RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13372
(273 letters)
>3ngf_A AP endonuclease, family 2; structural genomics, seattle structural
genomics center for infectious disease, ssgcid, TIM
barrel; 1.80A {Brucella melitensis biovar abortus}
Length = 269
Score = 225 bits (575), Expect = 1e-73
Identities = 96/261 (36%), Positives = 143/261 (54%), Gaps = 16/261 (6%)
Query: 7 KLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFPPVGVTLEQLVAAQTRHGLKQVLI 66
+ AANL+ +FN++ +L+++R+AAE GF +E FP + + +H L QVL
Sbjct: 11 RFAANLSTMFNEVP--FLERFRLAAEAGFGGVEFLFPY-DFDADVIARELKQHNLTQVLF 67
Query: 67 NTE----VDENFGYAAVKGKESEFRASLEKTIQYACALNIPAIHIMSGKTESSRTQPIAS 122
N G AA+ G+E EFR +++ + YA AL+ +H MSG TE + A
Sbjct: 68 NMPPGDWAAGERGMAAISGREQEFRDNVDIALHYALALDCRTLHAMSGITEGLDRK--AC 125
Query: 123 EDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGISN 182
E+ + EN YA +L H +T L+EP+N ++PGY++ A L++ + N
Sbjct: 126 EETFI---ENFRYAADKLAPHGITVLVEPLNTRNMPGYFIVHQLEAVGLVKRV---NRPN 179
Query: 183 VQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEPHARGEIDYAYVFELLARE 242
V +Q D ++AQ + GDLT HVQIA PDR EP GE++Y Y+F +L
Sbjct: 180 VAVQLDLYHAQIMDGDLTRLIEKMNGAFSHVQIASVPDRHEPD-EGELNYPYLFSVLESV 238
Query: 243 GYEGYVGLEYKPQGNTKEGLE 263
GY G+VG EY P+G T+ GL
Sbjct: 239 GYRGWVGCEYNPRGKTESGLA 259
>1k77_A EC1530, hypothetical protein YGBM; TIM barrel, structural genomics,
PSI, structure initiative; 1.63A {Escherichia coli}
SCOP: c.1.15.5
Length = 260
Score = 222 bits (566), Expect = 2e-72
Identities = 83/261 (31%), Positives = 134/261 (51%), Gaps = 15/261 (5%)
Query: 7 KLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFPPVGVTLEQLVAAQTRHGLKQVLI 66
+ AANL+++F ++ +++++ A + GF +E FP + Q+ ++ L L
Sbjct: 3 RFAANLSMMFTEVP--FIERFAAARKAGFDAVEFLFPY-NYSTLQIQKQLEQNHLTLALF 59
Query: 67 NTEVDE----NFGYAAVKGKESEFRASLEKTIQYACALNIPAIHIMSGKTESSRTQPIAS 122
NT + +G +A+ G+E E A ++ ++YA ALN +H+M+G +
Sbjct: 60 NTAPGDINAGEWGLSALPGREHEAHADIDLALEYALALNCEQVHVMAGVVP----AGEDA 115
Query: 123 EDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGISN 182
E +N+ YA H L+E ++ P Y SS A ++ E+ N
Sbjct: 116 ERYRAVFIDNIRYAADRFAPHGKRILVEALSPGVKPHYLFSSQYQALAIVEEV---ARDN 172
Query: 183 VQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEPHARGEIDYAYVFELLARE 242
V +Q D F+AQ++ G+LTH HVQIA PDR EP GEI+Y ++F L
Sbjct: 173 VFIQLDTFHAQKVDGNLTHLIRDYAGKYAHVQIAGLPDRHEPD-DGEINYPWLFRLFDEV 231
Query: 243 GYEGYVGLEYKPQGNTKEGLE 263
GY+G++G EYKP+G T+EGL
Sbjct: 232 GYQGWIGCEYKPRGLTEEGLG 252
>3kws_A Putative sugar isomerase; structural genomics, joint center
structural genomics, JCSG, protein structure initiative;
HET: MSE; 1.68A {Parabacteroides distasonis atcc 8503}
Length = 287
Score = 209 bits (533), Expect = 4e-67
Identities = 47/266 (17%), Positives = 88/266 (33%), Gaps = 11/266 (4%)
Query: 5 SFKLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFPPVGVTLEQLVAAQTRHGLKQV 64
KL+ + + + +K +LG E + + ++ A +K
Sbjct: 25 ELKLSFQEGIAPGE---SLNEKLDFMEKLGVVGFEPGGGGLAGRVNEIKQALNGRNIKVS 81
Query: 65 LINTEVDENFGYAAVKGKESEFRASLEKTIQYACALNIPAIHIMSGKTESSRTQPIASED 124
I + E ++++ I A L + I+ P + +
Sbjct: 82 AICAGFKGFIL-STDPAIRKECMDTMKEIIAAAGELGSTGVIIVPAFNGQVPALP-HTME 139
Query: 125 PYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGISNVQ 184
L E +H + + EP+N+ +YL A L R++ V+
Sbjct: 140 TRDFLCEQFNEMGTFAAQHGTSVIFEPLNRK--ECFYLRQVADAASLCRDI---NNPGVR 194
Query: 185 LQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEPHARGE-IDYAYVFELLAREG 243
DF++ F + + + HV +A R P G+ +Y F+ L G
Sbjct: 195 CMGDFWHMTWEETSDMGAFISGGEYLQHVHVASRKRRSMPGEDGDADNYINGFKGLKMIG 254
Query: 244 YEGYVGLEYKPQGNTKEGLEEFLKTF 269
Y YV E QG+ + +K
Sbjct: 255 YNNYVSFECGCQGDRNVVVPAAVKLL 280
>2zvr_A Uncharacterized protein TM_0416; hyperthermophIle, ketohexose
3-epimeras tagatose 3-epimerase, isomerase; 2.20A
{Thermotoga maritima}
Length = 290
Score = 184 bits (469), Expect = 2e-57
Identities = 48/266 (18%), Positives = 97/266 (36%), Gaps = 23/266 (8%)
Query: 7 KLAANLTLL---FNDLA--ANYLDKYRVAAELGFRYIESWFP-PVGVTLEQLVAAQTRHG 60
KL+ ++ F+ LA + +A +G++ +E P V ++
Sbjct: 22 KLSLVISTSDAAFDALAFKGDLRKGMELAKRVGYQAVEIAVRDPSIVDWNEVKILSEELN 81
Query: 61 LKQVLINT-EVDENFGYAAVKGKESEFRASLE---KTIQYACALNIPAIHIMSGKTESSR 116
L I T + G + + + ++E K + A I + R
Sbjct: 82 LPICAIGTGQAYLADGLSLTHPNDEIRKKAIERVVKHTEVAGMFGALVIIGLVRG----R 137
Query: 117 TQPIASEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELR 176
+ + E+ E++ E +IEP+N++ ++++ A R++R++
Sbjct: 138 REGRSYEETEELFIESMKRLLELTEHAKF--VIEPLNRY--ETDFINTIDDALRILRKI- 192
Query: 177 AHGISNVQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEPHARGEIDYAYVF 236
+ V + D F+ ++ + + + H +A +R P G D+ VF
Sbjct: 193 --NSNRVGILADTFHMNIEEVNIPESLKRAGEKLYHFHVAD-SNRWAPG-CGHFDFRSVF 248
Query: 237 ELLAREGYEGYVGLEYKPQGNTKEGL 262
