RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2823
(122 letters)
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 45.9 bits (109), Expect = 5e-07
Identities = 21/104 (20%), Positives = 47/104 (45%)
Query: 18 ERDKAVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQAELRVVQADN 77
++ L + E+ S T S L +E+ + Q E+ ++ +
Sbjct: 941 NKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKEL 1000
Query: 78 ERVRSEEKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYER 121
+ ++E+KT++E +K + E +L ++L+ +++ KEE R
Sbjct: 1001 HQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNR 1044
Score = 40.9 bits (96), Expect = 3e-05
Identities = 16/109 (14%), Positives = 48/109 (44%), Gaps = 5/109 (4%)
Query: 12 LSRLLSERDKAVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQAELR 71
+L + ++++ + +E + +L +++ L+ Y LR LR
Sbjct: 919 YKKLHIGLENKIMQLQRKIDEQNKEYKSL-----LEKMNNLEITYSTETEKLRSDVERLR 973
Query: 72 VVQADNERVRSEEKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYE 120
+ + + + + ++QE++ K + E+++ + + + + + K E E
Sbjct: 974 MSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETE 1022
Score = 39.3 bits (92), Expect = 1e-04
Identities = 16/111 (14%), Positives = 40/111 (36%), Gaps = 4/111 (3%)
Query: 12 LSRLLSERDKAVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQAELR 71
L E A + +EE+ + + L E ++E DK + + +EL+
Sbjct: 972 LRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQ--TEKKTIEEWADKYKHETEQLVSELK 1029
Query: 72 VVQAD--NERVRSEEKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYE 120
E+ + + E ++ +L + + + ++ + Y+
Sbjct: 1030 EQNTLLKTEKEELNRRIHDQAKEITETMEKKLVEETKQLELDLNDERLRYQ 1080
Score = 30.8 bits (70), Expect = 0.090
Identities = 18/104 (17%), Positives = 39/104 (37%), Gaps = 8/104 (7%)
Query: 18 ERDKAVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQAELRVVQADN 77
+ L +K + L ++ + L R+ Y +T + Q R + A
Sbjct: 847 ALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVH--YHRTLKAIVYLQCCYRRMMA-- 902
Query: 78 ERVRSEEKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYER 121
+ E K ++ + +S +L LEN +++ +E +
Sbjct: 903 ---KRELKKLKIE-ARSVERYKKLHIGLENKIMQLQRKIDEQNK 942
>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 = 39.0 bits (91), Expect = 2e-04
Identities = 27/127 (21%), Positives = 59/127 (46%), Gaps = 16/127 (12%)
Query: 12 LSRLLSERDKAVLEMDKSKEELERSQATLATLSTSA--ELDRLQEKYDKTCADLRRAQAE 69
++SE + + + +KS++ELE+ + L S+ ++ LQ + + A L + + E
Sbjct: 1037 HESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEE 1096
Query: 70 LRVVQADNERVRSEEKTMQEKVEKSQGEVYRLKAKLENTQG--------------EMESM 115
L+ A E S++ +K+ + + + L+ LE+ + E+E++
Sbjct: 1097 LQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEAL 1156
Query: 116 KEEYERS 122
K E E +
Sbjct: 1157 KTELEDT 1163
Score = 36.0 bits (83), Expect = 0.001
Identities = 19/108 (17%), Positives = 43/108 (39%), Gaps = 3/108 (2%)
Query: 18 ERDKAVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQAELRVVQADN 77
E L+ +K K + + A +LQ + +++ + ++ +++ N
