RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17999
(335 letters)
>2wqp_A Polysialic acid capsule biosynthesis protein SIAC; NEUB, inhibitor,
TIM barrel, sialic acid synthase, transfera; HET: WQP;
1.75A {Neisseria meningitidis} PDB: 2zdr_A 1xuz_A*
1xuu_A 3cm4_A
Length = 349
Score = 354 bits (911), Expect = e-122
Identities = 83/332 (25%), Positives = 146/332 (43%), Gaps = 29/332 (8%)
Query: 1 ECGADCVKFQKSCLSTKFTQSALDRPYLSPHAWANTYGQHKQHLEFSQEEYVMLQQCADQ 60
GA+ VK Q + + + A + P + + + ++E+ + L++ +
Sbjct: 46 NAGAEVVKHQTHIVEDEMSDEA---KQVIPGNADVSIYEIMERCALNEEDEIKLKEYVES 102
Query: 61 VDIMFTASAMDQVSFDFLLSANVPFIKIGSGDSNNIPLIKYAASKQKPLIISTGMLPSIE 120
++F ++ + + L ++P KIGSG+ NN PLIK AS KP+I+STGM
Sbjct: 103 KGMIFISTLFSRAAALRLQRMDIPAYKIGSGECNNYPLIKLVASFGKPIILSTGM----- 157
Query: 121 HVDNIYTTVKQYHSNLS-ILHCVSAYPTPYPTVKQYHSNLSILHCVSAYPTPYHDINLNV 179
+++ I V +++ ++LHC + YPTPY D+ L
Sbjct: 158 -------------NSIESIKKSVE-------IIREAGVPYALLHCTNIYPTPYEDVRLGG 197
Query: 180 IHTLRSRYPDIPIGYSGHENGVHVCYAAVAMGAQIIEKHFTLDKSWKGSDHASSLTPPEL 239
++ L +PD IG S H + C AVA+G I+E+HFT G D S+ P
Sbjct: 198 MNDLSEAFPDAIIGLSDHTLDNYACLGAVALGGSILERHFTDRMDRPGPDIVCSMNPDTF 257
Query: 240 KALVTGIRDIEQSLGSPTKRMQVSEAPCYAKLGKCIVSSCDIQAGTVLQEFHVCIKVAEP 299
K L G ++ + G + E P +V+ DI+ G +L ++ +K
Sbjct: 258 KELKQGAHALKLARGGKKDTIIAGEKPTKDFAFASVVADKDIKKGELLSGDNLWVKRPGN 317
Query: 300 KGICGTRYASVMGRKVNRDIRRDESIQDIDLD 331
Y ++ G+ +IR+ I+ D++
Sbjct: 318 GDFSVNEYETLFGKVAACNIRKGAQIKKTDIE 349
>1vli_A Spore coat polysaccharide biosynthesis protein SP; 2636322, JCSG,
protein structure initiative, BS SPSE, PSI; 2.38A
{Bacillus subtilis} SCOP: b.85.1.1 c.1.10.6
Length = 385
Score = 331 bits (851), Expect = e-113
Identities = 99/352 (28%), Positives = 155/352 (44%), Gaps = 42/352 (11%)
Query: 1 ECGADCVKFQKSCLSTKFTQSALDRPYLSPHAWANTYGQHKQHLEFSQEEYVMLQQCADQ 60
E GAD VKFQ + + Y + + Q +E E + L +
Sbjct: 55 EAGADAVKFQMFQADRMYQKDP--GLYKTAAGKDVSIFSLVQSMEMPAEWILPLLDYCRE 112
Query: 61 VDIMFTASAMDQVSFDFLLSANVPFIKIGSGDSNNIPLIKYAASKQKPLIISTGMLPSIE 120
++F ++ D+ S D L S + KI S + N++PL+KY A +P+I ST I
Sbjct: 113 KQVIFLSTVCDEGSADLLQSTSPSAFKIASYEINHLPLLKYVARLNRPMIFSTAG-AEIS 171
Query: 121 HVDNIYTTVKQYHSNLSILHCVSAYPTPYPTVKQYHSNLSILHCVSAYPTPYHDINLNVI 180
