RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4398
(306 letters)
>1vhn_A Putative flavin oxidoreducatase; structural genomics, unknown
function; HET: FMN; 1.59A {Thermotoga maritima} SCOP:
c.1.4.1
Length = 318
Score = 139 bits (352), Expect = 3e-39
Identities = 53/210 (25%), Positives = 89/210 (42%), Gaps = 21/210 (10%)
Query: 27 INYSNKIILAPMVRMNTLPFRLLALDYGADLVYSEELVDHKLVKTERKVNDLLNTIDFVD 86
++ K+ LAPM FR LA ++GAD +SE + + +K +LL
Sbjct: 1 MSLEVKVGLAPMAGYTDSAFRTLAFEWGADFAFSEMVSAKGFLMNSQKTEELLPQ----- 55
Query: 87 PLDGSVVFRTCPREKNKIILQIGTADPERALEAAKKVEHDVAAIDINMGCP-KQFSLTGG 145
P E+N + +QI ++P EAA+ + ID+N GCP ++ G
Sbjct: 56 -----------PHERN-VAVQIFGSEPNELSEAARILSEKYKWIDLNAGCPVRKVVKEGA 103
Query: 146 MGAALLSTPDIACNILTTLISNLSIPVSCKIRVFHNEADTIALCKRLEACGIIAIGVHGR 205
G ALL I+ L ++S S K R+ + + + + L G+ + +H R
Sbjct: 104 -GGALLKDLRHFRYIVRELRKSVSGKFSVKTRLGWEKNEVEEIYRILVEEGVDEVFIHTR 162
Query: 206 TKAERPRHRNRIEMIRTLTQHLKIPVIANG 235
T + R + + L + IP +G
Sbjct: 163 TVVQSFTGRAEWKALSVLEKR--IPTFVSG 190
>1whn_A Hypothetical protein riken cDNA 2310016K04; double-stranded RNA
binding domain, DSRBD, DSRM, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: d.50.1.1
Length = 128
Score = 69.6 bits (170), Expect = 6e-15
Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 2/67 (2%)
Query: 242 DYGGVFSLNCAFLRNHYPVEKLPKTILYAHCKYKRFEVPKYETVQ--YEKLFRSLVTVNG 299
G+ + F R YP + PK L C+ ++ P YETVQ +++F S+VTV
Sbjct: 6 SGSGIIKMAIRFDRRAYPPQITPKMCLLEWCRREKLPQPVYETVQRTIDRMFCSVVTVAE 65
Query: 300 KQYTSKF 306
++Y S
Sbjct: 66 QKYQSTL 72
>3b0p_A TRNA-dihydrouridine synthase; TIM barrel, oxidoreductase; HET: FMN;
1.70A {Thermus thermophilus} PDB: 3b0u_X* 3b0v_C*
Length = 350
Score = 52.6 bits (127), Expect = 5e-08
Identities = 31/110 (28%), Positives = 49/110 (44%), Gaps = 6/110 (5%)
Query: 104 IILQIGTADPERALEAAKKVE-HDVAAIDINMGCPKQFSLTGGMGAALLSTPDIACNILT 162
I LQ+ +DP+ EAA+ E I++N+GCP + + GG GA LL IL
Sbjct: 60 IALQLAGSDPKSLAEAARIGEAFGYDEINLNLGCPSEKAQEGGYGACLLLDLARVREILK 119
Query: 163 TLISNLSIPVSCKIRV----FHNEADTIALCKRLEACGIIAIGVHGRTKA 208
+ + +PV+ K+R+ + + G+ VH R A
Sbjct: 120 AMGEAVRVPVTVKMRLGLEGKETYRGLAQSVEAMAEAGVKVFVVHAR-SA 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 = 45.0 bits (106), Expect = 2e-05
Identities = 41/212 (19%), Positives = 70/212 (33%), Gaps = 64/212 (30%)
Query: 91 SVVFRTCPREKNKIIL----QIGTAD---PE-RAL-------------EAAKKVEHDVA- 128
S +FR +++ Q G D E R L +A+ + +
Sbjct: 143 SALFRAVGEGNAQLVAIFGGQ-GNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRT 201
Query: 129 AIDINMGCPKQFSLTGGMGAALLSTPDIA--CNILTTLISNLSIPVSCKIRVFHNEADTI 186
+D + ++ L P + L LSIP+SC + I
Sbjct: 202 TLDAEKVFTQGLNI-----LEWLENPSNTPDKDYL------LSIPISCPL---------I 241
Query: 187 ALCKRLEACGIIAIGVHGRTKAE-RPRHRNRIEMIRTLTQHLK-IPV---IANGGSKEIV 241
+ + L A ++ + G T E R ++ T H + + IA S E
Sbjct: 242 GVIQ-L-AHYVVTAKLLGFTPGELRSY-------LKGATGHSQGLVTAVAIAETDSWESF 292
Query: 242 DYGGVFSLNCAF---LRNH--YPVEKLPKTIL 268
++ F +R + YP LP +IL
Sbjct: 293 FVSVRKAITVLFFIGVRCYEAYPNTSLPPSIL 324
Score = 35.8 bits (82), Expect = 0.021
Identities = 47/308 (15%), Positives = 88/308 (28%), Gaps = 122/308 (39%)
Query: 41 MNTLPFRLLALDYGADLVYS--EELVDHKLVKTERKVNDLLNTIDFVDPLDGSVVFRTCP 98
+T F +L D+V + L H + +++ + + + F +DG +
Sbjct: 1654 KDTYGFSIL------DIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIF 1707
Query: 99 REKNKIILQIGTADPE---------------------RALEAAKKVEHDVAAIDINMGCP 137
+E N+ + L++ + D
Sbjct: 1708 KEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADAT--------- 1758
Query: 138 KQF---SLTGGMG--AALLSTPDIACNILTTLISNLSIPVSCKIRVFHNEADTIAL-CKR 191
F SL G AAL S D+ +SI + + R
Sbjct: 1759 --FAGHSL----GEYAALASLADV-----------MSI------------ESLVEVVFYR 1789
Query: 192 LEACGI-----IAIGVHGRTK----AERPRHRNRIEMIRTLTQHLKIPVIA-----NGGS 237
G+ + GR+ A P + + +Q V+ G
Sbjct: 1790 ----GMTMQVAVPRDELGRSNYGMIAINPG-----RVAASFSQEALQYVVERVGKRTGWL 1840
Query: 238 KEIVDYGGVFSLNCA--------FLRNHYPVEKLPKTILYAHCKYKRFEVPK------YE 283
EIV+Y N LR ++ + +L K ++ ++ + E
Sbjct: 1841 VEIVNY------NVENQQYVAAGDLRA---LDTVTN-VL-NFIKLQKIDIIELQKSLSLE 1889
Query: 284 TVQYEKLF 291
V+ LF
Sbjct: 1890 EVE-GHLF 1896
Score = 31.9 bits (72), Expect = 0.27
Identities = 47/249 (18%), Positives = 83/249 (33%), Gaps = 82/249 (32%)
Query: 36 APM--VRMNTLPFRLLALDYGADLVYSEELVDH--KLVKTERKVN-DLLNTID-FV---D 86
+PM + ++ V+ + ++V L+N V
Sbjct: 336 SPMLSIS-------------NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGP 382
Query: 87 P--LDG-SVVFR--TCPR--EKNKIILQIGTADP--ERALEAAKKVEHDVAAIDINMGCP 137
P L G ++ R P ++++I P ER L K + + P
Sbjct: 383 PQSLYGLNLTLRKAKAPSGLDQSRI--------PFSERKL----KFSNRFLPV----ASP 426
Query: 138 KQF-S--LTGGMGAALLSTPDIACNILTTLISNLSIPVSCKIRVFHNE--AD----TIAL 188
F S L A+ L D+ N ++ ++ IP V+ +D + ++
Sbjct: 427 --FHSHLLVP---ASDLINKDLVKNNVSFNAKDIQIP------VYDTFDGSDLRVLSGSI 475
Query: 189 CKRLEACGIIAIGVH-GRTKAERPRH-----RNRIEMIRTLTQHLK----IPVIANGGSK 238
+R+ C II + V T + H + LT K + VI G+
Sbjct: 476 SERIVDC-IIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIV-AGTL 533
Query: 239 EI---VDYG 244
+I DYG
Sbjct: 534 DINPDDDYG 542
Score = 30.0 bits (67), Expect = 1.2
Identities = 26/133 (19%), Positives = 37/133 (27%), Gaps = 44/133 (33%)
