RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17364
(312 letters)
>1xb2_B EF-TS, elongation factor TS, mitochondrial, EF-TSMT;
protein-protein complex, translation; HET: MSE; 2.20A
{Bos taurus} SCOP: a.5.2.2 d.43.1.1 d.43.1.1
Length = 291
Score = 281 bits (720), Expect = 1e-94
Identities = 116/284 (40%), Positives = 177/284 (62%), Gaps = 8/284 (2%)
Query: 23 NKSLLGKLRKKTGYSFTNCKKALDLNEQDLGKAEKWLQEQAKELGWAKASKLAGRKTSQG 82
+K LL KLR+KTGYSF NCKKAL+ DL +AE WL +QA++ GW+KA++L GRKT +G
Sbjct: 4 SKELLMKLRRKTGYSFINCKKALETCGGDLKQAESWLHKQAQKEGWSKAARLHGRKTKEG 63
Query: 83 LISIAVEGKHATMVEFNCETDFVARNKQFQGMAELISLACLNYTKTQVQPQEPFAKVFLD 142
LI + EG +VE NCETDFV+RN +FQ + + ++L L + + ++K FL+
Sbjct: 64 LIGLLQEGDTTVLVEVNCETDFVSRNLKFQQLVQQVALGTLLHCQNLKDQLSTYSKGFLN 123
Query: 143 TAQLQSL--AGPENKSLADHVAILISSVGENLVLRRAACVTVNEDHDVAGFTHPSPGLEH 200
+++L L SL D +A+ I +GEN++L+RAA V V V + H +
Sbjct: 124 SSELSELPAGPEREGSLKDQLALAIGKLGENMILKRAAWVKVPAGFYVGSYVHGAMHSPS 183
Query: 201 TGPI-LGKFGSLMVYQDLKTGDKQQNVQNVARQLCQHVIGMNPKSIGSEEDTPNEDPEEE 259
+ LGK+G+L++ +T + + N+ ++ R+L QHV+GM P S+GS +D P E E
Sbjct: 184 LHNLVLGKYGALVI---CETSELKANLADLGRRLGQHVVGMAPLSVGSLDDEPGG--EAE 238
Query: 260 TIMYHQEFLLDPTQYVGEVIVAAGIKPVEFLRFECGEGCEESEE 303
T M Q +LLDP+ +G+ + G+ V+F+RFECGEG + ++
Sbjct: 239 TKMLSQPYLLDPSITLGQYVQPHGVSVVDFVRFECGEGEDAADA 282
>2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA,
structural genomics, human, NPPSFA; NMR {Homo sapiens}
SCOP: a.5.2.2
Length = 64
Score = 79.4 bits (196), Expect = 3e-19
Identities = 32/68 (47%), Positives = 43/68 (63%), Gaps = 4/68 (5%)
Query: 15 ASANQLTTNKSLLGKLRKKTGYSFTNCKKALDLNEQDLGKAEKWLQEQAKELGWAKASKL 74
S+ ++K LL KLR+KTGYSF NCKKAL+ DL +AE WL ++A++ GW+K
Sbjct: 1 GSSGSSGSSKELLMKLRRKTGYSFVNCKKALETCGGDLKQAEIWLHKEAQKEGWSK---- 56
Query: 75 AGRKTSQG 82
A S G
Sbjct: 57 AASGPSSG 64
>1aip_C EF-TS, elongation factor TS; nucleotide exchange, GTP-binding,
complex of two elongation factors; 3.00A {Thermus
thermophilus} SCOP: a.5.2.2 d.43.1.1
Length = 196
Score = 75.1 bits (185), Expect = 2e-16
Identities = 46/155 (29%), Positives = 71/155 (45%), Gaps = 24/155 (15%)
Query: 29 KLRKKTGYSFTNCKKALDLNEQDLGKAEKWLQEQAKELGWAKASKLAGRKTSQGLIS--I 86
KLR+ TG + K+AL+ D KA + L+E G KA+K A R+ +G+I I
Sbjct: 9 KLREATGAGMMDVKRALEDAGWDEEKAVQLLRE----RGAMKAAKKADREAREGIIGHYI 64
Query: 87 AVEGKHATMVEFNCETDFVARNKQFQGMAELISL--ACLN--YTKTQVQPQEPFAKVF-L 141
+ +VE NCETDFVARN+ FQ +A+ +++ A +N Y + P E K +
Sbjct: 65 HHNQRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVSAEEIPAEELEKERQI 124
Query: 142 DTAQLQSLAGPENKSLADHVAILISSVGENLVLRR 176
+ P+ + E + R
Sbjct: 125 YIQAALNEGKPQQ-------------IAEKIAEGR 146
Score = 43.5 bits (103), Expect = 2e-05
Identities = 34/171 (19%), Positives = 57/171 (33%), Gaps = 52/171 (30%)
Query: 164 LISSVGENLVLRRAACVTVNEDHDVAGFTHPSPGLEHTGPILGKFGSLMVYQ-DLKTGDK 222
L+ G ++A + + + H + + G L+ + +
