RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7539
(318 letters)
>4dqv_A Probable peptide synthetase NRP (peptide synthase; GXXGXXG motif,
rossmann fold, short chain dehydrogenase/REDU family,
reductase; 2.30A {Mycobacterium tuberculosis}
Length = 478
Score = 185 bits (470), Expect = 5e-55
Identities = 56/309 (18%), Positives = 121/309 (39%), Gaps = 32/309 (10%)
Query: 1 KVLLEKILRTCE-NVKIYILLRPKKNKNSRERLEEIFQSPLYEALKKEQSESAIFEKVIP 59
+ L+ ++LR + + ++ L+R + ++++R RLE+ F S E L+ + +A +++
Sbjct: 87 RYLVLELLRRLDVDGRLICLVRAESDEDARRRLEKTFDSGDPELLRHFKELAA--DRLEV 144
Query: 60 INGDVAVPDLGISAEDRQMLSETIHIVYHIAATVRFDDYMQTYVFLNTRGTRDMLNLSKQ 119
+ GD + PDLG+ + L+ET+ ++ AA V Y + + N GT +++ ++
Sbjct: 145 VAGDKSEPDLGLDQPMWRRLAETVDLIVDSAAMVNAFPYHELFG-PNVAGTAELIRIALT 203
Query: 120 MIHLQLFVYVSTAYCHPKEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDFP 179
L+ F YVSTA + P E A++ + +
Sbjct: 204 T-KLKPFTYVSTADVG------------AAIEPSAFTEDADIRVISPTRTVDGGW----A 246
Query: 180 NGYAYTKCLCEGVVTEYME-AGMPCMILRPSIIIPIWKDPLPGWTDNINGPTGLLIGA-- 236
GY +K E ++ E + +P + R +I + G + + T +++
Sbjct: 247 GGYGTSKWAGEVLLREANDLCALPVAVFRCGMI--LADTSYAGQLNMSDWVTRMVLSLMA 304
Query: 237 ------GKGIIRTMYCDYSTCADFLPVDVLVNGVLLSTWNFLSNPGNTMRVINLTANKDF 290
+ D LPV + + + + ++ D
Sbjct: 305 TGIAPRSFYEPDSEGNRQRAHFDGLPVTFVAEAIAVLGARVAGSSLAGFATYHVMNPHDD 364
Query: 291 QITWYDIIE 299
I + ++
Sbjct: 365 GIGLDEYVD 373
>2x4g_A Nucleoside-diphosphate-sugar epimerase; isomerase; 2.65A
{Pseudomonas aeruginosa}
Length = 342
Score = 65.8 bits (161), Expect = 2e-12
Identities = 27/190 (14%), Positives = 47/190 (24%), Gaps = 45/190 (23%)
Query: 83 IHIVYHIAATVRFD-DYMQTYVFLNTRGTRDMLNLSKQMIHLQLFVYVSTA---YCHPKE 138
+ V A Q V T Q + +YV +A HP+
Sbjct: 78 LDGVIFSAGYYPSRPRRWQEEVASALGQTNPFYAACLQA-RVPRILYVGSAYAMPRHPQG 136
Query: 139 KVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDFPNGYAYTKCLCEGVVTEYME 198
E + + + Y K + E
Sbjct: 137 LPGHEGLFYDSLP-------------------------SGKSSYVLCKWALDEQAREQAR 171
Query: 199 AGMPCMILRPSIIIPIWKDPLPGWTDNINGPTGLLIGAGKGIIRTMYCDYSTCADFLPVD 258
G+P +I P +++ G D ++ G G + Y +D
Sbjct: 172 NGLPVVIGIPGMVL--------GELDIGPTTGRVITAIGNGEMT-HYVAGQRNV----ID 218
Query: 259 V--LVNGVLL 266
G+L+
Sbjct: 219 AAEAGRGLLM 228
>2hrz_A AGR_C_4963P, nucleoside-diphosphate-sugar epimerase; agrobacterium
tumefa structural genomics, PSI-2, protein structure
initiative; 1.85A {Agrobacterium tumefaciens}
Length = 342
Score = 41.2 bits (97), Expect = 3e-04
Identities = 33/251 (13%), Positives = 74/251 (29%), Gaps = 57/251 (22%)
Query: 50 ESAIFEKVIPINGDVAVPDLGISAEDRQMLSETIHIVYHIAATV------RFDDYMQTYV 103
+ V D++ P +++ +++H+AA V FD +
Sbjct: 59 PAGFSGAVDARAADLSAPGE-----AEKLVEARPDVIFHLAAIVSGEAELDFDKGYR--- 110