Query: 145 GMGAALLSTPDIACNILTTLISNLSIPVSCKIRVFHNEADTIALCKRLEACG--IIAI-- 200
GMG L T A ++ N AD + G I+ I
Sbjct: 1630 GMGMDLYKTSKAAQDVW-------------------NRADN----HFKDTYGFSILDIVI 1666
Query: 201 ------GVH-GRTKAERPRHRNRIEMIRTLTQHLKIPVIANGGSKEIVDYGGVFSLNCAF 253
+H G K +R R N MI + V +++I S + F
Sbjct: 1667 NNPVNLTIHFGGEKGKRIRE-NYSAMIF------ETIVDGKLKTEKIFKEINEHSTSYTF 1719
Query: 254 LRNHYPVEKLPKT 266
L T
Sbjct: 1720 ---RSEKGLLSAT 1729
>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 = 44.5 bits (104), Expect = 4e-05
Identities = 50/345 (14%), Positives = 103/345 (29%), Gaps = 113/345 (32%)
Query: 48 LLALDYGADLVYSEELVDH-----KLVKTERKVNDLLNTIDFVDPLDGSVVFRTCPREKN 102
LL L + V + + + K++ T R DF+ + +
Sbjct: 247 LLVLL---N-VQNAKAWNAFNLSCKILLTTRFKQV----TDFLSAATTTHIS-------- 290
Query: 103 KIILQIGTADPERALEA-AKKVEHDVA-----AIDINMGCPKQFSLTGGMGAALLSTPD- 155
+ T P+ K ++ + N P++ S+ L+T D
Sbjct: 291 -LDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN---PRRLSIIAESIRDGLATWDN 346
Query: 156 ---IACNILTTLIS----------------NLSI-PVSCKI------RVFHN--EADTIA 187
+ C+ LTT+I LS+ P S I ++ + ++D +
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV 406
Query: 188 LCKRLEACGIIA-------IGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVI--ANGGSK 238
+ +L ++ I + + + N + R++ H IP ++
Sbjct: 407 VVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIP 466
Query: 239 EIVD-----YGG-------------VFS---LNCAFLRNHYPVEKLPKTILYAHC----- 272
+D + G +F L+ FL K+ +
Sbjct: 467 PYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQ-----KIRHDSTAWNASGSIL 521
Query: 273 -------KYKRFEVPKYETVQYEKLFRSLVT----VNGKQYTSKF 306
YK + YE+L +++ + SK+
Sbjct: 522 NTLQQLKFYKPYICDNDPK--YERLVNAILDFLPKIEENLICSKY 564
Score = 44.1 bits (103), Expect = 5e-05
Identities = 28/119 (23%), Positives = 48/119 (40%), Gaps = 25/119 (21%)
Query: 9 LLVKIFYVLDMANANQANINYSNKIILAPMVRMNTLPFRLLALDYGADL-VYSEELVDHK 67
L +F LD + I + + A +NTL L Y + D+
Sbjct: 492 LFRMVF--LDF-RFLEQKIRHDSTAWNASGSILNTL----------QQLKFYKPYICDND 538
Query: 68 LVKTERKVNDLLNTIDFVDPLDGSVVFRTCPREKNKIILQIGTADPERAL--EAAKKVE 124
K ER VN +L DF+ ++ +++ K +L+I + A+ EA K+V+
Sbjct: 539 P-KYERLVNAIL---DFLPKIEENLI-----CSKYTDLLRIALMAEDEAIFEEAHKQVQ 588
Score = 32.9 bits (74), Expect = 0.14
Identities = 14/91 (15%), Positives = 29/91 (31%), Gaps = 14/91 (15%)
Query: 210 RPRHRNRIEMIRTLTQHLK--IPVIANGGSKEIVDYG----GVFSLNCAFLRNHYPVEKL 263
+ +R++ L Q L P +K ++ G G + ++ K+
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRP------AKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180
Query: 264 PKTILYAHCKYKRFEVPKYETVQYEKLFRSL 294
I + K P+ +KL +
Sbjct: 181 DFKIFWL--NLKNCNSPETVLEMLQKLLYQI 209
>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 = 43.3 bits (103), Expect = 5e-05
Identities = 33/155 (21%), Positives = 62/155 (40%), Gaps = 28/155 (18%)
Query: 104 IILQIGTADPERALEAAKKV--EHDVAAIDINMGCPKQFSLTGGMGAALLSTPDIACNIL 161
II + ++ + K+ +V AI++N+ CP G A + P++A ++
Sbjct: 101 IIANVAGSEEADYVAVCAKIGDAANVKAIELNISCPN----VKHGGQAFGTDPEVAAALV 156
Query: 162 TTLISNLSIPVSCKIRVFHNEADTIALCKRLEACGIIAI-------GVHGRTKAERPRHR 214
+ +P+ K+ N D + + K +EA G + GV K +P
Sbjct: 157 KACKAVSKVPLYVKLSP--NVTDIVPIAKAVEAAGADGLTMINTLMGVRFDLKTRQPILA 214
Query: 215 NR-------------IEMIRTLTQHLKIPVIANGG 236
N +++I + Q + IP+I GG
Sbjct: 215 NITGGLSGPAIKPVALKLIHQVAQDVDIPIIGMGG 249
>3adj_A F21M12.9 protein; HYL1, miRNA processing, RNA binding protein, gene
regulation; 3.00A {Arabidopsis thaliana} PDB: 2l2m_A
Length = 76
Score = 33.8 bits (78), Expect = 0.008
Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 9/48 (18%)
Query: 265 KTIL--YAHCKYKRFEVPKYETVQYE-----KLFRSLVTVNGKQYTSK 305
K +L YA +P Y+ + E F V + G +YT
Sbjct: 7 KNLLQEYAQKMNY--AIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGA 52
>1x47_A DGCR8 protein; structural genomics, DSRM domain, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens} SCOP: d.50.1.1
Length = 98
Score = 34.4 bits (79), Expect = 0.009
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 3/47 (6%)
Query: 259 PVEKLPKTILYAHCKYKRFEVPKYETVQYE---KLFRSLVTVNGKQY 302
P K IL+ + + P Y + E + F + VT++G Y
Sbjct: 13 PNGKSEVCILHEYMQRVLKVRPVYNFFECENPSEPFGASVTIDGVTY 59
>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 = 34.1 bits (78), Expect = 0.032
Identities = 16/75 (21%), Positives = 28/75 (37%), Gaps = 4/75 (5%)
Query: 182 EADTIALCKRLEACG--IIAIGVHGRTKAERPR--HRNRIEMIRTLTQHLKIPVIANGGS 237
+ T+ K G I +HG T + + ++N + ++ + Q + VIA G
Sbjct: 125 DIATVEEAKNAARLGFDYIGTTLHGYTSYTQGQLLYQNDFQFLKDVLQSVDAKVIAEGNV 184
Query: 238 KEIVDYGGVFSLNCA 252
Y V L
Sbjct: 185 ITPDMYKRVMDLGVH 199
>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 = 34.6 bits (80), Expect = 0.042
Identities = 12/60 (20%), Positives = 21/60 (35%), Gaps = 7/60 (11%)
Query: 183 ADTIALCKRLEACGIIAIGVHGRTKAERP-------RHRNRIEMIRTLTQHLKIPVIANG 235
A+T+ L + +EA G I R + R L H+ +P++
Sbjct: 228 AETVELAQAIEAAGATIINTGIGWHEARIPTIATPVPRGAFSWVTRKLKGHVSLPLVTTN 287
>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 = 34.2 bits (79), Expect = 0.046
Identities = 15/68 (22%), Positives = 23/68 (33%), Gaps = 12/68 (17%)
Query: 170 IPVSCKIRVFHNEA----DTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQ 225
