RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2301
(350 letters)
>1dn1_B Syntaxin 1A, syntaxin binding protein 1; protein-protein complex,
multi-subunit; 2.60A {Rattus norvegicus} SCOP: a.47.2.1
PDB: 3c98_B
Length = 267
Score = 136 bits (343), Expect = 4e-38
Identities = 54/255 (21%), Positives = 108/255 (42%), Gaps = 22/255 (8%)
Query: 29 PIWTDALEETQYALPRLENKLKELEKLQESHLLRPTLDESTEQETKIELLTQEISRMFNG 88
+ + +EE + + ++ ++E+++ + L P DE T++E +E L +I + N
Sbjct: 31 DEFFEQVEEIRGFIDKIAENVEEVKRKHSAILASPNPDEKTKEE--LEELMSDIKKTANK 88
Query: 89 CHQLIQKIK----HQSSDAYTSREKRLAYNVISSLVTNLQQKSIQFRSMQSSYLNKIKTR 144
++ I+ + +S + R+ S+L + ++ + QS Y + K R
Sbjct: 89 VRSKLKSIEQSIEQEEGLNRSSADLRIRKTQHSTLSRKFVEVMSEYNATQSDYRERCKGR 148
Query: 145 EERSKMYFDEDTPTDQYMTSNLMDLWQENDNEMIDRQFESSRPGVSKTQQQLLLMEEDNA 204
+R T +++ ++ F S S +Q L E
Sbjct: 149 IQRQLEITGRTTTSEEL---------EDMLESGNPAIFASGIIMDSSISKQALSEIET-- 197
Query: 205 AQARIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLA 264
R E+ + SI +L+ +F D++ +V QG ++DRI+YNVE V++
Sbjct: 198 -----RHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTK 252
Query: 265 KAERYHRKNRKMACI 279
KA +Y K R+ +
Sbjct: 253 KAVKYQSKARRKKIM 267
>2xhe_B Syntaxin1; exocytosis, exocytosis complex, snare, neuro fusion, SM
PROT choanoflagellates; 2.80A {Monosiga brevicollis}
Length = 279
Score = 132 bits (332), Expect = 2e-36
Identities = 41/255 (16%), Positives = 103/255 (40%), Gaps = 28/255 (10%)
Query: 29 PIWTDALEETQYALPRLENKLKELEKLQESHLLRPTLDESTEQETKIELLTQEISRMFNG 88
+ + ++ + + +E ++++ +L L+ + ++ K++ IS + N
Sbjct: 44 ADFFNRVKRIRDNIEDIEQAIEQVAQLHTESLVAVSKEDRDRLNEKLQDTMARISALGNK 103
Query: 89 CHQLIQKIKHQ---------SSDAYTSREKRLAYNVISSLVTNLQQKSIQFRSMQSSYLN 139
+++I+ + D S + R+ + SSL + ++ +Q+
Sbjct: 104 IRADLKQIEKENKRAQQEGTFEDGTVSTDLRIRQSQHSSLSRKFVKVMTRYNDVQAENKR 163
Query: 140 KIKTREERSKMYFDEDTPTDQYMTSNLMDLWQENDNEMIDRQFESSRPGVSKTQQQLLLM 199
+ R + + ++I+ E L
Sbjct: 164 RYGENVARQCRVVEPSLS-------------DDAIQKVIEHGTEGI------FSGMRLEG 204
Query: 200 EEDNAAQARIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQG 259
E + R R +++ + +S+++L+ +F D+S +V QG ++DRI+++VE++ VK+
Sbjct: 205 AEAKLNEIRDRHKDIQQLERSLLELHEMFTDMSTLVASQGEMIDRIEFSVEQSHNYVKKA 264
Query: 260 YQQLAKAERYHRKNR 274
+Q+ +A Y R
Sbjct: 265 TEQVVQARHYQESAR 279
>3hd7_B Syntaxin-1A; membrane protein, coiled-coil, 4-helical bundle, cell
juncti cytoplasmic vesicle, membrane, phosphoprotein;
HET: GGG; 3.40A {Rattus norvegicus} PDB: 3hd9_B 3ipd_B
Length = 109
Score = 98.7 bits (246), Expect = 8e-26
Identities = 29/106 (27%), Positives = 53/106 (50%), Gaps = 8/106 (7%)
Query: 190 SKTQQQLLLMEEDNAAQARIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNV 249
S ++Q L +E R E+ + SI +L+ +F D++ +V QG ++DRI+YNV
