPALFAG 328
AL ++K E L ++ L+ A FAG
Sbjct: 1734 PAL----TL---------MEKAAFE-----DLKSKGLIPADATFAG 1761
>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 = 46.8 bits (112), Expect = 5e-06
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 240 DTIKYAKMLEDAGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLANGNVRHME 299
D + L GC+ V T KDG + +K V A PV+A+G V ++
Sbjct: 147 DLYETLDRLNKEGCARYVV---TDIAKDGTLQGPNLELLKNVCAATDRPVVASGGVSSLD 203
Query: 300 DVQKC--LEETGCEGVLSAESLLEN 322
D++ L G EG + ++L
Sbjct: 204 DLRAIAGLVPAGVEGAIVGKALYAK 228
Score = 31.8 bits (73), Expect = 0.37
Identities = 23/103 (22%), Positives = 31/103 (30%), Gaps = 18/103 (17%)
Query: 275 WNAIKAVKNALRIPVLANGNVRHMEDVQKCLEETGCEGVLSAESLLENPALFAGFRTAEW 334
I V A+ I V +G +R + + L TGC V + LE P A+
Sbjct: 64 RALIAEVAQAMDIKVELSGGIRDDDTLAAAL-ATGCTRVNLGTAALETPEWV-----AKV 117
Query: 335 --------IVG----SEEISKDGNLDQADLLVEYLKLCEKYPV 365
VG + G L E L K
Sbjct: 118 IAEHGDKIAVGLDVRGTTLRGRGWTRDGGDLYETLDRLNKEGC 160
>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 = 46.0 bits (110), Expect = 7e-06
Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 5/85 (5%)
Query: 240 DTIKYAKMLEDAGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLANGNVRHME 299
D + L+ GCS V T KDG + + + V + PV+A+G V ++
Sbjct: 150 DLWDVLERLDSEGCSRFVV---TDITKDGTLGGPNLDLLAGVADRTDAPVIASGGVSSLD 206
Query: 300 DVQKC--LEETGCEGVLSAESLLEN 322
D++ L G EG + ++L
Sbjct: 207 DLRAIATLTHRGVEGAIVGKALYAR 231
Score = 29.5 bits (67), Expect = 1.9
Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 275 WNAIKAVKNALRIPVLANGNVRHMEDVQKCLEETGCEGVLSAESLLENPALFA 327
+ V L + V +G +R E + L TGC V + LENP A
Sbjct: 63 HELLAEVVGKLDVQVELSGGIRDDESLAAAL-ATGCARVNVGTAALENPQWCA 114
>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 = 45.7 bits (108), Expect = 8e-06
Identities = 16/76 (21%), Positives = 32/76 (42%), Gaps = 3/76 (3%)
Query: 240 DTIKYAKMLEDAGCSLLAV--HGRTRDEKDGKKFRADWNAIKAVKNALRIPVLANGNVRH 297
T++ AK G + HG T + ++ D+ +K V ++ V+A GNV
Sbjct: 127 ATVEEAKNAARLGFDYIGTTLHGYTSYTQGQLLYQNDFQFLKDVLQSVDAKVIAEGNVIT 186
Query: 298 MEDVQKCLEETGCEGV 313
+ ++ + + G
Sbjct: 187 PDMYKRVM-DLGVHCS 201
>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 = 42.2 bits (100), Expect = 2e-04
Identities = 19/89 (21%), Positives = 33/89 (37%), Gaps = 8/89 (8%)
Query: 239 QDTIKYAKMLEDAGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLANGNVRHM 298
D + K L++ G + T EKDG D++ K + + VLA G +
Sbjct: 144 IDPVSLLKRLKEYGLEEIVH---TEIEKDGTLQEHDFSLTKKIAIEAEVKVLAAGGISSE 200
Query: 299 EDVQK-----CLEETGCEGVLSAESLLEN 322
++ +GV+ + LE
Sbjct: 201 NSLKTAQKVHTETNGLLKGVIVGRAFLEG 229
>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 = 41.7 bits (98), Expect = 3e-04
Identities = 36/231 (15%), Positives = 76/231 (32%), Gaps = 35/231 (15%)
Query: 98 TKLGRPKLIVAPMVDNSELPFRMLCRR--YGAEAAYTPM----LHSRIFTESEKYRNEEF 151
P + + M + + A A P+ S + SE+ E
Sbjct: 52 LSSSSP-IFINAMTGGGGKLTYEINKSLARAASQAGIPLAVGSQMSALKDPSERLSYEIV 110
Query: 152 ATCKEDRPLFVQFCANDP-EILLNAARRVEPYCDYVDINLGCPQRIARRGNYGAFLMDNL 210
+ +F + A + + + I+L Q I +F
Sbjct: 111 RKENPNGLIFANLGSEATAAQAKEAVEMIG--ANALQIHLNVIQEIVMPEGDRSF----- 163
Query: 211 PLVKSLVEKLALNLNVPVSCKIRVFPNLQDTIKYAKMLEDAGCSLLAV--HGRT------ 262
+E++ ++VPV K F + + A L +AG + + + +G T
Sbjct: 164 SGALKRIEQICSRVSVPVIVKEVGFGMSKAS---AGKLYEAGAAAVDIGGYGGTNFSKIE 220
Query: 263 --RDEKDGKKFRADW-----NAIKAVKNAL-RIPVLANGNVRHMEDVQKCL 305
R ++ F W ++ +++ ++A+G ++ DV K +
Sbjct: 221 NLRRQRQISFFN-SWGISTAASLAEIRSEFPASTMIASGGLQDALDVAKAI 270
>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 = 41.0 bits (97), Expect = 5e-04
Identities = 37/181 (20%), Positives = 67/181 (37%), Gaps = 29/181 (16%)
Query: 144 EKYRNEEFATCKE---DRPLFVQFCANDPEILLNAARRV--EPYCDYVDINLGCPQRIAR 198
E E+ E + P+ ++ + ++ +++N+ CP +
Sbjct: 82 EVIMTEKLPWLNENFPELPIIANVAGSEEADYVAVCAKIGDAANVKAIELNISCPN--VK 139
Query: 199 RGNYGAFLMDNLPLVKSLVEKLALNLNVPVSCKIRVFPNLQDTIKYAKMLEDAGCSLLA- 257
G G + + +LV+ VP+ K+ PN+ D + AK +E AG L
Sbjct: 140 HG--GQAFGTDPEVAAALVKACKAVSKVPLYVKLS--PNVTDIVPIAKAVEAAGADGLTM 195
Query: 258 ---VHGRTRDEKDGKKFRAD------WNAIK--------AVKNALRIPVLANGNVRHMED 300
+ G D K + A+ AIK V + IP++ G V + +D
Sbjct: 196 INTLMGVRFDLKTRQPILANITGGLSGPAIKPVALKLIHQVAQDVDIPIIGMGGVANAQD 255
Query: 301 V 301
V
Sbjct: 256 V 256
>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 = 40.8 bits (96), Expect = 9e-04
Identities = 12/93 (12%), Positives = 33/93 (35%), Gaps = 5/93 (5%)
Query: 238 LQDTIKYAKMLEDAGCSLLAVHGRTRDEKD---GKKFRADWNA--IKAVKNALRIPVLAN 292
+T++ A+ +E AG +++ + + + + +K + +P++
Sbjct: 227 FAETVELAQAIEAAGATIINTGIGWHEARIPTIATPVPRGAFSWVTRKLKGHVSLPLVTT 286
Query: 293 GNVRHMEDVQKCLEETGCEGVLSAESLLENPAL 325