S +R+ N+ I LE I E P RN + + Q
Sbjct: 181 AGDSITLRIDANQGWSVETAIETLTLLEPYNIQHC--------EEPVSRNLYTALPKIRQ 232
Query: 226 HLKIPVIA 233
+IP++A
Sbjct: 233 ACRIPIMA 240
>2b7t_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding
protein, hydrolase; NMR {Rattus norvegicus} SCOP:
d.50.1.1 PDB: 2l3c_A
Length = 73
Score = 30.7 bits (70), Expect = 0.079
Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 7/50 (14%)
Query: 259 PVEKLPKTILYAHCKYKRFEVPKYETVQ-----YEKLFRSLVTVNGKQYT 303
P LPK L + K +Y + + LF V VNG+ +
Sbjct: 1 PGPVLPKNALMQLNEIKP--GLQYMLLSQTGPVHAPLFVMSVEVNGQVFE 48
>3jva_A Dipeptide epimerase; enolase superfamily, isomerase; 1.70A
{Enterococcus faecalis V583} PDB: 3jw7_A* 3jzu_A*
3k1g_A* 3kum_A*
Length = 354
Score = 33.4 bits (77), Expect = 0.081
Identities = 13/68 (19%), Positives = 28/68 (41%), Gaps = 12/68 (17%)
Query: 170 IPVSCKIRVFHNEA----DTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQ 225
+ K+R+ N+A D + + L I + E+P R +E ++ +T
Sbjct: 180 VGFDIKLRLDANQAWTPKDAVKAIQALADYQIELV--------EQPVKRRDLEGLKYVTS 231
Query: 226 HLKIPVIA 233
+ ++A
Sbjct: 232 QVNTTIMA 239
>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 = 33.2 bits (76), Expect = 0.087
Identities = 29/151 (19%), Positives = 53/151 (35%), Gaps = 28/151 (18%)
Query: 104 IILQIG-TADPERALEAAKKVEHDVAAIDINMGCPKQFSLTGGMGAALLSTPDIACNILT 162
I +G A +A EA + + + I +N ++ + G + + I
Sbjct: 119 IFANLGSEATAAQAKEAVEMIGANALQIHLN--VIQEIVMPEGDRSFSGALKRIE----- 171
Query: 163 TLISNLSIPVSCKIRVFHNEADTIALCKRLEACGIIAIGV--HGRT---KAERPRHRNRI 217
+ S +S+PV K F + +L G A+ + +G T K E R + +I
Sbjct: 172 QICSRVSVPVIVKEVGFGMSKASA---GKLYEAGAAAVDIGGYGGTNFSKIENLRRQRQI 228
Query: 218 EMIRTLTQHL------------KIPVIANGG 236
+ +IA+GG
Sbjct: 229 SFFNSWGISTAASLAEIRSEFPASTMIASGG 259
>2yt4_A Protein DGCR8; DSRBD, RNA binding domain, RNA binding protein;
2.60A {Homo sapiens}
Length = 232
Score = 32.8 bits (74), Expect = 0.088
Identities = 13/49 (26%), Positives = 21/49 (42%), Gaps = 3/49 (6%)
Query: 259 PVEKLPKTILYAHCKYKRFEVPKYETVQYE---KLFRSLVTVNGKQYTS 304
P K IL+ + + P Y + E + F + VT++G Y S
Sbjct: 19 PNGKSEVCILHEYMQRVLKVRPVYNFFECENPSEPFGASVTIDGVTYGS 67
>3ro6_B Putative chloromuconate cycloisomerase; TIM barrel; 2.20A
{Methylococcus capsulatus} PDB: 3rit_A
Length = 356
Score = 32.6 bits (75), Expect = 0.13
Identities = 13/64 (20%), Positives = 27/64 (42%), Gaps = 12/64 (18%)
Query: 174 CKIRVFHNEA----DTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKI 229
+RV N++ + L + ++ GI I E+P R + +R L + ++
Sbjct: 185 AVVRVDPNQSYDRDGLLRLDRLVQELGIEFI--------EQPFPAGRTDWLRALPKAIRR 236
Query: 230 PVIA 233
+ A
Sbjct: 237 RIAA 240
>3adg_A F21M12.9 protein; HYL1, miRNA processing mechanism, RNA binding
protein, gene regulation; 1.70A {Arabidopsis thaliana}
PDB: 3adi_A
Length = 73
Score = 30.3 bits (69), Expect = 0.14
Identities = 13/47 (27%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 262 KLPKTILYAHCKYKRFEVPKYETVQ----YEKLFRSLVTVNGKQYTS 304
+ K+ L + + + P YE V+ ++ LF+S V ++G +Y S
Sbjct: 3 HVFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNS 49
>3u9i_A Mandelate racemase/muconate lactonizing enzyme, C domain protein;
structural genomics, PSI-biology; 2.90A {Roseiflexus SP}
Length = 393
Score = 32.7 bits (75), Expect = 0.15
Identities = 28/131 (21%), Positives = 46/131 (35%), Gaps = 21/131 (16%)
Query: 108 IGTADPERALEAAKK-VEHDVAAIDINMGCPKQFSLTGGMGAALLSTPDIACNILTTLIS 166
I T A AA+ V V I I +G + T D+A + +
Sbjct: 161 ITTGSVTAAARAAQAIVARGVTTIKIKIGAGDPDATTIRTMEH-----DLA--RIVAIRD 213
Query: 167 NLSIPVSCKIRVFHNEA----DTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRT 222
+ ++ + N D + L L GI+ E+P ++ E +R
Sbjct: 214 VAP---TARLILDGNCGYTAPDALRLLDMLGVHGIVPALF------EQPVAKDDEEGLRR 264
Query: 223 LTQHLKIPVIA 233
LT ++PV A
Sbjct: 265 LTATRRVPVAA 275
>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 = 32.1 bits (74), Expect = 0.17
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 217 IEMIRTLTQHLKIPVIANGG 236
EMIR + +P+IA+GG
Sbjct: 163 TEMIRFVRPLTTLPIIASGG 182
>2w6r_A Imidazole glycerol phosphate synthase subunit HISF; lyase, fusion
protein, cobalamin, precorrin, novel fold, VIT; 2.10A
{Thermotoga maritima}
Length = 266
Score = 32.2 bits (74), Expect = 0.18
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 217 IEMIRTLTQHLKIPVIANGG 236
EMIR + +P+IA+GG
Sbjct: 189 TEMIRFVRPLTTLPIIASGG 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 = 31.7 bits (73), Expect = 0.20
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 217 IEMIRTLTQHLKIPVIANGG 236
EMIR + +P+IA+GG
Sbjct: 189 TEMIRFVRPLTTLPIIASGG 208
>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 = 0.23
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 217 IEMIRTLTQHLKIPVIANGG 236
EMIR + +P+IA+GG
Sbjct: 184 TEMIRFVRPLTTLPIIASGG 203
>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 = 0.25
Identities = 7/20 (35%), Positives = 14/20 (70%)
Query: 217 IEMIRTLTQHLKIPVIANGG 236
+ + R + + + +PVIA+GG
Sbjct: 185 LRLTRMVAEAVGVPVIASGG 204
>1h5y_A HISF; histidine biosynthesis, TIM-barrel; 2.0A {Pyrobaculum
aerophilum} SCOP: c.1.2.1
Length = 253
Score = 31.3 bits (72), Expect = 0.28