Query: 104 FLNTRGTRDMLNLSKQ----MIHLQLFVYVSTA--YCHPKEKVLEEKTYPPPVSPHNVIE 157
+N GTR + + + + V+ S+ + P + ++ + P++
Sbjct: 111 -INLDGTRYLFDAIRIANGKDGYKPRVVFTSSIAVFGAPLPYPIPDEFHTTPLTS----- 164
Query: 158 KAELLSKNELELLKQELLQDFPNGYAYTKCLCEGVVTEYMEA-GMPCMILR-PSIIIPIW 215
Y K +CE ++++Y + +R P+I I
Sbjct: 165 ------------------------YGTQKAICELLLSDYSRRGFFDGIGIRLPTICIRP- 199
Query: 216 KDPLPGWTDNINGPTGLLIGAGKGIIRTMYCDYSTCADFLPVDVLVNGVLLSTWNFLSNP 275
P + + +L G + S V L+
Sbjct: 200 GKPNAAASGFFS---NILREPLVGQEAVLPVPESIRHWHASPRSAVGF-LIHGAMIDVEK 255
Query: 276 GNTMRVINLTA 286
R +++
Sbjct: 256 VGPRRNLSMPG 266
>2q1s_A Putative nucleotide sugar epimerase/ dehydratase; rossman fold,
protein-NADH complex, sugar binding protein; HET: NAI;
1.50A {Bordetella bronchiseptica} PDB: 2pzj_A* 2q1t_A*
2q1u_A*
Length = 377
Score = 40.8 bits (96), Expect = 4e-04
Identities = 33/243 (13%), Positives = 60/243 (24%), Gaps = 58/243 (23%)
Query: 60 INGDVAVPDLGISAEDRQMLSETIH---IVYHIAATVRFDDYMQ---TYVFLNTRGTRDM 113
+ D +L+ V+H+A + NT T +
Sbjct: 83 SETSIT---------DDALLASLQDEYDYVFHLATYHGNQSSIHDPLADHENNTLTTLKL 133
Query: 114 LNLSKQMIHLQLFVYVSTA--YCHPKEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLK 171
K L+ VY + + VS HN
Sbjct: 134 YERLKHFKRLKKVVYSAAGCSIAEKTFDDAKATEETDIVSLHN----------------- 176
Query: 172 QELLQDFPNG-YAYTKCLCEGVVTEYMEA-GMPCMILRPS-IIIPIWKDPLPGWTDNING 228
+ Y+ +K E Y + +P + R + P W
Sbjct: 177 -------NDSPYSMSKIFGEFYSVYYHKQHQLPTVRARFQNVYGPGEILGAGRWRGTPAT 229
Query: 229 PTGLLIG-------AGKGIIRTMYCDYSTCADFLPVDVLVNGVLLSTWNFLSNPGNTMRV 281
+ G + + DF+ V+ + NG++ + G V
Sbjct: 230 VWRNVTPTFIYKALKGMPL--PLENGGVATRDFIFVEDVANGLIA-----CAADGTPGGV 282
Query: 282 INL 284
N+
Sbjct: 283 YNI 285
>3m2p_A UDP-N-acetylglucosamine 4-epimerase; SGXNY, 11155J, isomerase,
structural genomics, PSI-2, protein structure
initiative; HET: UDP; 2.95A {Bacillus cereus}
Length = 311
Score = 40.2 bits (95), Expect = 5e-04
Identities = 26/145 (17%), Positives = 40/145 (27%), Gaps = 40/145 (27%)
Query: 71 ISAEDRQMLSETIHIVYHIAATVRFD---DYMQTYVFLNTRGTRDMLNLSKQMIHLQLFV 127
+ ED + V H+AAT N T+++ + + ++ V
Sbjct: 51 YTLEDLINQLNDVDAVVHLAATRGSQGKISEFHD----NEILTQNLYDACYEN-NISNIV 105
Query: 128 YVSTA--YCHPKEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDFPNGYAYT 185
Y ST Y EK P P Y +
Sbjct: 106 YASTISAYSDETSLPWNEKELPLPDLM-----------------------------YGVS 136
Query: 186 KCLCEGVVTEYMEA-GMPCMILRPS 209
K CE + Y G+ LR +
Sbjct: 137 KLACEHIGNIYSRKKGLCIKNLRFA 161
>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 = 40.0 bits (93), Expect = 0.001
Identities = 58/373 (15%), Positives = 106/373 (28%), Gaps = 126/373 (33%)
Query: 8 LRTCENVKIYILLRPKKNKNSRERLEEIFQS---PLYEALKKEQSESAIFEKVIPI---- 60
LR +Y + + ++ + L E ++ +F + + I
