RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 014874
(416 letters)
>1zbt_A RF-1, peptide chain release factor 1; peptide chain release factor
1 (RF-1), structural joint center for structural
genomics, JCSG; 2.34A {Streptococcus mutans}
Length = 371
Score = 510 bits (1316), Expect = 0.0
Identities = 161/357 (45%), Positives = 236/357 (66%), Gaps = 1/357 (0%)
Query: 54 LITKLESAAKTWKDLSVKLADPEVVSNPSEYQKLAQSMAELDEVVSTYRKFKDCEKQLEE 113
+ +L++ +++L L+DP+VVS+ + +L++ A E V+ YR++K + + +
Sbjct: 15 IYDQLQAVEDRYEELGELLSDPDVVSDTKRFMELSREEANSRETVAVYREYKQVVQNIAD 74
Query: 114 SRALAKENGNDEEMAEMIASEIKSLSNELIELEEKLKVLLLPSDPLDARNIMLEVRAGAG 173
++ + K+ D E+ EM E+K+ E EEKL+ LLLP DP D +NI+LE+R AG
Sbjct: 75 AQEMIKDASGDPELEEMAKEELKNSKVAKEEYEEKLRFLLLPKDPNDDKNIILEIRGAAG 134
Query: 174 GDEAGIWAGDLVRMYQKYSEQNSWKCTLISSSEAEKGGFKTVVMEIKGNRVYSKLKYESG 233
GDEA ++AGDL+ MYQKY+E WK ++ +S GG K VV + G VYSKLKYESG
Sbjct: 135 GDEAALFAGDLLNMYQKYAENQGWKFEVMEASANGVGGLKEVVAMVSGQSVYSKLKYESG 194
Query: 234 VHRVQRVPQTEAQGRVHTSTATVAIMPEADEVEVVIDPKDIELTTARSGGAGGQNVNKVE 293
HRVQRVP TE+QGRVHTSTATV +MPE +EVE IDPKD+ + + GAGGQNVNKV
Sbjct: 195 AHRVQRVPVTESQGRVHTSTATVLVMPEVEEVEYEIDPKDLRVDIYHASGAGGQNVNKVA 254
Query: 294 TAIDLFHKPTGIRIFCTEERTQLQNKSRALQLLRAKLYEIKVREQQEKIRTQRLSQVGTG 353
TA+ + H PT I++ EERTQ +N+ +A++++RA++ + + Q++ +R S VGTG
Sbjct: 255 TAVRIIHLPTNIKVEMQEERTQQKNRDKAMKIIRARVADHFAQIAQDEQDAERKSTVGTG 314
Query: 354 ARAEKIRTYNYKDNRVTDHRLKMN-FELTSFLDGNIDNAVQSCAAMEQKELLEELAE 409
R+E+IRTYN+ NRVTDHR+ + +L S L G +D + + +Q + LEEL +
Sbjct: 315 DRSERIRTYNFPQNRVTDHRIGLTLQKLDSILSGKLDEVIDALILYDQTQKLEELNK 371
>3d5a_X RF1, peptide chain release factor 1; ribosome, ribonucleoprotein,
ribosomal protein, RNA-binding, binding, metal-binding,
zinc-finger; 3.21A {Thermus thermophilus} PDB: 2b64_Y
3d5c_X 3mr8_V 3ms0_V
Length = 354
Score = 486 bits (1254), Expect = e-173
Identities = 143/357 (40%), Positives = 233/357 (65%), Gaps = 5/357 (1%)
Query: 54 LITKLESAAKTWKDLSVKLADPEVVSNPSEYQKLAQSMAELDEVVSTYRKFKDCEKQLEE 113
++ KL+ + +++L L+DPEV+ + YQ L++ AE+ EV+ R+++ + LE+
Sbjct: 1 MLDKLDRLEEEYRELEALLSDPEVLKDKGRYQSLSRRYAEMGEVIGLIREYRKVLEDLEQ 60
Query: 114 SRALAKENGNDEEMAEMIASEIKSLSNELIELEEKLKVLLLPSDPLDARNIMLEVRAGAG 173
+ +L D E+ EM +E ++L LE++L+ LLP DP+D R+ ++E+RAG G
Sbjct: 61 AESLLD----DPELKEMAKAEREALLARKEALEKELERHLLPKDPMDERDAIVEIRAGTG 116
Query: 174 GDEAGIWAGDLVRMYQKYSEQNSWKCTLISSSEAEKGGFKTVVMEIKGNRVYSKLKYESG 233
G+EA ++A DL MY +++E+ ++ ++ S + GGF VV E++G Y KYESG
Sbjct: 117 GEEAALFARDLFNMYLRFAEEMGFETEVLDSHPTDLGGFSKVVFEVRGPGAYGTFKYESG 176
Query: 234 VHRVQRVPQTEAQGRVHTSTATVAIMPEADEVEVVIDPKDIELTTARSGGAGGQNVNKVE 293
VHRVQRVP TE QGR+HTSTATVA++P+A+E + ++ +I + R+ G GGQ VN +
Sbjct: 177 VHRVQRVPVTETQGRIHTSTATVAVLPKAEEEDFALNMDEIRIDVMRASGPGGQGVNTTD 236
Query: 294 TAIDLFHKPTGIRIFCTEERTQLQNKSRALQLLRAKLYEIKVREQQEKIRTQRLSQVGTG 353
+A+ + H PTGI + C + R+Q++N+ +AL +LR++L E+K E+ E++R RL+Q+GTG
Sbjct: 237 SAVRVVHLPTGIMVTCQDSRSQIKNREKALMILRSRLLEMKRAEEAERLRKTRLAQIGTG 296
Query: 354 ARAEKIRTYNYKDNRVTDHRLKMN-FELTSFLDGNIDNAVQSCAAMEQKELLEELAE 409
R+EKIRTYN+ +RVTDHR+ +L L G++ +++ +Q+ L LAE
Sbjct: 297 ERSEKIRTYNFPQSRVTDHRIGFTTHDLEGVLSGHLTPILEALKRADQERQLAALAE 353
>2b3t_B RF-1, peptide chain release factor 1; translation termination,
methylation, conformational changes; HET: SAH; 3.10A
{Escherichia coli} SCOP: e.38.1.1
Length = 360
Score = 481 bits (1241), Expect = e-171
Identities = 140/360 (38%), Positives = 234/360 (65%), Gaps = 6/360 (1%)
Query: 52 PYLITKLESAAKTWKDLSVKLADPEVVSNPSEYQKLAQSMAELDEVVSTYRKFKDCEKQL 111
P ++ KLE+ + +++ L D + +++ ++ L++ A+L +V + ++ ++ +
Sbjct: 3 PSIVAKLEALHERHEEVQALLGDAQTIADQERFRALSREYAQLSDVSRCFTDWQQVQEDI 62
Query: 112 EESRALAKENGNDEEMAEMIASEIKSLSNELIELEEKLKVLLLPSDPLDARNIMLEVRAG 171
E ++ + D EM EM E++ + +LE++L+VLLLP DP D RN LEVRAG
Sbjct: 63 ETAQMMLD----DPEMREMAQDELREAKEKSEQLEQQLQVLLLPKDPDDERNAFLEVRAG 118
Query: 172 AGGDEAGIWAGDLVRMYQKYSEQNSWKCTLISSSEAEKGGFKTVVMEIKGNRVYSKLKYE 231
GGDEA ++AGDL RMY +Y+E W+ ++S+SE E GG+K ++ +I G+ VY +LK+E
Sbjct: 119 TGGDEAALFAGDLFRMYSRYAEARRWRVEIMSASEGEHGGYKEIIAKISGDGVYGRLKFE 178