V + T++ +N ++I+HCV+ YP P NL+VI
Sbjct: 172 DVHEAWRTIRAEGNN----------------------QIAIMHCVAKYPAPPEYSNLSVI 209
Query: 181 HTLRSRYPDIPIGYSGH-ENGVHVCYAAVAMGAQIIEKHFTLDKSWKGSDHASSLTPPEL 239
L + +P+ IG+S H E+ AAV +GA++IEKHFT+DK+ G+DH+ +L P EL
Sbjct: 210 PMLAAAFPEAVIGFSDHSEHPTEAPCAAVRLGAKLIEKHFTIDKNLPGADHSFALNPDEL 269
Query: 240 KALVTGIRDIEQSLG-------------SPTKRMQVSEAPCYAKLGKCIVSSCDIQAGTV 286
K +V GIR E L S K E + I ++ IQ G
Sbjct: 270 KEMVDGIRKTEAELKQGITKPVSEKLLGSSYKTTTAIEGEIRNFAYRGIFTTAPIQKGEA 329
Query: 287 LQEFHVCIK--VAEPKGICGTRYASVM-GRKVNRDIRRDESIQDIDLDPVES 335
E ++ + +P+G+ + + G + RDI D I D+ +S
Sbjct: 330 FSEDNIAVLRPGQKPQGLHPRFFELLTSGVRAVRDIPADTGIVWDDILLKDS 381
>3g8r_A Probable spore coat polysaccharide biosynthesis P; structural
genomics, protein structure initiative; 2.49A
{Chromobacterium violaceum atcc 12472}
Length = 350
Score = 323 bits (831), Expect = e-110
Identities = 72/342 (21%), Positives = 120/342 (35%), Gaps = 41/342 (11%)
Query: 1 ECGA-----DCVKFQKSCLSTKFTQSALDRPYLSPHAWANTYGQHKQHLEFSQEEYVMLQ 55
E K Q L T S Y + + E+ L
Sbjct: 32 ESCQGFDFDFGFKLQYRNLDTFIHSSF-------KGRDDVKYVKRFEETRLQPEQMQKLV 84
Query: 56 QCADQVDIMFTASAMDQVSFDFLLSANVPFIKIGSGDSNNIPLIKYAASKQKPLIISTGM 115
+ D+ S D + + + IKI S + PL++ A KP++ ST
Sbjct: 85 AEMKANGFKAICTPFDEESVDLIEAHGIEIIKIASCSFTDWPLLERIARSDKPVVASTAG 144
Query: 116 LPSIEHVDNIYTTVKQYHSNLSILHCVSAYPTPYPTVKQYHSNLSILHCVSAYPTPYHDI 175
E +D + + + +L+I+HCV+ YPTP +
Sbjct: 145 A-RREDIDKVVS-----------------------FMLHRGKDLTIMHCVAEYPTPDDHL 180
Query: 176 NLNVIHTLRSRYPDIPIGYSGHENG--VHVCYAAVAMGAQIIEKHFTLDKSWKGSDHASS 233
+L I TLR +Y + IGYS HE+ + AVA GA + EKH L G ++ S
Sbjct: 181 HLARIKTLRQQYAGVRIGYSTHEDPDLMEPIMLAVAQGATVFEKHVGLPTDQYGINNY-S 239
Query: 234 LTPPELKALVTGIRDIEQSLGSPTKR-MQVSEAPCYAKLGKCIVSSCDIQAGTVLQEFHV 292
P +++ + LG + +E L + + ++ + AG L +V
Sbjct: 240 ANPEQVRRWLAAAARALAMLGDGEDDAVSETEQASLRSLRRGVFATRPVAAGEALTADNV 299
Query: 293 CIKV-AEPKGICGTRYASVMGRKVNRDIRRDESIQDIDLDPV 333
+ ++ + I D + DL+PV
Sbjct: 300 SFAFPPVEGQLTANEWSKYVRYTAKTPIAADAPVMAADLEPV 341
>1wvo_A Sialic acid synthase; antifreeze protein like domain,
N-acetylneuraminic acid phosphate synthase, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 79
Score = 59.5 bits (144), Expect = 7e-12