Sbjct: 940 EERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQN 999
Query: 78 ERVRSEEKTMQEKVEKSQGEVYRLKAK---LENTQGEMESMKEEYERS 122
++ E K ++E+V + + K L + + ESM E E
Sbjct: 1000 NKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVR 1047
Score = 35.6 bits (82), Expect = 0.002
Identities = 12/114 (10%), Positives = 45/114 (39%), Gaps = 5/114 (4%)
Query: 12 LSRLLSERDKAVLEMDKSKEELERSQATLATL-----STSAELDRLQEKYDKTCADLRRA 66
+L +E+ K +M +E+LE +A L + ++ ++++ +
Sbjct: 943 SQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKL 1002
Query: 67 QAELRVVQADNERVRSEEKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYE 120
E ++++ + + +EK + + ++ + + ++ ++ +
Sbjct: 1003 TKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQ 1056
Score = 33.3 bits (76), Expect = 0.012
Identities = 17/105 (16%), Positives = 44/105 (41%), Gaps = 2/105 (1%)
Query: 18 ERDKAVLEMDKSKEELERSQATLATLSTSAE--LDRLQEKYDKTCADLRRAQAELRVVQA 75
E ++ + EM+ EE E L + + L+E+ ++ A ++ Q E
Sbjct: 924 ELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADG 983
Query: 76 DNERVRSEEKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYE 120
+++ + M+++ K E L+ ++ + + +E+ +
Sbjct: 984 KIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAK 1028
Score = 32.5 bits (74), Expect = 0.021
Identities = 19/106 (17%), Positives = 47/106 (44%), Gaps = 2/106 (1%)
Query: 16 LSERDKAVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQAELRVVQA 75
L + + EM EEL+R++ AEL L++K+ + C + Q +L+
Sbjct: 849 LLKVTRQEEEMQAKDEELQRTKERQQKAE--AELKELEQKHTQLCEEKNLLQEKLQAETE 906
Query: 76 DNERVRSEEKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYER 121
+ K ++ + ++ ++A++E + + ++ E ++
Sbjct: 907 LYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKK 952
Score = 29.0 bits (65), Expect = 0.35
Identities = 17/108 (15%), Positives = 50/108 (46%), Gaps = 12/108 (11%)
Query: 14 RLLSERDKAVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQAELRVV 73
L +E ++ + + K+ELE + A ++ +E+ + A+ ++ Q ++ +
Sbjct: 906 ELYAEAEEMRVRLAAKKQELEEILHEM-----EARIEEEEERSQQLQAEKKKMQQQMLDL 960
Query: 74 QADNERVRSEEKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYER 121
+ E EE+ ++K++ E K++ + ++ M+++ +
Sbjct: 961 EEQLE----EEEAARQKLQL---EKVTADGKIKKMEDDILIMEDQNNK 1001
Score = 25.6 bits (56), Expect = 6.3
Identities = 14/88 (15%), Positives = 33/88 (37%), Gaps = 4/88 (4%)
Query: 12 LSRLLSERDKAVLEMDKSKEELERSQATLATLSTSAELDRLQ-EKYDKTCADLRRAQAEL 70
L L+ + + + + +++ ++ ++ L E ++ K +K DL EL
Sbjct: 1097 LQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRDLSE---EL 1153
Query: 71 RVVQADNERVRSEEKTMQEKVEKSQGEV 98
++ + E T QE +
Sbjct: 1154 EALKTELEDTLDTTATQQELRGSDYKDD 1181
>3lnn_A Membrane fusion protein (MFP) heavy metal cation ZNEB (CZCB-LIKE);
structural genomics, PSI-2, protein structure
initiative; 2.80A {Cupriavidus metallidurans}
Length = 359
Score = 32.4 bits (74), Expect = 0.021
Identities = 16/84 (19%), Positives = 33/84 (39%), Gaps = 1/84 (1%)
Query: 9 PGTLSRLLSERDKAVLEMDKSKEELERSQATLATLSTS-AELDRLQEKYDKTCADLRRAQ 67