Sbjct: 173 LR-----DLY--------QTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL 219
Query: 61 NGDVAVPDLG--ISAEDRQMLSETIHIVY---HIAATVRFDDYMQTYVFLNTRGT----- 110
PD +S +S + V H T + + + +G
Sbjct: 220 ENPSNTPDKDYLLSIP----ISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQ 275
Query: 111 --------------RDMLNLSKQMIHLQLFVYVSTAYCHPKEKVLEEKTYPPPVSPHNVI 156
++ I + LF ++ C+ + YP P +++
Sbjct: 276 GLVTAVAIAETDSWESFFVSVRKAITV-LF-FIGVR-CY--------EAYPNTSLPPSIL 324
Query: 157 EKAELLSKNELELLKQELLQDFPNGYAYTKCLCEGVVTEYMEA--GMPCMILRPSIIIPI 214
E + N EGV + M + + + + +
Sbjct: 325 EDSL------------------ENN--------EGVPS-PMLSISNLT----QEQVQDYV 353
Query: 215 WK--DPLPGWTD----NINGP-----TGL---LIG-----------AGKGIIRTMYCD-- 247
K LP +NG +G L G +G R + +
Sbjct: 354 NKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERK 413
Query: 248 --YSTCADFLPVDVLVNGVLLSTWNFLSNPGNTMRVINLTANKDFQITWYDIIENGKDIA 305
+S FLPV + LL + L N ++ A KD QI YD +G D+
Sbjct: 414 LKFSNR--FLPVASPFHSHLLVPASDLINKDLVKNNVSFNA-KDIQIPVYD-TFDGSDL- 468
Query: 306 RNKVPLNNPIICQ 318
R + I
Sbjct: 469 RVLSGSISERIVD 481
Score = 33.5 bits (76), Expect = 0.093
Identities = 57/316 (18%), Positives = 94/316 (29%), Gaps = 93/316 (29%)
Query: 30 ERLEEIFQSPL---YEALKKEQSESAIFEKVIPINGDVA--VPDLGISAED--------- 75
+L+E F L E + + E V G V+ V + D
Sbjct: 31 SQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTE 90
Query: 76 --RQMLSET-IH-IVYHI-----AATVRFDDYMQTYVFLNTRGTRDMLNLSKQMIHLQLF 126
L IH + + V+ + ++ Y+ R S LF
Sbjct: 91 FENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNS----ALF 146
Query: 127 ---------VYV-------STAYCHPKEKVLEE-----KTYPPPVSPHNVIEK-AELLSK 164
+ + Y EE +TY V +I+ AE LS
Sbjct: 147 RAVGEGNAQLVAIFGGQGNTDDY-------FEELRDLYQTYHVLVGD--LIKFSAETLS- 196
Query: 165 NELELLKQELLQD--FPNGYAYTKCLCEGVVT---EYMEAGMPCMILRPSIIIPI-WKDP 218
EL++ L + F G + L T +Y+ + IPI P
Sbjct: 197 ---ELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYL------------LSIPISC--P 239
Query: 219 LPGWTDNIN-GPTGLLIGAGKGIIRTMYCDYSTCADFLPVDVLVNGVLLSTW-NFLSNPG 276
L G + T L+G G +R+ + + L V + +W +F +
Sbjct: 240 LIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAET--DSWESFFVSVR 297
Query: 277 NTMRVINLTANKDFQI 292
+ V+ F I
Sbjct: 298 KAITVL-------FFI 306
Score = 32.7 bits (74), Expect = 0.19
Identities = 41/248 (16%), Positives = 74/248 (29%), Gaps = 83/248 (33%)
Query: 37 QSP-----LYEALKKEQSESA--IFEKVIPINGDVAVPD-LGISAEDRQMLSETIHIVYH 88
Q LY+ S++A ++ + D D G S + IV +
Sbjct: 1627 QEQGMGMDLYKT-----SKAAQDVWNR-----ADNHFKDTYGFS---------ILDIVIN 1667
Query: 89 --IAATVRFDDYM-----QTYVFLNTRGTRDMLNLSKQMIHLQLFVYVSTAYC--HPKEK 139
+ T+ F + Y + D ++++ + ST+Y K
Sbjct: 1668 NPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKI--FKEINEHSTSYTFRSEKG- 1724
Query: 140 VLE--EKTYPPPVSPHNVIEKAELL-SKNELELLKQELLQDFPNGYA------YTKCLCE 190
