RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 029100
(199 letters)
>2f8m_A Ribose 5-phosphate isomerase; structural genomics, PSI, protein
structure initiative, STRU genomics of pathogenic
protozoa consortium; 2.09A {Plasmodium falciparum}
Length = 244
Score = 262 bits (672), Expect = 7e-90
Identities = 76/172 (44%), Positives = 112/172 (65%), Gaps = 1/172 (0%)
Query: 29 TQDELKKIAAYKAV-EFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKT 87
D LKKI AYKAV E+V+S M +GLGTGST + ++RI LL+ GKL ++V IPTS T
Sbjct: 8 HMDSLKKIVAYKAVDEYVQSNMTIGLGTGSTVFYVLERIDNLLKSGKLKDVVCIPTSIDT 67
Query: 88 HEQAVSLGIPLSDLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVI 147
+A LGIPL+ L+ + +D+ IDG DE+D +NL+KGRGG+L+REK+V + ++I
Sbjct: 68 ELKARKLGIPLTTLEKHSNIDITIDGTDEIDLNLNLIKGRGGALVREKLVASSSSLLIII 127
Query: 148 VDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAKLRTTGAE 199
DESKL + G A+P+E++ + ++ + L ++ GC K+R E
Sbjct: 128 GDESKLCTNGLGMTGAVPIEILTFGYEKIIENLLKIYTLKGCTYKIRKRNGE 179
>1lk5_A D-ribose-5-phosphate isomerase; alpha/beta structure; 1.75A
{Pyrococcus horikoshii} SCOP: c.124.1.4 d.58.40.1 PDB:
1lk7_A*
Length = 229
Score = 253 bits (648), Expect = 2e-86
Identities = 72/172 (41%), Positives = 112/172 (65%), Gaps = 5/172 (2%)
Query: 28 LTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKT 87
+ +E+KKIAA +A++F+E MV+GLGTGST + + +GE L++G++++IVG+PTS +
Sbjct: 1 MNVEEMKKIAAKEALKFIEDDMVIGLGTGSTTAYFIKLLGEKLKRGEISDIVGVPTSYQA 60
Query: 88 HEQAVSLGIPLSDLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVI 147
A+ IP++ LD +D+A+DGADEVDP +NL+KGRG +L EK++E F+V+
Sbjct: 61 KLLAIEHDIPIASLDQVDAIDVAVDGADEVDPNLNLIKGRGAALTMEKIIEYRAGTFIVL 120
Query: 148 VDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAKLRTTGAE 199
VDE KLV +L + +P+EV+P WK + L A+LR +
Sbjct: 121 VDERKLVDYLCQK-MPVPIEVIPQAWKAIIEELSIF----NAKAELRMGVNK 167
>3hhe_A Ribose-5-phosphate isomerase A; niaid, ssgcid, decode, SBRI, UW,
STRU genomics, seattle structural genomics center for
infectious; HET: 5RP; 2.30A {Bartonella henselae}
Length = 255
Score = 253 bits (648), Expect = 4e-86
Identities = 65/174 (37%), Positives = 99/174 (56%), Gaps = 4/174 (2%)
Query: 21 SSPPPVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVG 80
+ P + +LKK+AA KA+EFVE M LG+G+GST + +GE + G +
Sbjct: 15 QTQGPGSMNVQQLKKMAALKALEFVEDDMRLGIGSGSTVNEFIPLLGERVANGL--RVTC 72
Query: 81 IPTSKKTHEQAVSLGIPLSDLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGA 140
+ TS+ + + G+P+S L+ P +DL IDGADE+ P M L+KG GG+LL EK+V A
Sbjct: 73 VATSQYSEQLCHKFGVPISTLEKIPELDLDIDGADEIGPEMTLIKGGGGALLHEKIVASA 132
Query: 141 CKKFVVIVDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAKLR 194
+ VI DE+K+V LG L P+EV P+ T ++ ++ G ++
Sbjct: 133 SRAMFVIADETKMVKTLGAFAL--PIEVNPFGIHATRIAIEKAADNLGLSGEIT 184
>1uj6_A Ribose 5-phosphate isomerase; enzyme-inhibitor complex, riken
structural genomics/proteomi initiative, RSGI,
structural genomics; HET: A5P; 1.74A {Thermus
thermophilus} SCOP: c.124.1.4 d.58.40.1 PDB: 1uj5_A*
1uj4_A*
Length = 227
Score = 249 bits (639), Expect = 6e-85
Identities = 84/171 (49%), Positives = 113/171 (66%), Gaps = 7/171 (4%)
Query: 29 TQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTH 88
+ KK AA+ A+ +V+ GMV+GLGTGSTA++AV + LR+G+L +VG+PTS+ T