Query: 232 SGVHRVQRVPQTEAQGRVHTSTATVAIMPEADEVEVV-IDPKDIELTTARSGGAGGQNVN 290
SG HRVQRVP TE+QGR+HTS TVA+MPE + E+ ++P D+ + T RS GAGGQ+VN
Sbjct: 179 SGGHRVQRVPATESQGRIHTSACTVAVMPELPDAELPDVNPADLRIDTFRSSGAGGQHVN 238
Query: 291 KVETAIDLFHKPTGIRIFCTEERTQLQNKSRALQLLRAKLYEIKVREQQEKIRTQRLSQV 350
++AI + H PTGI + C +ER+Q +NK++AL +L A+++ ++ ++Q+ + R + +
Sbjct: 239 TTDSAIRITHLPTGIVVECQDERSQHKNKAKALSVLGARIHAAEMAKRQQAEASTRRNLL 298
Query: 351 GTGARAEKIRTYNYKDNRVTDHRLKMN-FELTSFLDGNIDNAVQSCAAMEQKELLEELAE 409
G+G R+++ RTYN+ RVTDHR+ + + L ++G +D ++ Q + L L+E
Sbjct: 299 GSGDRSDRNRTYNFPQGRVTDHRINLTLYRLDEVMEGKLDMLIEPIIQEHQADQLAALSE 358
>1rq0_A RF-1, peptide chain release factor 1; X-RAY, crystal, peptide
release factor 1, ribosome, structural genomics, BSGC
structure funded by NIH; 2.65A {Thermotoga maritima}
SCOP: e.38.1.1 PDB: 2fvo_A
Length = 342
Score = 442 bits (1138), Expect = e-155
Identities = 133/351 (37%), Positives = 210/351 (59%), Gaps = 18/351 (5%)
Query: 66 KDLSVKLADPEVVSNPSEYQKLAQSMAELDEVVSTYRKFKDCEKQLEESRALAKENGNDE 125
K++ LA P++ + + A+++E+ + + K+ ++ +E R + +
Sbjct: 6 KEIEKLLARPDLTPE--QMKNYGMEYAKIEEIENITNRIKETQEFIELLREEGEN---EL 60
Query: 126 EMAEMIASEIKSLSNELIELEEKLKVLLLPSDPLDARNIMLEVRAGAGGDEAGIWAGDLV 185
E+ + EL++ + LL P + ++E+R G GG+EA ++A DL
Sbjct: 61 EIEKYEK-----------ELDQLYQELLFLLSPEASDKAIVEIRPGTGGEEAALFARDLF 109
Query: 186 RMYQKYSEQNSWKCTLISSSEAEKGGFKTVVMEIKGNRVYSKLKYESGVHRVQRVPQTEA 245
RMY +Y+E+ W + E + GG + VV +KG Y LKYESGVHRVQRVP TE+
Sbjct: 110 RMYTRYAERKGWNLEVAEIHETDLGGIREVVFFVKGKNAYGILKYESGVHRVQRVPVTES 169
Query: 246 QGRVHTSTATVAIMPEADEVEVVIDPKDIELTTARSGGAGGQNVNKVETAIDLFHKPTGI 305
GR+HTSTATVA++PE +E ++ I P+D+++ T R+ G GGQ VNK E+A+ + H PTGI
Sbjct: 170 GGRIHTSTATVAVLPEIEEKDIEIRPEDLKIETFRASGHGGQYVNKTESAVRITHLPTGI 229
Query: 306 RIFCTEERTQLQNKSRALQLLRAKLYEIKVREQQEKIRTQRLSQVGTGARAEKIRTYNYK 365
+ C ER+Q QNK AL++LRA+LY+++ +++ +I +R SQ+GTG R+EKIRTYN+
Sbjct: 230 VVSCQNERSQYQNKQTALRILRARLYQLQKEQKEREISQKRKSQIGTGERSEKIRTYNFP 289
Query: 366 DNRVTDHRLKMN-FELTSFLDGNIDNAVQSCAAMEQKELLEELAESVGAPS 415
NRVTDHR+ + L LDG++D + + + LEE+ +GA
Sbjct: 290 QNRVTDHRINYTSYRLQEILDGDLDEIISKLIEHDIENNLEEVLG-IGASV 339
>1gqe_A Release factor 2, RF2; protein synthesis, ribosome, macromolecular
mimicry, translation; 1.81A {Escherichia coli} SCOP:
e.38.1.1 PDB: 1mi6_A 1ml5_Z*
Length = 365
Score = 267 bits (684), Expect = 1e-86
Identities = 107/339 (31%), Positives = 194/339 (57%), Gaps = 16/339 (4%)
Query: 58 LESAAKTWKDLSVKLADPEVVSNPSEYQKLAQSMAELDEVVSTYRKFKDCEKQLEESRAL 117
++ + ++++ +L P+V + P Q L + + L+ VV T + K + + L
Sbjct: 27 YDAKKERLEEVNAELEQPDVWNEPERAQALGKERSSLEAVVDTLDQMKQGLEDVSGLLEL 86
Query: 118 AKENGNDEEMAEMIASEIKSLSNELIELEEKLKVLLLPSDPLDARNIMLEVRAGAGGDEA 177
A E +DEE +E+ +L +L +LE + + S D+ + L+++AG+GG EA
Sbjct: 87 AVE-ADDEETFNEAVAELDALEEKLAQLE--FRRMF--SGEYDSADCYLDIQAGSGGTEA 141
Query: 178 GIWAGDLVRMYQKYSEQNSWKCTLISSSEAEKGGFKTVVMEIKGNRVYSKLKYESGVHRV 237
WA L RMY +++E +K +I SE E G K+V ++I G+ Y L+ E+GVHR+
Sbjct: 142 QDWASMLERMYLRWAESRGFKTEIIEESEGEVAGIKSVTIKISGDYAYGWLRTETGVHRL 201
Query: 238 QRVPQTEAQGRVHTSTATVAIMPEADE-VEVVIDPKDIELTTARSGGAGGQNVNKVETAI 296
R ++ GR HTS ++ + PE D+ +++ I+P D+ + R+ GAGGQ+VN+ E+A+
Sbjct: 202 VRKSPFDSGGRRHTSFSSAFVYPEVDDDIDIEINPADLRIDVYRASGAGGQHVNRTESAV 261
Query: 297 DLFHKPTGIRIFCTEERTQLQNKSRALQLLRAKLYEIKVREQQEKIRTQRLSQ--VGTGA 354
+ H PTGI C +R+Q +NK +A++ ++AKLYE++++++ + + ++ +G G+
Sbjct: 262 RITHIPTGIVTQCQNDRSQHKNKDQAMKQMKAKLYEVEMQKKNAEKQAMEDNKSDIGWGS 321
Query: 355 RAEKIRTYNYKDNRVTDHRLKMNFELT---SFLDGNIDN 390
+IR+Y D+R+ D R E + LDG++D
Sbjct: 322 ---QIRSYVLDDSRIKDLR--TGVETRNTQAVLDGSLDQ 355
>2ihr_1 Peptide chain release factor 2; mixed alpha-beta, translation;
2.50A {Thermus thermophilus} PDB: 2b9m_Y* 3f1e_X 3f1g_X
2x9r_Y* 2x9t_Y* 2jl5_Y 2jl7_Y 2wh1_Y 2wh3_Y
Length = 365
Score = 261 bits (668), Expect = 3e-84
Identities = 114/362 (31%), Positives = 193/362 (53%), Gaps = 22/362 (6%)
Query: 58 LESAAKTWKDLSVKLADPEVVSNPSEYQKLAQSMAELDEVVSTYRKFKDCEKQLEESRAL 117
+ K+L +L DP + ++P +K++Q A L V T+R E L+ L
Sbjct: 19 IPQKETRLKELERRLEDPSLWNDPEAARKVSQEAARLRRTVDTFRSL---ESDLQGLLEL 75