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 217 IEMIRTLTQHLKIPVIANGG 236
+E+IR + ++IPVIA+GG
Sbjct: 187 VELIRRVADSVRIPVIASGG 206
>2ljh_A Double-stranded RNA-specific editase ADAR; DSRBD, DSRBM, editing,
hydrolase; NMR {Drosophila melanogaster}
Length = 114
Score = 30.3 bits (68), Expect = 0.29
Identities = 9/47 (19%), Positives = 17/47 (36%), Gaps = 7/47 (14%)
Query: 264 PKTILYAHCKYKRFEVPKYETVQYE-----KLFRSLVTVNGKQYTSK 305
PK + + + Y+ LF V V+G++Y +
Sbjct: 36 PKNTVAMLNELRH--GLIYKLESQTGPVHAPLFTISVEVDGQKYLGQ 80
>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 = 30.8 bits (69), Expect = 0.40
Identities = 7/70 (10%), Positives = 12/70 (17%)
Query: 182 EADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIANGGSKEIV 241
+ ++ + G IG + VIA G
Sbjct: 135 DCSSVDDGLACQRLGADIIGTTMSGYTTPDTPEEPDLPLVKALHDAGCRVIAEGRYNSPA 194
Query: 242 DYGGVFSLNC 251
Sbjct: 195 LAAEAIRYGA 204
>1di2_A XLRBPA, double stranded RNA binding protein A; protein-RNA complex,
protein-RNA interactions, RNA-bining protein; 1.90A
{Xenopus laevis} SCOP: d.50.1.1
Length = 69
Score = 28.7 bits (65), Expect = 0.40
Identities = 9/46 (19%), Positives = 14/46 (30%), Gaps = 5/46 (10%)
Query: 263 LPKTILYAHCKYKRFEVPKYETVQYE-----KLFRSLVTVNGKQYT 303
+P L K + +P+Y Q + F V T
Sbjct: 1 MPVGSLQELAVQKGWRLPEYTVAQESGPPHKREFTITCRVETFVET 46
>2pge_A MENC; OSBS, NYSGXRC, PSI-II, structural genomics, protein structure
initiative; 1.60A {Desulfotalea psychrophila LSV54}
Length = 377
Score = 30.8 bits (70), Expect = 0.49
Identities = 8/53 (15%), Positives = 20/53 (37%), Gaps = 8/53 (15%)
Query: 181 NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIA 233
+ A+ KRL + +I E+P +++ + L + + +
Sbjct: 220 SPANAPQRLKRLSQFHLHSI--------EQPIRQHQWSEMAALCANSPLAIAL 264
>1a2o_A CHEB methylesterase; bacterial chemotaxis, adaptation, serine
hydrolase; 2.40A {Salmonella typhimurium} SCOP: c.23.1.1
c.40.1.1
Length = 349
Score = 31.0 bits (71), Expect = 0.50
Identities = 11/28 (39%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 108 IGTA-DPERALEAAKKVEHDVAAIDINM 134
+ TA DP A + KK DV +D+ M
Sbjct: 32 VATAPDPLVARDLIKKFNPDVLTLDVEM 59
>3dgb_A Muconate cycloisomerase; muconate lactonizing enzyme, muconolactone
binding, isomeras structural genomics, PSI-2; HET: MUC;
1.70A {Pseudomonas fluorescens} PDB: 3ct2_A* 3fj4_A*
1muc_A 1bkh_A 3muc_A 2muc_A 1f9c_A
Length = 382
Score = 30.7 bits (70), Expect = 0.60
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 181 NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIAN 234
+EA + C+ L GI I E+P RN + L P++A+
Sbjct: 206 DEAVALRACRILGGNGIDLI--------EQPISRNNRAGMVRLNASSPAPIMAD 251
>3t8y_A CHEB, chemotaxis response regulator protein-glutamate
methylesterase; CHEA, hydrolase; 1.90A {Thermotoga
maritima}
Length = 164
Score = 29.9 bits (68), Expect = 0.65
Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 108 IGTA-DPERALEAAKKVEHDVAAIDINM 134
+G A D A+E A +++ DV +DI M
Sbjct: 54 VGFAKDGLEAVEKAIELKPDVITMDIEM 81
>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 = 30.7 bits (70), Expect = 0.67
Identities = 15/95 (15%), Positives = 37/95 (38%), Gaps = 15/95 (15%)
Query: 184 DTIALCKRL-EACGIIAIGV------HGRTKAERPRHRNRIEMIRTLTQHL--KIPVIAN 234
+ L + + I + + + + P + + + +HL +IP+IA+
Sbjct: 265 EFNQLIDWVMDVSNIQYLAIASWGRHIYQNTSRTPGDHFGRPVNQIVYEHLAGRIPLIAS 324
Query: 235 GG------SKEIVDYGGVFSLNCAFLRNHYPVEKL 263
GG + + + + + ++ F+ V KL
Sbjct: 325 GGINSPESALDALQHADMVGMSSPFVTEPDFVHKL 359
>2qde_A Mandelate racemase/muconate lactonizing enzyme FA protein; PSI-II,
NYSGXRC, enolase, structural genomics, protei structure
initiative, PSI-2; 1.93A {Azoarcus SP}
Length = 397
Score = 30.4 bits (69), Expect = 0.71
Identities = 8/53 (15%), Positives = 17/53 (32%), Gaps = 8/53 (15%)
Query: 181 NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIA 233
+ + LE + I E+P ++ + L + P+ A
Sbjct: 201 TYDQALTTIRALEKYNLSKI--------EQPLPAWDLDGMARLRGKVATPIYA 245
>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 = 30.5 bits (69), Expect = 0.72
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 217 IEMIRTLTQHLKIPVIANGG 236
+E+I + +KIPVIA+ G
Sbjct: 485 LELIEHVKDAVKIPVIASSG 504
>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 = 30.6 bits (69), Expect = 0.74
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 118 EAAKKVEHDVA-AIDINMGCPKQFSLTGGMGAALLSTPDIACNILTTLISNLSIPVSCKI 176
E ++K E A A+++N+ CP GMG A P++ NI + + IP K+
Sbjct: 652 ELSRKAEASGADALELNLSCPHGMG-ERGMGLACGQDPELVRNICRWVRQAVQIPFFAKL 710
>3dg3_A Muconate cycloisomerase; muconate lactonizing enzyme, muconolactone
binding; 1.60A {Mycobacterium smegmatis} PDB: 3dg6_A*
3dg7_A*
Length = 367
Score = 30.3 bits (69), Expect = 0.75
Identities = 8/53 (15%), Positives = 19/53 (35%), Gaps = 8/53 (15%)
Query: 181 NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIA 233
+ A+++ + + ++ E + + R L L +P IA
Sbjct: 197 SAAESLRAMREMADLDLLFA--------EELCPADDVLSRRRLVGQLDMPFIA 241
>1chr_A Chloromuconate cycloisomerase; 3.00A {Ralstonia eutropha} SCOP:
c.1.11.2 d.54.1.1 PDB: 2chr_A
Length = 370
Score = 30.3 bits (69), Expect = 0.86
Identities = 12/54 (22%), Positives = 24/54 (44%), Gaps = 8/54 (14%)