Sbjct: 38 LLRERGAMKAAKKADREA--REGIIGHYIHHN----------QRVGVLVELNCETDFVAR 85
Query: 223 QQNVQNVARQLCQHVIGMNPKSIGSEEDTPNEDPE------------------------- 257
+ QN+A+ L H+ MNP+ + S E+ P E+ E
Sbjct: 86 NELFQNLAKDLAMHIAMMNPRYV-SAEEIPAEELEKERQIYIQAALNEGKPQQIAEKIAE 144
Query: 258 -------EETIMYHQEFLLDPTQYVGEVIVAAG------IKPVEFLRFECG 295
EE ++ Q F+ D V E+I A I F RFE G
Sbjct: 145 GRLKKYLEEVVLLEQPFVKDDKVKVKELIQQAIAKIGENIVVRRFCRFELG 195
>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA
polymerase, translation, transferase-RNA complex; HET:
GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A*
3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G*
1efu_B
Length = 1289
Score = 61.9 bits (150), Expect = 8e-11
Identities = 48/156 (30%), Positives = 80/156 (51%), Gaps = 24/156 (15%)
Query: 25 SLLGKLRKKTGYSFTNCKKALDLNEQDLGKAEKWLQEQAKELGWAKASKLAGRKTSQGLI 84
SL+ +LR++TG +CKKAL D+ A E ++ G KA+K AG + G+I
Sbjct: 7 SLVKELRERTGAGMMDCKKALTEANGDIELA----IENMRKSGAIKAAKKAGNVAADGVI 62
Query: 85 SIAVEGKHATMVEFNCETDFVARNKQFQGMAELISLACLNYTKTQVQPQEPFAKVFLDTA 144
++G + ++E NC+TDFVA++ FQ A+ + A + T V+ + A
Sbjct: 63 KTKIDGNYGIILEVNCQTDFVAKDAGFQAFADKVLDAAVAGKITDVE---------VLKA 113
Query: 145 QLQSLAGPENKSLADHVAILISSVGENLVLRRAACV 180
Q + + VA L++ +GEN+ +RR A +
Sbjct: 114 QFEE----------ERVA-LVAKIGENINIRRVAAL 138
>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 = 53.9 bits (129), Expect = 3e-08
Identities = 43/233 (18%), Positives = 83/233 (35%), Gaps = 66/233 (28%)
Query: 76 GRKTSQGLISIAVE----GKHATMVEFNCETDFVARNKQFQGMAELISLACLNYTKTQV- 130
G++ + ++ E GK T F E + + + F+ L+S TQ
Sbjct: 1681 GKRIRENYSAMIFETIVDGKLKTEKIFK-EINEHSTSYTFRSEKGLLSA-------TQFT 1732
Query: 131 QPQEPFAKVFLDTAQLQSL--AG--PENKSLADHVAILISSVGENLVLRRAACVTVNEDH 186
QP A ++ A + L G P + + A H S+GE AA ++
Sbjct: 1733 QP----ALTLMEKAAFEDLKSKGLIPADATFAGH------SLGEY-----AALASL---- 1773
Query: 187 DVAG-FTHPSPGLEHTGPIL---GKFGSLMVYQDLKTGDKQQNVQNVARQLCQHVIGMNP 242
A + +E ++ G + V +D + N +I +NP
Sbjct: 1774 --ADVMS-----IESLVEVVFYRGMTMQVAVPRD------ELGRSNYG------MIAINP 1814
Query: 243 KSIGSEEDTPNEDPEE--ETIMYHQEFLLDPTQY--VGEVIVAAG-IKPVEFL 290
+ + E + E + +L++ Y + VAAG ++ ++ +
Sbjct: 1815 GRVAASFS--QEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTV 1865
Score = 45.0 bits (106), Expect = 3e-05
Identities = 54/330 (16%), Positives = 87/330 (26%), Gaps = 125/330 (37%)
Query: 7 SFLARFFHASANQLTTNKSLLGKLRKKTGYSFTNCKKALDLNEQDLGKAEKWLQE----- 61
+ SA L+ L + FT + L++ +WL+
Sbjct: 182 VLVGDLIKFSAETLSE----LIRTTLDAEKVFT---QGLNI--------LEWLENPSNTP 226
Query: 62 ------------------Q-------AKELGWAKA---SKLAGRKT-SQGLIS---IAVE 89
Q AK LG+ S L G SQGL++ IA
Sbjct: 227 DKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAET 286
Query: 90 GKHATMVEFNCETDFVARNKQFQGMAELISLACLN-YTKTQVQPQ-----------EP-- 135
F ++ + I + C Y T + P P
Sbjct: 287 D---------SWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSP 337
Query: 136 -FAKVFLDTAQLQSLAGPENKSL--ADHVAI-LISS-------------VGENLVLRRAA 178