+ + L + V A L + L
Sbjct: 287 NRINDPQVADDILSRGDADMVSMARPFLADAEL 319
>2zbt_A Pyridoxal biosynthesis lyase PDXS; pyridoxine biosynthesis,
structural genomics, NPPSFA; 1.65A {Thermus
thermophilus} PDB: 2iss_A*
Length = 297
Score = 40.1 bits (93), Expect = 9e-04
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 4/82 (4%)
Query: 241 TIKYAKMLEDAG-CSLLAVHGRTRD-EKDGKKFR-ADWNAIKAVKNALRIPVLANGNVRH 297
T + A + E+AG +++A+ D G R +D IK + A+ IPV+A + H
Sbjct: 30 TPEQAVIAEEAGAVAVMALERVPADIRAQGGVARMSDPKIIKEIMAAVSIPVMAKVRIGH 89
Query: 298 MEDVQKCLEETGCEGVLSAESL 319
+ LE G + + +E L
Sbjct: 90 FVEAM-ILEAIGVDFIDESEVL 110
>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 = 40.2 bits (93), Expect = 0.001
Identities = 60/375 (16%), Positives = 116/375 (30%), Gaps = 125/375 (33%)
Query: 63 HEEPSSLPETASSSLPSPRGYLSGEARAERA-WAHWTKLGRPKLIVAPMVDNSELPFRML 121
P LP ++ P ++ R A W +W + KL ++++S +L
Sbjct: 312 DCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL--TTIIESS---LNVL 366
Query: 122 CRRYGAEAAYTPMLHSRIFTESEKYRNEEFATCKEDRPLFVQFCANDPEILLNAARRVEP 181
P + ++F + + A+ P ILL+ +
Sbjct: 367 ----------EPAEYRKMF--------DRLSVFPPS--------AHIPTILLS---LIWF 397
Query: 182 YCDYVDINLGCPQRIARRGNYGAFLMDNLPLVKSLVEKLALNLNVPVSCKIRVFPNLQDT 241
D + ++ L SLVEK P I + P++
Sbjct: 398 DVIKSD-----VMVV----------VNKL-HKYSLVEKQ------PKESTISI-PSIYLE 434
Query: 242 IKYAKMLEDAGCSLLAVHGRTRDEKDGKKFRADWNAIKAV-KNALRIPVLAN------GN 294
+K K+ + A+H + +N K + L P L G
Sbjct: 435 LK-VKLENEY-----ALH---------RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG- 478
Query: 295 VRHMEDVQKCLEETGCEGVLSAESLLENPALFAGFRTAEWIVGSEEISKDGNLDQA---- 350
H+++++ E + +F FR ++ ++I D A
Sbjct: 479 -HHLKNIEH------------PERMTLFRMVFLDFR---FL--EQKIRHDSTAWNASGSI 520
Query: 351 -DLLVE---YLK-LCEKYPVPWRMIRSHVHKLLGEWFRIQPG-----------VREDLNA 394
+ L + Y +C+ P R++ + + F + +R L A
Sbjct: 521 LNTLQQLKFYKPYICDNDPKYERLVNAILD------FLPKIEENLICSKYTDLLRIALMA 574
Query: 395 QNRLTFEFLYNLVDR 409
++ FE + V R
Sbjct: 575 EDEAIFEEAHKQVQR 589
>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 = 38.5 bits (89), Expect = 0.002
Identities = 10/75 (13%), Positives = 17/75 (22%), Gaps = 3/75 (4%)
Query: 240 DTIKYAKMLEDAGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLANGNVRHME 299
T+ G + D + + +A V+A G
Sbjct: 137 STVNEGISCHQKGIEFIGTTLSGYTG-PITPVEPDLAMVTQLSHA-GCRVIAEGRYNTPA 194
Query: 300 DVQKCLEETGCEGVL 314
+ E G V
Sbjct: 195 LAANAI-EHGAWAVT 208
>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 = 38.6 bits (91), Expect = 0.002
Identities = 23/88 (26%), Positives = 38/88 (43%), Gaps = 8/88 (9%)
Query: 240 DTIKYAKMLED--AGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLANGNVRH 297
+ +E AG LL T ++DG K D I+ V+ +P++A+G
Sbjct: 157 LLRDWVVEVEKRGAGEILL-----TSIDRDGTKSGYDTEMIRFVRPLTTLPIIASGGAGK 211
Query: 298 MEDVQKCLEETGCEGVLSAESLLENPAL 325
ME + G + V + +ENP+L
Sbjct: 212 MEHFLEAFLR-GADKVSINTAAVENPSL 238
>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 = 39.4 bits (92), Expect = 0.002
Identities = 21/79 (26%), Positives = 34/79 (43%), Gaps = 7/79 (8%)
Query: 240 DTIKYAKMLED--AGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLANGNVRH 297
+ + E AG LL +KDG D I+ VK+A++IPV+A+
Sbjct: 453 GVWELTRACEALGAGEILL-----NCIDKDGSNSGYDLELIEHVKDAVKIPVIASSGAGV 507
Query: 298 MEDVQKCLEETGCEGVLSA 316
E ++ +T + L A
Sbjct: 508 PEHFEEAFLKTRADACLGA 526
>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 = 38.5 bits (89), Expect = 0.002
Identities = 10/75 (13%), Positives = 21/75 (28%), Gaps = 3/75 (4%)
Query: 240 DTIKYAKMLEDAGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLANGNVRHME 299
++ + G ++ D +KA+ +A V+A G
Sbjct: 137 SSVDDGLACQRLGADIIGTTMSGYTT-PDTPEEPDLPLVKALHDA-GCRVIAEGRYNSPA 194
Query: 300 DVQKCLEETGCEGVL 314
+ + G V
Sbjct: 195 LAAEAI-RYGAWAVT 208
>3vkj_A Isopentenyl-diphosphate delta-isomerase; type 2 isopentenyl
diphosphate isomerase; HET: FNR; 1.70A {Sulfolobus
shibatae} PDB: 2zrv_A* 2zrw_A* 2zrx_A* 2zry_A* 2zrz_A*
3b03_A* 3b04_A* 3b05_A* 3b06_A* 2zru_A*
Length = 368
Score = 38.7 bits (90), Expect = 0.003
Identities = 43/251 (17%), Positives = 86/251 (34%), Gaps = 45/251 (17%)
Query: 105 LIVAPM---VDNSELPFRMLCRRYGAEAAYTPM-LHS-RIFTESEKYRNEEFATCKE--- 156
++V M + +++ AE PM + S R+ E + R E FA ++
Sbjct: 62 VMVTGMTGGRNELGRINKIIAE--VAEKFGIPMGVGSQRVAIEKAEAR-ESFAIVRKVAP 118
Query: 157 DRPLFVQFCANDP--EILLNAARRV--EPYCDYVDINLGCPQRIARRGNYGAFLMDNLPL 212
P+ L + D + ++L Q + + + + L
Sbjct: 119 TIPIIANLGMPQLVKGYGLKEFQDAIQMIEADAIAVHLNPAQEVFQPEGEPEYQIYALEK 178
Query: 213 VKSLVEKLALNLNVPVSCKIRVFPNLQDTIKYAKMLEDAGCSLLAV--HGRT-------- 262
++ + + L+VP+ K +++ AK+L G G T
Sbjct: 179 LRDISK----ELSVPIIVKESGNGI---SMETAKLLYSYGIKNFDTSGQGGTNWIAIEMI 231