Query: 181 NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIAN 234
+E LEA G+ I E+P R + +R L+ + ++ ++A+
Sbjct: 200 DEQVASVYIPELEALGVELI--------EQPVGRENTQALRRLSDNNRVAIMAD 245
>3rv0_A K. polysporus DCR1; RNAse III enzyme, RNA binding protein; 2.29A
{Vanderwaltozyma polyspora}
Length = 341
Score = 30.1 bits (68), Expect = 0.88
Identities = 6/40 (15%), Positives = 10/40 (25%), Gaps = 1/40 (2%)
Query: 264 PKTILYAHCKYKRFEVP-KYETVQYEKLFRSLVTVNGKQY 302
K L + + Y + FR V +
Sbjct: 256 AKNELAELLQINKLGHKLHYRKLTEMPPFRVEVKIGDILL 295
>1nu5_A Chloromuconate cycloisomerase; enzyme, dehalogenation; 1.95A
{Pseudomonas SP} SCOP: c.1.11.2 d.54.1.1
Length = 370
Score = 29.9 bits (68), Expect = 0.94
Identities = 12/54 (22%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 181 NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIAN 234
+E RLE G+ + E+P R +R LT+ + ++A+
Sbjct: 200 DEQTASIWIPRLEEAGVELV--------EQPVPRANFGALRRLTEQNGVAILAD 245
>3fcp_A L-Ala-D/L-Glu epimerase, A muconate lactonizing enzyme; structural
genomics, nysgrc,target 9450E, PSI-2; 1.80A {Klebsiella
pneumoniae subsp}
Length = 381
Score = 29.9 bits (68), Expect = 0.94
Identities = 11/54 (20%), Positives = 23/54 (42%), Gaps = 8/54 (14%)
Query: 181 NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIAN 234
+ A C+ L A G+ I E+P + + L+Q ++ ++A+
Sbjct: 205 DAATGAKGCRELAAMGVDLI--------EQPVSAHDNAALVRLSQQIETAILAD 250
>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 = 29.5 bits (66), Expect = 1.0
Identities = 13/72 (18%), Positives = 21/72 (29%), Gaps = 3/72 (4%)
Query: 182 EADTIALCKRLEACG--IIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIANGGSKE 239
+ T G + + G T R + +I L + I VIA G
Sbjct: 139 DISTFDEGLVAHQAGIDFVGTTLSGYTPYSRQEAGPDVALIEALCKA-GIAVIAEGKIHS 197
Query: 240 IVDYGGVFSLNC 251
+ + L
Sbjct: 198 PEEAKKINDLGV 209
>3i4k_A Muconate lactonizing enzyme; structural genomics, NYSGXRC, target
9450D, isomerase, PSI-2, protein structure initiative;
2.20A {Corynebacterium glutamicum}
Length = 383
Score = 29.9 bits (68), Expect = 1.1
Identities = 9/54 (16%), Positives = 21/54 (38%), Gaps = 8/54 (14%)
Query: 181 NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIAN 234
+ + L G+ E+P + +E +R +T+ + V+A+
Sbjct: 206 DRRTALHYLPILAEAGVELF--------EQPTPADDLETLREITRRTNVSVMAD 251
>1c3c_A Protein (adenylosuccinate lyase); purine biosynthesis; 1.80A
{Thermotoga maritima} SCOP: a.127.1.1 PDB: 1c3u_A
Length = 429
Score = 29.9 bits (68), Expect = 1.2
Identities = 9/32 (28%), Positives = 13/32 (40%)
Query: 98 PREKNKIILQIGTADPERALEAAKKVEHDVAA 129
P+ + I D E + +K HDV A
Sbjct: 40 PKGVTERIRNNAKIDVELFKKIEEKTNHDVVA 71
>2pfm_A Adenylosuccinate lyase; PURB, purine biosynthesis, B anthracis;
2.00A {Bacillus anthracis} PDB: 1f1o_A 2x75_A*
Length = 444
Score = 29.6 bits (67), Expect = 1.2
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 98 PREKNKIILQIGTADPERALEAAKKVEHDVAA 129
P+E K I + + D +R E K+ HDV A
Sbjct: 50 PKEDVKKIREHASFDIDRIYEIEKETRHDVVA 81
>3my9_A Muconate cycloisomerase; structural genomics, PSI-2, protein
structure INI NEW YORK SGX research center for
structural genomics, nysgx; 2.20A {Azorhizobium
caulinodans}
Length = 377
Score = 29.5 bits (67), Expect = 1.4
Identities = 8/54 (14%), Positives = 20/54 (37%), Gaps = 8/54 (14%)
Query: 181 NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIAN 234
+ + + ++A I E+P R ++ + L P++A+
Sbjct: 203 TPFGAMKILRDVDAFRPTFI--------EQPVPRRHLDAMAGFAAALDTPILAD 248
>3qld_A Mandelate racemase/muconate lactonizing protein; structural
genomics, PSI-2, isomerase; HET: MSE; 1.85A
{Alicyclobacillus acidocaldarius LAA1}
Length = 388
Score = 29.6 bits (67), Expect = 1.4
Identities = 9/51 (17%), Positives = 19/51 (37%), Gaps = 8/51 (15%)
Query: 183 ADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIA 233
+ + ++L+A + I E+P + + L L+ PV
Sbjct: 203 PEDAPVLRQLDAYDLQFI--------EQPLPEDDWFDLAKLQASLRTPVCL 245
>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 = 29.2 bits (65), Expect = 1.4
Identities = 11/71 (15%), Positives = 16/71 (22%), Gaps = 2/71 (2%)
Query: 182 EADTIALCKRLEACGIIAIGVHGR-TKAERPRHRNRIEMIRTLTQHLKIPVIANGGSKEI 240
+ T+ GI IG + M+ L+ VIA G
Sbjct: 135 DCSTVNEGISCHQKGIEFIGTTLSGYTGPITPVEPDLAMVTQLSHA-GCRVIAEGRYNTP 193
Query: 241 VDYGGVFSLNC 251
Sbjct: 194 ALAANAIEHGA 204
>3i6e_A Muconate cycloisomerase I; structural genomics, NYSGXRC, targer
9468A, muconate lactonizing enzyme, PSI-2, protein
structure initiative; 1.70A {Ruegeria pomeroyi} PDB:
3i6t_A
Length = 385
Score = 29.6 bits (67), Expect = 1.4
Identities = 7/54 (12%), Positives = 18/54 (33%), Gaps = 8/54 (14%)
Query: 181 NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIAN 234
+ + + I E+P + E++ L +P++A+
Sbjct: 204 EIDEAVPRVLDVAQFQPDFI--------EQPVRAHHFELMARLRGLTDVPLLAD 249
>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 = 29.5 bits (67), Expect = 1.4
Identities = 14/64 (21%), Positives = 22/64 (34%), Gaps = 10/64 (15%)
Query: 174 CKIRVFHNEA----DTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKI 229
K V N + + + + GI E+P R IE ++ + H
Sbjct: 183 AKYIVDANMGYTQKEAVEFARAVYQKGIDIAVY------EQPVRREDIEGLKFVRFHSPF 236
Query: 230 PVIA 233
PV A
Sbjct: 237 PVAA 240