Sbjct: 4 PLESYKKEAAHAAIAYVQDGMVVGLGTGSTARYAVLELARRLREGELKGVVGVPTSRATE 63
Query: 89 EQAVSLGIPLSDLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIV 148
E A GIPL DL VDLAIDGADE+ P + L+KG GG+LLREK+VE K+F+VI
Sbjct: 64 ELAKREGIPLVDLPPEG-VDLAIDGADEIAPGLALIKGMGGALLREKIVERVAKEFIVIA 122
Query: 149 DESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAKLRTTGAE 199
D +K VP LG + PVE+VP+ ++ T K + DL G +LR G E
Sbjct: 123 DHTKKVPVLGRGPV--PVEIVPFGYRATLKAIADL----GGEPELRMDGDE 167
>3l7o_A Ribose-5-phosphate isomerase A; RPIA; 1.70A {Streptococcus mutans}
Length = 225
Score = 243 bits (624), Expect = 1e-82
Identities = 72/169 (42%), Positives = 102/169 (60%), Gaps = 7/169 (4%)
Query: 31 DELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQ 90
+ELKKIA +A ++VE GM++GLGTGSTA + V+ +G +++ L ++G+ TS +T Q
Sbjct: 2 EELKKIAGVRAAQYVEDGMIVGLGTGSTAYYFVEEVGRRVQEEGL-QVIGVTTSSRTTAQ 60
Query: 91 AVSLGIPLSDLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDE 150
A +LGIPL +D VD+ +DGADEVDP N +KG GG+LL EK+V K ++ +VDE
Sbjct: 61 AQALGIPLKSIDEVDSVDVTVDGADEVDPNFNGIKGGGGALLMEKIVGTLTKDYIWVVDE 120
Query: 151 SKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAKLRTTGAE 199
SK+V LG L PVEVV Y + + + G R
Sbjct: 121 SKMVDTLGAFRL--PVEVVQYGAERLFREFEKK----GYKPSFREYDGV 163
>1xtz_A Ribose-5-phosphate isomerase; yeast; 2.10A {Saccharomyces
cerevisiae}
Length = 264
Score = 241 bits (618), Expect = 2e-81
Identities = 54/194 (27%), Positives = 94/194 (48%), Gaps = 11/194 (5%)
Query: 13 VETGLSPLSSPPPVILTQDELKKIAAYKAVE---FVESGMVLGLGTGSTAKHAVDRIGEL 69
+ G+ + + + ++ K+ AAY+AV+ + ++G+G+GST + +RIG+
Sbjct: 1 MAAGVPKIDALESLGNPLEDAKRAAAYRAVDENLKFDDHKIIGIGSGSTVVYVAERIGQY 60
Query: 70 LRQGKLT----NIVGIPTSKKTHEQAVSLGIPLSDLDSYPVVDLAIDGADEVDPFMNLVK 125
L K + IPT ++ + + L ++ YP +D+A DGADEVD + L+K
Sbjct: 61 LHDPKFYEVASKFICIPTGFQSRNLILDNKLQLGSIEQYPRIDIAFDGADEVDENLQLIK 120
Query: 126 GRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGL--AMPVEVVPYCWKFTAKRLQDL 183
G G L +EK+V + K F+V+ D K P G +P+E+VP + L +
Sbjct: 121 GGGACLFQEKLVSTSAKTFIVVADSRKKSPKHLGKNWRQGVPIEIVPSSYVRVKNDLLEQ 180
Query: 184 FEDCGCVAKLRTTG 197
+R G
Sbjct: 181 L--HAEKVDIRQGG 192
>2pjm_A Ribose-5-phosphate isomerase A; 3D-structure, structural genomics,
pentose phosphate pathway, carbon fixation, NPPSFA;
1.78A {Methanocaldococcus jannaschii} PDB: 3ixq_A*
Length = 226
Score = 237 bits (608), Expect = 3e-80
Identities = 70/173 (40%), Positives = 104/173 (60%), Gaps = 8/173 (4%)
Query: 28 LTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKT 87
++ ++LK A +AV+ V+ GMV+GLGTGSTA + +G +R+ +L + GIPTS +
Sbjct: 1 MSNEDLKLKVAKEAVKLVKDGMVIGLGTGSTAALFIRELGNRIREEEL-TVFGIPTSFEA 59
Query: 88 HEQAVSLGIPLSDLDSYPVVDLAIDGADEVD-PFMNLVKGRGGSLLREKMVEGACKKFVV 146
A+ IPL LD Y VD+A DGADEV+ + L+KG GG +EK+V+ +FVV
Sbjct: 60 KMLAMQYEIPLVTLDEYD-VDIAFDGADEVEETTLFLIKGGGGCHTQEKIVDYNANEFVV 118
Query: 147 IVDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAKLRTTGAE 199
+VDESKLV L G +PVEV+P ++ + L ++ G A +R +
Sbjct: 119 LVDESKLVKKL-GEKFPIPVEVIPSAYRVVIRALSEM----GGEAVIRLGDRK 166
>1m0s_A Ribose-5-phosphate isomerase A; D-ribose 5-phosphate isomerase,
northeast structural genomics consortium, IR21,
structural genomics, PSI; HET: CIT; 1.90A {Haemophilus