L++ S+ KA M ++ L+R + + + + ++ Q YD+ ++ +RA
Sbjct: 90 SADLAQANSDAAKARAAMTMARRNLDRQRELDKSEIAAKRDFEQAQSDYDQAASESQRAD 149
Query: 68 AELRVVQADNERVRSEEKTMQEKV 91
A L + A V
Sbjct: 150 ARLAQLGAKGGGTLQAGGGHILAV 173
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 32.9 bits (74), Expect = 0.021
Identities = 19/117 (16%), Positives = 39/117 (33%), Gaps = 20/117 (17%)
Query: 15 LLSERDKAVLEMDKSKEELERSQATLATLSTSAELDRLQEKY-DKTCADLRRAQAE---- 69
LL+ R K V + + S + T E+ L KY D DL R +
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR-EVLTTNP 327
Query: 70 --LRVVQA--DNERVRSE--EKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYE 120
L ++ + + + +K+ +++ L E ++ ++
Sbjct: 328 RRLSIIAESIRDGLATWDNWKHVNCDKLTTI------IESSLNVL--EPAEYRKMFD 376
Score = 29.8 bits (66), Expect = 0.24
Identities = 16/125 (12%), Positives = 39/125 (31%), Gaps = 33/125 (26%)
Query: 2 MDCLVPPPGTLSRLLSERDKAVL---EMD---KSKEELERSQATLATLSTSAE------- 48
DC + + + K++L E+D SK+ + + TL + E
Sbjct: 33 FDC---------KDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFV 83
Query: 49 -----------LDRLQEKYDKTCADLRRAQAELRVVQADNERVRSEEKTMQEKVEKSQGE 97
+ ++ + + R + + DN+ + + K +
Sbjct: 84 EEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA 143
Query: 98 VYRLK 102
+ L+
Sbjct: 144 LLELR 148
Score = 26.4 bits (57), Expect = 3.1
Identities = 19/160 (11%), Positives = 44/160 (27%), Gaps = 50/160 (31%)
Query: 8 PPGTLSRLLSERDKAVLE--MDK--SKEELERSQA------------TLATLSTSAEL-D 50
P LS + + K+ + ++K +E+ L L
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR 447
Query: 51 RLQEKYDKTCADLRRAQAELRVVQADN----------ERVRSEEKT------------MQ 88
+ + Y+ +L D + + E+ ++
Sbjct: 448 SIVDHYNIPKT---FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLE 504
Query: 89 EKVEKSQGEVYRLKAKLENTQGEMESMKE-------EYER 121
+K+ + + NT +++ K +YER
Sbjct: 505 QKIRHD-STAWNASGSILNTLQQLKFYKPYICDNDPKYER 543
>3haj_A Human pacsin2 F-BAR; pacsin,syndapin,FAP52,F-BAR, alternative
splicing, coiled coil, cytoplasmic vesicle, endocytosis,
phosphoprotein, polymorphism; 2.78A {Homo sapiens}
Length = 486
Score = 32.4 bits (72), Expect = 0.025
Identities = 16/110 (14%), Positives = 43/110 (39%)
Query: 13 SRLLSERDKAVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQAELRV 72
+ L+++ + + K + T + Q+ + K ++ A+
Sbjct: 102 ASLMNDDFEKIKNWQKEAFHKQMMGGFKETKEAEDGFRKAQKPWAKKLKEVEAAKKAHHA 161
Query: 73 VQADNERVRSEEKTMQEKVEKSQGEVYRLKAKLENTQGEMESMKEEYERS 122
+ + S E + + ++ +L+ K+E + ++ KE+YE+S
Sbjct: 162 ACKEEKLAISREANSKADPSLNPEQLKKLQDKIEKCKQDVLKTKEKYEKS 211
>3fpp_A Macrolide-specific efflux protein MACA; hexameric assembly,
membrane fusion protein, drug efflux pump, periplasmic
protein; 2.99A {Escherichia coli}
Length = 341
Score = 31.9 bits (73), Expect = 0.033
Identities = 13/98 (13%), Positives = 42/98 (42%), Gaps = 12/98 (12%)
Query: 22 AVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRR----------AQAELR 71
V++ ++++ +++ +ATL A+ + + + R +Q +L
Sbjct: 60 GVIDPEQAENQIKEVEATLM--ELRAQRQQAEAELKLARVTYSRQQRLAQTQAVSQQDLD 117