>3b2n_A Uncharacterized protein Q99UF4; structural genomics, PSI-2, protein
structure initiative, NE SGX research center for
structural genomics; 2.04A {Staphylococcus aureus}
Length = 133
Score = 28.2 bits (64), Expect = 1.5
Identities = 13/59 (22%), Positives = 25/59 (42%), Gaps = 8/59 (13%)
Query: 108 IGTA-DPERALEAAKKVEHDVAAIDINMGCPKQFSLTGGMGAALL--STPDIACNILTT 163
+ + A++ ++ +V +DI M P +TG A + +I I+TT
Sbjct: 32 LADTDNGLDAMKLIEEYNPNVVILDIEM--PG---MTGLEVLAEIRKKHLNIKVIIVTT 85
>1qu6_A Protein kinase PKR; dsRNA-binding domain, solution structure,
transferase; NMR {Homo sapiens} SCOP: d.50.1.1 d.50.1.1
Length = 179
Score = 28.7 bits (64), Expect = 1.6
Identities = 9/50 (18%), Positives = 18/50 (36%), Gaps = 10/50 (20%)
Query: 262 KLPKTIL--YAHCKYKRFEVPKYETVQYE-----KLFRSLVTVNGKQYTS 304
L Y K+ V KY+ + + F V ++G+++
Sbjct: 13 GFFMEELNTYRQ---KQGVVLKYQELPNSGPPHDRRFTFQVIIDGREFPE 59
>2l3j_A Double-stranded RNA-specific editase 1; editing, dsRNA recognition,
DSRBM, hydrolase-RNA complex; NMR {Rattus norvegicus}
Length = 236
Score = 29.1 bits (64), Expect = 1.6
Identities = 13/52 (25%), Positives = 18/52 (34%), Gaps = 7/52 (13%)
Query: 259 PVEKLPKTILYAHCKYKRFEVPKYETVQYE-----KLFRSLVTVNGKQYTSK 305
P LPK L + K +Y + LF V VNG+ +
Sbjct: 1 PGPVLPKNALMQLNEIKP--GLQYMLLSQTGPVHAPLFVMSVEVNGQVFEGS 50
Score = 28.0 bits (61), Expect = 3.5
Identities = 10/56 (17%), Positives = 17/56 (30%)
Query: 248 SLNCAFLRNHYPVEKLPKTILYAHCKYKRFEVPKYETVQYEKLFRSLVTVNGKQYT 303
P K P IL +++ + K F V V+G+ +
Sbjct: 147 PPLPIPPPFPPPSGKNPVMILNELRPGLKYDFLSESGESHAKSFVMSVVVDGQFFE 202
>3cqy_A Anhydro-N-acetylmuramic acid kinase; APC7501, SO_1313, structural
genomics, PSI-2, shewanella one MR-1, protein structure
initiative; 2.30A {Shewanella oneidensis}
Length = 370
Score = 29.1 bits (66), Expect = 1.6
Identities = 24/120 (20%), Positives = 36/120 (30%), Gaps = 17/120 (14%)
Query: 126 DVAAIDINMGCPKQFSLTG-----GMGAALLSTPDIACNILTTLISNLSIPVSCKIRVFH 180
D +D P+ + L C T I+ L + +
Sbjct: 20 DAVLVDFAGEQPQLIGTHTETIPTHLLKGLQR----LCLPGTDEINRLGR-LDRSVGKLF 74
Query: 181 NEADTIALCKR--LEACGIIAIGVHGRTKAERPRHRNRIEM----IRTLTQHLKIPVIAN 234
A L + + IIAIG HG+T P + T+ I VIA+
Sbjct: 75 ALA-VNNLLAKTKIAKDEIIAIGSHGQTVRHMPNLEVGFTLQIGDPNTIATETGIDVIAD 133
>3ijl_A Muconate cycloisomerase; enolase superfamily, dipeptide epimerase,
L-Pro-D-Glu, nonpr binding; HET: DGL; 1.50A {Bacteroides
thetaiotaomicron} PDB: 3iji_A* 3ijq_A*
Length = 338
Score = 29.1 bits (66), Expect = 1.7
Identities = 14/65 (21%), Positives = 27/65 (41%), Gaps = 13/65 (20%)
Query: 174 CKIRV-----FHNEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLK 228
I V + + + + L+ GI+ I E+P + +++ I +TQ
Sbjct: 174 LPIAVDANQGWKDRQYALDMIHWLKEKGIVMI--------EQPMPKEQLDDIAWVTQQSP 225
Query: 229 IPVIA 233
+PV A
Sbjct: 226 LPVFA 230
>2p8b_A Mandelate racemase/muconate lactonizing enzyme family protein;
enolase superfamily, prediction of function; HET: NSK;
1.70A {Bacillus cereus atcc 14579} PDB: 2p88_A* 2p8c_A*
Length = 369
Score = 29.1 bits (66), Expect = 1.9
Identities = 10/53 (18%), Positives = 21/53 (39%), Gaps = 8/53 (15%)
Query: 181 NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIA 233
N A+T+ + L I I E+P + I+ + + +P++
Sbjct: 198 NSANTLTALRSLGHLNIDWI--------EQPVIADDIDAMAHIRSKTDLPLMI 242
>2b7v_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding
protein, hydrolase; NMR {Rattus norvegicus} SCOP:
d.50.1.1 PDB: 2l2k_B
Length = 71
Score = 26.9 bits (60), Expect = 2.1
Identities = 10/45 (22%), Positives = 17/45 (37%)
Query: 259 PVEKLPKTILYAHCKYKRFEVPKYETVQYEKLFRSLVTVNGKQYT 303
P K P IL +++ + K F V V+G+ +
Sbjct: 1 PSGKNPVMILNELRPGLKYDFLSESGESHAKSFVMSVVVDGQFFE 45
>4eei_A Adenylosuccinate lyase; structural genomics, niaid, national
institute of allergy AN infectious diseases; HET: AMP;
1.92A {Francisella tularensis subsp}
Length = 438
Score = 28.8 bits (65), Expect = 2.1
Identities = 10/32 (31%), Positives = 13/32 (40%)
Query: 98 PREKNKIILQIGTADPERALEAAKKVEHDVAA 129
P+ I PER E K +HD+ A
Sbjct: 40 PKGTAAEIRARAQIRPERVDEIEKVTKHDIIA 71
>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 = 28.8 bits (65), Expect = 2.1
Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 10/70 (14%)
Query: 176 IRVFHNEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRI---EMIRTLTQHLKIPVI 232
I V ++AL KR+E G A+ G E H ++ ++R + + IPVI
Sbjct: 111 IIVIP-VVPSVALAKRMEKIGADAVIAEG---MEAGGHIGKLTTMTLVRQVATAISIPVI 166
Query: 233 ANGGSKEIVD 242
A GG I D
Sbjct: 167 AAGG---IAD 173
>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 = 28.8 bits (65), Expect = 2.3
Identities = 15/72 (20%), Positives = 30/72 (41%), Gaps = 12/72 (16%)
Query: 176 IRVFHNEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEM-----IRTLTQHLKIP 230
++V H + + + E G+ A+ + G E H ++ + L++P
Sbjct: 119 VKVIH-KCTAVRHALKAERLGVDAVSIDG---FECAGHPGEDDIPGLVLLPAAANRLRVP 174
Query: 231 VIANGGSKEIVD 242
+IA+GG D
Sbjct: 175 IIASGG---FAD 183
>3k4o_A Isopentenyl phosphate kinase; small molecule kinase, ATP-binding,
transferase, methanocald jannaschii, isopentenyl
monophosphate; 2.05A {Methanocaldococcus jannaschii}
PDB: 3k4y_A* 3k52_A* 3k56_A*
Length = 266
Score = 28.3 bits (63), Expect = 2.6
Identities = 7/48 (14%), Positives = 17/48 (35%), Gaps = 1/48 (2%)