Sbjct: 7 SISKQALSEIET--------RHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNV 58
Query: 250 ERTEIEVKQGYQQLAKAERYHRKNRKMACILCLASTTLILLILLIL 295
E V++ KA +Y K R+ ++ + L ++I +
Sbjct: 59 EHAVDYVERAVSDTKKAVKYQSKARRKKIMIIICCVILGIIIASTI 104
>1jth_B Syntaxin 1A; coiled-coil, polar layer, endocytosis-exocytosis
complex; 2.00A {Rattus norvegicus} SCOP: h.1.15.1 PDB:
1hvv_A* 1urq_B
Length = 77
Score = 88.1 bits (219), Expect = 2e-22
Identities = 23/70 (32%), Positives = 39/70 (55%)
Query: 210 RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKAERY 269
R E+ + SI +L+ +F D++ +V QG ++DRI+YNVE V++ KA +Y
Sbjct: 8 RHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVKY 67
Query: 270 HRKNRKMACI 279
K R+ +
Sbjct: 68 QSKARRKKIM 77
>2nps_B Syntaxin 13, vesicle-associated membrane protein 4; vesicle fusion,
snare complex, early endosomal snare complex, VTI1A,
VAMP4, transport protein; 2.50A {Rattus norvegicus}
Length = 71
Score = 87.3 bits (217), Expect = 5e-22
Identities = 25/66 (37%), Positives = 42/66 (63%)
Query: 210 RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKAERY 269
R + + I+D+N +FKDL+ M+ QG ++D I+ NVE +E+ V++ QL +A Y
Sbjct: 4 RETAIQQLEADILDVNQIFKDLAMMIHDQGDLIDSIEANVESSEVHVERASDQLQRAAYY 63
Query: 270 HRKNRK 275
+K+RK
Sbjct: 64 QKKSRK 69
>1sfc_B Protein (syntaxin 1A), protein (synaptobrevin 2); membrane fusion
protein complex, transport protein; 2.40A {Rattus
norvegicus} SCOP: h.1.15.1 PDB: 1l4a_B
Length = 83
Score = 80.6 bits (199), Expect = 2e-19
Identities = 26/82 (31%), Positives = 44/82 (53%), Gaps = 4/82 (4%)
Query: 197 LLMEEDNAAQA----RIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERT 252
++M+ + QA R E+ + SI +L+ +F D++ +V QG ++DRI+YNVE
Sbjct: 2 IIMDSSISKQALSEIETRHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHA 61
Query: 253 EIEVKQGYQQLAKAERYHRKNR 274
V++ KA +Y K R
Sbjct: 62 VDYVERAVSDTKKAVKYQSKAR 83
>1gl2_B Syntaxin 7; membrane protein, membrane fusion protein complex,
coiled coil, transmembrane; 1.9A {Mus musculus} SCOP:
h.1.15.1
Length = 65
Score = 78.4 bits (194), Expect = 7e-19
Identities = 23/63 (36%), Positives = 37/63 (58%)
Query: 204 AAQARIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQL 263
+ R + + I+D+N +FKDL M+ QG ++D I+ NVE E+ V+Q QQL
Sbjct: 1 GSHMHERESSIRQLEADIMDINEIFKDLGMMIHEQGDVIDSIEANVESAEVHVQQANQQL 60
Query: 264 AKA 266
++A
Sbjct: 61 SRA 63
>1fio_A SSO1 protein; four helix bundle, alpha helix, membrane protein;
2.10A {Saccharomyces cerevisiae} SCOP: a.47.2.1
Length = 196
Score = 82.4 bits (203), Expect = 8e-19
Identities = 25/203 (12%), Positives = 70/203 (34%), Gaps = 19/203 (9%)
Query: 36 EETQYALPRLENKLKELEKLQESHLLRPTLDESTEQETKIELLTQEISRMFNGCHQLIQK 95
+ L + ++ + +++ L + L ++++ ++ + + + I+
Sbjct: 12 SQINRDLDKYDHTINQVDSLHKRLLTEVNEEQASHLRHSLDNFVAQATDLQFKLKNEIKS 71