Query: 118 AKENGNDEEMAEMIASEIKSLSNELIELEEKLKVLLLPSDPLDARNIMLEVRAGAGGDEA 177
+E E E + E++ + +L EL + LL + P +N +L ++ GAGG EA
Sbjct: 76 MEEL--PAEEREALKPELEEAAKKLDELY--HQTLL--NFPHAEKNAILTIQPGAGGTEA 129
Query: 178 GIWAGDLVRMYQKYSEQNSWKCTLISSSEAEKGGFKTVVMEIKGNRVYSKLKYESGVHRV 237
WA L+RMY +++E+ ++ ++ + + G + +KG Y L E+GVHR+
Sbjct: 130 CDWAEMLLRMYTRFAERQGFQVEVVDLTPGPEAGIDYAQILVKGENAYGLLSPEAGVHRL 189
Query: 238 QRVPQTEAQGRVHTSTATVAIMPEADE-VEVVIDPKDIELTTARSGGAGGQNVNKVETAI 296
R +A GR HTS A V ++PE DE VEVV+ P+++ + R+ G GGQ VN ++A+
Sbjct: 190 VRPSPFDASGRRHTSFAGVEVIPEVDEEVEVVLKPEELRIDVMRASGPGGQGVNTTDSAV 249
Query: 297 DLFHKPTGIRIFCTEERTQLQNKSRALQLLRAKLYEIKVREQQEKIRTQRLSQ--VGTGA 354
+ H PTGI + C R+Q++NK AL++L+A+LYE++ ++++E+++ R + G+
Sbjct: 250 RVVHLPTGITVTCQTTRSQIKNKELALKILKARLYELERKKREEELKALRGEVRPIEWGS 309
Query: 355 RAEKIRTYNYKDNRVTDHRLKMNFELT---SFLDGNIDNAVQSCAAMEQKELLEELAESV 411
+ IR+Y N V DHR + LDG++ + + A +E K + E V
Sbjct: 310 Q---IRSYVLDKNYVKDHR--TGLMRHDPENVLDGDLMDLIW--AGLEWKAGRRQGTEEV 362
Query: 412 GA 413
A
Sbjct: 363 EA 364
>2rsm_A Probable peptide chain release factor C12ORF65 HO mitochondrial;
GGQ domain, translation; NMR {Mus musculus}
Length = 115
Score = 150 bits (381), Expect = 6e-45
Identities = 26/106 (24%), Positives = 46/106 (43%), Gaps = 4/106 (3%)
Query: 235 HRVQRVPQTEAQGRVHTSTATVAIMPEADEV-EVVIDPKDIELTTARSGGAGGQNVNKVE 293
R+Q P G + +TV + D + ++ ++E + G GGQ NK
Sbjct: 11 LRLQEKPALLFPG---MAASTVQVAGRKDYPALLPLNESELEEQFVKGHGPGGQATNKTS 67
Query: 294 TAIDLFHKPTGIRIFCTEERTQLQNKSRALQLLRAKLYEIKVREQQ 339
+ L H P+GI + C + R+ QN+ A ++L+ K+
Sbjct: 68 NCVVLKHVPSGIVVKCHQTRSVDQNRKIARKVLQEKVDVFYNSGPS 113
>4dh9_Y YAEJ; ribosome, YAEJ, ribosome stalling, ribosome rescue, rescue F
alternative rescue factor, ARFB, release factor, rescue
of ribosomes; 3.20A {Escherichia coli} PDB: 2jy9_A
Length = 140
Score = 85.6 bits (212), Expect = 3e-20
Identities = 32/130 (24%), Positives = 47/130 (36%), Gaps = 25/130 (19%)
Query: 263 DEVEVVIDPKDIELTTARSGGAGGQNVNKVETAIDL------------------------ 298
V I ++E+T R+ GAGGQ+VNK TAI L
Sbjct: 4 ISRHVAIPDGELEITAIRAQGAGGQHVNKTSTAIHLRFDIRASSLPEYYKERLLAASHHL 63
Query: 299 FHKPTGIRIFCTEERTQLQNKSRALQLLRAKLYEIKVREQQEKIRTQRLSQVGTGARAEK 358
I I E R+Q N+ AL L A + E+ ++ + + A K
Sbjct: 64 ISSDGVIVIKAQEYRSQELNREAALARLVAMIKELTTEKKARRPTRPTRASKERR-LASK 122
Query: 359 IRTYNYKDNR 368
+ + K R
Sbjct: 123 AQKSSVKAMR 132
>2jva_A Peptidyl-tRNA hydrolase domain protein; GFT hydrolase, structural
genomics, PSI-2, protein STRU initiative; NMR
{Pseudomonas syringae PV}
Length = 108
Score = 80.7 bits (199), Expect = 6e-19
Identities = 28/100 (28%), Positives = 38/100 (38%), Gaps = 24/100 (24%)
Query: 266 EVVIDPKDIELTTARSGGAGGQNVNKVETAIDLFH------------------------K 301
V + +IELT R+ GAGGQNVNKV +A+ L
Sbjct: 7 NVHLPDAEIELTAIRAQGAGGQNVNKVSSAMHLRFDINASSLPPFYKERLLALNDSRITS 66
Query: 302 PTGIRIFCTEERTQLQNKSRALQLLRAKLYEIKVREQQEK 341
I + + RTQ QN++ AL L + E
Sbjct: 67 DGVIVLKAQQYRTQEQNRADALLRLSELIVNAAKLEHHHH 106
>1j26_A Immature colon carcinoma transcript 1; peptide chain release
factors, RF-1, the GGQ motif, immature carcinoma
transcript 1; NMR {Mus musculus} SCOP: d.50.4.1
Length = 112
Score = 69.0 bits (168), Expect = 1e-14
Identities = 20/98 (20%), Positives = 33/98 (33%), Gaps = 25/98 (25%)
Query: 260 PEADEVEVVIDPKDIELTTARSGGAGGQNVNKVETAIDLFHKPTG--------------- 304
A + I + ++ RS G GGQNVNKV + ++
Sbjct: 8 EHAKQASSYIPLDRLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALT 67
Query: 305 ----------IRIFCTEERTQLQNKSRALQLLRAKLYE 332
+ + R Q +N + LQ +R + E
Sbjct: 68 HKNKINKAGELVLTSESSRYQFRNLAECLQKIRDMIAE 105
>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 = 69.5 bits (169), Expect = 9e-13
Identities = 63/411 (15%), Positives = 115/411 (27%), Gaps = 113/411 (27%)
Query: 66 KDLSVKLADPEVVSNPSEYQKLAQSMAELDEVV-------STYRKFKD-CEKQLEESRAL 117
+ K +V + K S E+D ++ T R F KQ E +
Sbjct: 31 DNFDCK----DV----QDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKF 82
Query: 118 AKE--NGNDEEMAEMIASEIKSLSNELIELEEKLKVLLLPSDPLDARNI-----MLEVRA 170
+E N + + I +E + S E+ L + N+ L++R