Query: 188 LCKRLEACGIIAIGVHGR-TKAERPRHRNRIEMIRTLTQHLKIPVIAN 234
+ L++ I A+ + + I+ + + +PVI
Sbjct: 103 IIDTLQSYDIPAVSIQPSSFVVFGDKLIFDTSAIKEMLKRNLVPVIHG 150
>3qbx_A Anhydro-N-acetylmuramic acid kinase; acetate and sugar kinases,
HSP70, actin superfamily, anhydro-N-actetylmuramic acid
binding; HET: AH0; 2.10A {Pseudomonas aeruginosa} PDB:
3qbw_A*
Length = 371
Score = 28.7 bits (65), Expect = 2.7
Identities = 21/113 (18%), Positives = 37/113 (32%), Gaps = 6/113 (5%)
Query: 126 DVAAIDINMGCPKQFSLTGGMGAALLSTPDIACNILTTLISNLSIPVSCKIRVFHNEADT 185
D+ I+ S M A L C I+ + V + +
Sbjct: 17 DIVLIEQGDRTTLLASHYLPMPAGLREDILALCVPGPDEIARAAE-VEQRWVALAAQG-V 74
Query: 186 IALCKR--LEACGIIAIGVHGRTKAERPRHRNRIEM--IRTLTQHLKIPVIAN 234
L + + + AIG HG+T P +++ L + I V+A+
Sbjct: 75 RELLLQQQMSPDEVRAIGSHGQTIRHEPARHFTVQIGNPALLAELTGIDVVAD 127
>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 = 28.4 bits (64), Expect = 3.0
Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 4/67 (5%)
Query: 176 IRVFHNEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIANG 235
+V + +L + +E G A+ G ++ +++ + IPVIA G
Sbjct: 125 TKVIP-VVASDSLARMVERAGADAVIAEGMESGGHIGEVTTFVLVNKVSRSVNIPVIAAG 183
Query: 236 GSKEIVD 242
G I D
Sbjct: 184 G---IAD 187
>3sr7_A Isopentenyl-diphosphate delta-isomerase; isopentenyl pyrophosphate
isomerase, TIM-barrel; 2.04A {Streptococcus mutans}
Length = 365
Score = 28.2 bits (63), Expect = 3.5
Identities = 27/152 (17%), Positives = 49/152 (32%), Gaps = 31/152 (20%)
Query: 104 IILQIGTADP-ERALEAAKKVEHDVAAIDINMGCPKQFSLTGGMGAALLSTPDIACNILT 162
+ IG P + L+A + ++ + IN+ L G + +
Sbjct: 147 LATNIGLDKPYQAGLQAVRDLQPLFLQVHINL----MQELLMPEGEREFRSWKKHLS--- 199
Query: 163 TLISNLSIPVSCKIRVFHNEADTIALCKRLEACGIIAIGV--HGRT---KAERPRHRNR- 216
L +P K F + TI + G+ + + G T E R NR
Sbjct: 200 DYAKKLQLPFILKEVGFGMDVKTI---QTAIDLGVKTVDISGRGGTSFAYIENRRGGNRS 256
Query: 217 ------------IEMIRTLTQHLKIPVIANGG 236
+ + L K+ ++A+GG
Sbjct: 257 YLNQWGQTTAQVLLNAQPLMD--KVEILASGG 286
>3mwc_A Mandelate racemase/muconate lactonizing protein; enolase,
structural genomics, protein structure initiative,
nysgrc; 1.80A {Kosmotoga olearia}
Length = 400
Score = 28.1 bits (63), Expect = 3.7
Identities = 8/51 (15%), Positives = 19/51 (37%), Gaps = 8/51 (15%)
Query: 183 ADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIA 233
D K ++A + E+P H + ++ L + ++ P+
Sbjct: 218 LDQWETFKAMDAAKCLFH--------EQPLHYEALLDLKELGERIETPICL 260
>1wue_A Mandelate racemase/muconate lactonizing enzyme FA protein;
structural genomics, unknown function, nysgxrc target
T2185; 2.10A {Enterococcus faecalis} SCOP: c.1.11.2
d.54.1.1
Length = 386
Score = 28.0 bits (63), Expect = 4.0
Identities = 8/51 (15%), Positives = 16/51 (31%), Gaps = 8/51 (15%)
Query: 183 ADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIA 233
+ +RL+ + I E+P + L + LK +
Sbjct: 215 LADLPQLQRLDHYQLAMI--------EQPFAADDFLDHAQLQRELKTRICL 257
>4e7p_A Response regulator; DNA binding, cytosol, transcription regulator;
1.89A {Streptococcus pneumoniae} PDB: 4e7o_A
Length = 150
Score = 27.1 bits (61), Expect = 4.0
Identities = 10/56 (17%), Positives = 22/56 (39%), Gaps = 9/56 (16%)
Query: 111 ADPERALEAAKKVEHDVAAIDINMGCPKQFSLTGGMGAA---LLSTPDIACNILTT 163
+ + A++ +K D+A +D+ M P G+ + ++TT
Sbjct: 53 KNGQEAIQLLEKESVDIAILDVEM--PV----KTGLEVLEWIRSEKLETKVVVVTT 102
>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 = 28.1 bits (62), Expect = 4.2
Identities = 21/113 (18%), Positives = 40/113 (35%), Gaps = 10/113 (8%)
Query: 170 IPVSCKIRVFHNEADTIALCKRLEACGIIAI-GVHGRTKAERPRHRNRIEMIRTLTQHLK 228
+ + + D A+ +++ G I +H T PR +R+E + + +
Sbjct: 169 VVIENVLEGDELRTDLKAVEAKIQELGPEHILCLHSTTACFAPRVPDRLEELAVICANYD 228
Query: 229 IPVIANGGSKEIVDYGGVFSLNCAFLRNHYPVEKLPKTILYAHCKYKRFEVPK 281
IP + N YG S ++ V ++ + K F VP
Sbjct: 229 IPHVVNNA------YGLQSSKCMHLIQQGARVGRIDAFVQSLD---KNFMVPV 272
>2zc8_A N-acylamino acid racemase; octamer, TIM beta/alpha-barrel,
metal-binding, metal binding; 1.95A {Thermus
thermophilus}
Length = 369
Score = 28.0 bits (63), Expect = 4.2
Identities = 10/52 (19%), Positives = 19/52 (36%), Gaps = 8/52 (15%)
Query: 183 ADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIAN 234
+A KRL+ + I E+P + + L + L P+ +
Sbjct: 195 LANLAQLKRLDELRLDYI--------EQPLAYDDLLDHAKLQRELSTPICLD 238
>2dmy_A Spermatid perinuclear RNA-binding protein; DSRM domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.50.1.1
Length = 97
Score = 26.3 bits (58), Expect = 5.2
Identities = 7/52 (13%), Positives = 20/52 (38%), Gaps = 6/52 (11%)
Query: 260 VEKLPKTILYAHCKYKRF-EVPKYETVQ-----YEKLFRSLVTVNGKQYTSK 305
++ ++ A + + +Y+ + + +F V V+G Y +
Sbjct: 11 LDSKAIDLMNALMRLNQIRPGLQYKLLSQSGPVHAPVFTMSVDVDGTTYEAS 62
>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 = 27.6 bits (62), Expect = 5.6
Identities = 12/64 (18%), Positives = 18/64 (28%), Gaps = 10/64 (15%)
Query: 174 CKIRVFHNEA----DTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKI 229
+ V N +A C +A I E+P R + +T
Sbjct: 188 APLIVDGNCGYDVERALAFCAACKAESI------PMVLFEQPLPREDWAGMAQVTAQSGF 241
Query: 230 PVIA 233
V A
Sbjct: 242 AVAA 245
>2qr3_A Two-component system response regulator; structural genomics,