Query: 96 IKHQSSDAYTSREKRLAYNVISSLVTNLQQKSIQFRSMQSSYLNKIKTREERSKMYFDED 155
+ + + +R + S+Y + K + +R M +
Sbjct: 72 AQRDGI------HDTNKQAQAENSRQRFLKLIQDYRIVDSNYKEENKEQAKRQYMIIQPE 125
Query: 156 TPTDQYMTSNLMDLWQENDNEMIDRQFESSRPGVSKTQQQLLLMEEDNAAQARIRSQEVD 215
D+ + + + I Q + + + L ++ R QE+
Sbjct: 126 ATEDE-----VEAAISDVGGQQIFSQALLNANRRGEAKTALAEVQA--------RHQELL 172
Query: 216 HIVKSIVDLNHLFKDLSHMVVHQ 238
+ KS+ +L LF D+ +V+ Q
Sbjct: 173 KLEKSMAELTQLFNDMEELVIEQ 195
>3b5n_B Protein SSO1; snare complex, syntaxin, synaptobrevin, SNAP-25,
SSO1P, SNC1P, SEC9P, SSO1, SNC1, coiled coil; 1.60A
{Saccharomyces cerevisiae} SCOP: h.1.15.1
Length = 69
Score = 76.6 bits (189), Expect = 4e-18
Identities = 23/62 (37%), Positives = 36/62 (58%)
Query: 210 RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKAERY 269
R QE+ + KS+ +L LF D+ +V+ Q +D ID NVE +++V+QG KA +
Sbjct: 8 RHQELLKLEKSMAELTQLFNDMEELVIEQQENVDVIDKNVEDAQLDVEQGVGHTDKAVKS 67
Query: 270 HR 271
R
Sbjct: 68 AR 69
>1n7s_B Syntaxin 1A; neuronal snare protein complex, four helix bundle,
transport protein; 1.45A {Rattus norvegicus} SCOP:
h.1.15.1 PDB: 3rk2_B 3rk3_B 3rl0_B 1kil_B
Length = 68
Score = 73.9 bits (182), Expect = 4e-17
Identities = 20/59 (33%), Positives = 34/59 (57%)
Query: 210 RSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKAER 268
R E+ + SI +L+ +F D++ +V QG ++DRI+YNVE V++ KA +
Sbjct: 10 RHSEIIKLENSIRELHDMFMDMAMLVESQGEMIDRIEYNVEHAVDYVERAVSDTKKAVK 68
>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 = 49.1 bits (116), Expect = 1e-06
Identities = 56/380 (14%), Positives = 113/380 (29%), Gaps = 97/380 (25%)
Query: 3 LMEAGVEMKHRGGIGNTVSYFDSRAAPIWTDALEETQYALPRLENKLKELEKLQESHLLR 62
LM ++ + R T Y + R ++ D +Y + RL+ LK + L E LR
Sbjct: 94 LMSP-IKTEQRQPSMMTRMYIEQRD-RLYNDNQVFAKYNVSRLQPYLKLRQALLE---LR 148
Query: 63 P---------------TLDESTEQETKIELLTQEISRMFNGCHQLIQKIKHQSSDAYTSR 107
P + K++ +M L +K+ +S
Sbjct: 149 PAKNVLIDGVLGSGKTWVALDVCLSYKVQ------CKMDFKIFWL--NLKNCNSP----- 195
Query: 108 EKRLAYNVISSLVTNLQQKSIQFRSMQSSYLNKIKTREERSKMYFDEDTPTDQYMTSNLM 167
E L ++ L+ + S+ +I + + + Y L+
Sbjct: 196 ETVL--EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS----KPYENCLLV 249
Query: 168 --DLWQENDNEMIDRQFESSRPGVSKTQQQLLLMEED----NAAQARIRSQ-EVDHIVKS 220
++ + + + F S K LL + A + +DH +
Sbjct: 250 LLNVQ---NAKAWN-AFNLS----CKI----LLTTRFKQVTDFLSAATTTHISLDHHSMT 297
Query: 221 IVD----------LNHLFKDLSHMVV-----HQGTI-------LDRIDY----NVERTEI 254
+ L+ +DL V+ I L D N ++
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357
Query: 255 EVKQGYQQLAKAE---RYH-----RKNRK-MACILCL----ASTTLILLILLILDKESLF 301
++ L AE + + +L L + +++++ L K SL
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV 417
Query: 302 TYRPIYLQAYLPTGLFTYRP 321
+P +P+ +