L GY YV +E P E
Sbjct: 249 NTLKEIGYNRYVSVECLPLPGGMEEA 274
>3vni_A Xylose isomerase domain protein TIM barrel; D-psicose 3-epimerase,
ketohexose; 1.98A {Clostridium cellulolyticum} PDB:
3vnj_A* 3vnl_A* 3vnk_A* 3vnm_A*
Length = 294
Score = 172 bits (437), Expect = 1e-52
Identities = 43/260 (16%), Positives = 93/260 (35%), Gaps = 12/260 (4%)
Query: 7 KLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFPPV----GVTLEQLVAAQTRHGLK 62
K + A+Y A+LGF +E P+ + + +L A +G+
Sbjct: 3 KHGIYYAYWEQEWEADYKYYIEKVAKLGFDILEIAASPLPFYSDIQINELKACAHGNGIT 62
Query: 63 QVLINTEVDENFGYAAVKGKESEFRASLEKTIQYACALNIPAI-HIMSGKTESSRTQPIA 121
+ + E + +A ++ L++ I + T+ I
Sbjct: 63 LTVGHGPSAEQNLSSPDPDIRKNAKAFYTDLLKRLYKLDVHLIGGALYSYWPIDYTKTID 122
Query: 122 SEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGIS 181
+ + E++ E + +E +N+ Y +++ + ++++ +
Sbjct: 123 KKGDWERSVESVREVAKVAEACGVDFCLEVLNRF--ENYLINTAQEGVDFVKQV---DHN 177
Query: 182 NVQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEPHARGEIDYAYVFELLAR 241
NV++ D F+ + +GH+ + +R+ P RG I + + E LA
Sbjct: 178 NVKVMLDTFHMNIEEDSIGGAIRTAGSYLGHLHTGE-CNRKVP-GRGRIPWVEIGEALAD 235
Query: 242 EGYEGYVGLEYKPQGNTKEG 261
GY G V +E + G
Sbjct: 236 IGYNGSVVMEPFVRMGGTVG 255
>2qul_A D-tagatose 3-epimerase; beta/alpha barrel, isomerase; 1.79A
{Pseudomonas cichorii} PDB: 2ou4_A 2qum_A* 2qun_A*
Length = 290
Score = 164 bits (418), Expect = 9e-50
Identities = 38/261 (14%), Positives = 79/261 (30%), Gaps = 13/261 (4%)
Query: 7 KLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFP----PVGVTLEQLVAAQTRHGLK 62
K+ T + ++ + A LGF +E +L A GL
Sbjct: 3 KVGMFYTYWSTEWMVDFPATAKRIAGLGFDLMEISLGEFHNLSDAKKRELKAVADDLGLT 62
Query: 63 QVLINTEVDENFGYAAVKGKESEFRASLEKTIQYACALNIPAIHIMSGKT--ESSRTQPI 120
+ E + K +++ + L P ++ +S
Sbjct: 63 VMCCIGLKSEYDFASPDKSVRDAGTEYVKRLLDDCHLLGAPVFAGLTFCAWPQSPPLDMK 122
Query: 121 ASEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGI 180
E++ E + + +E VN+ + + + A +
Sbjct: 123 DKRPYVDRAIESVRRVIKVAEDYGIIYALEVVNRF--EQWLCNDAKEAIAFADAV---DS 177
Query: 181 SNVQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEPHARGEIDYAYVFELLA 240
++Q D F+ AC+ +GH + + +R P G + + +F L
Sbjct: 178 PACKVQLDTFHMNIEETSFRDAILACKGKMGHFHLGE-ANRLPPG-EGRLPWDEIFGALK 235
Query: 241 REGYEGYVGLEYKPQGNTKEG 261
GY+G + +E +
Sbjct: 236 EIGYDGTIVMEPFMRKGGSVS 256
>2hk0_A D-psicose 3-epimerase; TIM-barrel, isomerase; 2.00A {Agrobacterium
tumefaciens} PDB: 2hk1_A*
Length = 309
Score = 156 bits (395), Expect = 3e-46
Identities = 41/260 (15%), Positives = 85/260 (32%), Gaps = 12/260 (4%)
Query: 7 KLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFP----PVGVTLEQLVAAQTRHGLK 62
K + ++ +A + A+LGF IE L + + +G+
Sbjct: 22 KHGIYYSYWEHEWSAKFGPYIEKVAKLGFDIIEVAAHHINEYSDAELATIRKSAKDNGII 81
Query: 63 QVLINTEVDENFGYAAVKGKESEFRASLEKTIQYACALNIPAI-HIMSGKTESSRTQPIA 121
+ + +A E+T+ L+I I + +QP+
Sbjct: 82 LTAGIGPSKTKNLSSEDAAVRAAGKAFFERTLSNVAKLDIHTIGGALHSYWPIDYSQPVD 141
Query: 122 SEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGIS 181
Y E + + IE +N+ + L++ ++++ G +
Sbjct: 142 KAGDYARGVEGINGIADFANDLGINLCIEVLNRF--ENHVLNTAAEGVAFVKDV---GKN 196
Query: 182 NVQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEPHARGEIDYAYVFELLAR 241
NV++ D F+ L+GH + +R+ P +G + + + L
Sbjct: 197 NVKVMLDTFHMNIEEDSFGDAIRTAGPLLGHFHTGE-SNRRVPG-KGRMPWHEIGLALRD 254
Query: 242 EGYEGYVGLEYKPQGNTKEG 261
Y G V +E + G
Sbjct: 255 INYTGAVIMEPFVKTGGTIG 274
>1i60_A IOLI protein; beta barrel, structural genomics, PSI, protein
structure initiative, midwest center for structural
genomics, MCSG; 1.60A {Bacillus subtilis} SCOP: c.1.15.4
PDB: 1i6n_A
Length = 278
Score = 117 bits (294), Expect = 1e-31
Identities = 44/260 (16%), Positives = 78/260 (30%), Gaps = 30/260 (11%)
Query: 7 KLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFPPV------GVTLEQLVAAQTRHG 60
KL N +N + + G+ YIE +L+ L H
Sbjct: 2 KLCFNEATTL--ENSNLKLDLELCEKHGYDYIEIRTMDKLPEYLKDHSLDDLAEYFQTHH 59
Query: 61 LKQVLINTEVDENFGYAAVKGKESEFRASLEKTIQYACALNIPAIHIMSGKTESSRTQPI 120
+K + +N V N +E + ++ L + + + Q I
Sbjct: 60 IKPLALNALVFFNNRDEKGH---NEIITEFKGMMETCKTLGVKYVVAVPL----VTEQKI 112
Query: 121 ASEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGI 180
E+ + + L E + + +E V P +++F A ++ +
Sbjct: 113 VKEEIKKSSVDVLTELSDIAEPYGVKIALEFVGH---PQCTVNTFEQAYEIVNTV---NR 166
Query: 181 SNVQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEP----HAR-----GEID 231
NV L D F+ + ++ A I I D R G ID
Sbjct: 167 DNVGLVLDSFHFHAMGSNIESLKQADGKKIFIYHIDDTEDFPIGFLTDEDRVWPGQGAID 226
Query: 232 YAYVFELLAREGYEGYVGLE 251
L G+ V +E
Sbjct: 227 LDAHLSALKEIGFSDVVSVE 246
>3u0h_A Xylose isomerase domain protein; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG, TIM barrel;
2.30A {Alicyclobacillus acidocaldarius subsp}
Length = 281