Identities = 17/60 (28%), Positives = 31/60 (51%)
Query: 272 GKCIVSSCDIQAGTVLQEFHVCIKVAEPKGICGTRYASVMGRKVNRDIRRDESIQDIDLD 331
+V+ I GT+L + +KV EPKG +++G+KV + D++I + +D
Sbjct: 6 SGSVVAKVKIPEGTILTMDMLTVKVGEPKGYPPEDIFNLVGKKVLVTVEEDDTIMEELVD 65
>1c89_A RD3, antifreeze protein type III; thermal hysteresis protein, ICE
binding protein; NMR {Pachycara brachycephalum} SCOP:
b.85.1.1 b.85.1.1 PDB: 1c8a_A 3nla_A 3rdn_A
Length = 134
Score = 60.8 bits (147), Expect = 1e-11
Identities = 20/98 (20%), Positives = 39/98 (39%), Gaps = 2/98 (2%)
Query: 236 PPELKALVTGIRDIEQSLG-SPTKRMQVSEAPC-YAKLGKCIVSSCDIQAGTVLQEFHVC 293
E+ LV + LG + M + + K +V++ I T L +
Sbjct: 34 AEEIPNLVGMQVNRAVPLGTTLMPDMVKNYEDGTTSPGLKSVVANQLIPINTALTLVMMK 93
Query: 294 IKVAEPKGICGTRYASVMGRKVNRDIRRDESIQDIDLD 331
+ PKGI + ++G +VNR + D+++ +
Sbjct: 94 AEEVSPKGIPSEEISKLVGMQVNRAVYLDQTLMPDMVK 131
Score = 46.6 bits (110), Expect = 9e-07
Identities = 12/51 (23%), Positives = 24/51 (47%)
Query: 275 IVSSCDIQAGTVLQEFHVCIKVAEPKGICGTRYASVMGRKVNRDIRRDESI 325
+V++ I T L + +V P GI +++G +VNR + ++
Sbjct: 5 VVANQLIPINTALTLIMMKAEVVTPMGIPAEEIPNLVGMQVNRAVPLGTTL 55
>1msi_A Type III antifreeze protein isoform HPLC 12; multigene family,
thermal hysteresis; 1.25A {Macrozoarces americanus}
SCOP: b.85.1.1
Length = 70
Score = 54.3 bits (130), Expect = 4e-10
Identities = 11/54 (20%), Positives = 22/54 (40%)
Query: 272 GKCIVSSCDIQAGTVLQEFHVCIKVAEPKGICGTRYASVMGRKVNRDIRRDESI 325
+V++ I T L + +V P GI ++ +VNR + ++
Sbjct: 3 QASVVANQLIPINTALTLVMMRSEVVTPVGIPAEDIPRLVSMQVNRAVPLGTTL 56
>1ops_A Type III AFP, type III antifreeze protein; ICE crystal growth
inhibition, pretzel fold, glycoprotein; 2.00A
{Macrozoarces americanus} SCOP: b.85.1.1
Length = 64
Score = 51.9 bits (124), Expect = 2e-09
Identities = 12/53 (22%), Positives = 27/53 (50%)
Query: 273 KCIVSSCDIQAGTVLQEFHVCIKVAEPKGICGTRYASVMGRKVNRDIRRDESI 325
+ +V++ I T L + KV P GI + ++G++VN + + +++
Sbjct: 2 QSVVATQLIPMNTALTPAMMEGKVTNPIGIPFAEMSQLVGKQVNTPVAKGQTL 54
>1ucs_A Antifreeze peptide RD1; small beta barrel, pretzel fold, antifreeze
protein; 0.62A {Lycodichthys dearborni} SCOP: b.85.1.1
PDB: 9ame_A 1ame_A 1kde_A 1kdf_A 1gzi_A 1hg7_A 1b7i_A
2spg_A 1jab_A 1b7j_A 2msj_A 1ekl_A 4ame_A 7ame_A 3qf6_A
2ame_A 1msj_A 1b7k_A 6ame_A 9msi_A ...