Query: 263 RDEKDGKKFR------ADW-----NAIKAVKNALR-IPVLANGNVRHMEDVQKCLEETGC 310
RD + G DW +I V+ ++ ++ +G +R D K + G
Sbjct: 232 RDIRRGNWKAESAKNFLDWGVPTAASIMEVRYSVPDSFLVGSGGIRSGLDAAKAI-ALGA 290
Query: 311 EGVLSAESLLE 321
+ A +L+
Sbjct: 291 DIAGMALPVLK 301
>3o07_A Pyridoxine biosynthesis protein SNZ1; (beta/alpha)8-barrel,
pyridoxal 5-phosphate synthase, PLP G3 SNO1,
biosynthetic protein; HET: 1GP; 1.80A {Saccharomyces
cerevisiae} PDB: 3o06_A 3o05_A* 3fem_A
Length = 291
Score = 38.6 bits (89), Expect = 0.003
Identities = 27/92 (29%), Positives = 46/92 (50%), Gaps = 6/92 (6%)
Query: 241 TIKYAKMLEDAG-CSLLAVHGRTRD-EKDGKKFR-ADWNAIKAVKNALRIPVLANGNVRH 297
T + AK+ E +G C+++A+ D K GK R +D IK + N++ IPV+A + H
Sbjct: 20 TPEQAKIAEKSGACAVMALESIPADMRKSGKVCRMSDPKMIKDIMNSVSIPVMAKVRIGH 79
Query: 298 MEDVQKCLEETGCEGVLSAESLLENPALFAGF 329
+ Q +E + + ES + PA +
Sbjct: 80 FVEAQ-IIEALEVDYI--DESEVLTPADWTHH 108
>3gr7_A NADPH dehydrogenase; flavin, FMN, beta-alpha-barrel,
oxidoreductase, flavoprotein; HET: FMN; 2.30A
{Geobacillus kaustophilus} PDB: 3gr8_A*
Length = 340
Score = 38.7 bits (91), Expect = 0.003
Identities = 18/92 (19%), Positives = 36/92 (39%), Gaps = 5/92 (5%)
Query: 237 NLQDTIKYAKMLEDAGCSLLAVH--GRTRDEKD-GKKFRADWNAIKAVKNALRIPVLANG 293
+D + YAK +++ G L+ V + ++ + A + ++ IP A G
Sbjct: 227 TAKDYVPYAKRMKEQGVDLVDVSSGAIVPARMNVYPGYQVPF-A-ELIRREADIPTGAVG 284
Query: 294 NVRHMEDVQKCLEETGCEGVLSAESLLENPAL 325
+ ++ L+ + V LL NP
Sbjct: 285 LITSGWQAEEILQNGRADLVFLGRELLRNPYW 316
>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 = 38.3 bits (90), Expect = 0.003
Identities = 13/92 (14%), Positives = 36/92 (39%), Gaps = 5/92 (5%)
Query: 237 NLQDTIKYAKMLEDAGCSLLAVH--GRTRDEKD-GKKFRADWNAIKAVKNALRIPVLANG 293
++ D I +AK +++ G L+ + + ++ + A + ++ + A G
Sbjct: 227 DIADHIGFAKWMKEQGVDLIDCSSGALVHADINVFPGYQVSF-A-EKIREQADMATGAVG 284
Query: 294 NVRHMEDVQKCLEETGCEGVLSAESLLENPAL 325
+ ++ L+ + + LL +P
Sbjct: 285 MITDGSMAEEILQNGRADLIFIGRELLRDPFF 316
>3hgj_A Chromate reductase; TIM barrel, oxidoreductase; HET: FMN; 2.00A
{Thermus scotoductus} PDB: 3hf3_A*
Length = 349
Score = 37.9 bits (89), Expect = 0.005
Identities = 22/93 (23%), Positives = 40/93 (43%), Gaps = 6/93 (6%)
Query: 237 NLQDTIKYAKMLEDAGCSLLAVH--GRTRDEK--DGKKFRADWNAIKAVKNALRIPVLAN 292
+L+DT+ +A+ L++ G LL G + F+ + A AV+ + + A
Sbjct: 237 SLEDTLAFARRLKELGVDLLDCSSGGVVLRVRIPLAPGFQVPF-A-DAVRKRVGLRTGAV 294
Query: 293 GNVRHMEDVQKCLEETGCEGVLSAESLLENPAL 325
G + E + L+ + VL LL +P
Sbjct: 295 GLITTPEQAETLLQAGSADLVLLGRVLLRDPYF 327
>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 = 37.5 bits (88), Expect = 0.006
Identities = 18/93 (19%), Positives = 36/93 (38%), Gaps = 6/93 (6%)
Query: 237 NLQDTIKYAKMLEDAGCSLLAVH--GRTRDEK--DGKKFRADWNAIKAVKNALRIPVLAN 292
L+++I+ A+ + G LL+V D G F A + V+ ++PV +
Sbjct: 244 TLEESIELARRFKAGGLDLLSVSVGFTIPDTNIPWGPAFMGPI-A-ERVRREAKLPVTSA 301
Query: 293 GNVRHMEDVQKCLEETGCEGVLSAESLLENPAL 325
+ + L+ + V + L +P
Sbjct: 302 WGFGTPQLAEAALQANQLDLVSVGRAHLADPHW 334
>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 = 36.8 bits (86), Expect = 0.010
Identities = 24/166 (14%), Positives = 51/166 (30%), Gaps = 41/166 (24%)
Query: 144 EKYRNEEFATCKE---DRPLFVQFCANDPEILLNAARRVE--PYCDYVDINLGCPQRIAR 198
+ Y + KE + P+F + ++++ + ++NL CP
Sbjct: 77 DYYLDYVLKNQKENAQEGPIFFSIAGMSAAENIAMLKKIQESDFSGITELNLSCP----- 131
Query: 199 RGN---YGAFLMDNLPLVKSLVEKLALNLNVPVSCKIRVFPNLQDTIKYAKMLEDAGCSL 255
N D + L++++ P+ K+ P D + + M E
Sbjct: 132 --NVPGEPQLAYD-FEATEKLLKEVFTFFTKPLGVKLP--PYF-DLVHFDIMAEILNQFP 185
Query: 256 LAVHGRTRDEKDGKKFRADWNAIKAVKNALRI------PVLANGNV 295
L N++ ++ N L I V+ +
Sbjct: 186 LTY----------------VNSVNSIGNGLFIDPEAESVVIKPKDG 215
>2nv1_A Pyridoxal biosynthesis lyase PDXS; (beta/alpha)8-barrel, synthase;
2.08A {Bacillus subtilis} PDB: 2nv2_A* 1znn_A
Length = 305
Score = 35.9 bits (82), Expect = 0.017
Identities = 26/92 (28%), Positives = 44/92 (47%), Gaps = 6/92 (6%)
Query: 241 TIKYAKMLEDAG-CSLLAVHGRTRD-EKDGKKFR-ADWNAIKAVKNALRIPVLANGNVRH 297
+ AK+ E+AG +++A+ D G R AD ++ V NA+ IPV+A + H
Sbjct: 30 NAEQAKIAEEAGAVAVMALERVPADIRAAGGVARMADPTIVEEVMNAVSIPVMAKARIGH 89
Query: 298 MEDVQKCLEETGCEGVLSAESLLENPALFAGF 329
+ + + LE G + + ES + PA
Sbjct: 90 IVEAR-VLEAMGVDYI--DESEVLTPADEEFH 118
>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 = 35.3 bits (81), Expect = 0.022
Identities = 17/76 (22%), Positives = 28/76 (36%), Gaps = 6/76 (7%)
Query: 240 DTIKYAKMLEDAGCSLLAV--HGRTRDEKDGKKFRADWNAIKAVKNALRIPVLANGNVRH 297
T + AG + G T + D I+A+ A I V+A G +
Sbjct: 141 STFDEGLVAHQAGIDFVGTTLSGYTPYSRQEAG--PDVALIEALCKA-GIAVIAEGKIHS 197
Query: 298 MEDVQKCLEETGCEGV 313
E+ +K + G G+
Sbjct: 198 PEEAKKIN-DLGVAGI 212