+L + T P A L K E LK + L +A Y
Sbjct: 1725 LLSATQFTQP-----------ALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASL 1773
Query: 191 -GVVT------------EYMEAGMP---------CMI-LRPS-IIIPIWKDPLPGWTDNI 226
V++ M+ +P MI + P + ++ L + +
Sbjct: 1774 ADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERV 1833
Query: 227 NGPTGLLI 234
TG L+
Sbjct: 1834 GKRTGWLV 1841
>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 = 39.5 bits (91), Expect = 0.001
Identities = 34/198 (17%), Positives = 64/198 (32%), Gaps = 40/198 (20%)
Query: 5 EKILRTCENVKIYILLRPKKNKNSRERLEEIFQSPLYEALKKEQSESAIFEKVI---PIN 61
++ Y L+ K+ K S + I+ E K ++E A+ ++ I
Sbjct: 405 MVVVNKLHK---YSLVE-KQPKESTISIPSIYL----ELKVKLENEYALHRSIVDHYNIP 456
Query: 62 GDVAVPDLGISAEDRQMLSETIHIVYHIAATVRFDDY-MQTYVFLN-------TRGTRDM 113
DL D+ S HI +H+ + + VFL+ R
Sbjct: 457 KTFDSDDLIPPYLDQYFYS---HIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTA 513
Query: 114 LNLSKQMIHL--QLFVYVSTAYCHPKEKVLEE-----KTYPPPVSPHNVIEKAELLSKNE 166
N S +++ QL Y Y + E + P + + + K
Sbjct: 514 WNASGSILNTLQQLKFY--KPYICDNDPKYERLVNAILDFLPKIEENLICSK-------Y 564
Query: 167 LELLKQELLQDFPNGYAY 184
+LL+ L+ + +
Sbjct: 565 TDLLRIALM--AEDEAIF 580
Score = 38.7 bits (89), Expect = 0.002
Identities = 64/383 (16%), Positives = 120/383 (31%), Gaps = 126/383 (32%)
Query: 2 VLLEKILRT--CENVKIYILLRPKKNKNSRERLEEIFQSP--------LYEALKKEQSES 51
V + + C++V+ K+ S+E ++ I S L+ L +Q E
Sbjct: 24 VFEDAFVDNFDCKDVQDMP-----KSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEE- 77
Query: 52 AIFEKVIPINGDVAVPDLG-----ISAEDRQMLSETIHIV---------------YHIAA 91
+ +K + +V + I E RQ T + Y++
Sbjct: 78 -MVQKFV---EEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV-- 131
Query: 92 TVRFDDYMQ-----------TYVFLNTRGTRDMLNLSKQM----------IHLQLF--VY 128
R Y++ V ++ G +L K + ++ ++
Sbjct: 132 -SRLQPYLKLRQALLELRPAKNVLID--G---VLGSGKTWVALDVCLSYKVQCKMDFKIF 185
Query: 129 -VSTAYCHPKEKVLE--EKTY---PPPVSPHNVIEKAELLSKNELELLKQELLQDFPNGY 182
++ C+ E VLE +K P + + L + ++ + LL+ P
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP--- 242
Query: 183 AYTKCL------CEGVVTEYMEAGMPCMIL---RPSIIIPIWKDPLPGWTDN----INGP 229
Y CL C IL R + D L T +
Sbjct: 243 -YENCLLVLLNVQNAKAWNAFNLS--CKILLTTRFKQVT----DFLSAATTTHISLDHHS 295
Query: 230 TGLLIGAGKGII-RTMYCDYSTCADFLPVDVLVNGVLLSTWNFLSNPGNTMRVINLTAN- 287
L K ++ + + C LP +VL +NP R +++ A
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQD----LPREVL-----------TTNP----RRLSIIAES 336
Query: 288 -KDFQITWYDIIENGKDIARNKV 309
+D TW +N K + +K+
Sbjct: 337 IRDGLATW----DNWKHVNCDKL 355
Score = 35.6 bits (81), Expect = 0.023
Identities = 56/331 (16%), Positives = 102/331 (30%), Gaps = 95/331 (28%)
Query: 3 LLEKILRTCENVKIYILLRPKKNKNSRERLEEIFQSPLYEALKKEQSESAIFEKVIPING 62