Sbjct: 418 EKQPKESTISIPSIYLELKV 437
Score = 41.8 bits (97), Expect = 3e-04
Identities = 47/350 (13%), Positives = 87/350 (24%), Gaps = 119/350 (34%)
Query: 18 NTVSYFD--------SRAAPIWTDALEETQYALPRLENKLKELEKLQESHLLRPTLDEST 69
+ F+ +R + TD L L++ L + LL LD
Sbjct: 257 KAWNAFNLSCKILLTTRFKQV-TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP 315
Query: 70 ----EQETKI---------ELLTQEISRMFN----GCHQLIQKIKHQSSDAYTSREKRLA 112
+ E + ++ N C +L I+ S + E R
Sbjct: 316 QDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE-SSLNVLEPAEYRKM 374
Query: 113 Y--------------NVISSL------------VTNLQQKSIQFRSMQSS-------YLN 139
+ ++S + V L + S+ + + S YL
Sbjct: 375 FDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE 434
Query: 140 KIKTREERSKM-------Y-----FDEDT----PTDQY---------MTSNLMDLWQEND 174
E + Y FD D DQY +
Sbjct: 435 LKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFR 494
Query: 175 NEMIDRQF-----------ESSRPGVSKTQQQLLLMEEDNAAQARIRSQEVDHIVKSIVD 223
+D +F ++ + T QQL + +I +
Sbjct: 495 MVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYK--------------PYICDNDPK 540
Query: 224 LNHLFKDLSHMVVHQGTILDRIDY--------NVERTEIEVKQGYQQLAK 265
L + + L Y E I ++ ++Q+ +
Sbjct: 541 YERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAI-FEEAHKQVQR 589
Score = 29.4 bits (65), Expect = 2.3
Identities = 19/120 (15%), Positives = 47/120 (39%), Gaps = 33/120 (27%)
Query: 151 YFDEDTPTDQYMTSNLMDLWQEN---DNEMIDRQFESSRPGVSKTQQQLLLMEEDNAAQA 207
+ D +T QY +++ ++++ + + D Q + + +SK
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQ-DMPKSILSK---------------- 48
Query: 208 RIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTI-------LDRIDYN--VERTEIEVKQ 258
+E+DHI+ S ++ + ++ Q + + RI+Y + + E +Q
Sbjct: 49 ----EEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQ 104
>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 = 43.9 bits (103), Expect = 7e-05
Identities = 57/369 (15%), Positives = 102/369 (27%), Gaps = 127/369 (34%)
Query: 21 SYFDSRAAPIWTDALEETQYALPRLENKLKELEKLQESHLLRPTLDESTEQETKIELLTQ 80
+Y +R R +K S L R E ++ +
Sbjct: 125 NYITARIM-------------AKR------PFDKKSNSALFR----AVGEGNAQLVAI-- 159
Query: 81 EISRMFNGCHQLIQKIKHQ-SSDAYTSREKRLAYNVISSLVTNLQQKSIQFRSMQSSYLN 139
F G Q ++D Y E R Y LV +L + +
Sbjct: 160 -----FGG----------QGNTDDYF-EELRDLYQTYHVLVGDL------IKFSAETLSE 197
Query: 140 KIKTREERSKMY---FD--------EDTPTDQYMTS-----NLMDLWQ------------ 171
I+T + K++ + +TP Y+ S L+ + Q
Sbjct: 198 LIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLG 257
Query: 172 ENDNEMIDRQFESSRPGVSKTQQQLLLM---------EE--DNAAQA-RI------RSQE 213
E+ G + Q L+ E + +A + R E
Sbjct: 258 FTPGELRSYL-----KGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYE 312
Query: 214 V-------DHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKA 266