Sbjct: 83 VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ 142
Query: 171 --------------GAGGDEAGIW--AGDLVRMY---QKYSEQNSWKCTLISSSEAEKGG 211
G G +G A D+ Y K + W ++
Sbjct: 143 ALLELRPAKNVLIDGVLG--SGKTWVALDVCLSYKVQCKMDFKIFW----LNLKNCNS-- 194
Query: 212 FKTVVMEIKGNRVYSKL--KYESGVHRVQRVPQT--EAQGRVHTSTATVAIM-----PEA 262
V+E+ ++ ++ + S + Q + ++
Sbjct: 195 -PETVLEML-QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR------LLKSKPYENC 246
Query: 263 ----DEVEVVIDPKDIE--------LTTARSGGAGGQNVNKVETAIDLFHKPTGIRIFCT 310
V+ + K L T R T I L H
Sbjct: 247 LLVLLNVQ---NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT---LTP 300
Query: 311 EERTQLQNKSRALQLLRAKLYEIKV---REQQEKIRTQRLSQVGTGARAEKIRTYNYKDN 367
+E LL K + + + +RLS + R N+K
Sbjct: 301 DE---------VKSLL-LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK-- 348
Query: 368 RVTDHRLKMNFELTSFLDGNIDNAVQSCAAMEQKELLEELA---ESVGAPS 415
V +L E S L+ ++ A E +++ + L+ S P+
Sbjct: 349 HVNCDKLTTIIE--SSLN-VLEPA-------EYRKMFDRLSVFPPSAHIPT 389
Score = 39.8 bits (92), Expect = 0.001
Identities = 45/341 (13%), Positives = 101/341 (29%), Gaps = 115/341 (33%)
Query: 1 MNSLTMLSTARIYTPLNHSPQRQRFGGSQSKR------NVVFPSLSFRTPKLICMAEPYL 54
+ L+ +T I L+H + K + L P+ + P
Sbjct: 278 TDFLSAATTTHI--SLDH--HSMTLTPDEVKSLLLKYLDCRPQDL----PREVLTTNPRR 329
Query: 55 IT----KLESAAKTWK--------------DLSVKLADPEVVSNPSEYQKLAQSMA---- 92
++ + TW + S+ + +P EY+K+ ++
Sbjct: 330 LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA------EYRKMFDRLSVFPP 383
Query: 93 -------------------ELDEVVSTYRKFKDCEKQLEESR--------ALAKENGNDE 125
++ VV+ K+ EKQ +ES L + N+
Sbjct: 384 SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEY 443
Query: 126 EM-AEMIAS--EIKSLSNE------------------LIELEEKLKVLLLPSDPLDARNI 164
+ ++ K+ ++ L +E ++ L LD R +
Sbjct: 444 ALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFL 503
Query: 165 MLEVRAGAGGDEAGIWAGDLVRMYQKYSEQNSWKCTLISSSEAEKGGFKTVVMEIKGNRV 224
++R + A + ++ + Y I ++ + ++ +V I
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPY-------ICDNDPK---YERLVNAILDFL- 552
Query: 225 YSKLKYESGVHRVQRVPQTEAQGRVHTSTATVAIMPEADEV 265
K E + + +T +A+M E + +
Sbjct: 553 ---PKIEENLICSK-----------YTDLLRIALMAEDEAI 579
>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 = 41.2 bits (96), Expect = 7e-04
Identities = 59/373 (15%), Positives = 104/373 (27%), Gaps = 163/373 (43%)
Query: 27 GSQSKRNVVFPSLSFRTPKLICMA-EPYLITKLESAAKTWKDLSVKLAD----------- 74
GSQ + M + Y ++A W AD
Sbjct: 1625 GSQEQG----------------MGMDLY--KTSKAAQDVWNR-----ADNHFKDTYGFSI 1661
Query: 75 PEVV-SNPSEY---------QKLAQSMAELDEVVSTYRKFKDCEKQLEESRALAKEN--- 121
++V +NP +++ ++ + + + D + + E+ E+
Sbjct: 1662 LDIVINNPVNLTIHFGGEKGKRIRENYSAM-----IFETIVDGKLKTEKIFKEINEHSTS 1716
Query: 122 ----GNDEEMAE-------MIASEIKSLSNELIELEEKLKVLLLPSDPLDARNIMLEVRA 170
++ + E + +L+ K + P DA
Sbjct: 1717 YTFRSEKGLLSATQFTQPALTLMEKAAFE----DLKSKGLI------PADA--------T 1758
Query: 171 GAG---GDEAGIWAGDLVRMYQKYSEQNSWKCTLISSSEAEKGGFKTVVMEIKGNRVYSK 227
AG G E Y+ L S ++ VM I
Sbjct: 1759 FAGHSLG-E--------------YA-------ALASLAD---------VMSI-------- 1779
Query: 228 LKYESGVHRV-QR-------VPQTEAQGRVHTSTATVAIMPEADEVEVVIDPKDIELTTA 279
ES V V R VP+ E GR ++ +AI P V + ++
Sbjct: 1780 ---ESLVEVVFYRGMTMQVAVPRDE-LGR--SNYGMIAINP--GRVAASFSQEALQYVVE 1831
Query: 280 RSGGAGG---QNVNKVETAIDLFHKPTGIRIFCTEERTQLQNKSRALQLLRAKLYEIKVR 336
R G G + VN ++ + + RAL + L IK++
Sbjct: 1832 RVGKRTGWLVEIVN--------YNVE-NQQYVAAGDL-------RALDTVTNVLNFIKLQ 1875
Query: 337 EQQEKIRTQRLSQ 349
KI L +
Sbjct: 1876 ----KIDIIELQK 1884
Score = 33.9 bits (77), Expect = 0.12
Identities = 38/214 (17%), Positives = 66/214 (30%), Gaps = 86/214 (40%)
Query: 25 FGGSQSKR--------------------NVVFP-------SLSFRTPKLICM----AEPY 53
FGG + KR +F S +FR+ K + +P
Sbjct: 1676 FGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPA 1735
Query: 54 LITKLESAAKTWKDLSVKLADPEVVSNPS--------EYQKLAQSMAE---LDEVVST-- 100
L +E AA ++DL K P + EY LA S+A+ ++ +V
Sbjct: 1736 LTL-MEKAA--FEDLKSKGLIPA----DATFAGHSLGEYAALA-SLADVMSIESLVEVVF 1787
Query: 101 YR--KFKDCEKQLEESR---ALAKENGN------DEEMAEMIASEIKSLSNELIE----- 144