>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 = 34.4 bits (80), Expect = 0.043
Identities = 19/82 (23%), Positives = 33/82 (40%), Gaps = 14/82 (17%)
Query: 240 DTIKYAKMLED--AGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLAN---GN 294
+ +E AG LL T ++DG K D I+ V+ +P++A+ G
Sbjct: 131 LLRDWVVEVEKRGAGEILL-----TSIDRDGTKSGYDTEMIRFVRPLTTLPIIASGGAGK 185
Query: 295 VRHMEDVQKCLEETGCEGVLSA 316
+ H + G + L+A
Sbjct: 186 MEHFLEAFL----AGADAALAA 203
>1h5y_A HISF; histidine biosynthesis, TIM-barrel; 2.0A {Pyrobaculum
aerophilum} SCOP: c.1.2.1
Length = 253
Score = 34.4 bits (80), Expect = 0.048
Identities = 27/82 (32%), Positives = 42/82 (51%), Gaps = 14/82 (17%)
Query: 240 DTIKYAKMLED--AGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLANG---N 294
D +K+AK +E+ AG LL T ++DG D I+ V +++RIPV+A+G
Sbjct: 155 DAVKWAKEVEELGAGEILL-----TSIDRDGTGLGYDVELIRRVADSVRIPVIASGGAGR 209
Query: 295 VRHMEDVQKCLEETGCEGVLSA 316
V H + G + VL+A
Sbjct: 210 VEHFYEAAA----AGADAVLAA 227
>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 = 34.0 bits (79), Expect = 0.059
Identities = 19/82 (23%), Positives = 33/82 (40%), Gaps = 14/82 (17%)
Query: 240 DTIKYAKMLED--AGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLANG---N 294
+ +E AG LL T ++DG K D I+ V+ +P++A+G
Sbjct: 152 LLRDWVVEVEKRGAGEILL-----TSIDRDGTKSGYDTEMIRFVRPLTTLPIIASGGAGK 206
Query: 295 VRHMEDVQKCLEETGCEGVLSA 316
+ H + G + L+A
Sbjct: 207 MEHFLEAFL----AGADAALAA 224
>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 = 34.0 bits (79), Expect = 0.065
Identities = 21/82 (25%), Positives = 36/82 (43%), Gaps = 14/82 (17%)
Query: 240 DTIKYAKMLED--AGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLANG---N 294
+++A + AG LL T ++DG K D + V A+ +PV+A+G
Sbjct: 153 HAVEWAVKGVELGAGEILL-----TSMDRDGTKEGYDLRLTRMVAEAVGVPVIASGGAGR 207
Query: 295 VRHMEDVQKCLEETGCEGVLSA 316
+ H + + G E L+A
Sbjct: 208 MEHFLEAFQ----AGAEAALAA 225
>2w6r_A Imidazole glycerol phosphate synthase subunit HISF; lyase, fusion
protein, cobalamin, precorrin, novel fold, VIT; 2.10A
{Thermotoga maritima}
Length = 266
Score = 33.7 bits (78), Expect = 0.086
Identities = 19/82 (23%), Positives = 33/82 (40%), Gaps = 14/82 (17%)
Query: 240 DTIKYAKMLED--AGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLAN---GN 294
+ +E AG LL T ++DG K D I+ V+ +P++A+ G
Sbjct: 157 LLRDWVVEVEKRGAGEILL-----TSIDRDGTKSGYDTEMIRFVRPLTTLPIIASGGAGK 211
Query: 295 VRHMEDVQKCLEETGCEGVLSA 316
+ H + G + L+A
Sbjct: 212 MEHFLEAFL----AGADAALAA 229
>3jva_A Dipeptide epimerase; enolase superfamily, isomerase; 1.70A
{Enterococcus faecalis V583} PDB: 3jw7_A* 3jzu_A*
3k1g_A* 3kum_A*
Length = 354
Score = 33.8 bits (78), Expect = 0.099
Identities = 15/96 (15%), Positives = 35/96 (36%), Gaps = 22/96 (22%)
Query: 226 VPVSCKIRVFPN----LQDTIKYAKMLEDAGCSL----LAVHGRTRDEKDGKKFRADWNA 277
V K+R+ N +D +K + L D L + R D
Sbjct: 180 VGFDIKLRLDANQAWTPKDAVKAIQALADYQIELVEQPVK--------------RRDLEG 225
Query: 278 IKAVKNALRIPVLANGNVRHMEDVQKCLEETGCEGV 313
+K V + + ++A+ + +D + +++ + +
Sbjct: 226 LKYVTSQVNTTIMADESCFDAQDALELVKKGTVDVI 261
>2hjp_A Phosphonopyruvate hydrolase; phosporus-Ca cleavage, PEP
mutase/isocitrate lyase superfamily; HET: XYS PPR; 1.90A
{Variovorax SP} PDB: 2dua_A* 2hrw_A
Length = 290
Score = 33.4 bits (77), Expect = 0.10
Identities = 9/55 (16%), Positives = 22/55 (40%), Gaps = 8/55 (14%)
Query: 238 LQDTIKYAKMLEDAGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLAN 292
Q+ ++ + E+AG + +H R + + F W ++P++
Sbjct: 165 QQEAVRRGQAYEEAGADAILIHSRQKTPDEILAFVKSWPG--------KVPLVLV 211
>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 = 33.3 bits (77), Expect = 0.12
Identities = 18/90 (20%), Positives = 34/90 (37%), Gaps = 6/90 (6%)
Query: 237 NLQDTIKYAKMLEDAGCSLLAV-HGRTRDEK--DGKKFRADWNAIKAVKNALRIPVLANG 293
N+ ++Y M++ L+ V G + ++ + A + +K I A G
Sbjct: 228 NIDMMVEYINMIK-DKVDLIDVSSGGLLNVDINLYPGYQVKY-A-ETIKKRCNIKTSAVG 284
Query: 294 NVRHMEDVQKCLEETGCEGVLSAESLLENP 323
+ E ++ L + V LL NP
Sbjct: 285 LITTQELAEEILSNERADLVALGRELLRNP 314
>3l5a_A NADH/flavin oxidoreductase/NADH oxidase; OLD yellow enzyme family,
OYE-like FMN-binding domain, TIM B oxidoreductase; HET:
PGE; 1.65A {Staphylococcus aureus}
Length = 419
Score = 33.4 bits (77), Expect = 0.15
Identities = 12/78 (15%), Positives = 25/78 (32%), Gaps = 7/78 (8%)
Query: 237 NLQDTIKYAKMLEDA-GCSLLAV----HGRTRDEKDGKKFRADWNAIKAVKNAL--RIPV 289
+ + + + D LA+ ++ + V L RIP+
Sbjct: 262 TIDEFNQLIDWVMDVSNIQYLAIASWGRHIYQNTSRTPGDHFGRPVNQIVYEHLAGRIPL 321
Query: 290 LANGNVRHMEDVQKCLEE 307
+A+G + E L+
Sbjct: 322 IASGGINSPESALDALQH 339
>1i1q_B Anthranilate synthase component II; tryptophan biosynthesis, lyase;
HET: TRP; 1.90A {Salmonella typhimurium} SCOP: c.23.16.1
PDB: 1i7q_B 1i7s_B*