influenzae} SCOP: c.124.1.4 d.58.40.1
Length = 219
Score = 233 bits (597), Expect = 1e-78
Identities = 56/167 (33%), Positives = 93/167 (55%), Gaps = 9/167 (5%)
Query: 28 LTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKT 87
+ Q E+KK+AA A+++V++ ++G+G+GST ++ +G + K + SK++
Sbjct: 1 MNQLEMKKLAAQAALQYVKADRIVGVGSGSTVNCFIEALGTI----KDKIQGAVAASKES 56
Query: 88 HEQAVSLGIPLSDLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVI 147
E GI + + + +D+ +DGADE++P ++KG G +L REK+V KKF+ I
Sbjct: 57 EELLRKQGIEVFNANDVSSLDIYVDGADEINPQKMMIKGGGAALTREKIVAALAKKFICI 116
Query: 148 VDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAKLR 194
VD SK V L GS +PVEV+P ++L L G + R
Sbjct: 117 VDSSKQVDVL-GSTFPLPVEVIPMARSQVGRKLAAL----GGSPEYR 158
>1o8b_A Ribose 5-phosphate isomerase; RPIA, PSI, protein ST initiative,
MCSG, midwest center for structural genomics; HET: ABF;
1.25A {Escherichia coli} SCOP: c.124.1.4 d.58.40.1 PDB:
1lkz_A 1ks2_A* 3enq_A 3env_A* 3enw_A*
Length = 219
Score = 233 bits (596), Expect = 1e-78
Identities = 62/167 (37%), Positives = 96/167 (57%), Gaps = 10/167 (5%)
Query: 28 LTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKT 87
+TQDELKK + A+++V+ G ++G+GTGSTA H +D +G + K + +S +
Sbjct: 1 MTQDELKKAVGWAALQYVQPGTIVGVGTGSTAAHFIDALGTM----KGQIEGAVSSSDAS 56
Query: 88 HEQAVSLGIPLSDLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVI 147
E+ SLGI + DL+ + + +DGADE++ M ++KG G +L REK++ +KF+ I
Sbjct: 57 TEKLKSLGIHVFDLNEVDSLGIYVDGADEINGHMQMIKGGGAALTREKIIASVAEKFICI 116
Query: 148 VDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAKLR 194
D SK V LG L PVEV+P A++L L G + R
Sbjct: 117 ADASKQVDILGKFPL--PVEVIPMARSAVARQLVKL----GGRPEYR 157
>3kwm_A Ribose-5-phosphate isomerase A; structural genomics, IDP02119,
center for structu genomics of infectious diseases,
csgid; 2.32A {Francisella tularensis subsp}
Length = 224
Score = 230 bits (589), Expect = 2e-77
Identities = 58/166 (34%), Positives = 90/166 (54%), Gaps = 10/166 (6%)
Query: 29 TQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTH 88
QDELKK+AA +A + + + + LG+GTGST ++ + + + +S+ +
Sbjct: 8 NQDELKKLAATEAAKSITTEITLGVGTGSTVGFLIEELVNY----RDKIKTVVSSSEDST 63
Query: 89 EQAVSLGIPLSDLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIV 148
+ +LG + DL+ +DL IDGADE + L+KG G +L REK+ A KKF+ I+
Sbjct: 64 RKLKALGFDVVDLNYAGEIDLYIDGADECNNHKELIKGGGAALTREKICVAAAKKFICII 123
Query: 149 DESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAKLR 194
DESK V LG L P+EV+P + A+++ L G R
Sbjct: 124 DESKKVNTLGNFPL--PIEVIPMARSYIARQIVKL----GGQPVYR 163
>3uw1_A Ribose-5-phosphate isomerase A; ssgcid, seattle structural genomics
center for infectious DI isomerase, ribose isomerase;
HET: R5P; 1.71A {Burkholderia thailandensis} PDB:
3u7j_A*
Length = 239
Score = 230 bits (589), Expect = 3e-77
Identities = 65/180 (36%), Positives = 91/180 (50%), Gaps = 14/180 (7%)
Query: 22 SPPPVILTQDELKKIAAYKAVEFVE----SGMVLGLGTGSTAKHAVDRIGELLRQGKLTN 77
+++TQDELK++ A +V G V+G+GTGSTA +D + + K
Sbjct: 3 GSMTLLMTQDELKRLVGEAAARYVTDNVPQGAVIGVGTGSTANCFIDALAAV----KDRY 58
Query: 78 IVGIPTSKKTHEQAVSLGIPLSDLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMV 137
+ +S T E+ S GI + DL+ + + +DGADE+D ++KG GG+L REK+V
Sbjct: 59 RGAVSSSVATTERLKSHGIRVFDLNEIESLQVYVDGADEIDESGAMIKGGGGALTREKIV 118