Score = 108 bits (271), Expect = 3e-28
Identities = 40/265 (15%), Positives = 71/265 (26%), Gaps = 31/265 (11%)
Query: 3 APSFKLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFPPVGVTLEQLVAAQTR---- 58
+ + + + TL+ + + +A E G+RY++ F + E+ A
Sbjct: 1 SNAMEPCLHPTLV---DETSLVLYLDLARETGYRYVDVPFHWLEAEAERHGDAAVEAMFQ 57
Query: 59 -HGLKQVLINTEVDENFGYAAVKGKESEFRASLEKT---IQYACALNIPAIHIMSGKTES 114
GL + ++ + E F L + L ++
Sbjct: 58 RRGLVLANLGLPLN-------LYDSEPVFLRELSLLPDRARLCARLGARSVTAFLW---- 106
Query: 115 SRTQPIASEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRE 174
+ L + EL + +E V H + + L
Sbjct: 107 PSMDEEPVRY-ISQLARRIRQVAVELLPLGMRVGLEYVGPHHLRHRRYPFVQSLADLKTF 165
Query: 175 LRAHGISNVQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDR---QEPHAR---- 227
A G NV D ++ + + +V I D R
Sbjct: 166 WEAIGAPNVGALVDSYHWYTAGEHEDDLAQLPPEKVVYVHINDTRDAPEDAHDGKRLLPG 225
Query: 228 -GEIDYAYVFELLAREGYEGYVGLE 251
G I L GY G V E
Sbjct: 226 DGRIPLVPFLRGLYLAGYRGPVAAE 250
>3qc0_A Sugar isomerase; TIM barrel, structural genomics, joint center for
structural genomics, JCSG, protein structure initiative,
PSI-biology,; HET: UNL PG4; 1.45A {Sinorhizobium
meliloti} PDB: 3ju2_A
Length = 275
Score = 105 bits (264), Expect = 3e-27
Identities = 35/256 (13%), Positives = 70/256 (27%), Gaps = 24/256 (9%)
Query: 7 KLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFPPV-GVTLEQLVAAQTRHGLKQVL 65
L+ NL + + + + + G I W V + L + +GLK
Sbjct: 6 GLSINLATIREQC--GFAEAVDICLKHGITAIAPWRDQVAAIGLGEAGRIVRANGLKLTG 63
Query: 66 INTEVDENFGYAAVKGKESEFRASLEKTIQYACALNIPAIHIMSGKTESSRTQPIASEDP 125
+ A + + + A L + +++G + D
Sbjct: 64 LCRGGFFP---APDASGREKAIDDNRRAVDEAAELGADCLVLVAG----GLPGGSKNIDA 116
Query: 126 -YTTLKENLIYACAELERHSLTALIEPVNQHSVPG-YYLSSFRVAERLIRELRAHGISNV 183
+ E + + IEP++ +++ A + L V
Sbjct: 117 ARRMVVEGIAAVLPHARAAGVPLAIEPLHPMYAADRACVNTLGQALDICETLGP----GV 172
Query: 184 QLQFDFFNAQRICGDLTHTFGAC-RDLIGHVQIA--QAPDRQEPHAR-----GEIDYAYV 235
+ D ++ A I I P + R G ID +
Sbjct: 173 GVAIDVYHVWWDPDLANQIARAGKMKAILAHHICDWLVPTKDMLTDRGMMGDGVIDLKGI 232
Query: 236 FELLAREGYEGYVGLE 251
+ G+ G +E
Sbjct: 233 RRRIEAAGFHGAQEVE 248
>2qw5_A Xylose isomerase-like TIM barrel; putative sugar phosphate
isomerase/epimerase; 1.78A {Anabaena variabilis atcc
29413}
Length = 335
Score = 102 bits (255), Expect = 1e-25
Identities = 38/280 (13%), Positives = 74/280 (26%), Gaps = 36/280 (12%)
Query: 5 SFKLAANLTLLFNDLAANYLDKYRVAAELGFRYIE--------SWFPPVGVTLEQLVAAQ 56
F NL D + + G+ E + L
Sbjct: 15 FFMFTTNLQPDNLDYRRIVVAHIKKLQRFGYSGFEFPIAPGLPENYAQDLENYTNLRHYL 74
Query: 57 TRHGLKQVLINTEVDENFGY---AAVKGKESEFRASLEKTIQYACALNIPAI----HIMS 109
GL+ V I+T V + + + E L+ + AL + I
Sbjct: 75 DSEGLENVKISTNVGATRTFDPSSNYPEQRQEALEYLKSRVDITAALGGEIMMGPIVIPY 134
Query: 110 GKTESSRTQPIASEDP--------YTTLKENLIYACAELERHSLTALIEPVNQHSVPGYY 161
G ++ D Y + L E + IEP+
Sbjct: 135 GVFPTTDFNEPIWSDELQEHLKVRYANAQPILDKLGEYAEIKKVKLAIEPITHW--ETPG 192
Query: 162 LSSFRVAERLIRELRAHGISNVQLQFDFFNAQRICGDLTHT-----FGACRDLIGHVQIA 216
+ ++ + V + D + + A + + +VQ++
Sbjct: 193 PNKLSQLIEFLKGV---KSKQVGVVIDSAHEILDGEGPEIFKTQVEYLAQQGRLHYVQVS 249
Query: 217 QAPDRQEPHARGEIDYAYVFELLAREGYEGYVGLEYKPQG 256
PDR H + + + + Y+G + +E
Sbjct: 250 P-PDRGALH-TSWLPWKSFLTPI-VKVYDGPIAVEIFNAI 286
>3cqj_A L-ribulose-5-phosphate 3-epimerase ULAE; TIM-barrel, isomerase,
phosphate-binding motif; 2.04A {Escherichia coli} PDB:
3cqi_A 3cqh_A 3cqk_A
Length = 295
Score = 94.7 bits (236), Expect = 5e-23
Identities = 47/288 (16%), Positives = 89/288 (30%), Gaps = 34/288 (11%)
Query: 4 PSFKLAANLTLLFNDLAANYLDKYRVAAELGFRYIE-------SWFPPVGVTLEQ---LV 53
L L +L++ ++A LGF ++E + + EQ LV
Sbjct: 15 KQIPLGIYEKALPAGE--CWLERLQLAKTLGFDFVEMSVDETDERLSRLDWSREQRLALV 72
Query: 54 AAQTRHGLKQVLINTEVDENFGYAAVKGKESEFRASLE---KTIQYACALNIPAIHIMSG 110
A G++ + + + ++ LE K IQ+A + I I +
Sbjct: 73 NAIVETGVRVPSMCL--SAHRRFPLGSEDDAVRAQGLEIMRKAIQFAQDVGIRVIQLAGY 130
Query: 111 KTESSRTQPIASEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAER 170
A+ + ++ L + R +T +E + ++S A
Sbjct: 131 ----DVYYQEANNETRRRFRDGLKESVEMASRAQVTLAMEIM-----DYPLMNSISKALG 181
Query: 171 LIRELRAHGISNVQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEPHA---R 227
L QL D N D+ A I V + +
Sbjct: 182 YAHYL---NNPWFQLYPDIGNLSAWDNDVQMELQAGIGHIVAVHVKDTKPGVFKNVPFGE 238
Query: 228 GEIDYAYVFELLAREGYEGYVGLE--YKPQGNTKEGLEEFLKTFDLKL 273
G +D+ FE L + GY G +E + + + + ++
Sbjct: 239 GVVDFERCFETLKQSGYCGPYLIEMWSETAEDPAAEVAKARDWVKARM 286
>2g0w_A LMO2234 protein; putative sugar isomerase, structural genomics,
joint center structural genomics, JCSG, protein
structure initiative; HET: MSE PG4; 1.70A {Listeria
monocytogenes} SCOP: c.1.15.4
Length = 296
Score = 92.6 bits (230), Expect = 3e-22
Identities = 47/285 (16%), Positives = 85/285 (29%), Gaps = 46/285 (16%)