Length = 64
Score = 50.4 bits (120), Expect = 9e-09
Identities = 12/51 (23%), Positives = 23/51 (45%)
Query: 275 IVSSCDIQAGTVLQEFHVCIKVAEPKGICGTRYASVMGRKVNRDIRRDESI 325
+V++ I T L + +V P GI ++G +VNR + ++
Sbjct: 5 VVANQLIPINTALTLIMMKAEVVTPMGIPAEEIPKLVGMQVNRAVPLGTTL 55
>1vr6_A Phospho-2-dehydro-3-deoxyheptonate aldolase; TM0343, structural
genomics, joint center for STRU genomics, JCSG, protein
structure initiative; 1.92A {Thermotoga maritima} SCOP:
c.1.10.4 PDB: 1rzm_A* 3pg9_A* 3pg8_A*
Length = 350
Score = 48.9 bits (117), Expect = 9e-07
Identities = 43/220 (19%), Positives = 86/220 (39%), Gaps = 52/220 (23%)
Query: 53 MLQQCADQVDIMFTASAMDQVSFDFLLSANVPFIKIGSGDSNNIPLIKYAASKQKPLIIS 112
L++ AD+ + A+ + ++ I+IG+ ++ N L+ A S KP+++
Sbjct: 161 YLREAADKYGMYVVTEALGEDDLP-KVAEYADIIQIGARNAQNFRLLSKAGSYNKPVLLK 219
Query: 113 TGMLPSI-------EHVDNIYTTVKQYHSNLSILHC---VSAYPTPYPTVKQYHSNLSIL 162
G + +I E++ N N I+ C + +
Sbjct: 220 RGFMNTIEEFLLSAEYIAN--------SGNTKIILCERGIRTFEKAT------------- 258
Query: 163 HCVSAYPTPYHDINLNVIHTLRSRYPDIPIGY-----SGHENGV-HVCYAAVAMGAQ--I 214
+ ++++ + +R + +PI G + V + AA+A+GA I
Sbjct: 259 ---------RNTLDISAVPIIR-KESHLPILVDPSHSGGRRDLVIPLSRAAIAVGAHGII 308
Query: 215 IEKHFTLDKSWKGSDHASSLTPPELKALVTGIRDIEQSLG 254
+E H +K+ SD SL K LV ++ + +LG
Sbjct: 309 VEVHPEPEKAL--SDGKQSLDFELFKELVQEMKKLADALG 346
>1zco_A 2-dehydro-3-deoxyphosphoheptonate aldolase; arabino-heptulosonate,
synthase, shikimate, DAHP, DAH7P, DAH DAH7PS, lyase;
HET: PEP; 2.25A {Pyrococcus furiosus}
Length = 262
Score = 47.6 bits (114), Expect = 2e-06
Identities = 36/215 (16%), Positives = 82/215 (38%), Gaps = 52/215 (24%)
Query: 53 MLQQCADQVDIMFTASAMDQVSFDFLLSANVPFIKIGSGDSNNIPLIKYAASKQKPLIIS 112
+++ AD+ ++ MD + L++ ++IG+ +S N L+K + P+++
Sbjct: 78 WMREAADEYGLVTVTEVMDTRHVE-LVAKYSDILQIGARNSQNFELLKEVGKVENPVLLK 136
Query: 113 TGMLPSI-------EHVDNIYTTVKQYHSNLSILHC---VSAYPTPYPTVKQYHSNLSIL 162
GM +I E++ N +++ C + + T
Sbjct: 137 RGMGNTIQELLYSAEYIMA--------QGNENVILCERGIRTFETAT------------- 175
Query: 163 HCVSAYPTPYHDINLNVIHTLRSRYPDIPIGY-----SGHENGV-HVCYAAVAMGAQ--I 214
++++ + ++ +PI +G + V + AA A+GA +
Sbjct: 176 ---------RFTLDISAVPVVK-ELSHLPIIVDPSHPAGRRSLVIPLAKAAYAIGADGIM 225
Query: 215 IEKHFTLDKSWKGSDHASSLTPPELKALVTGIRDI 249
+E H +K+ SD LT + L+ + +
Sbjct: 226 VEVHPEPEKAL--SDSQQQLTFDDFLQLLKELEAL 258
>3nvt_A 3-deoxy-D-arabino-heptulosonate 7-phosphate synth; bifunctional
3-deoxy-7-phosphoheptulonate synthase/chorismat listeria