Length = 192
Score = 32.0 bits (74), Expect = 0.21
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 402 FLYNLVDRLRELGVRIPLYKKDADDAEILADDLAS 436
F +NL D+LR G + +Y+ A+ L D LA+
Sbjct: 12 FTWNLADQLRTNGHNVVIYRNHI-PAQTLIDRLAT 45
>1vcf_A Isopentenyl-diphosphate delta-isomerase; TIM barrel, structural
genomics, riken structural genomics/P initiative, RSGI;
HET: FMN; 2.60A {Thermus thermophilus} SCOP: c.1.4.1
PDB: 1vcg_A* 3dh7_A*
Length = 332
Score = 32.6 bits (74), Expect = 0.25
Identities = 21/94 (22%), Positives = 32/94 (34%), Gaps = 18/94 (19%)
Query: 245 AKMLEDAGCSLLAV--HG---------RTRDEKDGKKFRADWN-----AIKAVKNAL-RI 287
A L D + + V G R + + AI V+ L +
Sbjct: 198 ALALRDLPLAAVDVAGAGGTSWARVEEWVRFGEVRHPELCEIGIPTARAILEVREVLPHL 257
Query: 288 PVLANGNVRHMEDVQKCLEETGCEGVLSAESLLE 321
P++A+G V D K L G + + A LL
Sbjct: 258 PLVASGGVYTGTDGAKAL-ALGADLLAVARPLLR 290
>3q45_A Mandelate racemase/muconate lactonizing enzyme FA possible
chloromuconate cycloisomerase...; (beta/alpha)8-barrel;
3.00A {Cytophaga hutchinsonii} PDB: 3q4d_A
Length = 368
Score = 32.6 bits (75), Expect = 0.25
Identities = 15/96 (15%), Positives = 37/96 (38%), Gaps = 22/96 (22%)
Query: 226 VPVSCKIRVFPN----LQDTIKYAKMLEDAGCSL----LAVHGRTRDEKDGKKFRADWNA 277
S +R+ N ++ I+ +LE ++ R + A
Sbjct: 181 AGDSITLRIDANQGWSVETAIETLTLLEPYNIQHCEEPVS--------------RNLYTA 226
Query: 278 IKAVKNALRIPVLANGNVRHMEDVQKCLEETGCEGV 313
+ ++ A RIP++A+ + + D ++ ++ C+
Sbjct: 227 LPKIRQACRIPIMADESCCNSFDAERLIQIQACDSF 262
>3sr7_A Isopentenyl-diphosphate delta-isomerase; isopentenyl pyrophosphate
isomerase, TIM-barrel; 2.04A {Streptococcus mutans}
Length = 365
Score = 32.1 bits (73), Expect = 0.32
Identities = 29/179 (16%), Positives = 58/179 (32%), Gaps = 28/179 (15%)
Query: 145 KYRNEEFATCKEDRP-LFVQFCANDPEILLNAARRVEP-YCDYVDINLGCPQRIARRGNY 202
K ++ K+ RP L + + + V ++ +++ Q +
Sbjct: 129 KNPDDTSYQVKKSRPHLLLATNIGLDKPYQAGLQAVRDLQPLFLQVHINLMQELLMPEGE 188
Query: 203 GAFLMDNLPLVKSLVEKLALNLNVPVSCKIRVFPNLQDTIKYAKMLEDAGCS--LLAVHG 260
F K + A L +P K F +K + D G ++ G
Sbjct: 189 REFRS-----WKKHLSDYAKKLQLPFILKEVGFG---MDVKTIQTAIDLGVKTVDISGRG 240
Query: 261 RT--------RDEKDGKKFRADW-----NAIKAVKNAL-RIPVLANGNVRHMEDVQKCL 305
T R + + W + + + ++ +LA+G +RH D+ K L
Sbjct: 241 GTSFAYIENRRGGN--RSYLNQWGQTTAQVLLNAQPLMDKVEILASGGIRHPLDIIKAL 297
>3k30_A Histamine dehydrogenase; 6-S-cysteinyl-FMN, ADP binding site,
oxidoreductase; HET: FMN ADP; 2.70A {Pimelobacter
simplex}
Length = 690
Score = 31.9 bits (73), Expect = 0.49
Identities = 9/77 (11%), Positives = 25/77 (32%), Gaps = 11/77 (14%)
Query: 238 LQDTIKYAKMLEDAGCSLLAVHGR-------TRDEKDGKKFRADWNAIKAVKNALRIPVL 290
+D + L + G +R +G + ++ + +K PV+
Sbjct: 243 REDIEGVLRELGELPDLWDFAMGSWEGDSVTSRFAPEG--RQEEF--VAGLKKLTTKPVV 298
Query: 291 ANGNVRHMEDVQKCLEE 307
G + + + ++
Sbjct: 299 GVGRFTSPDAMVRQIKA 315
>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 = 30.7 bits (68), Expect = 0.57
Identities = 8/38 (21%), Positives = 15/38 (39%), Gaps = 16/38 (42%)
Query: 265 EKDGKKFRADWNAIKAVKNALRI------PVLA-NGNV 295
EK A+K ++ +L++ P LA +
Sbjct: 18 EK---------QALKKLQASLKLYADDSAPALAIKATM 46
Score = 27.6 bits (60), Expect = 5.5
Identities = 10/23 (43%), Positives = 13/23 (56%), Gaps = 4/23 (17%)
Query: 410 LRELGVRIPLYKKDADD-AEILA 431
L++L + LY ADD A LA
Sbjct: 22 LKKLQASLKLY---ADDSAPALA 41
>2zad_A Muconate cycloisomerase; muconate lactonizing enzyme (MLE), TM0006,
struct genomics, NPPSFA; HET: 1PE; 1.60A {Thermotoga
maritima} PDB: 3deq_A 3der_A* 3des_A* 3dfy_A
Length = 345
Score = 31.1 bits (71), Expect = 0.62
Identities = 17/92 (18%), Positives = 33/92 (35%), Gaps = 20/92 (21%)
Query: 230 CKIRVFPN----LQDTIKYAKMLEDAGCSLLAV----HGRTRDEKDGKKFRADWNAIKAV 281
K V N ++ +++A+ + G + R D +K V
Sbjct: 183 AKYIVDANMGYTQKEAVEFARAVYQKGIDIAVYEQPVR------------REDIEGLKFV 230
Query: 282 KNALRIPVLANGNVRHMEDVQKCLEETGCEGV 313
+ PV A+ + R DV + ++E + V
Sbjct: 231 RFHSPFPVAADESARTKFDVMRLVKEEAVDYV 262
>1s2w_A Phosphoenolpyruvate phosphomutase; phosphonopyruvate, phosphonate
biosynthesis pathway, isomera; 1.69A {Mytilus edulis}
SCOP: c.1.12.7 PDB: 1m1b_A 1s2t_A 1s2v_A 1pym_A 1s2u_A
Length = 295
Score = 30.7 bits (70), Expect = 0.79
Identities = 13/55 (23%), Positives = 23/55 (41%), Gaps = 8/55 (14%)
Query: 238 LQDTIKYAKMLEDAGCSLLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLAN 292
L + +K A+ +AG + +H + D D + F WN + PV+
Sbjct: 169 LDEALKRAEAYRNAGADAILMHSKKADPSDIEAFMKAWNN--------QGPVVIV 215
>3kts_A Glycerol uptake operon antiterminator regulatory; structural
genomics, PSI-2, protein structur initiative; HET: UNL;
2.75A {Listeria monocytogenes str}
Length = 192
Score = 30.4 bits (69), Expect = 0.81
Identities = 8/29 (27%), Positives = 15/29 (51%)