Query: 3 APSFKLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFPPV------GVTLEQLVAAQ 56
+ + L ++ ++ + +VAAE GF I G+T E ++
Sbjct: 20 LKKCPITISSYTLGTEV--SFPKRVKVAAENGFDGIGLRAENYVDALAAGLTDEDMLRIL 77
Query: 57 TRHGLKQVLINTEVDENFGYAAVKGKESEFRASLEKTIQYACALNIPAIHIMSGKTESSR 116
H +K + + + + +E + + T A + I+
Sbjct: 78 DEHNMKVTEVEYITQ----WGTAEDRTAEQQKKEQTTFHMARLFGVKHINCGLL------ 127
Query: 117 TQPIASEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELR 176
+ P + L C E + +E + P ++ + A R+
Sbjct: 128 -----EKIPEEQIIVALGELCDRAEELIIG--LEFM-----PYSGVADLQAAWRVAE--- 172
Query: 177 AHGISNVQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEP-------HAR-- 227
A G N QL D ++ R D I +Q+ + H R
Sbjct: 173 ACGRDNAQLICDTWHWARANQTAESIKNVPADRIVSIQLCDVHETPYKELREESLHDRLA 232
Query: 228 ---GEIDYAYVFELLAREGYEGYV-GLEYKPQGNTKEGLEEFLKT 268
G D ++L G V G+E GLE
Sbjct: 233 PGEGYGDTVGFAKILKEHGVNPRVMGVEVISDSMVATGLEYAALK 277
>2q02_A Putative cytoplasmic protein; structural genomics, joint CEN
structural genomics, JCSG, protein structure initiative;
2.40A {Salmonella typhimurium LT2} SCOP: c.1.15.4
Length = 272
Score = 89.6 bits (222), Expect = 2e-21
Identities = 44/269 (16%), Positives = 77/269 (28%), Gaps = 43/269 (15%)
Query: 1 MAAPSFKLAANLTLLFNDLAANYLDKYRVAAELGFRYIE------SWFPPVGVTLEQLVA 54
M + N + L + +R+ L F +E S + Q+
Sbjct: 2 MNIEKTRFCIN-RKIAPGL--SIEAFFRLVKRLEFNKVELRNDMPSGSVTDDLNYNQVRN 58
Query: 55 AQTRHGLKQVLINTEVDENFGYAAVKGKESEFRASLEKTIQYACALNIPAIHIMSGKTES 114
++GL+ V IN E E ++ A + A+ +
Sbjct: 59 LAEKYGLEIVTIN-------AVYPFNQLTEEVVKKTEGLLRDAQGVGARALVLCPLND-- 109
Query: 115 SRTQPIASEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRE 174
+ P E + R+ + L+EP+ L S A++LIRE
Sbjct: 110 ------GTIVPPEVTVEAIKRLSDLFARYDIQGLVEPLG---FRVSSLRSAVWAQQLIRE 160
Query: 175 LRAHGISNVQLQFDFFNAQRICGDLTHTFGA-CRDLIGHVQIAQAPDRQEPHA------- 226
S ++ D F+ IG V ++ D + A
Sbjct: 161 AG----SPFKVLLDTFHHHLYEEAEKEFASRIDISAIGLVHLSGVEDTRPTEALADEQRI 216
Query: 227 ----RGEIDYAYVFELLAREGYEGYVGLE 251
+ + + L GY G E
Sbjct: 217 MLSEKDVMQNYQQVQRLENMGYRGIYAFE 245
>3dx5_A Uncharacterized protein ASBF; beta-alpha barrel, petrobactin
synthesis, ASB locus, structu genomics, PSI-2, protein
structure initiative; HET: MSE DHB TRS; 2.12A {Bacillus
anthracis}
Length = 286
Score = 89.0 bits (221), Expect = 5e-21
Identities = 46/290 (15%), Positives = 89/290 (30%), Gaps = 48/290 (16%)
Query: 7 KLAANLTLLFNDLAANYLDKYRVAAELGFRYIESW-------FPPVGVTLEQLVAAQTRH 59
K + T+ F ++ D + A E GF IE W + T E+ +
Sbjct: 2 KYSLC-TISFRHQLISFTDIVQFAYENGFEGIELWGTHAQNLYMQEYETTERELNCLKDK 60
Query: 60 GLKQVLINTEVDENFGYAAVKGKESEFRASLEKTIQYACALNIPAIHIMSGKTESSRTQP 119
L+ +I+ + ++ + E+ A I +G+ S
Sbjct: 61 TLEITMISD-----YLDISLSADFEKTIEKCEQLAILANWFKTNKIRTFAGQKGS----A 111
Query: 120 IASEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHG 179
S+ + C +H++ L+E H P + L+ E+
Sbjct: 112 DFSQQERQEYVNRIRMICELFAQHNMYVLLET---H--PNTLTDTLPSTLELLGEV---D 163
Query: 180 ISNVQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEPHAR------------ 227
N+++ DF + D +F R I H H
Sbjct: 164 HPNLKINLDFLHIWESGADPVDSFQQLRPWIQHYHFKNISSADYLHVFEPNNVYAAAGNR 223
Query: 228 --------GEIDYAYVFELLAREGYEGYVGLEYKPQGNTKEGLEEFLKTF 269
G ++Y + + + + + LE+ N K+ L+ +K
Sbjct: 224 TGMVPLFEGIVNYDEIIQEVR--DTDHFASLEW-FGHNAKDILKAEMKVL 270
>3tva_A Xylose isomerase domain protein TIM barrel; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG;
HET: MSE; 2.15A {Planctomyces limnophilus}
Length = 290
Score = 77.5 bits (191), Expect = 7e-17
Identities = 38/266 (14%), Positives = 73/266 (27%), Gaps = 44/266 (16%)
Query: 28 RVAAELGFRYIE--SWFPPVGV--TLEQLVAAQTRHGLKQVLINTEV------DENFGYA 77
VA +L ++ + P + A G++ +I D
Sbjct: 28 EVAQDLKVPTVQVHAPHPHTRTREHAQAFRAKCDAAGIQVTVIFGGFDGESYADIPTTAR 87
Query: 78 AVKGKESEFRAS----LEKTIQYACALNIPAIHIMSGKTESSRTQPIASEDPYTTLKENL 133
V E RAS +++ +A + PAI + G P +S Y+ L
Sbjct: 88 TVGLVPLETRASRVAEMKEISDFASWVGCPAIGLHIGFV------PESSSPDYSELVRVT 141
Query: 134 IYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGISNVQLQFDFFNAQ 193
H +E + A+ L+ + N+ + FD N
Sbjct: 142 QDLLTHAANHGQAVHLETGQES------------ADHLLEFIEDVNRPNLGINFDPANMI 189
Query: 194 RIC-GDLTHTFGACRDLIGHVQIAQAPDRQEPHAR-----------GEIDYAYVFELLAR 241
G+ + + A G++ L
Sbjct: 190 LYGTGNPIEALRKVARYVRSIHCKDALWAPVNERGKSWGQEVALGTGDVGMEAYLTTLWE 249
Query: 242 EGYEGYVGLEYKPQGNTKEGLEEFLK 267
GY G + +E + + + ++
Sbjct: 250 IGYRGPLTIEREIPHDPVQQKKDLAS 275
>3qxb_A Putative xylose isomerase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-biology; 1.90A {Rhodospirillum rubrum}
Length = 316
Score = 73.6 bits (180), Expect = 2e-15
Identities = 42/278 (15%), Positives = 77/278 (27%), Gaps = 27/278 (9%)
Query: 1 MAAPSFKLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFPPVG---------VTLEQ 51
+ KL NL V +LG Y++ +