Query: 72 VVQADNERVRSEEKTMQEKVEKSQGEVYRLKAKLENTQ 109
+ +++ T+ +++++Q + K L+ T+
Sbjct: 118 NAATEMAVKQAQIGTIDAQIKRNQASLDTAKTNLDYTR 155
Score = 29.6 bits (67), Expect = 0.20
Identities = 17/85 (20%), Positives = 38/85 (44%), Gaps = 6/85 (7%)
Query: 11 TLSRLLSERDKAVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQAEL 70
TL L ++R +A E+ ++ R Q T + S Q+ D ++ QA++
Sbjct: 77 TLMELRAQRQQAEAELKLARVTYSRQQRLAQTQAVS------QQDLDNAATEMAVKQAQI 130
Query: 71 RVVQADNERVRSEEKTMQEKVEKSQ 95
+ A +R ++ T + ++ ++
Sbjct: 131 GTIDAQIKRNQASLDTAKTNLDYTR 155
>2f1m_A Acriflavine resistance protein A; helical hairpin, lipoyl domain,
beta barrel, transport prote; 2.71A {Escherichia coli}
Length = 277
Score = 31.4 bits (72), Expect = 0.049
Identities = 15/67 (22%), Positives = 29/67 (43%), Gaps = 12/67 (17%)
Query: 25 EMDKSKEELERSQATLATLSTSAELDRL----------QEKYDKTCADLRRAQAELRVVQ 74
D +K +L ++QA ++R +++YD+ AD ++A A + +
Sbjct: 61 TYDSAKGDLAKAQAAAN--IAQLTVNRYQKLLGTQYISKQEYDQALADAQQANAAVTAAK 118
Query: 75 ADNERVR 81
A E R
Sbjct: 119 AAVETAR 125
Score = 25.6 bits (57), Expect = 5.3
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 53 QEKYDKTCADLRRAQAELRVVQADNERVR 81
Q YD DL +AQA + Q R +
Sbjct: 59 QATYDSAKGDLAKAQAAANIAQLTVNRYQ 87
>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 = 31.2 bits (70), Expect = 0.067
Identities = 19/135 (14%), Positives = 41/135 (30%), Gaps = 31/135 (22%)
Query: 5 LVPPPGTLS-----RLLSERDKAVLEMDKSKEELERSQATLATL---STSAELDRLQEKY 56
L +S ++ R + ++EL RS + + +A QE
Sbjct: 1770 LASLADVMSIESLVEVVFYRGMTMQVAVP-RDELGRSNYGMIAINPGRVAASFS--QEAL 1826
Query: 57 DKTCADLRRAQAELRVVQA--DNER----VRSEEK----TMQE--KVEKSQG-EVYRLKA 103
+ + +V+ N V + + T+ K Q ++ L+
Sbjct: 1827 QYVVERVGKRTGW--LVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQK 1884
Query: 104 KLENTQGEMESMKEE 118
L +E ++
Sbjct: 1885 SL-----SLEEVEGH 1894
>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold,
coiled coil, riken structural genomics/proteomics
initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus}
SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1ivs_A*
1iyw_A
Length = 862
Score = 31.0 bits (71), Expect = 0.088
Identities = 10/87 (11%), Positives = 29/87 (33%), Gaps = 4/87 (4%)
Query: 21 KAVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQAELRVVQADNERV 80
+ + ++ +E + L + D L E+ + R+ V
Sbjct: 743 EVRVYLEGETAPVEENLEVFRFL---SRADLLPER-PAKALVKAMPRVTARMPLEGLLDV 798
Query: 81 RSEEKTMQEKVEKSQGEVYRLKAKLEN 107
+ ++++++ R + KL +
Sbjct: 799 EEWRRRQEKRLKELLALAERSQRKLAS 825
>4dk0_A Putative MACA; alpha-hairpin, lipoyl, beta-barrel, periplasmic
protein, MEM protein; 3.50A {Aggregatibacter
actinomycetemcomitans} PDB: 4dk1_A
Length = 369
Score = 30.1 bits (68), Expect = 0.13
Identities = 15/85 (17%), Positives = 32/85 (37%), Gaps = 6/85 (7%)
Query: 11 TLSRLLSERDKAVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQAEL 70
L+ ++ D + +R +TS + + A L A+AE+
Sbjct: 78 ALASYQAQLVARKTAYDVALSNYQRLSKLYGQKATS------LDTLNTAKATLNNAKAEM 131
Query: 71 RVVQADNERVRSEEKTMQEKVEKSQ 95