Query: 278 IKAVKNALRIPVLANGNVRHMEDVQKCLE 306
++ + L IPV+A G + E V + +
Sbjct: 142 VQKMTQKLHIPVIAGGLIETSEQVNQVIA 170
>2agk_A 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino) methylideneamino]
imidazole-4-carboxamide...; TIM alpha/beta barrel; HET:
CIT; 1.30A {Saccharomyces cerevisiae}
Length = 260
Score = 30.2 bits (68), Expect = 1.2
Identities = 9/86 (10%), Positives = 30/86 (34%), Gaps = 11/86 (12%)
Query: 233 RVFPNLQDTIKYAKMLEDAGCSLLAVHGRTRD-EKDGKKFRADWNAIKAVKNALR----I 287
+ +L+ + L + +H + +G D + + + +
Sbjct: 152 QTLTDLELNADTFRELRK-YTNEFLIH----AADVEGLCGGIDELLVSKLFEWTKDYDDL 206
Query: 288 PVLANGNVRHMEDVQKCLEETGCEGV 313
++ G + ++D++ ++E V
Sbjct: 207 KIVYAGGAKSVDDLKL-VDELSHGKV 231
>3ray_A PR domain-containing protein 11; structural genomics consortium,
SGC, histone methylation, Zn transcriptional
regulation, chromatin, transcription; 1.73A {Homo
sapiens}
Length = 237
Score = 29.8 bits (66), Expect = 1.5
Identities = 12/68 (17%), Positives = 20/68 (29%), Gaps = 1/68 (1%)
Query: 18 PPLPTVKPTMAQTRTRTLHSDPSQDSDDLLCSDSNNHDNQQEQPEHEEPSSLPETASSSL 77
V+P + + + Q D C + E P H P + +T
Sbjct: 3 SSAMEVEPKKLKGKRDLIVPKSFQQVDFWFCESCQEY-FVDECPNHGPPVFVSDTPVPVG 61
Query: 78 PSPRGYLS 85
R L+
Sbjct: 62 IPDRAALT 69
>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 = 29.8 bits (68), Expect = 1.5
Identities = 19/115 (16%), Positives = 38/115 (33%), Gaps = 22/115 (19%)
Query: 155 KEDRPLFVQFCANDPEILLNAARRVEP----YCDYVDINLGCPQRIARRGN---YGAFLM 207
+PLF+ E + RR+ P +++NL CP N
Sbjct: 91 YSKKPLFLSISGLSVEENVAMVRRLAPVAQEKGVLLELNLSCP-------NVPGKPQVAY 143
Query: 208 DNLPLVKSLVEKLALNLNVPVSCKIRVFPNLQDTIKYAKM----LEDAGCSLLAV 258
D +++ +++++L +P K+ P D + E +
Sbjct: 144 D-FEAMRTYLQQVSLAYGLPFGVKMP--PYF-DIAHFDTAAAVLNEFPLVKFVTC 194
>3fac_A Putative uncharacterized protein; complete proteome, structural
genomics, PSI-2, protein structure initiative; 2.50A
{Rhodobacter sphaeroides 2}
Length = 118
Score = 28.8 bits (64), Expect = 1.5
Identities = 18/72 (25%), Positives = 27/72 (37%), Gaps = 7/72 (9%)
Query: 121 LCRRYGAEAAYTPMLHSRIFTESEKYRNEEFATCKEDRPLFVQFCANDPEILLNAARRVE 180
CRR GA AA + R+ +E +F T F + C I + RR
Sbjct: 30 FCRRRGAIAATARLSDLRVVRGAENLTLYQFGTRTAKHW-FCRTCG----IYTHHQRRSN 84
Query: 181 PYCDYVDINLGC 192
P + +N+
Sbjct: 85 P--EEYGVNVAI 94
>3ro6_B Putative chloromuconate cycloisomerase; TIM barrel; 2.20A
{Methylococcus capsulatus} PDB: 3rit_A
Length = 356
Score = 29.9 bits (68), Expect = 1.7
Identities = 11/98 (11%), Positives = 31/98 (31%), Gaps = 22/98 (22%)
Query: 226 VPVSCKIRVFPN----LQDTIKYAKMLEDAGCSL----LAVHGRTRDEKDGKKFRADWNA 277
+ +RV PN ++ +++++ G +
Sbjct: 181 LAGRAVVRVDPNQSYDRDGLLRLDRLVQELGIEFIEQPFPAG--------------RTDW 226
Query: 278 IKAVKNALRIPVLANGNVRHMEDVQKCLEETGCEGVLS 315
++A+ A+R + A+ ++ D G+ +
Sbjct: 227 LRALPKAIRRRIAADESLLGPADAFALAAPPAACGIFN 264
>3u9i_A Mandelate racemase/muconate lactonizing enzyme, C domain protein;
structural genomics, PSI-biology; 2.90A {Roseiflexus SP}
Length = 393
Score = 30.0 bits (68), Expect = 1.7
Identities = 13/94 (13%), Positives = 28/94 (29%), Gaps = 24/94 (25%)
Query: 230 CKIRVFPN----LQDTIKYAKMLEDAGCSL------LAVHGRTRDEKDGKKFRADWNAIK 279
++ + N D ++ ML G +A D ++
Sbjct: 218 ARLILDGNCGYTAPDALRLLDMLGVHGIVPALFEQPVAKD--------------DEEGLR 263
Query: 280 AVKNALRIPVLANGNVRHMEDVQKCLEETGCEGV 313
+ R+PV A+ +V D + + +
Sbjct: 264 RLTATRRVPVAADESVASATDAARLARNAAVDVL 297
>3no5_A Uncharacterized protein; PFAM DUF849 domain containing protein,
structural genomics, center for structural genomics,
JCSG; HET: MSE; 1.90A {Ralstonia eutropha}
Length = 275
Score = 29.6 bits (66), Expect = 2.1
Identities = 17/100 (17%), Positives = 35/100 (35%), Gaps = 11/100 (11%)
Query: 223 NLNVPVSCKIRVFPNLQDTIKYAKMLEDAGCSLLAVHGRTRDEK---DGKKFRADWNAIK 279
N VP++ + + ++ + +AG +L+ +H R DE + +F I+
Sbjct: 22 NPAVPIT--------VSEQVESTQAAFEAGATLVHLHVRNDDETPTSNPDRFALVLEGIR 73
Query: 280 AVKNALRIPVLANGNVRHMEDVQKCLEETGCEGVLSAESL 319
+ V G + L L+ S+
Sbjct: 74 KHAPGMITQVSTGGRSGAGNERGAMLSLRPDMASLATGSV 113
>1tkk_A Similar to chloromuconate cycloisomerase; epimerase, enolase super
family,; 2.10A {Bacillus subtilis} SCOP: c.1.11.2
d.54.1.1 PDB: 1jpm_A
Length = 366
Score = 29.6 bits (67), Expect = 2.2
Identities = 14/81 (17%), Positives = 31/81 (38%), Gaps = 16/81 (19%)
Query: 237 NLQDTIKYAKMLEDAGCSLLA----VHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLAN 292
++ + + +EDAG + VH + D +K V +A P++A+
Sbjct: 197 RPKEAVTAIRKMEDAGLGIELVEQPVH------------KDDLAGLKKVTDATDTPIMAD 244
Query: 293 GNVRHMEDVQKCLEETGCEGV 313
+V + L+ + +
Sbjct: 245 ESVFTPRQAFEVLQTRSADLI 265
>1zco_A 2-dehydro-3-deoxyphosphoheptonate aldolase; arabino-heptulosonate,