I++ ++ N S M+ +++ V +T L
Sbjct: 313 AYPNTSLPPSILEDSLENNE--GVPSPMLSISNLTQEQVQDYVNKTN-------SHLPAG 363
Query: 267 ERYH--RKNRKMACILCLASTTLILLILLILDKESLFTYRPIYL-QAYLPTGLFTYR-PI 322
++ N ++ +L L L L K P L Q+ +P F+ R
Sbjct: 364 KQVEISLVNGAKNLVVSGPPQSLYGLNLT-LRKAK----APSGLDQSRIP---FSERKLK 415
Query: 323 YLQAYLPTG 331
+ +LP
Sbjct: 416 FSNRFLPVA 424
>2nps_D Syntaxin-6; vesicle fusion, snare complex, early endosomal snare
complex, VTI1A, VAMP4, transport protein; 2.50A {Homo
sapiens}
Length = 82
Score = 34.0 bits (78), Expect = 0.010
Identities = 12/77 (15%), Positives = 32/77 (41%), Gaps = 9/77 (11%)
Query: 192 TQQQLLLMEEDNAAQARIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVER 251
T + +D ++++ + SI L ++ + + + Q +L+ + +E
Sbjct: 8 TGGNNMGRMQD---------EQLELVSGSIGVLKNMSQRIGGELEEQAVMLEDFSHELES 58
Query: 252 TEIEVKQGYQQLAKAER 268
T+ + ++LAK
Sbjct: 59 TQSRLDNVMKKLAKVSH 75
>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 = 32.2 bits (72), Expect = 0.11
Identities = 5/19 (26%), Positives = 9/19 (47%)
Query: 139 NKIKTREERSKMYFDEDTP 157
+K + K+Y D+ P
Sbjct: 20 QALKKLQASLKLYADDSAP 38
Score = 29.1 bits (64), Expect = 1.3
Identities = 11/36 (30%), Positives = 15/36 (41%), Gaps = 8/36 (22%)
Query: 37 ETQYALPRLENKLKELEKLQESHLLRPTL--DESTE 70
E Q AL +L+ LK +S P L + E
Sbjct: 18 EKQ-ALKKLQASLKLYAD--DS---APALAIKATME 47
>1sfc_D Protein (SNAP-25B), protein (synaptobrevin 2); membrane fusion
protein complex, transport protein; 2.40A {Rattus
norvegicus} SCOP: h.1.15.1
Length = 87
Score = 31.0 bits (70), Expect = 0.12
Identities = 10/54 (18%), Positives = 25/54 (46%)
Query: 212 QEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAK 265
+ ++ + I +L H+ D+ + + Q +DRI + + + + Q+ K
Sbjct: 29 ENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRIDEANQRATK 82
>1n7s_D SNAP-25A; neuronal snare protein complex, four helix bundle,
transport protein; 1.45A {Rattus norvegicus} SCOP:
h.1.15.1 PDB: 3rk2_D 3rk3_D 3rl0_D 1kil_D 3hd7_D* 3hd9_D
3ipd_D 1urq_D 1xtg_B
Length = 66
Score = 28.5 bits (64), Expect = 0.50
Identities = 10/54 (18%), Positives = 25/54 (46%)
Query: 212 QEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAK 265
+ ++ + I +L H+ D+ + + Q +DRI + + + + Q+ K
Sbjct: 10 ENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRIDEANQRATK 63
>1gl2_D Syntaxin 8, vesicle transport V-snare protein VTI1-like 1; membrane
protein, membrane fusion protein complex, coiled coil,
transmembrane; 1.9A {Rattus norvegicus} SCOP: h.1.15.1
Length = 65
Score = 28.2 bits (63), Expect = 0.80
Identities = 9/57 (15%), Positives = 27/57 (47%)
Query: 212 QEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEVKQGYQQLAKAER 268
+D + I + +++ + + Q I+D + VE T+ +++ +++ +R
Sbjct: 9 AGLDALSSIISRQKQMGQEIGNELDEQNEIIDDLANLVENTDEKLRTEARRVTLVDR 65