VVQ + ++ E T + + ++
Sbjct: 132 DVVQENIKQAEIEVNTAETNLGYTK 156
Score = 27.1 bits (60), Expect = 1.6
Identities = 11/86 (12%), Positives = 34/86 (39%), Gaps = 3/86 (3%)
Query: 38 ATLATLSTSAELDRLQEKYDKTCADLRRAQAELRVVQADNERVRS---EEKTMQEKVEKS 94
A + + + L+ + A L + V ++ +R+ ++ T + + +
Sbjct: 61 AEIDSTTQINTLNTRKAALASYQAQLVARKTAYDVALSNYQRLSKLYGQKATSLDTLNTA 120
Query: 95 QGEVYRLKAKLENTQGEMESMKEEYE 120
+ + KA+++ Q ++ + E
Sbjct: 121 KATLNNAKAEMDVVQENIKQAEIEVN 146
>1vf7_A Multidrug resistance protein MEXA; alpha hairpin, beta barrel,
membrane protein; 2.40A {Pseudomonas aeruginosa} SCOP:
f.46.1.1 PDB: 2v4d_A 1t5e_A
Length = 369
Score = 29.2 bits (66), Expect = 0.34
Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 12/50 (24%)
Query: 32 ELERSQATLATLSTSAELDRL----------QEKYDKTCADLRRAQAELR 71
+ + +QA LA ST + R +++Y A +++A +
Sbjct: 82 DYQSAQANLA--STQEQAQRYKLLVADQAVSKQQYADANAAYLQSKAAVE 129
>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET:
GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP:
b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*
Length = 594
Score = 28.4 bits (64), Expect = 0.55
Identities = 12/55 (21%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 65 RAQAELRVVQADNERVRSEEKTMQE-KVEKSQGEVYRLKAKLENTQGEMESMKEE 118
A + LRVV + +++ K++ + V +KA +T G +E++ +
Sbjct: 319 MAGSPLRVVTDPEKVREEILSEIEDIKIDTDEAGVV-VKA---DTLGSLEAVVKI 369
>1nzj_A Hypothetical protein YADB; Zn cluster, glutamyl T-RNA synthetase,
structural genomics, unknown function; 1.50A
{Escherichia coli} SCOP: c.26.1.1 PDB: 2zlz_A* 4a91_A*
Length = 298
Score = 27.1 bits (61), Expect = 1.2
Identities = 7/29 (24%), Positives = 9/29 (31%)
Query: 45 TSAELDRLQEKYDKTCADLRRAQAELRVV 73
T A + + YD C L V
Sbjct: 104 TRARIQSIGGIYDGHCRVLHHGPDNAAVR 132
>3ccf_A Cyclopropane-fatty-acyl-phospholipid synthase; YP_321342.1,
putative methyltransferase; 1.90A {Anabaena variabilis
atcc 29413}
Length = 279
Score = 26.6 bits (59), Expect = 1.9
Identities = 7/36 (19%), Positives = 16/36 (44%)
Query: 9 PGTLSRLLSERDKAVLEMDKSKEELERSQATLATLS 44
G L+ +++ VL D + +E+++ L
Sbjct: 68 TGQLTEKIAQSGAEVLGTDNAATMIEKARQNYPHLH 103
>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 = 26.3 bits (59), Expect = 2.7
Identities = 12/99 (12%), Positives = 32/99 (32%), Gaps = 19/99 (19%)
Query: 31 EELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQAELRVVQADNERVRSEEKTMQEK 90
+E E + + +L+ L D + ++ + V++E + ++
Sbjct: 9 QEPEVFHRAIREKGVALDLEALLA------LDREV-----QELKKRLQEVQTERNQVAKR 57
Query: 91 VEKSQGE--------VYRLKAKLENTQGEMESMKEEYER 121
V K+ E L + + + + + E
Sbjct: 58 VPKAPPEEKEALIARGKALGEEAKRLEEALREKEARLEA 96
>3pik_A Cation efflux system protein CUSC; beta-barrel, lipoprotein, outer
membrane; HET: UNL; 2.30A {Escherichia coli}
Length = 446
Score = 26.5 bits (59), Expect = 2.7
Identities = 8/47 (17%), Positives = 17/47 (36%), Gaps = 1/47 (2%)
Query: 31 EELERSQATLATLSTSAELDRLQEKY-DKTCADLRRAQAELRVVQAD 76
+L+ ++ TL S Q L +A+ + ++D
Sbjct: 164 AQLQIAEETLRNYQQSYAFVEKQLLTGSSNVLALEQARGVIESTRSD 210
