RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1687
(107 letters)
>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET:
ATP; NMR {Saccharomyces cerevisiae}
Length = 608
Score = 163 bits (414), Expect = 4e-49
Identities = 64/99 (64%), Positives = 78/99 (78%)
Query: 8 LQVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLS 67
+VI+RFILH KKT F+VEHDFIMATYL+D+VIVFEG PS + A AP++LL G N+FL
Sbjct: 507 SKVIRRFILHNKKTAFIVEHDFIMATYLADKVIVFEGIPSKNAHARAPESLLTGCNRFLK 566
Query: 68 LLGITFRRDPNNFRPRINKNNSVKDCEQKRAGQYFFYEE 106
L +TFRRDPN+FRPRINK +S D EQK +G YFF +
Sbjct: 567 NLNVTFRRDPNSFRPRINKLDSQMDKEQKSSGNYFFLDN 605
Score = 50.8 bits (122), Expect = 5e-09
Identities = 26/101 (25%), Positives = 40/101 (39%), Gaps = 5/101 (4%)
Query: 8 LQVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLS 67
Q+I+ +L K VEHD + YLSD V + G PS+ + P ++ G+N FL
Sbjct: 261 AQIIRS-LLAPTKYVICVEHDLSVLDYLSDFVCIIYGVPSVYGVVTLPASVREGINIFLD 319
Query: 68 ----LLGITFRRDPNNFRPRINKNNSVKDCEQKRAGQYFFY 104
+ FR + FR + D +
Sbjct: 320 GHIPAENLRFRTEALQFRIADATEDLQNDSASRAFSYPSLK 360
>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis,
hydrolyase/translation complex; HET: ADP; 1.90A
{Pyrococcus furiosus}
Length = 538
Score = 156 bits (397), Expect = 4e-47
Identities = 47/96 (48%), Positives = 63/96 (65%)
Query: 8 LQVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLS 67
+ I+ + +KT VVEHD +M Y+SDR++VFEG P A P + GMN+FL+
Sbjct: 441 SRAIRHLMEKNEKTALVVEHDVLMIDYVSDRLMVFEGEPGKYGRALPPMGMREGMNRFLA 500
Query: 68 LLGITFRRDPNNFRPRINKNNSVKDCEQKRAGQYFF 103
+GITFRRDP+ RPR NK SVKD EQK G+Y++
Sbjct: 501 SIGITFRRDPDTGRPRANKEGSVKDREQKEKGEYYY 536
Score = 46.9 bits (112), Expect = 1e-07
Identities = 24/89 (26%), Positives = 40/89 (44%), Gaps = 5/89 (5%)
Query: 8 LQVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLS 67
+ I+R + K+ VVEHD + YLSD + V G P + + + P+ NG+N+FL
Sbjct: 198 ARAIRR-LSEEGKSVLVVEHDLAVLDYLSDIIHVVYGEPGVYGIFSQPKGTRNGINEFLR 256
Query: 68 LL----GITFRRDPNNFRPRINKNNSVKD 92
+ FR F + ++
Sbjct: 257 GYLKDENVRFRPYEIKFTKTGERVEIERE 285
>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur
cluster, adenosine diphosphate, nucleotide-binding; HET:
ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*
Length = 607
Score = 156 bits (396), Expect = 1e-46
Identities = 48/97 (49%), Positives = 64/97 (65%)
Query: 7 TLQVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFL 66
+ I+ + +KT VVEHD +M Y+SDR+IVFEG P A P + GMN+FL
Sbjct: 510 VSRAIRHLMEKNEKTALVVEHDVLMIDYVSDRLIVFEGEPGRHGRALPPMGMREGMNRFL 569
Query: 67 SLLGITFRRDPNNFRPRINKNNSVKDCEQKRAGQYFF 103
+ +GITFRRDP++ RPR NK SVKD EQK G+Y++
Sbjct: 570 ASVGITFRRDPDSGRPRANKEGSVKDREQKARGEYYY 606
Score = 41.5 bits (98), Expect = 1e-05
Identities = 26/102 (25%), Positives = 43/102 (42%), Gaps = 5/102 (4%)
Query: 8 LQVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLS 67
+VI R + + K VVEHD + YLSD + V G P + + + P+ NG+N+FL
Sbjct: 268 ARVI-RRLANEGKAVLVVEHDLAVLDYLSDVIHVVYGEPGVYGIFSKPKGTRNGINEFLQ 326
Query: 68 L----LGITFRRDPNNFRPRINKNNSVKDCEQKRAGQYFFYE 105
+ FR F + + ++ + Y
Sbjct: 327 GYLKDENVRFRPYEIRFTKLSERVDVERETLVEYPRLVKDYG 368
>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase,
translation; HET: ADP; 2.05A {Sulfolobus solfataricus}
Length = 538
Score = 150 bits (381), Expect = 9e-45
Identities = 41/99 (41%), Positives = 56/99 (56%)