monocytogenes EGD-E; 1.95A {Listeria monocytogenes} PDB:
3tfc_A*
Length = 385
Score = 47.9 bits (114), Expect = 2e-06
Identities = 35/217 (16%), Positives = 78/217 (35%), Gaps = 46/217 (21%)
Query: 53 MLQQCADQVDIMFTASAMDQVSFDFLLSANVPFIKIGSGDSNNIPLIKYAASKQKPLIIS 112
+L++ +D+ + + + + + V I+IG+ + N L+K A KP+++
Sbjct: 197 ILKRVSDEYGLGVISEIVTPADIE-VALDYVDVIQIGARNMQNFELLKAAGRVDKPILLK 255
Query: 113 TGMLPSIEH----VDNIYTTVKQYHSNLSILHC---VSAYPTPYPTVKQYHSNLSILHCV 165
G+ +IE + I + N I+ C + Y
Sbjct: 256 RGLSATIEEFIGAAEYIMS-----QGNGKIILCERGIRTYEKAT---------------- 294
Query: 166 SAYPTPYHDINLNVIHTLRSRYPDIPIGY-----SGHENGVH-VCYAAVAMGAQ--IIEK 217
+ ++++ + L+ + +P+ +G ++ + AA+A+ A + E
Sbjct: 295 ------RNTLDISAVPILK-KETHLPVMVDVTHSTGRKDLLLPCAKAALAIEADGVMAEV 347
Query: 218 HFTLDKSWKGSDHASSLTPPELKALVTGIRDIEQSLG 254
H + SD A + PE + I
Sbjct: 348 HPDPAVAL--SDSAQQMDIPEFEEFWNAILASNLVPH 382
>1vs1_A 3-deoxy-7-phosphoheptulonate synthase; (beta/alpha)8 barrel,
transferase; HET: PEP; 2.30A {Aeropyrum pernix}
Length = 276
Score = 46.5 bits (111), Expect = 4e-06
Identities = 33/213 (15%), Positives = 76/213 (35%), Gaps = 52/213 (24%)
Query: 53 MLQQCADQVDIMFTASAMDQVSFDFLLSANVPFIKIGSGDSNNIPLIKYAASKQKPLIIS 112
+L++ D+ + +D + +S ++IG+ + N PL++ KP+++
Sbjct: 93 LLRRAGDEAGLPVVTEVLDPRHVE-TVSRYADMLQIGARNMQNFPLLREVGRSGKPVLLK 151
Query: 113 TGMLPSI-------EHVDNIYTTVKQYHSNLSILHC---VSAYPTPYPTVKQYHSNLSIL 162
G ++ E++ N ++ + +
Sbjct: 152 RGFGNTVEELLAAAEYILL--------EGNWQVVLVERGIRTFEP--------------- 188
Query: 163 HCVSAYPTPYHDINLNVIHTLRSRYPDIPIGY-----SGHENGV-HVCYAAVAMGAQ--I 214
+ +++ + L+ +P+ +G + V + A +A GA I
Sbjct: 189 -------STRFTLDVAAVAVLK-EATHLPVIVDPSHPAGRRSLVPALAKAGLAAGADGLI 240
Query: 215 IEKHFTLDKSWKGSDHASSLTPPELKALVTGIR 247
+E H +++ SD LTP E L+ +R
Sbjct: 241 VEVHPNPEEAL--SDAKQQLTPGEFARLMGELR 271
>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 = 40.8 bits (95), Expect = 6e-04
Identities = 54/345 (15%), Positives = 93/345 (26%), Gaps = 105/345 (30%)
Query: 47 SQEEYVM--LQQCADQVDIMFTASAMDQV------SF--DFLLSANV-PFI-KIGSGDSN 94
+ E V L + V+ DQV F +L ++ K+ +
Sbjct: 56 TPAELVGKFLGYVSSLVEPS-KVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDT 114
Query: 95 NIP----LIK--YAASK--QKPLIISTGMLPS--IEHVD----NIYT------TVKQYHS 134
+ LIK A ++P S V + Y
Sbjct: 115 TLVKTKELIKNYITARIMAKRPF---DKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFE 171
Query: 135 NLSILHCVSAYPTPYPTVKQY----HSNLSILHCVSAYPTPYHDINLNVIHTLR--SRYP 188