Sbjct: 15 LYFQGMKLGVNLCFAVKRWLEPDRLAGLVRDDLGLEYVQYTYDLTDPWWPDIERDRRAIA 74
Query: 52 LVAAQTRHGLKQVLINTEVDENFGYAAVKGKESEFRASLE---KTIQYACALNIPAIHI- 107
A + GL + + + + I A+ +PA +
Sbjct: 75 YAKAFRKAGLTIESTFGGLASYTYNHFLAPTLELQSLGYQHLKRAIDMTAAMEVPATGMP 134
Query: 108 MSGKTESSRTQPIASEDPYTTLKENLIYACAELERHSLTAL-IEPVNQHSVPGYYLSSFR 166
+ + P E+ Y ++ I A +R L+ L +EP + + SS
Sbjct: 135 FGSYSAADALNPARREEIYAIARDMWIELAAYAKRQGLSMLYVEP---VPLATEFPSSAA 191
Query: 167 VAERLIRELRAHGISNVQLQFDFFNAQRICGDLTHT-----FGACRDLIGHVQIAQAPDR 221
A RL+ +L V+L D+ +A C+ I I Q +
Sbjct: 192 DAARLMADLDGRTEIPVRLLVDWGHALFEPLFGPEADMDHWMDLCQPWIAAYHIQQTDGQ 251
Query: 222 QEPHAR----GEIDYAYVFELLAREGYEG-YVGLEYKP 254
+ H G + + + + E
Sbjct: 252 LDRHWSFTQPGVVTPQRLQDFWDKYALTDQTFFAEILY 289
>2zds_A Putative DNA-binding protein; TIM-barrel fold, structural genomics,
NPPSFA; 2.30A {Streptomyces coelicolor}
Length = 340
Score = 54.0 bits (129), Expect = 1e-08
Identities = 46/306 (15%), Positives = 83/306 (27%), Gaps = 68/306 (22%)
Query: 28 RVAAELGFRYIE--SW---FPP------------VGVTLEQL---VAAQTRHGLKQVLIN 67
R+A + G+ +E W F L++ A + H + Q + +
Sbjct: 22 RLARDFGYDGLELACWGDHFEVDKALADPSYVDSRHQLLDKYGLKCWAISNHLVGQAVCD 81
Query: 68 TEVDENFGYAA---------VKGKESEFRASLEKTIQYACALNIPAIHIMSGKTESSRTQ 118
+DE +G A ++ T + A L + + +G
Sbjct: 82 AIIDERHEAILPARIWGDGDAEGVRQRAAAEIKDTARAAARLGVDTVIGFTGSAIWHLVA 141
Query: 119 ------PIASEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLI 172
E Y + + + E Y+ R +
Sbjct: 142 MFPPAPESMIERGYQDFADRWNPILDVFDAEGVRFAHEVHPSEIAYDYW-----TTHRAL 196
Query: 173 RELRAHGISNVQLQFDFFNAQRICGDLTHTFGACRDLIGHVQI----------------- 215
+ L FD + D RD I HV
Sbjct: 197 EAVGHR--PAFGLNFDPSHFVWQDLDPVGFLWDFRDRIYHVDCKEARKRLDGRNGRLGSH 254
Query: 216 -----AQAPDRQEPHARGEIDYAYVFELLAREGYEGYVGLEYK-PQGNTKEGLEE---FL 266
+ G++ + VF +L Y+G V +E++ + +G E L
Sbjct: 255 LPWGDPRRGWDFVSAGHGDVPWEDVFRMLRSIDYQGPVSVEWEDAGMDRLQGAPEALTRL 314
Query: 267 KTFDLK 272
K FD +
Sbjct: 315 KAFDFE 320
>3l23_A Sugar phosphate isomerase/epimerase; structural genomics, JO center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: MSE; 1.70A {Parabacteroides distasonis}
Length = 303
Score = 52.1 bits (124), Expect = 5e-08
Identities = 29/242 (11%), Positives = 68/242 (28%), Gaps = 29/242 (11%)
Query: 30 AAELGFRYIESWF----PPVGVTLEQLVAAQTRHGLKQV--------LINTEVDENFGYA 77
++G+ +E GV + GLK + ++ + +
Sbjct: 38 VKDMGYSKLELAGYGKGAIGGVPMMDFKKMAEDAGLKIISSHVNPVDTSISDPFKAMIFK 97
Query: 78 AVKGKESEFRASLEKTIQYACALNIPAIHIMSGKTESSRTQPIA-----SEDPYTTLKEN 132
K + + T L + T ++ + ++ E
Sbjct: 98 YSKEVTPKIMEYWKATAADHAKLGCKYLIQPMMPTITTHDEAKLVCDIFNQASDVIKAEG 157
Query: 133 LIYACA------ELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGISNVQLQ 186
+ E R + E V + + ++ + ++++ S V +
Sbjct: 158 IATGFGYHNHNMEFNRVATKEQQEKVKGNPFAAFMKVGDQIYDLMLKDTDP---SKVYFE 214
Query: 187 FDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEPHARGEIDYAYVFELLAREGYEG 246
D + D D I + I DR G +++ +F+ + G +
Sbjct: 215 MDVYWTVMGQNDPVEYMQKHPDRIKVLHIK---DRAVFGQSGMMNFEMIFKQMYANGIKD 271
Query: 247 YV 248
Y
Sbjct: 272 YF 273
>3obe_A Sugar phosphate isomerase/epimerase; structural genomics, joint
center for structural genomics, J protein structure
initiative; HET: MSE; 1.70A {Parabacteroides distasonis}
Length = 305
Score = 48.2 bits (114), Expect = 9e-07
Identities = 34/275 (12%), Positives = 72/275 (26%), Gaps = 44/275 (16%)
Query: 2 AAPSFKLAANLTLLFNDLAANYLDKYRVAAELGFRYIE--------------SWFPPVGV 47
A K+ L +L + + A+ G+ +E + +
Sbjct: 17 ATAGKKMGLQTYSLGQELLQDMPNGLNRLAKAGYTDLEIFGYREDTGKFGDYNPKNTTFI 76
Query: 48 TLEQLVAAQTRHGLKQVLINTEVDENFGYAAVKGKESEFRASLEKTIQYACALNIPAIHI 107
+ GL+ + ++ + + K +F +K L + +
Sbjct: 77 ASKDYKKMVDDAGLR--ISSSHLTPSL-REYTKENMPKFDEFWKKATDIHAELGVSCMVQ 133
Query: 108 MSGKTESSRTQPIASEDPYTTLKENLIYACAELERHSLTALIEP--------------VN 153
S I +ED + E A ++ +
Sbjct: 134 PSLP-------RIENEDDAKVVSEIFNRAGEITKKAGILWGYHNHSNEFKRVLKAGEKPE 186
Query: 154 QHSVPGYYLSSFRVAERLIRELRAHGISNVQLQFDFFNAQRICGDLTHTFGACRDLIGHV 213
Q+ P + E ++ V + D + A D + +
Sbjct: 187 QNPNPWAPPKGTYIEELFLKNT---DPDKVMFELDVYWAVMGQQDPVEWMENYPNRFKLL 243
Query: 214 QIAQAPDRQEPHARGEIDYAYVFELLAREGYEGYV 248
I DR G +++ +F+ G GY
Sbjct: 244 HIK---DRWIIGDSGMMNFPNIFKKAYEIGILGYY 275
>3cny_A Inositol catabolism protein IOLE; xylose isomerase-like TIM barrel,
structural genomics, joint for structural genomics,
JCSG; 1.85A {Lactobacillus plantarum WCFS1}
Length = 301
Score = 46.9 bits (111), Expect = 3e-06
Identities = 41/246 (16%), Positives = 74/246 (30%), Gaps = 36/246 (14%)
Query: 30 AAELGFRYIE--SWFPPVGVTLEQLVAAQTRHGLKQVLINTEVDENFGYAAVKGKESEFR 87
GF+ E +FP E+L L+ + ++ F
Sbjct: 40 IVVAGFQGTEVGGFFP----GPEKLNYELKLRNLE--IAGQWFSSYIIRDGIEKASEAFE 93
Query: 88 ASLEKTIQYACALNIPAIHIMSGKTESSRTQPIASEDPYTTLKE--NLIYACAELERHSL 145