Query: 138 EGACKKFVVIVDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAKLRTTG 197
+ FV I D SK V LG L PVEVVP +RL L G V LR
Sbjct: 119 ASVAETFVCIADASKRVAMLGQFPL--PVEVVPMARTAIGRRLAAL----GGVPVLRVKQ 172
>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 = 38.9 bits (90), Expect = 8e-04
Identities = 19/100 (19%), Positives = 28/100 (28%), Gaps = 27/100 (27%)
Query: 4 AISAEKPSSVETGLSPLSSPPPVILTQDELKKI---AAYKAVEFVE------SGM--VLG 52
+ A P V S Q+ L+ + + VE V
Sbjct: 1808 GMIAINPGRVAASFS-----------QEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA 1856
Query: 53 LGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAV 92
G A+D + +L KL I I K + V
Sbjct: 1857 -GD----LRALDTVTNVLNFIKLQKIDIIELQKSLSLEEV 1891
Score = 29.2 bits (65), Expect = 1.0
Identities = 21/108 (19%), Positives = 32/108 (29%), Gaps = 32/108 (29%)
Query: 90 QAVSLGIPLSDL-DSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIV 148
Q +G+ DL + + AD + G S+L IV
Sbjct: 1627 QEQGMGM---DLYKTSKAAQDVWNRADN-----HFKDTYGFSILD-------------IV 1665
Query: 149 DES--KLVPHLGGSG--------LAMPVEVVPYCWKFTAKRLQDLFED 186
+ L H GG AM E + T K +++ E
Sbjct: 1666 INNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEH 1713
>3mos_A Transketolase, TK; thiamin diphosphate TPP THDP enzyme catalysis
sugar metaboli transferase; HET: TPP; 1.75A {Homo
sapiens} PDB: 3ooy_A*
Length = 616
Score = 34.1 bits (79), Expect = 0.022
Identities = 14/91 (15%), Positives = 31/91 (34%), Gaps = 4/91 (4%)
Query: 2 AIAISAEKPSSVETGLSPLSSPPPVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKH 61
+A + + + T +I +E ++ K V + V +G G T
Sbjct: 457 ELAANTKGICFIRTSRPEN----AIIYNNNEDFQVGQAKVVLKSKDDQVTVIGAGVTLHE 512
Query: 62 AVDRIGELLRQGKLTNIVGIPTSKKTHEQAV 92
A+ L ++ ++ T K + +
Sbjct: 513 ALAAAELLKKEKINIRVLDPFTIKPLDRKLI 543
>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 = 32.1 bits (72), Expect = 0.11
Identities = 27/166 (16%), Positives = 46/166 (27%), Gaps = 49/166 (29%)
Query: 11 SSVETGLSPLSSPPPVI------LTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVD 64
V LS ++ + LT DE+K + L + +
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL----------KYLDCRPQDLPREVLT 324
Query: 65 R-------IGELLRQGKLT--NIVGIPTSKKTHEQAVSLGI--PLSDLDSYPVVDLAI-- 111
I E +R G T N + K T SL + P + L++
Sbjct: 325 TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF--DRLSVFP 382
Query: 112 DGAD----------------EVDPFMNLVKGRGGSLLREKMVEGAC 141
A +V +N + SL+ ++ E
Sbjct: 383 PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY--SLVEKQPKESTI 426
>3eh7_A 4-hydroxybutyrate COA-transferase; citrate lyase, structural
genomics, PSI-2, protein structure initiative; HET: MSE;
2.05A {Porphyromonas gingivalis}
Length = 434
Score = 29.7 bits (67), Expect = 0.62
Identities = 19/83 (22%), Positives = 26/83 (31%), Gaps = 22/83 (26%)
Query: 13 VETGLSPLSSPPPVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAV--------- 63
V S P I + + I E +E G L LG G+ A
Sbjct: 181 VMADYPIYSLAKPKI--GEVEEAIGRN-CAELIEDGATLQLGIGAIP-DAALLFLKDKKD 236
Query: 64 ---------DRIGELLRQGKLTN 77
D + EL+R G +T
Sbjct: 237 LGIHTEMFSDGVVELVRSGVITG 259
Score = 26.6 bits (59), Expect = 6.3
Identities = 8/46 (17%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 34 KKIAAYKAVEFVESGMVLGLGTG-STAKHAVDRIGELLRQGKLTNI 78