synthase, shikimate, DAHP, DAH7P, DAH DAH7PS, lyase;
HET: PEP; 2.25A {Pyrococcus furiosus}
Length = 262
Score = 29.1 bits (66), Expect = 2.6
Identities = 25/116 (21%), Positives = 45/116 (38%), Gaps = 17/116 (14%)
Query: 176 ARRVEPYCDYVDINLGCPQRIARRGNYGAFLMDNLPLVKSLVEKLALNLNVPVSCKIRVF 235
R VE Y DI +I GA N L+K + + + PV K +
Sbjct: 97 TRHVELVAKYSDI-----LQI------GARNSQNFELLKEVGK-----VENPVLLKRGMG 140
Query: 236 PNLQDTIKYAKMLEDAGCS-LLAVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVL 290
+Q+ + A+ + G ++ R + +F D +A+ VK +P++
Sbjct: 141 NTIQELLYSAEYIMAQGNENVILCERGIRTFETATRFTLDISAVPVVKELSHLPII 196
>3ik4_A Mandelate racemase/muconate lactonizing protein; structural
genomics, enolase, epimerase, PSI-2, protein STRU
initiative; 2.10A {Herpetosiphon aurantiacus atcc 23779}
Length = 365
Score = 28.7 bits (65), Expect = 3.8
Identities = 12/92 (13%), Positives = 25/92 (27%), Gaps = 20/92 (21%)
Query: 230 CKIRVFPN----LQDTIKYAKMLEDAGCSLLAV----HGRTRDEKDGKKFRADWNAIKAV 281
+ V N ++ + + + ++ R DW + V
Sbjct: 188 APLIVDGNCGYDVERALAFCAACKAESIPMVLFEQPLP------------REDWAGMAQV 235
Query: 282 KNALRIPVLANGNVRHMEDVQKCLEETGCEGV 313
V A+ + R DV + E +
Sbjct: 236 TAQSGFAVAADESARSAHDVLRIAREGTASVI 267
>3i5p_A Nucleoporin NUP170; helical stack, membrane, mRNA transport,
nuclear pore complex, nucleus, phosphoprotein, protein
transport; 3.20A {Saccharomyces cerevisiae}
Length = 525
Score = 28.5 bits (63), Expect = 5.0
Identities = 19/153 (12%), Positives = 44/153 (28%), Gaps = 17/153 (11%)
Query: 243 KYAKMLEDAGCSLLAVHGRTRDEKDGKKFRADW-NAIKAVKNALRIPVLANGNVRHMEDV 301
+A L +L D +D + A W ++++ ++ + +
Sbjct: 333 DFAVPLSYHEIALFIFK--IADFRDHEVIMAKWDELFQSLRMEFNNTGKKEDSMNFINLL 390
Query: 302 QKCLEETGCEGVLSAES--------LLENPALFAGFRT---AEWIVGSEEISKDGNLDQA 350
L + G S ++ N + + IV I +
Sbjct: 391 SNVLIKIGKNVQDSEFIFPIFELFPIVCNFFYETLPKEHIVSGSIV---SIFITAGVSFN 447
Query: 351 DLLVEYLKLCEKYPVPWRMIRSHVHKLLGEWFR 383
+ +L E + + L+ EW++
Sbjct: 448 KMYYILKELIETSDSDNSVFNKEMTWLIHEWYK 480
>3r0u_A Enzyme of enolase superfamily; structural genomics, putative
epimerase, PSI-biolog YORK structural genomics research
consortium; HET: MSE TAR; 1.90A {Francisella
philomiragia subsp} PDB: 3px5_A* 3r0k_A* 3r10_A 3r11_A
3r1z_A*
Length = 379
Score = 28.0 bits (63), Expect = 5.8
Identities = 10/42 (23%), Positives = 21/42 (50%)
Query: 272 RADWNAIKAVKNALRIPVLANGNVRHMEDVQKCLEETGCEGV 313
D A+ + IPV+A+ +V +D ++ ++E C +
Sbjct: 225 YYDIKAMAEITKFSNIPVVADESVFDAKDAERVIDEQACNMI 266
>1zlp_A PSR132, petal death protein; TIM-barrel, helix
swapping,2-ethyl-3-methylmalate lyase, 2-P methylmalate
lyase, lyase/PEP mutase superfamily; 2.70A {Dianthus
caryophyllus}
Length = 318
Score = 28.1 bits (63), Expect = 6.5
Identities = 12/56 (21%), Positives = 21/56 (37%), Gaps = 13/56 (23%)
Query: 238 LQDTIKYAKMLEDAGCSLLAVHG-RTRDEKDGKKFRADWNAIKAVKNALRIPVLAN 292
L++ I+ A + ++AG V DE +K V + +AN
Sbjct: 188 LEEGIRRANLYKEAGADATFVEAPANVDE------------LKEVSAKTKGLRIAN 231
>3qld_A Mandelate racemase/muconate lactonizing protein; structural
genomics, PSI-2, isomerase; HET: MSE; 1.85A
{Alicyclobacillus acidocaldarius LAA1}
Length = 388
Score = 28.1 bits (63), Expect = 6.6
Identities = 8/42 (19%), Positives = 19/42 (45%)
Query: 272 RADWNAIKAVKNALRIPVLANGNVRHMEDVQKCLEETGCEGV 313
DW + ++ +LR PV + +VR + +++ +
Sbjct: 226 EDDWFDLAKLQASLRTPVCLDESVRSVRELKLTARLGAARVL 267
>1xg4_A Probable methylisocitrate lyase; 2-methylisocitrate lyase/inhibitor
complex, isocitrate lyase superfamily; HET: ICT; 1.60A
{Escherichia coli} PDB: 1xg3_A* 1mum_A 1oqf_A 1ujq_A
1o5q_A
Length = 295
Score = 28.0 bits (63), Expect = 6.7
Identities = 11/56 (19%), Positives = 21/56 (37%), Gaps = 13/56 (23%)
Query: 238 LQDTIKYAKMLEDAGCSLLAVHG-RTRDEKDGKKFRADWNAIKAVKNALRIPVLAN 292
L I+ A+ +AG +L + +A+++P+LAN
Sbjct: 166 LDAAIERAQAYVEAGAEMLFPEAITELAM------------YRQFADAVQVPILAN 209
>2ps2_A Putative mandelate racemase/muconate lactonizing enzyme; structural
genomics, NYSGXRC, target 9440A, enolase superfamily,
PSI-2; 1.80A {Aspergillus oryzae RIB40}
Length = 371
Score = 28.0 bits (63), Expect = 6.7
Identities = 10/79 (12%), Positives = 27/79 (34%), Gaps = 16/79 (20%)
Query: 237 NLQDTIKYAKMLEDAGCSLL--AVHGRTRDEKDGKKFRADWNAIKAVKNALRIPVLANGN 294
+++ ++ ++L L A W +++ IP++ +
Sbjct: 202 SVETALRLLRLLPHGLDFALEAPC--------------ATWRECISLRRKTDIPIIYDEL 247
Query: 295 VRHMEDVQKCLEETGCEGV 313
+ + K L + EG+
Sbjct: 248 ATNEMSIVKILADDAAEGI 266
>3zwt_A Dihydroorotate dehydrogenase (quinone), mitochond; oxidoreductase;
HET: FMN ORO KFZ; 1.55A {Homo sapiens} PDB: 1d3h_A*
2bxv_A* 2prh_A* 2prl_A* 2prm_A* 3f1q_A* 3fj6_A* 3fjl_A*
3g0u_A* 3g0x_A* 3zws_A* 1d3g_A* 3u2o_A* 2fpv_A* 2fpt_A*
2fpy_A* 2fqi_A* 3kvl_A* 3kvk_A* 3kvj_A* ...