+ A + + + + S T I + PY T KE + +
Sbjct: 94 KHCQYLK--AINAPVAVVSEQTYTIQRSDTANIFKDKPYFTDKEWDEVCKGLNHYGEIAA 151
Query: 146 TALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGISNVQLQFDFFNAQRICGDLTHTFGA 205
+ V H G + + +RL+ V L +D + GD A
Sbjct: 152 KYGL-KVAYHHHMGTGIQTKEETDRLMANTDPK---LVGLLYDTGHIAVSDGDYMALLNA 207
Query: 206 CRDLIGHVQIAQAPDRQEPHAR--------------------GEIDYAYVFELLAREGYE 245
D + HV +E R G++D+ V++ L Y+
Sbjct: 208 HIDRVVHVHFKDVRRSKEEECRAKGLTFQGSFLNGMFTVPGDGDLDFKPVYDKLIANNYK 267
Query: 246 GYVGLE 251
G++ +E
Sbjct: 268 GWIVVE 273
>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 = 44.7 bits (105), Expect = 2e-05
Identities = 53/289 (18%), Positives = 85/289 (29%), Gaps = 94/289 (32%)
Query: 31 AELGFRYIESWFPPVGVTLEQLVAAQTRHGLKQVLINTEVDENF--G---YAAVKGKESE 85
AEL +++ + V +E Q L L TE + + G +A E
Sbjct: 58 AELVGKFLG--Y--VSSLVEPSKVGQFDQVLNLCL--TEFENCYLEGNDIHALAAKLLQE 111
Query: 86 FRASLEKT---IQ-Y--ACAL-NIPAIH------IMSGKTESSRTQPI-----ASEDP-- 125
+L KT I+ Y A + P + +++ I ++D
Sbjct: 112 NDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFE 171
Query: 126 --------YTTLKENLIYACA----ELERHSLTA-------------LIEPVNQHSVPGY 160
Y L +LI A EL R +L A L P N
Sbjct: 172 ELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD-- 229
Query: 161 YLSSFRVAERLI---------RELRAHGISNVQLQFDFFNAQRICGDLTHTFGACRDLIG 211
YL S ++ LI + G + +L + G H+ + L+
Sbjct: 230 YLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGEL------RSYLKGATGHS----QGLVT 279
Query: 212 HVQIAQAPDRQEPHARGEIDYAYVFELLAREGYE-----GYVGLEYKPQ 255
V IA+ + F + R+ G E P
Sbjct: 280 AVAIAETDSWES------------FFVSVRKAITVLFFIGVRCYEAYPN 316
Score = 41.2 bits (96), Expect = 3e-04
Identities = 49/257 (19%), Positives = 78/257 (30%), Gaps = 91/257 (35%)
Query: 2 AAP-SFKLAANLTLLFNDLAANYLDKYRVAAELGFRYIESWFPPVGVT--LEQLVAAQTR 58
+ P S L + L A+Y A LGF E G T + LV A
Sbjct: 233 SIPISCPLIG-VIQL-----AHY---VVTAKLLGFTPGELRSYLKGATGHSQGLVTA--- 280
Query: 59 HGLKQVLINTEVDENFGYAAVKGKESEFRASLEKTIQYACALNIPAIHIMSGKTESSRTQ 118
V I A ES F S+ K I I G
Sbjct: 281 -----VAI----------AETDSWES-FFVSVRKAITVL-------FFI--G-VRCYEAY 314
Query: 119 PIASEDPYTTLKENL---------IYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAE 169
P S P + L+++L + + + L + + + N H +P + +V
Sbjct: 315 PNTSLPP-SILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSH-LP----AGKQVE- 367
Query: 170 RLIRELRAHGISNVQLQFDFFNAQR---ICG---DLTHTFGACRDLIGHVQIAQAPDRQE 223
IS V N + + G L L ++ A+AP +
Sbjct: 368 ----------ISLV-------NGAKNLVVSGPPQSLYG-------LNLTLRKAKAPSGLD 403
Query: 224 ----PHARGEIDYAYVF 236
P + ++ ++ F
Sbjct: 404 QSRIPFSERKLKFSNRF 420
Score = 39.3 bits (91), Expect = 0.001
Identities = 34/188 (18%), Positives = 54/188 (28%), Gaps = 44/188 (23%)
Query: 107 IMSGKTESSRTQPIASEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFR 166
+ G E P AS + L+E E A EP + G +L +
Sbjct: 11 LSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTE-GFAADDEPTTPAELVGKFLG-Y- 67
Query: 167 VAERLIRELRAHGISNVQLQFDFFNAQRICGDLTHTFGA------------CRDLI---- 210
V+ + + L F + G+ H A ++LI
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYI 127
Query: 211 -GHVQIAQAPDRQEPHA------RGEID-YAYVFELLAREGYEGYVGLEYKPQGNTKEGL 262
+ + D++ A G A +F G G QGNT +
Sbjct: 128 TARIMAKRPFDKKSNSALFRAVGEGNAQLVA-IF---------G--G-----QGNTDDYF 170
Query: 263 EEFLKTFD 270
EE +
Sbjct: 171 EELRDLYQ 178
>3p6l_A Sugar phosphate isomerase/epimerase; TIM barrel, structural
genomics, joint center for structural genomics, JCSG;
HET: CIT; 1.85A {Parabacteroides distasonis}
Length = 262
Score = 41.4 bits (97), Expect = 1e-04
Identities = 30/257 (11%), Positives = 74/257 (28%), Gaps = 51/257 (19%)
Query: 30 AAELGFRYIESW---FPPVGVTLEQLVAAQTRHGLKQVLINTEVDEN----FGYAAVKGK 82
ELG +YIE + + K++ G +
Sbjct: 31 TQELGLKYIEIYPGHKLGGKWGDKVFDFNLDAQTQKEIK--ELAASKGIKIVGTGVYVAE 88
Query: 83 ESEFRASLEKTIQYACALNIPAIHIMSGKTESSRTQPIASEDPYTTLKENLIYACAELER 142
+S EK ++A A+++ I ++ + ++ K+ I +
Sbjct: 89 KSS---DWEKMFKFAKAMDLEFITCEPALSDWDLVEKLS--------KQYNIKIS--VHN 135
Query: 143 HSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGISNVQLQFDFFNAQRICGDLTHT 202
H P + + + ++ D + +R +
Sbjct: 136 H--------------PQPSDYW---KPENLLKAISGRSQSLGSCSDVGHWRREGLNQIDC 178
Query: 203 FGACRDLIGHVQI-----AQAPDRQEPHA---RGEIDYAYVFELLAREGYEGYVGLEY-K 253
+ I + +A + ++ G +D + + L + ++G +EY
Sbjct: 179 LKQLKGRIISLHFKDIAPKKAGENEQHDVIWGTGILDVKGMLKELKSQNFKGVFSIEYEY 238
Query: 254 PQGNTKEGLEE---FLK 267
N+ ++E +
Sbjct: 239 NWENSVPDIKECIQYFN 255
>1muw_A Xylose isomerase; atomic resolution, disorder; 0.86A {Streptomyces
olivochromogenes} SCOP: c.1.15.3 PDB: 1s5m_A* 1s5n_A*
2gyi_A* 1xyb_A* 1xyc_A* 1xya_A* 1xyl_A 1xym_A* 1dxi_A
3gnx_A* 1gw9_A* 1xib_A 1xic_A* 1xid_A* 1xie_A* 1xif_A*
1xig_A* 1xih_A* 1xii_A* 1xij_A ...