+ ++A +AV+ +++G + L + VD + + + N+
Sbjct: 14 RIVSAEEAVKHIKNGERVALSHAAGVPQSCVDALVQ--QADLFQNV 57
>3gk7_A 4-hydroxybutyrate COA-transferase; alpha/beta protein; HET: SPD;
1.85A {Clostridium aminobutyricum} PDB: 3qdq_A*
Length = 448
Score = 29.3 bits (66), Expect = 0.73
Identities = 18/106 (16%), Positives = 31/106 (29%), Gaps = 27/106 (25%)
Query: 13 VETGLSPLSSPPPVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAV--------- 63
VET P I + I + +E G L LG G+ AV
Sbjct: 177 VETSHPLPEIGLPKI--GEVEAAIGKH-CASLIEDGSTLQLGIGAIP-DAVLSQLKDKKH 232
Query: 64 ---------DRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGIPLSD 100
D + +L G + + K + +++ +
Sbjct: 233 LGIHSEMISDGVVDLYEAGVIDC-----SQKSIDKGKMAITFLMGT 273
>3qli_A Coenzyme A transferase; COEN transferase; 1.90A {Yersinia pestis}
PDB: 3qlk_A 3s8d_A
Length = 455
Score = 29.3 bits (66), Expect = 0.92
Identities = 19/100 (19%), Positives = 35/100 (35%), Gaps = 28/100 (28%)
Query: 13 VETGLSPLSSPPPVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAV--------- 63
VE + + P E I+ + V G L +G G+ + V
Sbjct: 203 VENHVPLIEMPVRSA--IPEYTSISHI-IADLVPDGACLQMGVGALP-NLVCGVLKDRND 258
Query: 64 ---------DRIGELLRQGKLTNIVGIPTSKKTHEQAVSL 94
+ +L+R+G +TN +KT ++ S+
Sbjct: 259 LGIHTEVLNPGLVDLIRRGVVTN------QRKTLDRGRSV 292
Score = 26.3 bits (58), Expect = 7.2
Identities = 8/46 (17%), Positives = 19/46 (41%), Gaps = 1/46 (2%)
Query: 34 KKIAAYKAVEFVESGMVLGLGTG-STAKHAVDRIGELLRQGKLTNI 78
K +AV + SG L +G + + + + +G + ++
Sbjct: 25 KLTTPEEAVSSIASGSHLSMGMFAAEPPALLKALADRATRGDIGDL 70
>2oas_A ATOA, 4-hydroxybutyrate coenzyme A transferase; alpha beta protein,
structural genomics, PSI-2, protein STRU initiative;
HET: COA; 2.40A {Shewanella oneidensis}
Length = 436
Score = 28.9 bits (65), Expect = 1.0
Identities = 16/83 (19%), Positives = 23/83 (27%), Gaps = 22/83 (26%)
Query: 13 VETGLSPLSSPPPVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAV--------- 63
E S I + E V G L +G G+ AV
Sbjct: 172 YEQSASLPIHSFATG--DAVSLAIGQH-VAELVRDGDCLQMGIGAIP-DAVLSCLTGHKD 227
Query: 64 ---------DRIGELLRQGKLTN 77
D I +L+ +G + N
Sbjct: 228 LGVHTELFSDGILQLVEKGVINN 250
>2lob_A Golgi-associated PDZ and coiled-coil motif-contai protein;
structural protein-hydrolase complex, peptide binding
protei; NMR {Homo sapiens}
Length = 112
Score = 27.4 bits (61), Expect = 1.6
Identities = 8/33 (24%), Positives = 15/33 (45%)
Query: 62 AVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSL 94
DR G L + + G+ H++AV++
Sbjct: 65 PADRCGGLHVGDAILAVNGVNLRDTKHKEAVTI 97
>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain,
nucleolus, structural protein; NMR {Mesocricetus
auratus} SCOP: d.58.7.1
Length = 96
Score = 26.8 bits (60), Expect = 1.7
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 173 WKFTAKRLQDLFEDCGCVAKLRTTG 197
+ T L+++FED + + G
Sbjct: 26 FNITEDELKEVFEDALEIRLVSQDG 50
>3rj1_B Mediator of RNA polymerase II transcription subun; RNA polymeras
II, POL II, head module, head, regulator, helical
bundle; 4.30A {Saccharomyces cerevisiae}
Length = 583
Score = 28.3 bits (62), Expect = 1.8
Identities = 30/211 (14%), Positives = 60/211 (28%), Gaps = 31/211 (14%)
Query: 5 ISAEKPSSVETGLSPL--SSPPPVILTQDELKKIAAYKAVEFVESGMVLGL------GTG 56