+ L Q+Q N L V I L++ G NL LR+A
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAK 397
Query: 179 CVTVNEDHDVAGFT--HPSPGLE--------HTGPILG-----------------KFGSL 211
+ D F+ H+ +L +
Sbjct: 398 APS-GLDQSRIPFSERKLKFSNRFLPVASPFHS-HLLVPASDLINKDLVKNNVSFNAKDI 455
Query: 212 M--VYQDLKTG-DKQQNVQNVARQLCQHVI 238
VY D G D + +++ ++ +I
Sbjct: 456 QIPVY-DTFDGSDLRVLSGSISERIVDCII 484
>1tfe_A Elongation factor TS; 1.70A {Thermus thermophilus} SCOP: d.43.1.1
Length = 145
Score = 44.6 bits (106), Expect = 6e-06
Identities = 30/137 (21%), Positives = 48/137 (35%), Gaps = 43/137 (31%)
Query: 200 HTGPILGKFGSLMVYQ-DLKTGDKQQNVQNVARQLCQHVIGMNPKSIGSEEDTPNED--- 255
H + G L+ + + + QN+A+ L H+ MNP+ + S E+ P E+
Sbjct: 11 HHN---QRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYV-SAEEIPAEELEK 66
Query: 256 --------------PEE---------------ETIMYHQEFLLDPTQYVGEVIVAAG--- 283
P++ E ++ Q F+ D V E+I A
Sbjct: 67 ERQIYIQAALNEGKPQQIAEKIAEGRLKKYLEEVVLLEQPFVKDDKVKVKELIQQAIAKI 126
Query: 284 ---IKPVEFLRFECGEG 297
I F RFE G
Sbjct: 127 GENIVVRRFCRFELGAM 143
Score = 37.3 bits (87), Expect = 0.002
Identities = 18/38 (47%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 80 SQGLIS--IAVEGKHATMVEFNCETDFVARNKQFQGMA 115
+G+I I + +VE NCETDFVARN+ FQ +A
Sbjct: 2 REGIIGHYIHHNQRVGVLVELNCETDFVARNELFQNLA 39
>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 = 34.1 bits (77), Expect = 0.070
Identities = 45/267 (16%), Positives = 80/267 (29%), Gaps = 56/267 (20%)
Query: 37 SFTNCKKALDLNE--QDL-GKAEKWLQEQAK-------ELGWAKASK---LAGRKTSQGL 83
+ NC + E Q L + + ++ + +A L + L
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247
Query: 84 ISIA-V-EGKHATMVEFNCETDFVARNKQF-----QGMAELISLACLNYTKTQVQPQEPF 136
+ + V K +C+ R KQ ISL + T T + +
Sbjct: 248 LVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL 307
Query: 137 AKVFLDTAQLQSLAGPENKSLADHVAILISSVGENLVLRRAACVTVNEDH-DVAGFTHP- 194
K +LD + Q L P + +S + E++ R N H + T
Sbjct: 308 LK-YLDC-RPQDL--PR--EVLTTNPRRLSIIAESI--RDGLATWDNWKHVNCDKLTTII 359
Query: 195 SPGLEHTGPILGK--FGSLMVYQD-----------LKTGDKQQNVQNVARQLCQHVIGMN 241
L P + F L V+ + + +V V +L +
Sbjct: 360 ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK------ 413
Query: 242 PKSIGSEEDTPNEDPEEETIMYHQEFL 268
S+ + P+E TI +L
Sbjct: 414 -YSL------VEKQPKESTISIPSIYL 433
>3p8k_A Hydrolase, carbon-nitrogen family; HET: PGE; 1.70A
{Staphylococcus aureus subsp}
Length = 281
Score = 28.4 bits (64), Expect = 3.0
Identities = 5/34 (14%), Positives = 16/34 (47%), Gaps = 3/34 (8%)
Query: 34 TGYSFTNCKKALDLNEQDLGKAEKWLQEQAKELG 67
GY + + + +LG++ +++ A++
Sbjct: 65 NGYD---LEHLNEKADNNLGQSFSFIKHLAEKYK 95
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A
{Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19
c.37.1.19
Length = 780
Score = 28.4 bits (64), Expect = 4.2
Identities = 9/35 (25%), Positives = 14/35 (40%), Gaps = 9/35 (25%)