Query: 8 LQVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLS 67
+ IKR K F+++HD + Y++DR+IVF+G P + LA +P L GMN+FL
Sbjct: 425 AKAIKRVTRERKAVTFIIDHDLSIHDYIADRIIVFKGEPEKAGLATSPVTLKTGMNEFLR 484
Query: 68 LLGITFRRDPNNFRPRINKNNSVKDCEQKRAGQYFFYEE 106
L +TFRRD RPR+NK S D QK G Y+
Sbjct: 485 ELEVTFRRDAETGRPRVNKIGSYLDRVQKERGDYYSMVL 523
Score = 43.5 bits (103), Expect = 2e-06
Identities = 20/101 (19%), Positives = 36/101 (35%), Gaps = 6/101 (5%)
Query: 8 LQVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLS 67
+ I+ L K VV+HD I+ YL+D + + G S+ + G+N FL
Sbjct: 178 AKAIRE--LLKNKYVIVVDHDLIVLDYLTDLIHIIYGESSVYGRVSKSYAARVGINNFLK 235
Query: 68 LL----GITFRRDPNNFRPRINKNNSVKDCEQKRAGQYFFY 104
+ R D F + + + + +
Sbjct: 236 GYLPAENMKIRPDEIKFMLKEVSDLDLSKDLKTKMKWTKII 276
>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural
genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}
Length = 263
Score = 31.5 bits (72), Expect = 0.032
Identities = 9/32 (28%), Positives = 13/32 (40%)
Query: 11 IKRFILHAKKTGFVVEHDFIMATYLSDRVIVF 42
I R+I K G +V H+ M + F
Sbjct: 167 ISRYIKEYGKEGILVTHELDMLNLYKEYKAYF 198
>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 = 27.7 bits (61), Expect = 0.84
Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 5/58 (8%)
Query: 47 SISTLANAPQNL-LNGMNKFLSLLGITFRRDPNNFRPRINKNNSVKDCEQKRAGQYFF 103
IS L N +NL ++G + L L +T R+ P + + E+K F
Sbjct: 367 EIS-LVNGAKNLVVSGPPQSLYGLNLTLRK---AKAPSGLDQSRIPFSERKLKFSNRF 420
Score = 27.7 bits (61), Expect = 0.89
Identities = 14/88 (15%), Positives = 27/88 (30%), Gaps = 15/88 (17%)
Query: 4 LHLTLQVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNL-LNGM 62
+ + + + I V + +L + +P L + P + L G+
Sbjct: 188 IKFSAETLSELIRTTLDAEKVFTQGLNILEWLENP----SNTPDKDYLLSIPISCPLIGV 243
Query: 63 NKF------LSLLGITFRRDPNNFRPRI 84
+ LLG T P R +
Sbjct: 244 IQLAHYVVTAKLLGFT----PGELRSYL 267
Score = 26.9 bits (59), Expect = 1.7
Identities = 20/96 (20%), Positives = 27/96 (28%), Gaps = 38/96 (39%)
Query: 32 ATYLSDRVIVFEGSPS----ISTL-----------ANA--PQN------LLNGMNKF--- 65
+ L D + EG PS IS L N+ P L+NG
Sbjct: 321 PSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS 380
Query: 66 ---LSLLGITFRRDPNNFRPRINKNNSVKDCEQKRA 98
SL G + K + +Q R
Sbjct: 381 GPPQSLYG---------LNLTLRKAKAPSGLDQSRI 407
Score = 25.4 bits (55), Expect = 4.4
Identities = 15/71 (21%), Positives = 29/71 (40%), Gaps = 10/71 (14%)
Query: 9 QVIKRFILHAKKTGFVVEHDFIMATY-LSDRVIVFEGSPS-ISTLANAPQNLLNGMNKFL 66
V++R K+TG++VE I Y + ++ V G + T+ N N + +
Sbjct: 1828 YVVERV---GKRTGWLVE---I-VNYNVENQQYVAAGDLRALDTVTNVL-NFIKLQKIDI 1879
Query: 67 SLLGITFRRDP 77
L + +
Sbjct: 1880 IELQKSLSLEE 1890
>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell
membrane, cobalt transport, hydrolase, ION transport;
2.30A {Clostridium perfringens atcc 13124}
Length = 275
Score = 26.4 bits (59), Expect = 2.1
Identities = 8/46 (17%), Positives = 16/46 (34%), Gaps = 7/46 (15%)
Query: 8 LQVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVF-------EGSP 46
++++ T + HD + D V V +G+P
Sbjct: 183 MKLLVEMQKELGITIIIATHDIDIVPLYCDNVFVMKEGRVILQGNP 228
>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt
transport, TM02 hydrolase, inner membrane, membrane,
nucleotide-binding; 2.30A {Thermotoga maritima}
Length = 266
Score = 26.0 bits (58), Expect = 2.8