Length = 386
Score = 39.4 bits (91), Expect = 7e-04
Identities = 38/256 (14%), Positives = 67/256 (26%), Gaps = 27/256 (10%)
Query: 24 LDKYRVAAELGFRYIE----------SWFPPVGVTLEQLVAAQTRHGLKQVLINTEV--D 71
++ + AELG + S +++ A G+ + T +
Sbjct: 36 VETVQRLAELGAHGVTFHDDDLIPFGSSDTERESHIKRFRQALDATGMTVPMATTNLFTH 95
Query: 72 ENFGYAAVKGKESEFRA----SLEKTIQYACALNIPAIHIMSG--KTESSRTQPIASEDP 125
F + + R + I A L G ES + +
Sbjct: 96 PVFKDGGFTANDRDVRRYALRKTIRNIDLAVELGAKTYVAWGGREGAESGAAKDVRVALD 155
Query: 126 YTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGISNVQL 185
+L+ + + + IEP L + A I L +
Sbjct: 156 RMKEAFDLLGEYVTSQGYDIRFAIEPKPNEPRGDILLPTVGHALAFIERLERPE--LYGV 213
Query: 186 QFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDRQEPHAR----GEIDYAYVFEL--- 238
+ + Q + H I + + G D F L
Sbjct: 214 NPEVGHEQMAGLNFPHGIAQALWAGKLFHIDLNGQSGIKYDQDLRFGAGDLRAAFWLVDL 273
Query: 239 LAREGYEGYVGLEYKP 254
L GYEG ++KP
Sbjct: 274 LESAGYEGPRHFDFKP 289
>1tz9_A Mannonate dehydratase; alpha-beta protein, structural genomics,
PSI, protein struct initiative, northeast structural
genomics consortium; 2.90A {Enterococcus faecalis} SCOP:
c.1.15.6
Length = 367
Score = 39.1 bits (90), Expect = 0.001
Identities = 37/252 (14%), Positives = 69/252 (27%), Gaps = 22/252 (8%)
Query: 16 FNDLAANYLDKYRVAAELGFRYIESWFPPVGVTLEQLVAAQTRHGLKQVLINTEVDENFG 75
+ NY R + G + F P+ + +A + G + F
Sbjct: 90 RDHYIDNYRQTLRNLGKCGISLVCYSFKPIFGWAKTDLAYENEDG--------SLSLLFD 141
Query: 76 YAAVKGKESEFRASLEKTIQYACAL-NIPAIHIMSGKTESSRTQPIASEDPYTTLKENLI 134
A V+ + E L + L + + + + ED L+ L
Sbjct: 142 QAVVENMQPEDMYQLIHSQSKGFRLPGWEEERLQQFQELKAMYAGVTEEDLVENLRYFLE 201
Query: 135 YACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGIS-NVQLQFDFFNAQ 193
E ++ I P + + L ++ + + S + F +
Sbjct: 202 RVIPVCEEENIKMGIHP-DDPPWEIFGLPRITKNLADLKRILSLVDSPANGITFCTGSLG 260
Query: 194 RICG-DLTHTFGACRDLIGHVQIAQAPDRQEPH---------ARGEIDYAYVFELLAREG 243
DL I V H G +D A + + L G
Sbjct: 261 ADPTNDLPTMIREIGHRINFVHFRNV-KYLGEHRFEETAHPSVAGSLDMAELMQALVDVG 319
Query: 244 YEGYVGLEYKPQ 255
YEG + ++
Sbjct: 320 YEGVIRPDHGRA 331
>3lmz_A Putative sugar isomerase; structural genomics, joint center
structural genomics, JCSG, protein structure initiative,
PS isomerase; HET: MSE CIT PGE; 1.44A {Parabacteroides
distasonis}
Length = 257
Score = 34.0 bits (78), Expect = 0.035
Identities = 30/229 (13%), Positives = 60/229 (26%), Gaps = 43/229 (18%)
Query: 31 AELGFRYIE--SWFPPVGVTLEQLVAAQTRHGLKQVLINTEVDENFGYAAVKGKESEFRA 88
L Y+ + P+ T EQ+ A + +V AV +
Sbjct: 40 ERLDIHYLCIKDFHLPLNSTDEQIRAFHDKCAAHKVTG----------YAVGPIYMKSEE 89
Query: 89 SLEKTIQYACALNIPAIHIMSGKTESSRTQPIASEDPYTTLKENLIYACAELERHSLTAL 148
+++ YA + + I G + +KE + + H
Sbjct: 90 EIDRAFDYAKRVGVKLI---VGVPNYELLPYVDK-----KVKEYDFHYA--IHLH----- 134
Query: 149 IEPVNQHSVPGYYLSSFRVAERLIRELRAHGISNVQLQFDFFNAQRICGDLTHTFGACRD 208
+ + + + + D + R D
Sbjct: 135 ---------GPDIKTYPDATDVWVHTKDLD--PRIGMCLDVGHDLRNGCDPVADLKKYHT 183
Query: 209 LIGHVQI--AQAPDRQEPHA---RGEIDYAYVFELLAREGYEGYVGLEY 252
+ + I + RG+ID+ + ++ Y G LEY
Sbjct: 184 RVFDMHIKDVTDSSKAGVGIEIGRGKIDFPALIRMMREVNYTGMCSLEY 232
>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 = 34.4 bits (78), Expect = 0.044
Identities = 37/313 (11%), Positives = 76/313 (24%), Gaps = 121/313 (38%)
Query: 16 FNDLAANYLDKYRVAAELGFRYIESWFPPVGVTLEQLVAAQTRHGLKQVLINTEVDEN-- 73
+ D+ + + D + + ++ K +L E+D
Sbjct: 18 YKDILSVFEDAFV--DNFDCKDVQDM-------------------PKSILSKEEIDHIIM 56
Query: 74 -----------FGYAAVKGKE--SEFRASLEKT--------IQYACALNIPAIHIMSGKT 112
F K +E +F + + I+ P++
Sbjct: 57 SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQ--RQPSMMTRMYIE 114
Query: 113 ESSRTQ---------PIASEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLS 163
+ R ++ PY L++ L+ EL + V G +
Sbjct: 115 QRDRLYNDNQVFAKYNVSRLQPYLKLRQALL----ELRPAKNVLI------DGVLGSGKT 164
Query: 164 SFRVAERLIRE-LRAHGISNVQLQFDFFNAQRICGDLTH--TFGACR---DLIGHVQ--- 214
+ + ++ VQ + DF +I C ++ +Q
Sbjct: 165 W------VALDVCLSYK---VQCKMDF----KI-----FWLNLKNCNSPETVLEMLQKLL 206
Query: 215 ------IAQAPDR-QEPHARGEIDYAYVFELLAREGYEGYVGLEYKPQGNTKEGL----- 262
D R A + LL + Y + L
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY--------------ENCLLVLLN 252
Query: 263 ---EEFLKTFDLK 272
+ F+L
Sbjct: 253 VQNAKAWNAFNLS 265
Score = 34.4 bits (78), Expect = 0.045
Identities = 27/166 (16%), Positives = 48/166 (28%), Gaps = 50/166 (30%)
Query: 17 NDLAANYLDKYRVAAELGFRYIESWFPPVGVTLEQLVAAQTRHGLKQVLINTEVDENFGY 76
+DL YLD+Y ++ +G H L N E E
Sbjct: 462 DDLIPPYLDQY-------------FYSHIG-----------HH-----LKNIEHPERM-- 490
Query: 77 AAVKGKESEFRAS------LEKTIQYACALNIPAIHIMSGKTESSRTQP-IASEDPY--- 126
+ FR LE+ I++ + I++ + +P I DP
Sbjct: 491 -------TLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYER 543
Query: 127 --TTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAER 170
+ + L L T L+ + + + +R
Sbjct: 544 LVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589
Score = 31.0 bits (69), Expect = 0.47
Identities = 30/237 (12%), Positives = 65/237 (27%), Gaps = 83/237 (35%)
Query: 52 LVAAQTRHGLKQVLINTEVDENFGYAAVKGKESEFRASLE-------KTIQYACAL---- 100
++A R GL +N+ + + +SL + + ++