>1t8s_A AMP nucleosidase; alpha-beta-alpha sandwich, alpha-beta fold,
hydrolase; HET: FMP; 2.60A {Escherichia coli} SCOP:
c.56.2.1 PDB: 1t8r_A* 1t8w_A 1t8y_A 2guw_A
Length = 484
Score = 25.7 bits (56), Expect = 4.3
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 41 ATLSTSAELDRLQEKYDKTCADLRRA 66
+ L+ + LD+L Y+++ LR A
Sbjct: 6 SGLTPAQALDKLDALYEQSVVALRNA 31
>1j09_A Glutamyl-tRNA synthetase; glurs-ATP-Glu complex, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, ligase; HET: GLU ATP; 1.80A {Thermus
thermophilus} SCOP: a.97.1.1 c.26.1.1 PDB: 1n75_A*
1n77_A* 1n78_A* 2cuz_A* 2cv0_A* 2cv1_A* 2cv2_A* 2dxi_A*
1g59_A 1gln_A
Length = 468
Score = 25.6 bits (57), Expect = 4.5
Identities = 8/31 (25%), Positives = 15/31 (48%), Gaps = 3/31 (9%)
Query: 45 TSAELDRL---QEKYDKTCADLRRAQAELRV 72
T EL+++ + YD ++ +AE R
Sbjct: 108 TPEELEQIRKEKGGYDGRARNIPPEEAEERA 138
>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 = 26.0 bits (58), Expect = 4.6
Identities = 25/128 (19%), Positives = 58/128 (45%), Gaps = 26/128 (20%)
Query: 11 TLS-RLLSER---DKAV-----------LEMDKSKEELERSQATLATLSTSAELDRLQEK 55
TLS R ++ER DKA+ + ++ + EE++ + L E++R K
Sbjct: 366 TLSHRYITERRLPDKAIDLIDEAAARLRMALESAPEEIDALERKKLQL----EIEREALK 421
Query: 56 YDKTCADLRRAQAELRVVQADNERVRSEEKTMQEK--VEKSQ-GEVYRLKAKLENTQGEM 112
+K R L+ ++A+ ++ E ++ + E+ ++ + +L+ + E+
Sbjct: 422 KEKDPDSQER----LKAIEAEIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRREI 477
Query: 113 ESMKEEYE 120
E + +Y+
Sbjct: 478 ELAERQYD 485
>3d5k_A OPRM, outer membrane protein OPRM; channel, beta-alpha-barrel,
antibiotic RES lipoprotein, palmitate, transmemb
transport; 2.40A {Pseudomonas aeruginosa} PDB: 1wp1_A
Length = 474
Score = 25.8 bits (57), Expect = 4.9
Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 31 EELERSQATLATLSTSAELDRLQEKY-DKTCADLRRAQAELRVVQAD 76
+L+ ++ TL T S +L + + DLR+AQ + +A
Sbjct: 173 AQLQLTKDTLGTYQKSFDLTQRSYDVGVASALDLRQAQTAVEGARAT 219
>3l4j_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, covalently
linked comple supercoiling; HET: DNA PTR TSP; 2.48A
{Saccharomyces cerevisiae} PDB: 3l4k_A* 1bjt_A 1bgw_A
2rgr_A*
Length = 757
Score = 25.7 bits (56), Expect = 5.3
Identities = 11/57 (19%), Positives = 21/57 (36%), Gaps = 1/57 (1%)
Query: 12 LSRLLSER-DKAVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQ 67
+ L ER K + + + + ELE A + +L + Y + A+
Sbjct: 701 IWSLTKERYQKLLKQKQEKETELENLLKLSAKDIWNTDLKAFEVGYQEFLQRDAEAR 757
>3nra_A Aspartate aminotransferase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: LLP; 2.15A {Rhodobacter sphaeroides}
Length = 407
Score = 25.2 bits (56), Expect = 5.8
Identities = 3/17 (17%), Positives = 6/17 (35%)
Query: 105 LENTQGEMESMKEEYER 121
+ G ME ++
Sbjct: 298 FDEAPGWMEDRIARHQA 314
>3gyx_A Adenylylsulfate reductase; oxidoreductase; HET: FAD; 3.20A
{Desulfovibrio gigas}
Length = 662
Score = 25.3 bits (55), Expect = 6.8
Identities = 10/82 (12%), Positives = 24/82 (29%), Gaps = 6/82 (7%)