L L Y T + V LS L + LN++ L S P
Sbjct: 172 ELRDL-----YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTP 226
Query: 189 DIPIGYSGHENGVHVCYAAVAM---G-AQIIEKHFTLDKSWKGSDHASSLTPPELKALVT 244
D Y + ++ G Q+ H+ + + TP EL++ +
Sbjct: 227 DKD--Y--------LLSIPISCPLIGVIQLA--HYVV------TAKLLGFTPGELRSYLK 268
Query: 245 GIRDIEQSLGSPTKRMQVSEAPCYAKLGKCIVSSCDIQAGTVLQEFHV----CIKVAEPK 300
G T + +V++ I + F V I V
Sbjct: 269 GA----------TGH------------SQGLVTAVAIAETDSWESFFVSVRKAITVLFFI 306
Query: 301 GICGTRYASVMGR--KVNRD-IRRDE-------SIQDIDLDPVES 335
G+ + D + +E SI ++ + V+
Sbjct: 307 GVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQD 351
Score = 40.4 bits (94), Expect = 8e-04
Identities = 35/196 (17%), Positives = 50/196 (25%), Gaps = 62/196 (31%)
Query: 102 AASKQKPLIISTGMLPSIEHVDNIYTTVKQYHSNLSIL--HCVSAYPTPYPTVKQYHSNL 159
A S + PL +S G S+EHV + T S L P P
Sbjct: 3 AYSTR-PLTLSHG---SLEHVLLVPTAS---FFIASQLQEQFNKILPEPTEGFAADDEPT 55
Query: 160 SILHCVSAYPTPYHDINLNVIHTLRSRYPDIPIGYSGH--ENGVHVCYAAVAMGAQIIEK 217
+ L ++ +GY E + V +
Sbjct: 56 TPAE-------------------LVGKF----LGYVSSLVEPSKVGQFDQV---LNLCLT 89
Query: 218 HFT---LDKSWKGSD-H--ASSLTPPELKALVTG---IR---DIEQSLGSPTKRMQVS-- 263
F L +G+D H A+ L LV I+ P + S
Sbjct: 90 EFENCYL----EGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL 145
Query: 264 -------EAPCYAKLG 272
A A G
Sbjct: 146 FRAVGEGNAQLVAIFG 161
Score = 34.6 bits (79), Expect = 0.048
Identities = 36/216 (16%), Positives = 55/216 (25%), Gaps = 91/216 (42%)
Query: 159 LSILHCVSAYPTPYHDINLNVIH-------TLRSRYPDIPIGYSGHENGVHVCYAAVAMG 211
SIL V P IH +R Y + + + G
Sbjct: 1659 FSILDIVINNPVNL------TIHFGGEKGKRIRENYSAM-------------IFETIVDG 1699
Query: 212 AQIIEKHF------TLDKSWKGSDHASSLT----PPELKALVT----GIRDIEQ------ 251
EK F + +++ S T P AL D++
Sbjct: 1700 KLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQP----ALTLMEKAAFEDLKSKGLIPA 1755
Query: 252 -------SLGSPTKRMQVSEAPCYAKLGKCIVSSCDIQAGTVLQEFHVCIKV-------- 296
SLG E YA L S A V+ ++V
Sbjct: 1756 DATFAGHSLG---------E---YAAL----ASL----AD-VM-SIESLVEVVFYRGMTM 1793
Query: 297 --AEPKGICGTRYASVMGRKVNRDIRR--DESIQDI 328
A P+ G ++ R E++Q +
Sbjct: 1794 QVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYV 1829
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 40.6 bits (94), Expect = 7e-04
Identities = 64/401 (15%), Positives = 120/401 (29%), Gaps = 135/401 (33%)
Query: 5 DCVKFQKSCLSTKFTQSALDRPYLSPHAWANTYGQHKQHLEFSQEEYVMLQQCADQVDIM 64
DC Q + ++ +D +S A + T F + +L + + V