Length = 367
Score = 27.9 bits (63), Expect = 6.8
Identities = 15/68 (22%), Positives = 20/68 (29%), Gaps = 15/68 (22%)
Query: 173 LNAARRVEPYCDYVDINLGCPQRIARRGN--------YGAFLMDNLPLVKSLVEKLALNL 224
R + P DY+ +N+ P N A L L V + L
Sbjct: 167 AEGVRVLGPLADYLVVNVSSP-------NTAGLRSLQGKAELRRLLTKVLQERDGLRRVH 219
Query: 225 NVPVSCKI 232
V KI
Sbjct: 220 RPAVLVKI 227
>3ih1_A Methylisocitrate lyase; alpha-beta structure, TIM-barrel, center
for structural GENO infectious diseases, csgid; 2.00A
{Bacillus anthracis str} PDB: 3kz2_A
Length = 305
Score = 27.7 bits (62), Expect = 6.8
Identities = 10/56 (17%), Positives = 20/56 (35%), Gaps = 13/56 (23%)
Query: 238 LQDTIKYAKMLEDAGCSLLAVHG-RTRDEKDGKKFRADWNAIKAVKNALRIPVLAN 292
L + I+ A AG + ++ +E + + + P+LAN
Sbjct: 174 LDEAIERANAYVKAGADAIFPEALQSEEE------------FRLFNSKVNAPLLAN 217
>3s5s_A Mandelate racemase/muconate lactonizing enzyme FA protein;
PSI-biology, structural genomics, NEW YORK structural
genomi research consortium; 2.40A {Sorangium cellulosum}
Length = 389
Score = 28.1 bits (63), Expect = 7.1
Identities = 14/92 (15%), Positives = 26/92 (28%), Gaps = 20/92 (21%)
Query: 230 CKIRVFPN----LQDTIKYAKMLEDAGCSLLAV----HGRTRDEKDGKKFRADWNAIKAV 281
+ + N + + G + + R DW+ +K V
Sbjct: 189 ASLILDGNGGLTAGEALALVAHARRLGADVALLEQPVP------------RDDWDGMKEV 236
Query: 282 KNALRIPVLANGNVRHMEDVQKCLEETGCEGV 313
+ V A+ + EDV + E V
Sbjct: 237 TRRAGVDVAADESAASAEDVLRVAAERAATVV 268
>1vkf_A Glycerol uptake operon antiterminator-related Pro; struc genomics,
joint center for structural genomics, JCSG, prote
structure initiative; HET: CIT; 1.65A {Thermotoga
maritima} SCOP: c.1.29.1
Length = 188
Score = 27.3 bits (61), Expect = 7.1
Identities = 8/30 (26%), Positives = 14/30 (46%)
Query: 277 AIKAVKNALRIPVLANGNVRHMEDVQKCLE 306
A K + V+A G V E+ ++ L+
Sbjct: 140 APKVARKIPGRTVIAAGLVETEEEAREILK 169
>3eoo_A Methylisocitrate lyase; seattle structural genomics center for
infectious disease, ssgcid; 2.90A {Burkholderia
pseudomallei 1655}
Length = 298
Score = 27.7 bits (62), Expect = 8.9
Identities = 12/56 (21%), Positives = 24/56 (42%), Gaps = 13/56 (23%)
Query: 238 LQDTIKYAKMLEDAGCSLLAVHG-RTRDEKDGKKFRADWNAIKAVKNALRIPVLAN 292
+ I+ A +AG ++ +T D+ + K A+++P+LAN
Sbjct: 170 IDAAIERAIAYVEAGADMIFPEAMKTLDD------------YRRFKEAVKVPILAN 213
>1wuf_A Hypothetical protein LIN2664; structural genomics, unknown
function, nysgxrc target T2186, superfamily, protein
structure initiative, PSI; 2.90A {Listeria innocua}
SCOP: c.1.11.2 d.54.1.1
Length = 393
Score = 27.7 bits (62), Expect = 9.1
Identities = 7/42 (16%), Positives = 19/42 (45%)
Query: 272 RADWNAIKAVKNALRIPVLANGNVRHMEDVQKCLEETGCEGV 313
D+ ++ L+ + + N+R ++DV++ C +
Sbjct: 238 TKDFVDHAWLQKQLKTRICLDENIRSVKDVEQAHSIGSCRAI 279
>1vqq_A Saupbp2A, penicillin-binding protein MECA, low-affinity;
beta-lactam, D- transpeptidase, D-carboxypeptidase,
biosynthetic protein; 1.80A {Staphylococcus aureus}
SCOP: d.17.4.5 d.175.1.1 e.3.1.1 PDB: 1mwu_A* 1mwr_A
1mws_A* 1mwt_A*
Length = 646
Score = 27.7 bits (62), Expect = 9.3
Identities = 6/21 (28%), Positives = 7/21 (33%), Gaps = 2/21 (9%)
Query: 10 PL--RVTSLYPPLPTVKPTMA 28
PL + P T K A
Sbjct: 368 PLLNKFQITTSPGSTQKILTA 388
>3mwc_A Mandelate racemase/muconate lactonizing protein; enolase,
structural genomics, protein structure initiative,
nysgrc; 1.80A {Kosmotoga olearia}
Length = 400
Score = 27.3 bits (61), Expect = 9.9
Identities = 2/42 (4%), Positives = 11/42 (26%)
Query: 272 RADWNAIKAVKNALRIPVLANGNVRHMEDVQKCLEETGCEGV 313
+K + + P+ + ++ + +
Sbjct: 241 YEALLDLKELGERIETPICLDESLISSRVAEFVAKLGISNIW 282
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 0.136 0.411
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,843,676
Number of extensions: 416979
Number of successful extensions: 1311
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1285
Number of HSP's successfully gapped: 89
Length of query: 436
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 340
Effective length of database: 4,021,377
Effective search space: 1367268180
Effective search space used: 1367268180
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: 59 (26.5 bits)