>1y1u_A Signal transducer and activator of transcription; STAT,
DNA-binding, SH2 domain, transcription REGU signaling
protein; 3.21A {Mus musculus}
Length = 585
Score = 30.2 bits (67), Expect = 1.3
Identities = 36/251 (14%), Positives = 81/251 (32%), Gaps = 22/251 (8%)
Query: 17 GNTVSYFDSRAAPIWTDALEETQYALPRLENKLKELEKLQESHLLRPTLDESTEQETKIE 76
G V + I EE + EN+LK+L++ QE +++ ES + +
Sbjct: 4 GVLVDAMSQKHLQI-NQRFEELRLITQDTENELKKLQQTQEYFIIQ--YQESLRIQAQFA 60
Query: 77 LLTQEISRMFNGCHQLIQKIKHQSSDAYTSREKRLAYNVISSLVTNLQQKSIQFRSMQSS 136
L Q + +Q+ + + L L Q+ R Q+
Sbjct: 61 QLGQLNPQERMSRETALQQKQVSLETWLQREAQTLQ-QYRVELAEKHQKTLQLLRKQQTI 119
Query: 137 YLNKIKTREERSKMYFDEDTPTDQYMTSNLMDLWQENDNEMIDRQFESSRPGVSKTQQQL 196
L+ + +R + P + + + E + + +QQ+
Sbjct: 120 ILDDELIQWKRRQQLAGNGGPPEGSLDV-------------LQSWCEKLAEIIWQNRQQI 166
Query: 197 LLMEEDNAAQARIRSQEVDHIVKSIVDLNHLFKDLSHMVVHQGTILDRIDYNVERTEIEV 256
E + + + + ++N D+ +V I+++ V +T+ +
Sbjct: 167 RRAEH-----LCQQLPIPGPVEEMLAEVNATITDIISALVTSTFIIEKQPPQVLKTQTKF 221
Query: 257 KQGYQQLAKAE 267
+ L +
Sbjct: 222 AATVRLLVGGK 232
>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP;
1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A*
2wwi_A*
Length = 212
Score = 28.7 bits (65), Expect = 2.3
Identities = 8/35 (22%), Positives = 15/35 (42%), Gaps = 5/35 (14%)
Query: 242 LDRIDYNVERTE-IE----VKQGYQQLAKAERYHR 271
+R DY E E +E + + Y+ A + +
Sbjct: 145 QNRSDYGEEIYEKVETQKKIYETYKHFAHEDYWIN 179
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 2.3
Identities = 9/69 (13%), Positives = 24/69 (34%), Gaps = 10/69 (14%)
Query: 142 KTREERSKMYFDEDTPTDQYMTSNL------MDLWQENDNEMIDRQFESSRPGVSKTQQQ 195
K REE+ K + D + ++ W + +E +++ ++R +
Sbjct: 89 KWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNR----IADKA 144
Query: 196 LLLMEEDNA 204
+ +
Sbjct: 145 FYQQPDADI 153
>4dgw_A PRE-mRNA-splicing factor PRP9; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 402
Score = 27.9 bits (61), Expect = 5.6
Identities = 19/111 (17%), Positives = 46/111 (41%), Gaps = 10/111 (9%)
Query: 53 EKLQESHLLRPTLDESTEQETKIELL-----TQEISRMFNGCHQLIQKIKHQSSDAYTSR 107
+ + + H + L + E++ + TQE + + +Q+++ + + +
Sbjct: 84 QIILQQHEINIFLRDYQEKQQTFNKINRPEETQEDDKDLPNFERKLQQLEKELKNEDENF 143
Query: 108 EKRLA-----YNVISSLVTNLQQKSIQFRSMQSSYLNKIKTREERSKMYFD 153
E + Y + SS ++ +I + LN+I TR+E+ Y +
Sbjct: 144 ELDINSKKDKYALFSSSSDPSRRTNILSDRARDLDLNEIFTRDEQYGEYME 194
>2nn6_F MTR3, exosome component 6; RNA, exosome, PM/SCL, phosphorolytic,
hydrolase/transferase complex; 3.35A {Homo sapiens}
SCOP: d.14.1.4 d.101.1.1
Length = 272
Score = 27.5 bits (61), Expect = 5.7
Identities = 21/104 (20%), Positives = 34/104 (32%), Gaps = 19/104 (18%)
Query: 1 MALMEAGVEMKHRGGIGNTVSYFDSRAAPIWTDAL-EETQYALPRLENKLKELEKLQESH 59