YR + + E R + N +E + + + + L+E
Sbjct: 1788 YRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYN 1847
Query: 145 --------------LEEKLKVLLLPSDPLDARNI 164
L+ VL + + + I
Sbjct: 1848 VENQQYVAAGDLRALDTVTNVL----NFIKLQKI 1877
Score = 31.6 bits (71), Expect = 0.65
Identities = 23/145 (15%), Positives = 46/145 (31%), Gaps = 54/145 (37%)
Query: 46 LICMAEPYLITKLESAAKTWKDLSVKL-------ADPEVVSNPSEYQKLAQSMAELD--E 96
L +A+ + +ES + V A P S Y M ++
Sbjct: 1770 LASLAD-VM--SIESLVEV-----VFYRGMTMQVAVPRDELGRSNY-----GMIAINPGR 1816
Query: 97 VVSTYRKFKDCEKQLEE-SRALAKENG--------NDE-------------EMAEMIASE 134
V +++ ++ L+ + K G N E + + +
Sbjct: 1817 VAASF-----SQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNF 1871
Query: 135 IKSLSNELIELE-----EKLKVLLL 154
IK ++IEL+ E+++ L
Sbjct: 1872 IKLQKIDIIELQKSLSLEEVEGHLF 1896
>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: SSA; 2.60A {Pyrococcus
horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A
Length = 455
Score = 38.7 bits (91), Expect = 0.003
Identities = 20/95 (21%), Positives = 41/95 (43%), Gaps = 14/95 (14%)
Query: 74 DPEVVSNPSEYQKLAQSMAELDEVVSTYRKFKDCEKQLEESRAL----------AKENGN 123
+PE+V N + + + +DE++ +++ K++ R ++ G
Sbjct: 10 NPELVKNDLIKRGELEKVKWVDEILKLDTEWRTKLKEINRLRHERNKIAVEIGKRRKKGE 69
Query: 124 D--EEMAEM--IASEIKSLSNELIELEEKLKVLLL 154
E +A+ I I L NE+ EL++K+ L
Sbjct: 70 PVDELLAKSREIVKRIGELENEVEELKKKIDYYLW 104
>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis,
CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA
synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A*
3qo8_A* 3qo5_A
Length = 485
Score = 37.2 bits (87), Expect = 0.010
Identities = 17/101 (16%), Positives = 41/101 (40%), Gaps = 22/101 (21%)
Query: 71 KLADPEVVSNPSEYQKLAQ---SMAELDEVVSTYRKFKDCEKQLEESRAL---------- 117
K DPE++ + S+ +DE+++ Y+++ L+E
Sbjct: 11 KGGDPEIIK-----ASQKKRGDSVELVDEIIAEYKEWVKLRFDLDEHNKKLNSVQKEIGK 65
Query: 118 AKENGND--EEMAEM--IASEIKSLSNELIELEEKLKVLLL 154
+ D + +AE +++E K + + E ++ L+ +
Sbjct: 66 RFKAKEDAKDLIAEKEKLSNEKKEIIEKEAEADKNLRSKIN 106
>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 = 35.7 bits (81), Expect = 0.011
Identities = 10/40 (25%), Positives = 18/40 (45%), Gaps = 15/40 (37%)
Query: 55 ITKLESAAKTWKDLSVKLADPEVVSNPSEYQKLA-QSMAE 93
+ KL++ S+KL + S P+ LA ++ E
Sbjct: 22 LKKLQA--------SLKLYADD--SAPA----LAIKATME 47
Score = 31.8 bits (71), Expect = 0.21
Identities = 9/29 (31%), Positives = 12/29 (41%), Gaps = 2/29 (6%)
Query: 140 NELIELEEKLKVLLLP-SDPLDARNIMLE 167
L +L+ LK L S P A +E
Sbjct: 20 QALKKLQASLK-LYADDSAPALAIKATME 47
Score = 27.2 bits (59), Expect = 7.1
Identities = 7/29 (24%), Positives = 14/29 (48%), Gaps = 4/29 (13%)
Query: 287 QNVNKVETAIDLF---HKPTGIRIFCTEE 312
Q + K++ ++ L+ P + I T E
Sbjct: 20 QALKKLQASLKLYADDSAP-ALAIKATME 47
>1wle_A Seryl-tRNA synthetase; ligase; HET: SRP; 1.65A {Bos taurus}
Length = 501
Score = 36.5 bits (85), Expect = 0.014
Identities = 16/104 (15%), Positives = 37/104 (35%), Gaps = 22/104 (21%)
Query: 73 ADPEVVSNPSEYQKLAQSMAELDEVVSTYRKFKDCEKQLEESRA----------LAKENG 122
A PE + + +K +L ++ST+++ + +Q+ N
Sbjct: 48 AYPEDAARALDLRKGELRSKDLPGIISTWQELRQLREQIRSLEEEKEAVTEAVRALVVNQ 107
Query: 123 NDEE----------MAEM--IASEIKSLSNELIELEEKLKVLLL 154
++ + A I ++ L + +LEE+ + L
Sbjct: 108 DNSQVQQDPQYQSLRARGREIRKQLTLLYPKEAQLEEQFYLRAL 151
>1ses_A Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A {Thermus
thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A*
1set_A* 1sry_A
Length = 421
Score = 36.3 bits (85), Expect = 0.017
Identities = 20/93 (21%), Positives = 39/93 (41%), Gaps = 15/93 (16%)
Query: 74 DPEVVSNPSEYQKLAQSMAELDEVVSTYRKFKDCEKQLEESRAL----------AKENGN 123
+PEV + +L+ +++ R+ ++ +K+L+E + A
Sbjct: 10 EPEVFH---RAIREKGVALDLEALLALDREVQELKKRLQEVQTERNQVAKRVPKAPPEEK 66
Query: 124 DEEMAEM--IASEIKSLSNELIELEEKLKVLLL 154
+ +A + E K L L E E +L+ LLL
Sbjct: 67 EALIARGKALGEEAKRLEEALREKEARLEALLL 99
>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, nationa on protein structural and functional
analyses; HET: SSA; 3.00A {Aquifex aeolicus}
Length = 425
Score = 35.9 bits (84), Expect = 0.021