Sbjct: 332 IIAESIRDGLATW-------DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS 384
Query: 101 -NIPA--IHIMSGKTESSRTQPIASEDPYTTLKENLIYACAELERHSLTALIEPVNQHSV 157
+IP + ++ S + ++ L ++SL V +
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNK----------------LHKYSL------VEKQPK 422
Query: 158 PG-YYLSSFRVAERLIRELRAHGISNVQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIA 216
+ S + EL+ + L H R ++ H I
Sbjct: 423 ESTISIPS------IYLELKVKLENEYAL---------------H-----RSIVDHYNIP 456
Query: 217 QAPDRQEPHARGEIDYAYVFELLAREGYEGYVGLEYKPQGNTKEGLEEFLKTF-DLK 272
+ D + Y Y ++G K + + + F F D +
Sbjct: 457 KTFDSDDLIPPYLDQYFY-----------SHIGHHLKNIEHPER-MTLFRMVFLDFR 501
>2w48_A Sorbitol operon regulator; SORC, activator, repressor, DNA-binding,
transcription, transcription regulator, transcription
regulation; 3.20A {Klebsiella pneumoniae}
Length = 315
Score = 29.0 bits (65), Expect = 1.6
Identities = 11/69 (15%), Positives = 25/69 (36%), Gaps = 6/69 (8%)
Query: 162 LSSFRVAERLIRELRAHGISNVQLQFDFFNAQRICGDLTHTFGACRDLIGHVQIAQAPDR 221
+ ++ RL++ R GI + + +D+ + L FG + +A +
Sbjct: 33 IYRTTIS-RLLKRGREQGIVTIAINYDYNENLWLEQQLKQKFG-----LKEAVVASSDGL 86
Query: 222 QEPHARGEI 230
E +
Sbjct: 87 LEEEQLSAM 95
>4eam_A Lactase, beta-galactosidase; glycoside hydrolase, chemical biology,
allosteric activation switchable enzyme, chemical
rescue; 1.70A {Sulfolobus solfataricus P2} PDB: 4ean_A
1uws_A* 1uwr_A* 1uwq_A* 1uwt_A* 1uwu_A* 2ceq_A* 2cer_A*
1gow_A 1uwi_A
Length = 489
Score = 28.4 bits (64), Expect = 3.1
Identities = 12/66 (18%), Positives = 25/66 (37%), Gaps = 8/66 (12%)
Query: 115 SRTQPIASEDPYTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRE 174
SR P P + E+ + L L E N+ ++ +Y + ++
Sbjct: 85 SRIFPNPLPRPQNFDESKQDVTEVEINENELKRLDEYANKDAL-NHY-------REIFKD 136
Query: 175 LRAHGI 180
L++ G+
Sbjct: 137 LKSRGL 142
>2fsr_A Acetyltransferase; alpha-beta-sandwich, structural genomics, PSI,
protein struc initiative, midwest center for structural
genomics; HET: PEG; 1.52A {Agrobacterium tumefaciens
str} SCOP: d.108.1.1
Length = 195
Score = 27.3 bits (61), Expect = 4.4
Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 8/37 (21%)
Query: 135 YACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERL 171
+A L +L + + P N+ S VAER+
Sbjct: 139 WAFETLNLPTLVSYVSPQNRKSA--------AVAERI 167
>1luc_A Bacterial luciferase; monooxygenase, flavoprotein; 1.50A {Vibrio
harveyi} SCOP: c.1.16.1 PDB: 1brl_A 3fgc_A*
Length = 355
Score = 27.4 bits (61), Expect = 6.1
Identities = 5/24 (20%), Positives = 11/24 (45%)
Query: 166 RVAERLIRELRAHGISNVQLQFDF 189
+ +++ A GI N+ F+
Sbjct: 306 ECIAIIQQDIDATGIDNICCGFEA 329
>2efe_A Similarity to vacuolar protein sorting-associated VPS9; GEF,
GTPase, VPS9, nucleotide, transport protein; HET: GNH;
2.08A {Arabidopsis thaliana} PDB: 2efd_A 2efc_A* 2efh_A*
Length = 267
Score = 27.0 bits (59), Expect = 6.8
Identities = 13/63 (20%), Positives = 23/63 (36%), Gaps = 2/63 (3%)
Query: 126 YTTLKENLIYACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERLIRELRAHGISNVQL 185
Y T+K N + L + Y+ ++ AE I + A IS +
Sbjct: 195 YVTIKANPPQLHSNL--LYIQRYRRESKLVGEAAYFFTNILSAESFISNIDAKSISLDEA 252
Query: 186 QFD 188
+F+
Sbjct: 253 EFE 255
>3aad_A Transcription initiation factor TFIID subunit 1; protein-protein
complex, bromodomain, transcription, transcr regulation,
chromatin regulator, transcription-C complex; 3.30A
{Homo sapiens}
Length = 292
Score = 26.9 bits (59), Expect = 7.6
Identities = 12/55 (21%), Positives = 16/55 (29%), Gaps = 1/55 (1%)
Query: 108 MSGKTESSRTQPIASEDPYTTLKENLIYACAELERHSLTAL-IEPVNQHSVPGYY 161
++ DP TL L ++ T PVN V YY
Sbjct: 27 CDYLNRPHKSIHRRRTDPMVTLSSILESIINDMRDLPNTYPFHTPVNAKVVKDYY 81
>3juw_A Probable GNAT-family acetyltransferase; structural genomics,
APC60242, acetyltransferas protein structure initiative;
HET: MSE; 2.11A {Bordetella pertussis}
Length = 175
Score = 26.4 bits (59), Expect = 7.8
Identities = 11/37 (29%), Positives = 15/37 (40%), Gaps = 8/37 (21%)
Query: 135 YACAELERHSLTALIEPVNQHSVPGYYLSSFRVAERL 171
+ R + ALI N S+ R+AERL
Sbjct: 125 HHDRSSGRQRVVALIARSNLPSL--------RLAERL 153
>2i7g_A Monooxygenase, AGR_C_4197P; alpha-beta, TIM barrel, helix-bundle,
structural genomics, P protein structure initiative;
HET: MSE; 1.73A {Agrobacterium tumefaciens str}
Length = 376
Score = 27.0 bits (60), Expect = 8.5
Identities = 8/36 (22%), Positives = 12/36 (33%), Gaps = 7/36 (19%)
Query: 166 RVAERLIRELRAHGISNVQLQFDFFNAQRICGDLTH 201
VAE++I+ LQ G + H
Sbjct: 313 LVAEKIIKAHGVFKNDRFLLQMAI-------GLMPH 341
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.136 0.396
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,228,765
Number of extensions: 255718
Number of successful extensions: 910
Number of sequences better than 10.0: 1
Number of HSP's gapped: 846
Number of HSP's successfully gapped: 48
Length of query: 273
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 181
Effective length of database: 4,133,061
Effective search space: 748084041
Effective search space used: 748084041
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: 56 (25.3 bits)