Query: 46 SAELDRLQEKYDKTCADLRRAQAELRVVQADNERVRSEE------KTMQEKVEKSQGEVY 99
+ L+ + + + + + E + + K E
Sbjct: 499 VETAEELKTLIYRPYYNYEKGKGASTCPVVNPEYISPKNFMMRLIKCTDEYGGGVGTYYN 558
Query: 100 RLKAKLENTQGEMESMKEEYER 121
KA L+ ME ++E+ +
Sbjct: 559 TSKALLDTGFWLMEMLEEDSLK 580
>3h7a_A Short chain dehydrogenase; oxidoreductase, PSI-2, NYSGXRC,
structural genomics, protein structure initiative;
1.87A {Rhodopseudomonas palustris}
Length = 252
Score = 24.9 bits (55), Expect = 7.4
Identities = 8/47 (17%), Positives = 14/47 (29%), Gaps = 5/47 (10%)
Query: 49 LDRLQEKYDKTCADLRRAQAELRVVQADNERVRSEE--KTMQEKVEK 93
R EK A++ A + D R+E+ +
Sbjct: 37 GRRNGEKLAPLVAEIEAAGGRIVARSLD---ARNEDEVTAFLNAADA 80
>3emr_A ECTD; double stranded beta helix, oxidoreductase; HET: MSE; 1.85A
{Virgibacillus salexigens}
Length = 310
Score = 25.2 bits (55), Expect = 7.4
Identities = 4/38 (10%), Positives = 18/38 (47%)
Query: 45 TSAELDRLQEKYDKTCADLRRAQAELRVVQADNERVRS 82
+ E+ +Q+ + ++ ++ + + ++ +RS
Sbjct: 56 SEDEVIDMQKAIFELQDSIKDVASDKVIREPESNDIRS 93
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 25.1 bits (54), Expect = 7.5
Identities = 11/54 (20%), Positives = 21/54 (38%)
Query: 18 ERDKAVLEMDKSKEELERSQATLATLSTSAELDRLQEKYDKTCADLRRAQAELR 71
E+ K + E+D + + +E+ A R E+ +K + R A
Sbjct: 93 EQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFY 146
>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 = 24.9 bits (53), Expect = 8.0
Identities = 8/31 (25%), Positives = 15/31 (48%), Gaps = 9/31 (29%)
Query: 84 EKTMQEKVEKSQGEVYR--------LKAKLE 106
EK +K++ S ++Y +KA +E
Sbjct: 18 EKQALKKLQASL-KLYADDSAPALAIKATME 47
>3fes_A ATP-dependent CLP endopeptidase; alpha-helical bundles, structural
genomics, PSI-2, protein S initiative; HET: PG4 EPE;
1.82A {Clostridium difficile}
Length = 145
Score = 24.5 bits (54), Expect = 8.6
Identities = 11/53 (20%), Positives = 19/53 (35%), Gaps = 3/53 (5%)
Query: 70 LRVVQADNERVRSEEKTMQEKVEKSQGEVY---RLKAKLENTQGEMESMKEEY 119
L V + + M+ K E+ ++ R K LE + +K Y
Sbjct: 52 LSKVGFTEAYLEGKIVDMEGKGEEISEDIVLSPRSKQILELSGMFANKLKTNY 104
>2gb3_A Aspartate aminotransferase; TM1698, structural genomics, PSI
structure initiative, joint center for structural
genomics; HET: LLP; 2.50A {Thermotoga maritima} SCOP:
c.67.1.1
Length = 409
Score = 24.8 bits (55), Expect = 9.6
Identities = 3/17 (17%), Positives = 6/17 (35%)
Query: 105 LENTQGEMESMKEEYER 121
L + ++E Y
Sbjct: 289 LNLDDSFFDFVRETYRE 305
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
0.306 0.122 0.310
Gapped
Lambda K H
0.267 0.0414 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,652,019
Number of extensions: 83107
Number of successful extensions: 401
Number of sequences better than 10.0: 1
Number of HSP's gapped: 361
Number of HSP's successfully gapped: 182
Length of query: 122
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 40
Effective length of database: 4,412,271
Effective search space: 176490840
Effective search space used: 176490840
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 51 (24.2 bits)