Identities = 26/99 (26%), Positives = 40/99 (40%), Gaps = 23/99 (23%)
Query: 74 DPEVVSNPSEYQKLAQSMAELDEVVSTYRKF----KDCEKQLEESRAL----------AK 119
P+ V ++LA EL +V + ++ K+LE R+ K
Sbjct: 10 KPDYVK-----ERLATRDKELVSLVDKVLELDKRRREIIKRLEALRSERNKLSKEIGKLK 64
Query: 120 ENGND--EEMAEM--IASEIKSLSNELIELEEKLKVLLL 154
G D E + + EI L EL ++EE+LK LL
Sbjct: 65 REGKDTTEIQNRVKELKEEIDRLEEELRKVEEELKNTLL 103
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 31.7 bits (72), Expect = 0.58
Identities = 19/99 (19%), Positives = 40/99 (40%), Gaps = 7/99 (7%)
Query: 54 LITKLESAAKTWKDLSVKLADPEVVSNPSEYQKLAQSMAELDEVVSTYRKFKDCEKQLEE 113
L +L+ K+ ++L E E L + +AEL ++ + K+ EE
Sbjct: 1044 LEVRLKKEEKSRQELEKIKRKLE-----GESSDLHEQIAELQAQIAELKA--QLAKKEEE 1096
Query: 114 SRALAKENGNDEEMAEMIASEIKSLSNELIELEEKLKVL 152
+A ++ +I+ L + + +L+E L+
Sbjct: 1097 LQAALARLEDETSQKNNALKKIRELESHISDLQEDLESE 1135
>3qc1_A Immunoglobulin-binding protein 1; PP2A, signaling protein; 2.35A
{Mus musculus}
Length = 243
Score = 29.7 bits (66), Expect = 1.4
Identities = 13/86 (15%), Positives = 30/86 (34%), Gaps = 1/86 (1%)
Query: 66 KDLSVKLADPEVVSNPSEYQKLAQSMAELDEVVSTYRKFKDCEKQLEESRALAKENGNDE 125
A+ S+ Y L ++ + Y++ K+ E +L ++ + D+
Sbjct: 148 PQTKTNSAENNTASSSMAYPNLVAMASQRQAKIERYKQKKEVEHRLSALKSAVESGQADD 207
Query: 126 EMA-EMIASEIKSLSNELIELEEKLK 150
E E ++ +E E +
Sbjct: 208 ERVREYHLLHLRRWIAVSLEELESID 233
>3err_A Fusion protein of microtubule binding domain from mouse cytoplasmic
dynein and seryl-tRNA...; coiled coil, ligase; HET: AMP;
2.27A {Mus musculus}
Length = 536
Score = 30.0 bits (68), Expect = 1.5
Identities = 9/49 (18%), Positives = 22/49 (44%), Gaps = 3/49 (6%)
Query: 109 KQLEESRALAKENGN-DEEMAEM--IASEIKSLSNELIELEEKLKVLLL 154
A N + + + + +E++ L ++ + ++KL+ LLL
Sbjct: 160 LAAGPMVKWAIAQLNYADMLKRVEPLRNELQKLEDDAKDNQQKLEALLL 208
>2f9i_A Acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha;
zinc ribbon, crotonase superfamily, spiral domain; 1.98A
{Staphylococcus aureus}
Length = 327
Score = 30.0 bits (68), Expect = 1.5
Identities = 8/45 (17%), Positives = 16/45 (35%), Gaps = 6/45 (13%)
Query: 105 KDCEKQLEESRALAKENGNDEEMAEMIASEIKSLSNELIELEEKL 149
+ ++E + +N D + EI L L +K+
Sbjct: 22 FEIRNKIESLKESQDKNDVD------LQEEIDMLEASLERETKKI 60
>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 427
Score = 30.1 bits (67), Expect = 1.5
Identities = 18/105 (17%), Positives = 36/105 (34%), Gaps = 7/105 (6%)
Query: 51 EPYLITKLESAAKTWKDLSVKLADPEVVSNPSE---YQKLAQSMAELDEVVSTYRKFKDC 107
E Y KLE D K + +L + E+ ++ K K+
Sbjct: 296 ELYRRCKLEEMGFKDTDPDSKPFSLQETYEAKRNEFLGELQKKEEEMRQMFVQRVKEKEA 355
Query: 108 EKQLEESRALAKENGNDEEMAEMIASEIKSLSNELIELEEKLKVL 152
E + E K + + ++ E K L ++ L++++
Sbjct: 356 ELKEAEKELHEKF----DRLKKLHQDEKKKLEDKKKSLDDEVNAF 396
>1ycg_A Nitric oxide reductase; DIIRON site, oxidoreductase; HET: FMN;
2.80A {Moorella thermoacetica} SCOP: c.23.5.1 d.157.1.3
PDB: 1ycf_A* 1ych_A*
Length = 398
Score = 29.4 bits (66), Expect = 2.1
Identities = 5/44 (11%), Positives = 18/44 (40%)
Query: 94 LDEVVSTYRKFKDCEKQLEESRALAKENGNDEEMAEMIASEIKS 137
++ Y ++ + + + + A + E+MA + + +
Sbjct: 235 PGRIIEAYARWAEGQGKAKAVIAYDTMWLSTEKMAHALMDGLVA 278
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.0 bits (64), Expect = 2.1
Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 12/73 (16%)
Query: 50 AEPYLITKLESAAKTWKDLSVK-LADPEVVSNPSEYQKLAQSMAELDEVVSTYRKFKD-C 107
EP ES K W++ K L + + S E + ++ +L+E ++ +
Sbjct: 82 QEP------ESIRK-WREEQRKRLQELDAASKVMEQEWREKAKKDLEEW---NQRQSEQV 131
Query: 108 EKQLEESRALAKE 120
EK +R K
Sbjct: 132 EKNKINNRIADKA 144
>2oez_A UPF0289 protein VP2528; immunoglobulin fold, alpha-structure,
structural genomics, P protein structure initiative;
HET: MSE; 1.97A {Vibrio parahaemolyticus} SCOP: e.68.1.1
Length = 247
Score = 29.4 bits (66), Expect = 2.2
Identities = 13/42 (30%), Positives = 20/42 (47%)
Query: 105 KDCEKQLEESRALAKENGNDEEMAEMIASEIKSLSNELIELE 146
KD EKQ R G D+E + +EI + ++L+ E
Sbjct: 66 KDLEKQRLSYRHWLNVEGVDQEALNSLLNEIDVVHSQLMGAE 107
>2pih_A Protein YMCA; regulate community development, structural genomics,