+LE + + + R + N + R+ I Q+ L LK + +E + +
Sbjct: 198 VLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI-QAELRRLLKSKP-----YENCLLVLL 251
Query: 63 DVAVPDLGISAEDRQMLSETIHIVYHIAATVRFDDYMQTYVFLNTRGTRDMLNLSKQMIH 122
+V ++ + A F+ + + T TR
Sbjct: 252 NV---------QNAK----------AWNA---FNLSCKILL---T--TRFK--------- 275
Query: 123 LQLFVYVSTAYCHPKEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDFPNGY 182
Q+ ++S A L+ + ++P E LL K L+ Q+L P
Sbjct: 276 -QVTDFLSAA--TTTHISLDH--HSMTLTPD---EVKSLLLKY-LDCRPQDL----P--- 319
Query: 183 AYTKCLCEGVVTEYMEAGMPCMILRPSIIIPIWKDPLPGW-------TDNINGPTGLLIG 235
+ P + SII +D L W D + +
Sbjct: 320 ------------REVLTTNPRRL---SIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364
Query: 236 AGK-GIIRTMYCDYSTCADFLPVDVLVNGVLLST-WNFLSNPGNTMRVINLTAN------ 287
+ R M+ + F P + +LLS W + + M V+N
Sbjct: 365 VLEPAEYRKMFDR---LSVF-PPSAHIPTILLSLIWFDVI-KSDVMVVVNKLHKYSLVEK 419
Query: 288 --KDFQITWYDIIENGKDIARNKVPLNNPII 316
K+ I+ I K N+ L+ I+
Sbjct: 420 QPKESTISIPSIYLELKVKLENEYALHRSIV 450
>2x6t_A ADP-L-glycero-D-manno-heptose-6-epimerase; isomerase, carbohydrate
metabolism, stress response; HET: NAP ADP BMA; 2.36A
{Escherichia coli} PDB: 2x86_A*
Length = 357
Score = 38.8 bits (91), Expect = 0.001
Identities = 21/132 (15%), Positives = 43/132 (32%), Gaps = 41/132 (31%)
Query: 83 IHIVYHIAA----TVRFDDYMQTYVFLNTRGTRDMLNLSKQMIHLQLFVYVSTA--YCHP 136
+ ++H A T YM N + ++++L+ + F+Y S+A Y
Sbjct: 116 VEAIFHEGACSSTTEWDGKYMMDN---NYQYSKELLHYCLE--REIPFLYASSAATYGGR 170
Query: 137 KEKVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDFPNGYAYTKCLCEGVVTEY 196
+E + Y P++ + Y+K L + V +
Sbjct: 171 TSDFIESREYEKPLNV-----------------------------FGYSKFLFDEYVRQI 201
Query: 197 ME-AGMPCMILR 207
+ A + R
Sbjct: 202 LPEANSQIVGFR 213
>1eq2_A ADP-L-glycero-D-mannoheptose 6-epimerase; N-terminal domain
rossmann fold, C-terminal mixed alpha/beta domain; HET:
NAP ADQ; 2.00A {Escherichia coli} SCOP: c.2.1.2
Length = 310
Score = 38.7 bits (91), Expect = 0.002
Identities = 22/130 (16%), Positives = 42/130 (32%), Gaps = 43/130 (33%)
Query: 86 VYHIAA----TVRFDDYMQTYVFLNTRGTRDMLNLSKQM-IHLQLFVYVSTA--YCHPKE 138
++H A T YM N + ++++L+ + I F+Y S+A Y
Sbjct: 72 IFHEGACSSTTEWDGKYMMDN---NYQYSKELLHYCLEREIP---FLYASSAATYGGRTS 125
Query: 139 KVLEEKTYPPPVSPHNVIEKAELLSKNELELLKQELLQDFPNGYAYTKCLCEGVVTEYME 198
+E + Y P++ Y Y+K L + V + +
Sbjct: 126 DFIESREYEKPLNV-----------------------------YGYSKFLFDEYVRQILP 156
Query: 199 A-GMPCMILR 207
+ R
Sbjct: 157 EANSQIVGFR 166
>3sxp_A ADP-L-glycero-D-mannoheptose-6-epimerase; rossman fold, NAD
binding, isomerase; HET: NAD; 2.55A {Helicobacter
pylori}
Length = 362
Score = 35.7 bits (83), Expect = 0.016
Identities = 24/162 (14%), Positives = 50/162 (30%), Gaps = 46/162 (28%)