signal receiver, PSI-2, protein structu initiative;
1.80A {Bacteroides fragilis}
Length = 140
Score = 26.8 bits (60), Expect = 5.9
Identities = 7/43 (16%), Positives = 14/43 (32%), Gaps = 5/43 (11%)
Query: 111 ADPERALEAAKKVEHDVAAIDINMGCPKQFSLTGGM-GAALLS 152
+ P ++ +V +D+N + G G L
Sbjct: 34 SSPVSLSTVLREENPEVVLLDMNF----TSGINNGNEGLFWLH 72
>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 = 27.2 bits (61), Expect = 6.0
Identities = 4/20 (20%), Positives = 10/20 (50%)
Query: 217 IEMIRTLTQHLKIPVIANGG 236
+ + + ++ V+A GG
Sbjct: 177 FSLTKKIAIEAEVKVLAAGG 196
>2pgw_A Muconate cycloisomerase; enolase superfamily, octamer, small
metabolism, PSI-II, NYSGXRC, structural genomics, PR
structure initiative; 1.95A {Sinorhizobium meliloti}
Length = 384
Score = 27.6 bits (62), Expect = 6.0
Identities = 14/64 (21%), Positives = 30/64 (46%), Gaps = 12/64 (18%)
Query: 175 KIRV-FH---NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIP 230
++R+ + + D I +C++LE I I E+P I + + + + IP
Sbjct: 192 RLRLDANEGWSVHDAINMCRKLEKYDIEFI--------EQPTVSWSIPAMAHVREKVGIP 243
Query: 231 VIAN 234
++A+
Sbjct: 244 IVAD 247
>4exk_A Maltose-binding periplasmic protein, uncharacteri protein chimera;
MCSG, pcsep, MBP-fused target, structural genomics; HET:
MTT; 1.28A {Escherichia coli} PDB: 3g7v_A* 3g7w_A*
3sev_A* 3ser_A* 3sew_A* 3set_A* 3ses_A* 3seu_A* 3sex_A*
3sey_A* 3q27_A* 3q28_A* 3q26_A* 3q25_A* 3q29_A* 1nmu_A*
2ok2_A* 3pgf_A* 1t0k_A* 3rum_A* ...
Length = 487
Score = 27.5 bits (61), Expect = 6.1
Identities = 8/46 (17%), Positives = 17/46 (36%), Gaps = 1/46 (2%)
Query: 109 GTADPERAL-EAAKKVEHDVAAIDINMGCPKQFSLTGGMGAALLST 153
G + AL A + + D+ + + L+ G A + +
Sbjct: 357 GRQTVDAALAAAQTNAAANTPSPDLTVMSIDKSVLSPGESATITTI 402
>3bw2_A 2-nitropropane dioxygenase; TIM barrel, oxidoreductase; HET: FMN;
2.10A {Streptomyces ansochromogenes} PDB: 3bw4_A*
3bw3_A*
Length = 369
Score = 27.3 bits (61), Expect = 6.1
Identities = 17/82 (20%), Positives = 31/82 (37%), Gaps = 15/82 (18%)
Query: 176 IRVFHNEADTIALCKRLEACG---IIA--------IGVHGRTKAERPRHRNRIEMIRTLT 224
A T + +EA G +IA G H + + + ++ +
Sbjct: 146 TLTLVT-ATTPEEARAVEAAGADAVIAQGVEAGGHQGTHRDSSEDDGAGIGLLSLLAQVR 204
Query: 225 QHLKIPVIANGGSKEIVDYGGV 246
+ + IPV+A GG I+ G +
Sbjct: 205 EAVDIPVVAAGG---IMRGGQI 223
>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 = 27.1 bits (61), Expect = 6.4
Identities = 6/20 (30%), Positives = 13/20 (65%)
Query: 217 IEMIRTLTQHLKIPVIANGG 236
+E+++ + PV+A+GG
Sbjct: 179 LELLKNVCAATDRPVVASGG 198
>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 = 27.3 bits (61), Expect = 6.5
Identities = 12/64 (18%), Positives = 22/64 (34%), Gaps = 10/64 (15%)
Query: 174 CKIRVFHNEA----DTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKI 229
K R N+ T + + + E+P I+ + +T+ I
Sbjct: 187 IKFRFDANQGWNLAQTKQFIEEINKYSL------NVEIIEQPVKYYDIKAMAEITKFSNI 240
Query: 230 PVIA 233
PV+A
Sbjct: 241 PVVA 244
>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 = 27.3 bits (61), Expect = 6.6
Identities = 11/53 (20%), Positives = 17/53 (32%), Gaps = 9/53 (16%)
Query: 181 NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIA 233
N D + L K L+ + I E+P L + LK +
Sbjct: 214 NREDFLLL-KELDQYDLEMI--------EQPFGTKDFVDHAWLQKQLKTRICL 257
>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 = 26.8 bits (60), Expect = 7.7
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 217 IEMIRTLTQHLKIPVIANGG 236
++++ + PVIA+GG
Sbjct: 182 LDLLAGVADRTDAPVIASGG 201
>3g23_A Peptidase U61, LD-carboxypeptidase A; flavodoxin-like fold,
catalytic triad, merops S66 unassigned peptidases
family; HET: MSE; 1.89A {Novosphingobium
aromaticivorans}
Length = 274
Score = 26.8 bits (59), Expect = 8.6
Identities = 9/48 (18%), Positives = 15/48 (31%), Gaps = 1/48 (2%)
Query: 188 LCKRLEACGIIAIG-VHGRTKAERPRHRNRIEMIRTLTQHLKIPVIAN 234
C + +G V + +RP + EM R I +
Sbjct: 210 SCLADAGIAGLRLGRVSDVPENDRPFGCSVEEMARHWCHRAGIAFLGT 257
>1dof_A Adenylosuccinate lyase; purine biosynthesis; 2.10A {Pyrobaculum
aerophilum} SCOP: a.127.1.1
Length = 403
Score = 26.8 bits (60), Expect = 8.9
Identities = 3/32 (9%), Positives = 12/32 (37%), Gaps = 1/32 (3%)
Query: 98 PREKNKIILQIGTADPERALEAAKKVEHDVAA 129
R + + + + + ++ HD+ +
Sbjct: 46 ERGCCEKVNK-ASVSADEVYRLERETGHDILS 76
>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 = 26.9 bits (60), Expect = 9.3
Identities = 9/53 (16%), Positives = 24/53 (45%), Gaps = 6/53 (11%)
Query: 181 NEADTIALCKRLEACGIIAIGVHGRTKAERPRHRNRIEMIRTLTQHLKIPVIA 233
+ + +++E G+ G E+P H++ + ++ +T P++A
Sbjct: 197 RPKEAVTAIRKMEDAGL------GIELVEQPVHKDDLAGLKKVTDATDTPIMA 243
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
0.323 0.139 0.405
Gapped
Lambda K H
0.267 0.0624 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,740,378
Number of extensions: 294376
Number of successful extensions: 1024
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1005
Number of HSP's successfully gapped: 103
Length of query: 306
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 213
Effective length of database: 4,105,140
Effective search space: 874394820
Effective search space used: 874394820
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 57 (26.0 bits)