Identities = 11/47 (23%), Positives = 21/47 (44%), Gaps = 10/47 (21%)
Query: 8 LQVIKRFILHAK-KTGFVVEHDFIMATYLSDRVIV-------FEGSP 46
L+++++ KT ++ HD DRV+V F+G+
Sbjct: 178 LRIVEK--WKTLGKTVILISHDIETVINHVDRVVVLEKGKKVFDGTR 222
>2x5d_A Probable aminotransferase; HET: LLP PLP; 2.25A {Pseudomonas
aeruginosa}
Length = 412
Score = 25.6 bits (57), Expect = 3.4
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 6/35 (17%)
Query: 18 AKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLA 52
AK+ +V HD Y +D IV++G + S +
Sbjct: 201 AKQYDVMVVHDLA---Y-AD--IVYDGWKAPSIMQ 229
>2dou_A Probable N-succinyldiaminopimelate aminotransfera; PLP-dependent
enzyme, structural genomics, NPPSFA; HET: EPE; 2.30A
{Thermus thermophilus}
Length = 376
Score = 25.2 bits (56), Expect = 4.5
Identities = 16/61 (26%), Positives = 24/61 (39%), Gaps = 9/61 (14%)
Query: 7 TLQVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGS-PSISTLANAPQN--LLNGMN 63
+ + A+K G + HD Y D V+EG PS L A + L ++
Sbjct: 176 DWGYFEEALGLARKHGLWLIHDNP---Y-VD--QVYEGEAPSPLALPGAKERVVELFSLS 229
Query: 64 K 64
K
Sbjct: 230 K 230
>3jtx_A Aminotransferase; NP_283882.1, structural genomics, joint CE
structural genomics, JCSG, protein structure initiative;
HET: LLP MES; 1.91A {Neisseria meningitidis Z2491}
Length = 396
Score = 25.2 bits (56), Expect = 4.6
Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 6/40 (15%)
Query: 12 KRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTL 51
K K GF++ D Y S+ I F+G+ + L
Sbjct: 191 KEVFDLQDKYGFIIASDE---CY-SE--IYFDGNKPLGCL 224
>2o1b_A Aminotransferase, class I; aminotrasferase; HET: PLP; 1.95A
{Staphylococcus aureus}
Length = 404
Score = 24.8 bits (55), Expect = 6.1
Identities = 12/50 (24%), Positives = 17/50 (34%), Gaps = 9/50 (18%)
Query: 18 AKKTGFVVEHDFIMATYLSDRVIVFEGS-PSISTLANAPQN--LLNGMNK 64
K T + HDF Y F+ PSI N + ++K
Sbjct: 210 FKGTDTKIVHDFA---Y-GA--FGFDAKNPSILASENGKDVAIEIYSLSK 253
>2hy5_A Putative sulfurtransferase DSRE; DSRE, DSRF, sulfur, structural
genomics, PSI, protein initiative, berkeley structural
genomics center, BSGC, TRAN; 1.72A {Allochromatium
vinosum} SCOP: c.114.1.1 PDB: 2hyb_A
Length = 130
Score = 24.5 bits (53), Expect = 7.7
Identities = 5/16 (31%), Positives = 9/16 (56%)
Query: 27 HDFIMATYLSDRVIVF 42
+ A +DR++VF
Sbjct: 113 GQLVEAAIQADRLVVF 128
>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative
iron chelatin ABC transporter, nucleotide binding
domain; 2.40A {Haemophilus influenzae}
Length = 253
Score = 24.5 bits (54), Expect = 9.1
Identities = 4/46 (8%), Positives = 11/46 (23%), Gaps = 6/46 (13%)
Query: 8 LQVIKRFILHAKKTGFVVEHDFIMATYLSDRVI------VFEGSPS 47
L ++ T H ++++ + G
Sbjct: 168 LSLLIDLAQSQNMTVVFTTHQPNQVVAIANKTLLLNKQNFKFGETR 213
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
0.325 0.140 0.417
Gapped
Lambda K H
0.267 0.0718 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,591,190
Number of extensions: 83075
Number of successful extensions: 219
Number of sequences better than 10.0: 1
Number of HSP's gapped: 219
Number of HSP's successfully gapped: 27
Length of query: 107
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 35
Effective length of database: 4,691,481
Effective search space: 164201835
Effective search space used: 164201835
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.4 bits)