Sbjct: 34 DCKDVQDM-PKSILSKEEIDHIIMSKDAVSGTL------RLF----WTLLSKQEEMVQ-K 81
Query: 65 FTASAMDQVSFDFLLSA-----NVP------FIKIGSGDSN-NIPLIKYAASKQKPL--- 109
F + ++ FL+S P +I+ N N KY S+ +P
Sbjct: 82 FVEEVLRI-NYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL 140
Query: 110 ------------IISTGML--------------PSIEHV--DNIY-TTVKQYHSNLSILH 140
++ G+L ++ I+ +K +S ++L
Sbjct: 141 RQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLE 200
Query: 141 CVSAYPTPYPTVKQYHSNLSILHCVSAYPTPYHDINLNVIHTLRSRYPDIPIGYSGHENG 200
+ Y + S S H I + L+S+ +EN
Sbjct: 201 MLQK--LLYQIDPNWTSRSDHS---SNIKLRIHSIQAELRRLLKSK---------PYENC 246
Query: 201 V----HVCYA----AVAMGAQII----------------EKHFTLDKSWKGSDHASSLTP 236
+ +V A A + +I+ H +LD H+ +LTP
Sbjct: 247 LLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD------HHSMTLTP 300
Query: 237 PELKAL---VTGIRDIEQSLGSPTKRMQVSEAPCYAKLGKCIVSSCDIQAGTVLQEFHVC 293
E+K+L R Q L P + + + P I+ +++
Sbjct: 301 DEVKSLLLKYLDCR--PQDL--PREVLTTN--P----RRLSII-------AESIRDGLAT 343
Query: 294 IKVAEPKGICGTRYASVMGRKVNRDIRRDESIQDIDLDPVE 334
+ V K+ I + S+ L+P E
Sbjct: 344 WD----------NWKHVNCDKLTTII--ESSLN--VLEPAE 370
>3c7a_A Octopine dehydrogenase; L) stereospecific opine dehydrogenas,
oxidorecutase, oxidoreductase; HET: NAD; 2.10A {Pecten
maximus} PDB: 3c7c_B* 3c7d_B* 3iqd_B*
Length = 404
Score = 36.4 bits (83), Expect = 0.013
Identities = 23/128 (17%), Positives = 40/128 (31%), Gaps = 18/128 (14%)
Query: 137 SILHCVSAYPTPYPTVKQYHSNL-SILHCVSAY---PTPYHDINLNVIHTLRSRYP--DI 190
+ Y Y Q +L + +Y P ++ V +RY DI
Sbjct: 271 DVKDIYQWYLEYYHEDIQDDHDLYHAITTNKSYKGLVHPVKAVDGGVAPDFGNRYLTEDI 330
Query: 191 PIGYS-----GHENGVH--VCYAAVAMGAQIIEKHFTLDKSWKGSDHASSLTPPELKALV 243
P+G GV + + I K + +D + G D A++ P
Sbjct: 331 PMGMIVFKGVAIAAGVAIPSNDKLIMWAQEKIGKEYLVDGALTGKDVATTRCPQRY---- 386
Query: 244 TGIRDIEQ 251
G ++
Sbjct: 387 -GFNTLDA 393
>2rdm_A Response regulator receiver protein; structural genomics, unknown
function, PSI-2, protein struct initiative; HET: MSE;
1.76A {Sinorhizobium medicae}
Length = 132
Score = 29.1 bits (66), Expect = 1.0
Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 11/46 (23%)
Query: 183 LRSRYPDIPI----GYSGHENGVHVCYAAVAM-GAQIIEKHFTLDK 223
R P++PI G++ E + + + I+EK FT +
Sbjct: 73 AREIDPNMPIVYISGHAALEWASN------GVPDSIILEKPFTSAQ 112
>2dae_A KIAA0733 protein; mitogen-activated protein kinase kinase kinase 7
interacting protein 2, MAP3K7IP2, CUE domain, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 75