Query: 54 FEKVIPINGDVAVPDLGISAEDRQMLSETIHIVYHIAA--TVRFDD---YMQTYVFLNTR 108
F+ +I G+V D+ + R++ ++H AA + M+T N +
Sbjct: 62 FKNLIGFKGEVIAADINNPLDLRRLEKLHFDYLFHQAAVSDTTMLNQELVMKT----NYQ 117
Query: 109 GTRDMLNLSKQM-IHLQLFVYVSTA--YCHPKEKVLEEKTYPPPVSPHNVIEKAELLSKN 165
++L +++ +Y S+A Y + K P +
Sbjct: 118 AFLNLLEIARSKKAK---VIYASSAGVYGNTKAPN-VVGKNESPENV------------- 160
Query: 166 ELELLKQELLQDFPNGYAYTKCLCEGVVTEYMEAGMPCMILR 207
Y ++K + V + + LR
Sbjct: 161 ----------------YGFSKLCMDEFVLSHS-NDNVQVGLR 185
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 33.0 bits (74), Expect = 0.060
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 7/32 (21%)
Query: 42 EALKKEQSESAIFEKVIPINGDVAVPDLGISA 73
+ALKK Q+ ++ D A P L I A
Sbjct: 20 QALKKLQASLKLYA---D---DSA-PALAIKA 44
Score = 28.0 bits (61), Expect = 2.8
Identities = 9/29 (31%), Positives = 13/29 (44%), Gaps = 5/29 (17%)
Query: 137 KE--KVLEE--KTYPPPVSPHNVIEKAEL 161
K+ K L+ K Y +P I KA +
Sbjct: 19 KQALKKLQASLKLYADDSAPALAI-KATM 46
>3tsz_A Tight junction protein ZO-1; PDZ3-SH3-GUK, scaffolding, JAM, tight
junction, cell adhesio; 2.50A {Homo sapiens} PDB: 3tsw_A
3lh5_A
Length = 391
Score = 32.9 bits (74), Expect = 0.12
Identities = 8/65 (12%), Positives = 17/65 (26%), Gaps = 7/65 (10%)
Query: 6 KILRTCENVKIYILLRPK-------KNKNSRERLEEIFQSPLYEALKKEQSESAIFEKVI 58
L + I + L P + + + K ++ +F I
Sbjct: 302 DRLNYAQWYPIVVFLNPDSKQGVKTMRMRLCPESRKSARKLYERSHKLRKNNHHLFTTTI 361
Query: 59 PINGD 63
+N
Sbjct: 362 NLNSM 366
>3shw_A Tight junction protein ZO-1; PDZ-SH3-GUK supramodule, cell
adhesion; 2.90A {Homo sapiens}
Length = 468
Score = 31.8 bits (71), Expect = 0.27
Identities = 8/65 (12%), Positives = 17/65 (26%), Gaps = 7/65 (10%)
Query: 6 KILRTCENVKIYILLRPK-------KNKNSRERLEEIFQSPLYEALKKEQSESAIFEKVI 58
L + I + L P + + + K ++ +F I
Sbjct: 294 DRLNYAQWYPIVVFLNPDSKQGVKTMRMRLCPESRKSARKLYERSHKLRKNNHHLFTTTI 353
Query: 59 PINGD 63
+N
Sbjct: 354 NLNSM 358
>1c1d_A L-phenylalanine dehydrogenase; amino acid dehydrogenase, oxidative
deamination mechanism, oxidoreductase; HET: PHE NAD;
1.25A {Rhodococcus SP} SCOP: c.2.1.7 c.58.1.1 PDB:
1bw9_A* 1c1x_A* 1bw9_B* 1c1d_B* 1c1x_B* 1bxg_B* 1bxg_A*
Length = 355
Score = 31.8 bits (73), Expect = 0.28
Identities = 9/71 (12%), Positives = 20/71 (28%), Gaps = 16/71 (22%)
Query: 18 ILLRPKKNKNSRERLEEIFQSPLYEALKKEQSESAIFEKVIPING-DVAVPDLGISAED- 75
I L ++ I + E + ++G PD+ ++ D
Sbjct: 81 IALPAPRHSIDPSTWARILR--------------IHAENIDKLSGNYWTGPDVNTNSADM 126
Query: 76 RQMLSETIHIV 86
+ T +
Sbjct: 127 DTLNDTTEFVF 137
>3st7_A Capsular polysaccharide synthesis enzyme CAP5F; rossmann fold,
cupid domain, short-chain dehydrogenase/reduc NADPH;
2.45A {Staphylococcus aureus} PDB: 2zkl_A 3vhr_A
Length = 369
Score = 31.0 bits (70), Expect = 0.44