PSI-2, protein structure initiative; 2.10A {Bacillus
subtilis} SCOP: a.281.1.1
Length = 151
Score = 28.4 bits (63), Expect = 2.3
Identities = 16/81 (19%), Positives = 37/81 (45%), Gaps = 8/81 (9%)
Query: 66 KDLSVKLADPEVVSNPSEYQKLAQSMAELDEVVSTYRKFKDCEKQLEESRALAKENGNDE 125
++L+ +++ E V +++ + E D+V + + K +KQ + K
Sbjct: 14 RNLAKMISETEEVD---FFKRAEAQINENDKVSTIVNQIKALQKQAVNLKHYEK-----H 65
Query: 126 EMAEMIASEIKSLSNELIELE 146
E + + ++I +L EL E+
Sbjct: 66 EALKQVEAKIDALQEELEEIP 86
>1wty_A Hypothetical protein TTHA0048; structural genomics, riken
structural genomics/proteomics in RSGI, unknown
function; 2.20A {Thermus thermophilus} SCOP: a.24.16.2
PDB: 2ywa_A
Length = 119
Score = 28.0 bits (62), Expect = 2.5
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 124 DEEMAEMIASEIKSLSNELIELEEKLK 150
DE +AE I +E+ EL +L+
Sbjct: 90 DEALAERIYAELPKALERFQELLRRLE 116
>3o6x_A Glutamine synthetase; type III, beta barrel,dodecamer, ligas; HET:
P3S ADP; 3.50A {Bacteroides fragilis}
Length = 729
Score = 29.2 bits (65), Expect = 2.8
Identities = 15/84 (17%), Positives = 31/84 (36%), Gaps = 1/84 (1%)
Query: 60 SAAKTWKDLSVKLADPEVVSNPSEYQKLAQSMAELDEVVSTY-RKFKDCEKQLEESRALA 118
A L L + + + EY+ ++ EL + +S K + + E+R +A
Sbjct: 618 IAVSYQNRLLENLCRMKEIFSEEEYEVMSADRKELIKEISHRVSAIKVLVRDMTEARKVA 677
Query: 119 KENGNDEEMAEMIASEIKSLSNEL 142
N +E A ++ +
Sbjct: 678 NHKENFKEKAFAYEETVRPYLESI 701
>1cjc_A Protein (adrenodoxin reductase); flavoenzyme, MAD analysis,
electron transferase, oxidoreductase; HET: FAD; 1.70A
{Bos taurus} SCOP: c.3.1.1 c.4.1.1 PDB: 1e1k_A* 1e1l_A*
1e1m_A* 1e1n_A* 1e6e_A*
Length = 460
Score = 29.0 bits (65), Expect = 3.4
Identities = 12/64 (18%), Positives = 19/64 (29%), Gaps = 1/64 (1%)
Query: 231 ESGVHRVQRVPQTEAQGRVHTSTATVAIMPEADEVEVVIDPKDIELTTARSGGAGGQNVN 290
+S V V V + T + M + ++DP D R A
Sbjct: 186 QSRVKTVWIVGRRGPLQVAFTIKE-LREMIQLPGTRPMLDPADFLGLQDRIKEAARPRKR 244
Query: 291 KVET 294
+E
Sbjct: 245 LMEL 248
>1obo_A Flavodoxin; electron transfer, flavoprotein, electron transport;
HET: FMN; 1.2A {Anabaena SP} SCOP: c.23.5.1 PDB: 2v5v_A*
1dx9_A 1rcf_A* 1flv_A* 1obv_A* 2v5u_A* 1ftg_A 1qhe_A
2kqu_A 3esy_A* 3esz_A* 3esx_A*
Length = 169
Score = 28.0 bits (62), Expect = 4.2
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 122 GNDEEMAEMIASEIKSLSNELIELEE 147
G E +AE+I E + L ++ +
Sbjct: 13 GKTESVAEIIRDEFGNDVVTLHDVSQ 38
>1ag9_A Flavodoxin; electron transport, reductive activation; HET: FMN BTB;
1.80A {Escherichia coli} SCOP: c.23.5.1 PDB: 1ahn_A*
Length = 175
Score = 27.9 bits (62), Expect = 4.2
Identities = 6/26 (23%), Positives = 15/26 (57%)
Query: 122 GNDEEMAEMIASEIKSLSNELIELEE 147
GN E +A+MI ++ ++ ++ +
Sbjct: 12 GNTENIAKMIQKQLGKDVADVHDIAK 37
>2r6a_C DNAG primase, helicase binding domain, replicative helicase;
replication, DNAB; 2.90A {Geobacillus
stearothermophilus} PDB: 2r6c_G 1z8s_A*
Length = 143
Score = 27.8 bits (62), Expect = 4.2
Identities = 11/64 (17%), Positives = 24/64 (37%), Gaps = 10/64 (15%)
Query: 89 QSMAELDEVVSTYRKFKDCE--KQLEESRALAKENGNDEEMAEMIASEIKSLSNELIELE 146
S EL++ + K E+ + A+ + A ++ E+IE++
Sbjct: 86 VSEQELEDYIRHVLNRPKWLMLKVKEQEKTEAERRKDFLTAAR--------IAKEMIEMK 137
Query: 147 EKLK 150
+ L
Sbjct: 138 KMLS 141
>1wwp_A Hypothetical protein TTHA0636; structural genomics, unknown
function, riken structural genomics/proteomics
initiative, RSGI; 2.11A {Thermus thermophilus HB8}
Length = 119
Score = 27.3 bits (60), Expect = 4.9
Identities = 4/27 (14%), Positives = 13/27 (48%)
Query: 124 DEEMAEMIASEIKSLSNELIELEEKLK 150
+E +A I + + + ++ +L+
Sbjct: 92 NEPLARAIFRRLPDYARLMEQVLGRLR 118
>1jog_A Hypothetical protein HI0074; structural genomics, structure 2
function project, S2F, unknown function; 2.40A
{Haemophilus influenzae} SCOP: a.24.16.2
Length = 146
Score = 27.4 bits (60), Expect = 5.3
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 124 DEEMAEMIASEIKSLSNELIELEEKLK 150
D+E A + ++I E L E+L+
Sbjct: 114 DQEKAMAVYAQIDDFLIESSFLLEQLR 140
>3u06_A Protein claret segregational; motor domain, stalk rotation, power
stroke, kinesin-14, MICR binding, NCD, transport,