+AL +AGVEM +G +S A D E + A L + +
Sbjct: 167 LALADAGVEMY-DLVVGCGLSLAPGPAPTWLLDPTRLEEERAAAGL--TVALM------- 216
Query: 60 LLRPTLDESTEQETKIELLTQEI-SRMFN----GCHQLIQKIKH 98
P L++ E E + GC +L ++
Sbjct: 217 ---PVLNQVAGLLGSGEGGLTESWAEAVRLGLEGCQRLYPVLQQ 257
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A
{Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20
c.37.1.20
Length = 854
Score = 27.9 bits (63), Expect = 5.9
Identities = 13/38 (34%), Positives = 23/38 (60%), Gaps = 5/38 (13%)
Query: 37 ETQYA-LPRLENKLKELE-KLQESHLLRPTLDESTEQE 72
E +Y LP+LE +++ L KL+ + +R E TE++
Sbjct: 491 ELRYGELPKLEAEVEALSEKLRGARFVR---LEVTEED 525
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 27.8 bits (62), Expect = 6.5
Identities = 18/120 (15%), Positives = 42/120 (35%), Gaps = 11/120 (9%)
Query: 32 TDALEETQYALPRLENKLKEL-EKLQESHLLRPTLDESTEQETKIELLTQEISRMFNGCH 90
+ ++ LENK+ +L K+ E + E K+ L S
Sbjct: 916 VERYKKLHI---GLENKIMQLQRKIDEQN------KEYKSLLEKMNNLEITYSTETEKLR 966
Query: 91 QLIQKIKHQSSDAYTSREKRLAYNV-ISSLVTNLQQKSIQFRSMQSSYLNKIKTREERSK 149
+++++ +A + + L+ I+ L L Q + ++++ E+
Sbjct: 967 SDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVS 1026
>1bf5_A Signal transducer and activator of transcription 1-alpha/beta;
complex (SH2 domain/DNA), SH2 domain, transcription
factor; HET: DNA PTR; 2.90A {Homo sapiens} SCOP:
a.47.1.1 b.2.5.5 d.93.1.1
Length = 575
Score = 27.1 bits (59), Expect = 9.5
Identities = 27/201 (13%), Positives = 64/201 (31%), Gaps = 34/201 (16%)
Query: 44 RLENKLKELEKLQESHLLRPTLDESTEQETKIELLTQEISRMFNGCHQLIQKIKHQSSDA 103
+E+++K LE LQ+ + + + + + + + + + Q
Sbjct: 20 CIEHEIKSLEDLQDEYDFK----------------CKTLQNREHETNGVAKSDQKQEQLL 63
Query: 104 YTSREKRLAYNVISSLVTNLQQKSIQFRSMQSSYLNKIKTREERSKMYFDEDTPTDQYMT 163
L N +V + + Q++ +N +R + P + +
Sbjct: 64 LKKMYLMLD-NKRKEVVHKIIELLNVTELTQNALINDELVEWKRRQQSACIGGPPNACLD 122
Query: 164 SNLMDLWQENDNEMIDRQFESSRPGVSKTQQQLLLMEEDNAAQARIRSQEVDHIVKSIVD 223
+ F + + +QQL +EE + + E D I K+
Sbjct: 123 Q-------------LQNWFTIVAESLQQVRQQLKKLEE----LEQKYTYEHDPITKNKQV 165
Query: 224 LNHLFKDLSHMVVHQGTILDR 244
L L ++ +++R
Sbjct: 166 LWDRTFSLFQQLIQSSFVVER 186
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
0.318 0.133 0.372
Gapped
Lambda K H
0.267 0.0514 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,017,985
Number of extensions: 283811
Number of successful extensions: 608
Number of sequences better than 10.0: 1
Number of HSP's gapped: 595
Number of HSP's successfully gapped: 48
Length of query: 350
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 256
Effective length of database: 4,077,219
Effective search space: 1043768064
Effective search space used: 1043768064
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 (21.7 bits)
S2: 58 (26.6 bits)