+S+ K S+ + +SP P L D++ +A K + G +
Sbjct: 132 LSSVKESTGMSSMSPFLRKVVKPSSLNSDKIPYVAPTKKEYIELDILNKGWKLQSLNESK 191
Query: 57 STAKHAVDRIGELLRQG----------KLTNIVGIPTSKKTHEQAVSLGIPLSDLDSYPV 106
+ + +++ +L+ V +T Q L I DS
Sbjct: 192 DLLRASFNKLSSILQNEHDYWNKIMQSISNKDVIFKIRDRTSGQK-LLAIKYGYEDSGST 250
Query: 107 ----VDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIV-------DESKLVP 155
+A + ++L+ V K V + D+ L
Sbjct: 251 YKHDRGIANIRNNIESQNLDLIPHSSSVFKGTDFVHSVKKFLRVRIFTKIESEDDYILSG 310
Query: 156 HLGGSGLAMPVEVVPYCWKFTAKRLQD-LFE 185
+ E + + L+ +FE
Sbjct: 311 ESVMDRDSESEEAETKDIRKQIQLLKKIIFE 341
>2cs5_A Tyrosine-protein phosphatase, non-receptor type 4; PDZ domain,
ptpase, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: b.36.1.1
Length = 119
Score = 27.1 bits (60), Expect = 2.3
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 64 DRIGELLRQG-KLTNIVGIPTSKKTHEQAVSL 94
D L +G ++ I G ++ TH+Q V
Sbjct: 55 DLCVPRLNEGDQVVLINGRDIAEHTHDQVVLF 86
>3nfk_A Tyrosine-protein phosphatase non-receptor type 4; PDZ-PDZ-binding
site complex, protein binding; 1.43A {Homo sapiens}
PDB: 3nfl_A 2vph_A
Length = 107
Score = 26.7 bits (59), Expect = 2.9
Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 62 AVDRIGELLRQG-KLTNIVGIPTSKKTHEQAVSL 94
D L +G ++ I G ++ TH+Q V
Sbjct: 55 PADLCVPRLNEGDQVVLINGRDIAEHTHDQVVLF 88
>1qav_A Alpha-1 syntrophin (residues 77-171); beta-finger, heterodimer,
membrane protein-oxidoreductase CO; 1.90A {Mus
musculus} SCOP: b.36.1.1 PDB: 1z86_A 2pdz_A 2vrf_A
Length = 90
Score = 26.1 bits (58), Expect = 3.5
Identities = 9/33 (27%), Positives = 15/33 (45%)
Query: 62 AVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSL 94
A D+ L + ++ G S TH++AV
Sbjct: 42 AADQTEALFVGDAILSVNGEDLSSATHDEAVQA 74
>2o18_A Thiamine biosynthesis lipoprotein APBE; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.20A {Escherichia coli} PDB:
3pnd_A*
Length = 340
Score = 27.2 bits (61), Expect = 3.7
Identities = 6/36 (16%), Positives = 17/36 (47%), Gaps = 4/36 (11%)
Query: 48 GMVLGLGTGSTAK-HAVDRIGELLRQGKLTN-IVGI 81
+ + L + + +A D + L+ Q ++ +V +
Sbjct: 159 DLYVDLS--TVGEGYAADHLARLMEQEGISRYLVSV 192
>3k6m_A Succinyl-COA:3-ketoacid-coenzyme A transferase 1, mitochondrial;
SCOT, COA transferase, dynamic domain, glycerol,
mitochondri transferase; 1.50A {Sus scrofa} PDB: 1m3e_A*
1o9l_A 1ooy_A 2nrc_A 2nrb_A 3oxo_A* 1ooz_A 1ope_A 3dlx_A
Length = 481
Score = 27.0 bits (60), Expect = 4.8
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 18/65 (27%)
Query: 107 VDLAIDGADEVDPFMNL---------VKGRGGSLLREKMVEGACKKFVVIVD------ES 151
V+L + GA +V + +L VKG GG++ +V A K VV ++
Sbjct: 355 VNLTMLGAMQVSKYGDLANWMIPGKLVKGMGGAM---DLVSSAKTKVVVTMEHSAKGNAH 411
Query: 152 KLVPH 156
K++
Sbjct: 412 KIMEK 416
>2dc2_A GOPC, golgi associated PDZ and coiled-coil motif containing
isoform B; GOPC PDZ domain, structural protein; NMR
{Homo sapiens}
Length = 103
Score = 25.8 bits (57), Expect = 4.9
Identities = 8/33 (24%), Positives = 15/33 (45%)
Query: 62 AVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSL 94
DR G L + + G+ H++AV++
Sbjct: 47 PADRCGGLHVGDAILAVNGVNLRDTKHKEAVTI 79
>1fs5_A Glucosamine-6-phosphate deaminase; allosteric enzyme, entropic
effects, aldose-ketose isomerase multiple conformers,