Identities = 18/135 (13%), Positives = 37/135 (27%), Gaps = 44/135 (32%)
Query: 85 IVYHIAATVRFDDYMQTYVFLNTRGTRDMLNLSKQMIHLQLFVYVSTAYCHPKEKVLEEK 144
+ H+A R + + + N +L++ + + + +S++
Sbjct: 49 FIVHLAGVNRPEHDKEFSL-GNVSYLDHVLDILTRN-TKKPAILLSSS------------ 94
Query: 145 TYPPPVSPHNVIEKAELLSKNELELLKQELLQDFPNGYAYTKCLCEGVVTEYMEA-GMPC 203
+P Y +K E ++ EY E G
Sbjct: 95 IQATQDNP-----------------------------YGESKLQGEQLLREYAEEYGNTV 125
Query: 204 MILRPSIIIPIWKDP 218
I R + W P
Sbjct: 126 YIYRWPNLFGKWCKP 140
>3v97_A Ribosomal RNA large subunit methyltransferase L; YCBY, RNA
methyltransferase, ribosome RNA, SAH, RLML; HET: SAH
OSU; 2.20A {Escherichia coli} PDB: 3v8v_A*
Length = 703
Score = 31.2 bits (71), Expect = 0.54
Identities = 18/44 (40%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 93 VRFDDYMQTYVFLNTRGTRDML-NLSKQMIHLQLFVYVSTAYCH 135
V DY+ T +FL+ R R ML +SK L LF Y +A H
Sbjct: 513 VNLTDYLDTGLFLDHRIARRMLGQMSKGKDFLNLFSYTGSATVH 556
>1a0p_A Site-specific recombinase XERD; DNA binding, DNA recombination;
2.50A {Escherichia coli} SCOP: a.60.9.1 d.163.1.1
Length = 290
Score = 29.8 bits (68), Expect = 1.0
Identities = 8/52 (15%), Positives = 18/52 (34%), Gaps = 15/52 (28%)
Query: 102 YVFLNTRGTRDMLNLSKQMIHLQLFVYVSTAYCHPKEKVLEEKTYPPPVSPH 153
+F + R + +++Q ++ Y A + +SPH
Sbjct: 206 VLFPSQRAQQ----MTRQTFWHRIKHYAVLAGIDSE-----------KLSPH 242
>3ius_A Uncharacterized conserved protein; APC63810, silicibacter pomeroyi
DSS, structural genomics, PSI-2, protein structure
initiative; HET: MSE; 1.66A {Ruegeria pomeroyi dss-3}
Length = 286
Score = 29.9 bits (67), Expect = 1.1
Identities = 15/102 (14%), Positives = 30/102 (29%), Gaps = 14/102 (13%)
Query: 55 EKVIPINGDVAVPDLGISAEDRQMLSETIHIVYHIAATVRFDDYMQTYVFLNTRGTRDML 114
+++ I A P L + L H++ A D +
Sbjct: 39 DQMEAIRASGAEPLLW--PGEEPSLDGVTHLLISTAPDSGGDPVLAALGDQ--------- 87
Query: 115 NLSKQMIHLQLFVYVSTA--YCHPKEKVLEEKTYPPPVSPHN 154
++ + + Y+ST Y ++E T P +
Sbjct: 88 -IAARAAQFRWVGYLSTTAVYGDHDGAWVDETTPLTPTAARG 128
>2l82_A Designed protein OR32; structural genomics, northeast structural
genomics consortiu PSI-biology, protein structure
initiative, de novo protein; NMR {Artificial gene}
Length = 162
Score = 29.4 bits (65), Expect = 1.1
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 3 LLEKILRTC--ENVKIYILLRPKKNKNSRERLEEIFQSPLYEALKKEQSE 50
+L++I+R + V++ +L + K RERLEE F+ + E E
Sbjct: 14 ILKEIVREIKRQGVRVVLLYSDQDEKRRRERLEE-FEKQGVDVRTVEDKE 62
>3nz3_A SPR1345 protein, putative uncharacterized protein; all beta sheets,
IG-like fold, mucin-binding, mucin, cell SU cell
adhesion; HET: PGE; 2.00A {Streptococcus pneumoniae}
Length = 112
Score = 28.3 bits (63), Expect = 1.3
Identities = 7/34 (20%), Positives = 13/34 (38%), Gaps = 3/34 (8%)
Query: 80 SETIHIVYHIAATVRFDDYMQTYVFLNTR-GTRD 112