molecular motor; HET: ADP GOL; 2.35A {Drosophila
melanogaster} PDB: 2ncd_A* 1n6m_A* 1cz7_A* 3l1c_A*
Length = 412
Score = 28.0 bits (63), Expect = 5.6
Identities = 14/70 (20%), Positives = 26/70 (37%), Gaps = 9/70 (12%)
Query: 82 SEYQKLAQSMAELDEVVSTYRKFKDCEKQLEESRALAKENGNDEEMAEMIASEIKSLSNE 141
S + L+ + L + + C +Q KE M E K L N
Sbjct: 3 SMHAALSTEVVHLRQ---RTEELLRCNEQQAAELETCKEQLFQSNM------ERKELHNT 53
Query: 142 LIELEEKLKV 151
+++L + ++V
Sbjct: 54 VMDLRDNIRV 63
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 28.2 bits (63), Expect = 6.2
Identities = 7/45 (15%), Positives = 24/45 (53%)
Query: 108 EKQLEESRALAKENGNDEEMAEMIASEIKSLSNELIELEEKLKVL 152
+++L++ + A+ +++ + ++I L ++ E ++ K L
Sbjct: 903 KRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSL 947
>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 = 27.7 bits (62), Expect = 6.6
Identities = 10/40 (25%), Positives = 18/40 (45%), Gaps = 1/40 (2%)
Query: 362 YNYKDNRVTDHRLKMNFELTSFLDGNIDNAVQSCAAMEQK 401
Y++ DH + + E + L+GN + C E+K
Sbjct: 86 YSFMHRNFFDH-VDIPAENINLLNGNAPDIDAECRQYEEK 124
>1w36_B RECB, exodeoxyribonuclease V beta chain; recombination, helicase,
hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli}
SCOP: c.37.1.19 c.37.1.19 c.52.1.24 PDB: 3k70_B*
Length = 1180
Score = 28.0 bits (62), Expect = 6.7
Identities = 12/56 (21%), Positives = 29/56 (51%), Gaps = 7/56 (12%)
Query: 124 DEEMAEMIASEIKSLSNELIELEEKLKVLLLPSD---PLDARNIMLEVRAGAGGDE 176
MA++ A++I+ + ++ ++ + LL+ D P+ A +I + VR+ +
Sbjct: 515 QSTMAQVCAAQIR----DWLQAGQRGEALLMNGDDARPVRASDISVLVRSRQEAAQ 566
>2fcr_A Flavodoxin; electron transport; HET: FMN; 1.80A {Chondrus crispus}
SCOP: c.23.5.1
Length = 173
Score = 27.1 bits (60), Expect = 8.0
Identities = 7/35 (20%), Positives = 17/35 (48%)
Query: 122 GNDEEMAEMIASEIKSLSNELIELEEKLKVLLLPS 156
GN E+A+ I + + ++ I++++ L
Sbjct: 11 GNTTEVADFIGKTLGAKADAPIDVDDVTDPQALKD 45
>3k1d_A 1,4-alpha-glucan-branching enzyme; mycobacterium tuberculosis
H37RV, mesophilic human pathogen, RV1326C gene, glycosyl
transferase; 2.33A {Mycobacterium tuberculosis}
Length = 722
Score = 28.0 bits (63), Expect = 8.1
Identities = 8/26 (30%), Positives = 10/26 (38%)
Query: 257 AIMPEADEVEVVIDPKDIELTTARSG 282
A P A EV ++ L SG
Sbjct: 38 AFRPHAVEVVALVGKDRFSLQHLDSG 63
>2jjx_A Uridylate kinase, UMP kinase; structural genomics, pyrimidine
biosynthesis, ATP-binding, nucleotide-binding, OPPF,
PYRH, cytoplasm; HET: ATP; 2.82A {Bacillus anthracis}
Length = 255
Score = 27.6 bits (61), Expect = 8.1
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 115 RALAKENGN--DEEMAEMIASEIKSLSNELIEL 145
ALA + GN + + E IA+EI S+ + IE+
Sbjct: 22 GALADQTGNSFNSKRLEHIANEILSIVDLGIEV 54
>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A
{Danio rerio} PDB: 2c2v_S 2oxq_C
Length = 179
Score = 26.9 bits (59), Expect = 9.5
Identities = 10/67 (14%), Positives = 29/67 (43%)
Query: 86 KLAQSMAELDEVVSTYRKFKDCEKQLEESRALAKENGNDEEMAEMIASEIKSLSNELIEL 145
Q + D++ S R K E + +++EN ++++I +E + ++ ++
Sbjct: 4 PFTQRLNFGDDIPSALRIAKKKRWNSIEEKRISQENELHAYLSKLILAEKERELDDRVKQ 63
Query: 146 EEKLKVL 152
+ +
Sbjct: 64 SDDSQNG 70
>5nul_A Flavodoxin; electron transport, flavoprotein, FMN; HET: FMN; 1.60A
{Clostridium beijerinckii} SCOP: c.23.5.1 PDB: 2flv_A*
2fvx_A* 1fld_A* 3nll_A* 1fvx_A* 1fla_A* 4nll_A* 5nll_A*
2fox_A* 5ull_A* 2fdx_A* 2fax_A* 6nul_A* 1fln_A* 4nul_A*
Length = 138
Score = 26.4 bits (59), Expect = 10.0
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 122 GNDEEMAEMIASEIKS 137
GN E+MAE+IA I
Sbjct: 10 GNTEKMAELIAKGIIE 25
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
0.313 0.128 0.351
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,130,382
Number of extensions: 372613
Number of successful extensions: 928
Number of sequences better than 10.0: 1
Number of HSP's gapped: 894
Number of HSP's successfully gapped: 89
Length of query: 416
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 320
Effective length of database: 4,021,377
Effective search space: 1286840640
Effective search space used: 1286840640
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.0 bits)