isomerase; HET: 16G TLA; 1.73A {Escherichia coli} SCOP:
c.124.1.1 PDB: 1cd5_A 1fqo_A* 1frz_A* 1dea_A* 1fs6_A
1fsf_A 1hor_A* 1hot_A* 2wu1_A* 1jt9_A
Length = 266
Score = 26.6 bits (59), Expect = 4.9
Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 7/54 (12%)
Query: 29 TQDELKKIAAYKAVEFV-------ESGMVLGLGTGSTAKHAVDRIGELLRQGKL 75
T +++ K AA V + + VLGL TG T + E+ + G++
Sbjct: 8 TAEQVGKWAARHIVNRINAFKPTADRPFVLGLPTGGTPMTTYKALVEMHKAGQV 61
>3d3u_A 4-hydroxybutyrate COA-transferase; alpha-beta protein, structural
genomics, PSI-2, protein STRU initiative; 2.80A
{Porphyromonas gingivalis}
Length = 439
Score = 26.6 bits (59), Expect = 6.5
Identities = 19/110 (17%), Positives = 31/110 (28%), Gaps = 27/110 (24%)
Query: 13 VETGLSPLSSPPPVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAV--------- 63
+E PP D +I ++ G L LG G AV
Sbjct: 178 IEVDEPIAEVLPPAG--SDLELRIGQN-CASLIKDGDTLQLGIGGIP-DAVLRALEGHKD 233
Query: 64 ---------DRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGIPLSDLDSY 104
D + ++R+G + K H + V + + Y
Sbjct: 234 LGIHTEMFTDGVMRMIRKGIING-----KKKTLHPEKVVTSLIFGSKELY 278
>2r6u_A Uncharacterized protein; structural genomics, PSI-2, RHA04853,
MCSG, protein structur initiative, midwest center for
structural genomics; 1.50A {Rhodococcus SP}
Length = 148
Score = 26.0 bits (57), Expect = 6.8
Identities = 4/37 (10%), Positives = 12/37 (32%)
Query: 113 GADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVD 149
+ ++ + ++ GG + + G D
Sbjct: 97 DVESIESALERIESLGGKTVTGRTPVGNMGFAAYFTD 133
>1y7n_A Amyloid beta A4 precursor protein-binding family A member 1;
copper chaperone for superoxide dismutase, neuronal
adaptor, protein transport; NMR {Homo sapiens} SCOP:
b.36.1.1
Length = 90
Score = 25.1 bits (55), Expect = 6.9
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 7/51 (13%)
Query: 45 VESGMVLGLGTGSTAKHAVDRIGELLRQG-KLTNIVGIPTSKKTHEQAVSL 94
V++G++ L G A +R G +R G ++ I G HE+ V +
Sbjct: 30 VQNGIICSLMRGGIA----ERGG--VRVGHRIIEINGQSVVATPHEKIVHI 74
>2bkx_A Glucosamine-6-phosphate deaminase; hydrolase, substrate
inhibition, fructose-6-phosphate; HET: F6R; 1.4A
{Bacillus subtilis} PDB: 2bkv_A*
Length = 242
Score = 26.1 bits (58), Expect = 7.0
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 29 TQDELKKIAAYKAVEFVESG--MVLGLGTGSTAKHAVDRIGELLRQGKL 75
T +EL +IAA + ++ VLGL TG T + ++ L + L
Sbjct: 8 TYEELSQIAARITADTIKEKPDAVLGLATGGTPEGTYRQLIRLHQTENL 56
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 26.2 bits (57), Expect = 7.2
Identities = 17/80 (21%), Positives = 24/80 (30%), Gaps = 35/80 (43%)
Query: 126 GRGGSLLREKMV--EGACKKF--VVIVDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQ 181
GR G L + E CK + ++ S G +VV C
Sbjct: 12 GRRGPNLNIVLTCPE--CKVYPPKIVERFS--------EG-----DVV--C--------- 45
Query: 182 DLFEDCGCVAKLRT--TGAE 199
CG V + T +E
Sbjct: 46 ---ALCGLVLSDKLVDTRSE 62
>3hn6_A Glucosamine-6-phosphate deaminase; niaid, ssgcid, decode, UW,
SBRI, infectious disease, LYME DI non-hodgkin
lymphomas, neuroborreliosis; 2.20A {Borrelia
burgdorferi}
Length = 289
Score = 26.2 bits (58), Expect = 7.7
Identities = 13/54 (24%), Positives = 23/54 (42%), Gaps = 7/54 (12%)
Query: 29 TQDELKKIAAYKAVEFVESGM-------VLGLGTGSTAKHAVDRIGELLRQGKL 75