+ IH V + +D +Q +R T +
Sbjct: 23 TRIIHYVDKVTNQNVKEDVVQPVTL--SRTKTEN 54
>2lta_A De novo designed protein; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Artificial gene}
Length = 110
Score = 28.2 bits (62), Expect = 1.5
Identities = 14/50 (28%), Positives = 28/50 (56%), Gaps = 3/50 (6%)
Query: 3 LLEKILRTC--ENVKIYILLRPKKNKNSRERLEEIFQSPLYEALKKEQSE 50
LE++ R E +++YILL+ K K E++++ +S +E K + +
Sbjct: 15 TLEELARKIKDEGLEVYILLKDKDEKRLEEKIQK-LKSQGFEVRKVKDDD 63
>3ney_A 55 kDa erythrocyte membrane protein; structural genomics
consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A
{Homo sapiens}
Length = 197
Score = 28.3 bits (64), Expect = 2.5
Identities = 12/69 (17%), Positives = 24/69 (34%), Gaps = 11/69 (15%)
Query: 2 VLLE------KILRTCENVKIYILLRPKKNKNSRERLEEIFQSPLYEALKKEQSESAIFE 55
+L+ KI+RT E + + P + E Q ++ + F+
Sbjct: 113 AILDIEPQTLKIVRTAELSPFIVFIAPT----DQGTQTEALQQLQKDSEAIRSQYAHYFD 168
Query: 56 KVIPINGDV 64
+ +N V
Sbjct: 169 LSL-VNNGV 176
>3lra_A Disks large homolog 1, maguk P55 subfamily member protein LIN-7
homolog C; tripartite complex, L27 tetramer, cell
junction; 2.95A {Homo sapiens} PDB: 1rso_A
Length = 254
Score = 28.3 bits (62), Expect = 2.7
Identities = 27/158 (17%), Positives = 57/158 (36%), Gaps = 33/158 (20%)
Query: 26 KNSRERLEEIFQSPLYEAL--KKEQSESAIFEK-VIPINGDVAVPDLGISAEDRQMLSET 82
++S ER+ IFQS L++AL +E E + + + + D G+ ++L+
Sbjct: 30 RSSIERVINIFQSNLFQALIDIQEFYEVTLLDNPKLEVLFQGPGSDTGLY----ELLAAL 85
Query: 83 IHIVYHIAATVRFDDYMQTYVFLNTRGTRDMLNLSKQMIHLQLFVYVSTAYCHPKEKVLE 142
+ + ++ ++ +H + ++ EK+
Sbjct: 86 PAQLQPHVDSQEDLTFLWDM-------------FGEKSLHSLVKIH---------EKLHY 123
Query: 143 EKTYPP-PVSPHNV---IEKAELLSKNELELLKQELLQ 176
+ P P+ + AE L L +ELL+
Sbjct: 124 YEKQSPVPILHGAAALADDLAEELQNKPLNSEIRELLK 161
>1iur_A KIAA0730 protein; DNAJ like domain, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, unknown function; NMR {Homo sapiens} SCOP:
a.2.3.1
Length = 88
Score = 25.8 bits (57), Expect = 7.7
Identities = 7/29 (24%), Positives = 13/29 (44%), Gaps = 2/29 (6%)
Query: 22 PKKNKNSRERLEEIFQ--SPLYEALKKEQ 48
P KN + + E+F+ L+K+
Sbjct: 46 PDKNPENHDIANEVFKHLQNEINRLEKQA 74
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 0.138 0.418
Gapped
Lambda K H
0.267 0.0591 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,067,214
Number of extensions: 306050
Number of successful extensions: 736
Number of sequences better than 10.0: 1
Number of HSP's gapped: 723
Number of HSP's successfully gapped: 36
Length of query: 318
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 224
Effective length of database: 4,077,219
Effective search space: 913297056
Effective search space used: 913297056
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.0 bits)