Score = 27.1 bits (59), Expect = 2.0
Identities = 10/42 (23%), Positives = 20/42 (47%), Gaps = 5/42 (11%)
Query: 173 HDINLNVIHTLRSRYPDIPIG-----YSGHENGVHVCYAAVA 209
I+ V+H LR ++P++P + N + C A ++
Sbjct: 7 GQIDFQVLHDLRQKFPEVPEVVVSRCMLQNNNNLDACCAVLS 48
>3mbh_A Putative phosphomethylpyrimidine kinase; structural genomics, joint
center for structural genomics, J protein structure
initiative; HET: MSE PXL; 2.00A {Bacteroides
thetaiotaomicron} PDB: 3mbj_A*
Length = 291
Score = 27.6 bits (62), Expect = 5.3
Identities = 7/31 (22%), Positives = 13/31 (41%)
Query: 111 ISTGMLPSIEHVDNIYTTVKQYHSNLSILHC 141
I TG L S + + +K + S++
Sbjct: 81 IYTGYLGSPRQIQIVSDFIKDFRQPDSLIVA 111
>3c85_A Putative glutathione-regulated potassium-efflux S protein KEFB;
TRKA domain; HET: AMP; 1.90A {Vibrio parahaemolyticus
rimd 2210633}
Length = 183
Score = 27.0 bits (60), Expect = 7.1
Identities = 6/23 (26%), Positives = 9/23 (39%)
Query: 170 TPYHDINLNVIHTLRSRYPDIPI 192
P+H N + L+ R I
Sbjct: 113 MPHHQGNQTALEQLQRRNYKGQI 135
>3fwz_A Inner membrane protein YBAL; TRKA-N domain, E.coli, structural
genomics, PSI-2, Pro structure initiative; HET: MSE AMP;
1.79A {Escherichia coli k-12}
Length = 140
Score = 26.7 bits (60), Expect = 7.4
Identities = 7/28 (25%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 165 VSAYPTPYHDINLNVIHTLRSRYPDIPI 192
+ P Y ++ + R++ PDI I
Sbjct: 76 ILTIPNGYE--AGEIVASARAKNPDIEI 101
>3pzs_A PM kinase, pyridoxamine kinase; structural genomics, center for
structural genomics of infec diseases, csgid,
transferase; HET: MSE; 1.89A {Yersinia pestis} PDB:
1td2_A* 1vi9_A*
Length = 289
Score = 27.0 bits (60), Expect = 9.9
Identities = 7/33 (21%), Positives = 13/33 (39%), Gaps = 1/33 (3%)
Query: 111 ISTGMLPSIEHVDNIYTTVKQY-HSNLSILHCV 142
+ +G + S E +I V Q +N +
Sbjct: 81 VLSGYIGSPEQGSHILAAVAQVKQANPDAWYFC 113
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.319 0.133 0.405
Gapped
Lambda K H
0.267 0.0503 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,976,373
Number of extensions: 282988
Number of successful extensions: 565
Number of sequences better than 10.0: 1
Number of HSP's gapped: 546
Number of HSP's successfully gapped: 32
Length of query: 335
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 241
Effective length of database: 4,077,219
Effective search space: 982609779
Effective search space used: 982609779
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 (26.3 bits)