T +++ K AA + + +LGL TGS+ + EL + K+
Sbjct: 29 TYEDISKWAANHVAQKINEFSPTKENPFILGLPTGSSPIGMYKNLIELNKNKKI 82
>1ne7_A Glucosamine-6-phosphate isomerase; V-type like allosteric enzyme,
conformational disorder, conformational differences,
hydrolase; HET: GLC 16G AGP; 1.75A {Homo sapiens} SCOP:
c.124.1.1
Length = 289
Score = 26.2 bits (58), Expect = 8.2
Identities = 13/54 (24%), Positives = 19/54 (35%), Gaps = 7/54 (12%)
Query: 29 TQDELKKIAAYKAVEFV-------ESGMVLGLGTGSTAKHAVDRIGELLRQGKL 75
+ + AA + E LGL TGST ++ E + G L
Sbjct: 8 HYSQASEWAAKYIRNRIIQFNPGPEKYFTLGLPTGSTPLGCYKKLIEYYKNGDL 61
>2gnp_A Transcriptional regulator; structural genomics, MCSG, APC84799,
streptococcus pneumonia PSI, protein structure
initiative; 1.65A {Streptococcus pneumoniae} SCOP:
c.124.1.8
Length = 266
Score = 25.9 bits (57), Expect = 8.6
Identities = 8/40 (20%), Positives = 17/40 (42%)
Query: 29 TQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGE 68
+ + ++AA ++ M +G G + + VD I
Sbjct: 39 LSERISQVAAGVLRNLIDDNMKIGFSWGKSLSNLVDLIHS 78
>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain,
RNA-protein complex, nucleolus, structural protein/RNA
complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1
d.58.7.1 PDB: 1rkj_A 2krr_A
Length = 175
Score = 25.6 bits (57), Expect = 8.7
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 173 WKFTAKRLQDLFEDCGCVAKLRTTG 197
+ T L+++FED + + G
Sbjct: 109 FNITEDELKEVFEDALEIRLVSQDG 133
>1z87_A Alpha-1-syntrophin; protein binding; NMR {Mus musculus}
Length = 263
Score = 25.9 bits (56), Expect = 8.9
Identities = 9/33 (27%), Positives = 15/33 (45%)
Query: 62 AVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSL 94
A D+ L + ++ G S TH++AV
Sbjct: 115 AADQTEALFVGDAILSVNGEDLSSATHDEAVQA 147
>2ego_A General receptor for phosphoinositides 1- associated scaffold
protein; PDZ domain, ligand-free, protein binding;
1.80A {Rattus norvegicus} PDB: 2egn_A 2egk_A 2pnt_A
Length = 96
Score = 25.0 bits (55), Expect = 9.8
Identities = 5/26 (19%), Positives = 11/26 (42%), Gaps = 1/26 (3%)
Query: 70 LRQG-KLTNIVGIPTSKKTHEQAVSL 94
L G + ++ G+ H + V +
Sbjct: 55 LTPGDTIASVNGLNVEGIRHREIVDI 80
>2okg_A Central glycolytic gene regulator; alpha/beta/alpha sandwich,
rossmann-like fold, structural genomics, PSI-2, protein
structure initiative; HET: MSE G3H; 1.65A {Bacillus
subtilis} SCOP: c.124.1.8 PDB: 3bxe_A* 3bxf_A* 3bxg_A*
3bxh_A*
Length = 255
Score = 25.9 bits (57), Expect = 9.9
Identities = 6/47 (12%), Positives = 16/47 (34%), Gaps = 4/47 (8%)
Query: 24 PPVILTQDELKKIAAYKAVEFVES----GMVLGLGTGSTAKHAVDRI 66
+KK AV ++ ++ + G+T + + +
Sbjct: 29 SGDSDQSPWVKKEMGRAAVACMKKRFSGKNIVAVTGGTTIEAVAEMM 75
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
0.316 0.135 0.389
Gapped
Lambda K H
0.267 0.0778 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,113,685
Number of extensions: 195940
Number of successful extensions: 733
Number of sequences better than 10.0: 1
Number of HSP's gapped: 709
Number of HSP's successfully gapped: 90
Length of query: 199
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 110
Effective length of database: 4,216,824
Effective search space: 463850640
Effective search space used: 463850640
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (24.9 bits)