Query: 287 VEFLRFECGEG------C---EESEETQTQAATAG 312
EF+R E G EES++ ++A
Sbjct: 568 YEFVRQEVMRGGQAFIVYPLIEESDKLNVKSAVEM 602
>3mkl_A HTH-type transcriptional regulator GADX; PSI2, MCSG, structural
genomics, protein structure initiativ midwest center
for structural genomics; 2.15A {Escherichia coli}
Length = 120
Score = 26.8 bits (60), Expect = 4.7
Identities = 10/45 (22%), Positives = 21/45 (46%), Gaps = 5/45 (11%)
Query: 17 ANQLTTNKSLLGKLRKKTGYSFTNCKKALDLNEQDLGKAEKWLQE 61
A++L + SLL K ++ S++ L E + +A + +
Sbjct: 30 ASELLMSPSLLKKKLREEETSYSQL-----LTECRMQRALQLIVI 69
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.4 bits (60), Expect = 5.1
Identities = 14/63 (22%), Positives = 22/63 (34%), Gaps = 6/63 (9%)
Query: 54 KAEKWLQEQAKELGWAKASKLAGRKTSQGLISIAVEGKHATMVEFNCETDFVARNKQFQG 113
KW +EQ K L + A + Q A + + E V +NK
Sbjct: 86 SIRKWREEQRKRL---QELDAASKVMEQEWREKAKKDLEEWNQRQS-EQ--VEKNKINNR 139
Query: 114 MAE 116
+A+
Sbjct: 140 IAD 142
Score = 26.7 bits (58), Expect = 9.7
Identities = 14/73 (19%), Positives = 30/73 (41%), Gaps = 15/73 (20%)
Query: 15 ASANQLTTNKSLLGKLRKKTGYSFTNCKKALDLNEQDLG---KAEKWLQEQAKEL-GWAK 70
A A++LT + K R++ + L E D ++W ++ K+L W +
Sbjct: 75 AQADRLTQEPESIRKWREE---------QRKRLQELDAASKVMEQEWREKAKKDLEEWNQ 125
Query: 71 --ASKLAGRKTSQ 81
+ ++ K +
Sbjct: 126 RQSEQVEKNKINN 138
>2e11_A Hydrolase; dimethylarsenic inhibi complex, cacodylate; 1.73A
{Xanthomonas campestris PV}
Length = 266
Score = 27.6 bits (62), Expect = 5.1
Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 4/34 (11%)
Query: 34 TGYSFTNCKKALDLNEQDLGKAEKWLQEQAKELG 67
+G+S KA D++ G W++ QA LG
Sbjct: 47 SGFSNEAIDKAEDMD----GPTVAWIRTQAARLG 76
>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown
function, SEL1-like repeats; 1.68A {Escherichia coli}
Length = 490
Score = 27.6 bits (62), Expect = 6.4
Identities = 3/23 (13%), Positives = 10/23 (43%), Gaps = 1/23 (4%)
Query: 49 EQDLGKAEKWLQEQAKELGWAKA 71
E++ + +W + ++ G
Sbjct: 200 ERNDAISAQWYR-KSATSGDELG 221
>2gmh_A Electron transfer flavoprotein-ubiquinone oxidoreductase; HET: BHG
FAD UQ5; 2.50A {Sus scrofa} SCOP: c.3.1.2 d.16.1.8
d.58.1.6 PDB: 2gmj_A*
Length = 584
Score = 27.1 bits (60), Expect = 8.7
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 52 LGKAEKWLQEQAKELG 67
LG W+ EQA+ LG
Sbjct: 143 LGHLVSWMGEQAEALG 158
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
0.315 0.130 0.373
Gapped
Lambda K H
0.267 0.0817 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,461,718
Number of extensions: 257803
Number of successful extensions: 596
Number of sequences better than 10.0: 1
Number of HSP's gapped: 585
Number of HSP's successfully gapped: 30
Length of query: 312
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 219
Effective length of database: 4,105,140
Effective search space: 899025660
Effective search space used: 899025660
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 (21.5 bits)
S2: 57 (25.6 bits)