RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9086
(115 letters)
>3izc_K 60S ribosomal protein RPL16 (L13P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_K
3o58_P 3o5h_P 3u5e_O 3u5i_O
Length = 199
Score = 106 bits (265), Expect = 2e-31
Identities = 7/111 (6%), Positives = 18/111 (16%), Gaps = 12/111 (10%)
Query: 1 MAPRYELAVGLKKGHRNTKIKWANSLAQKTSKIVKMRPSRLKGIQTKNTKFTRDLVREVC 60
M+ + + K V + ++ E
Sbjct: 1 MSVEPVVVIDGKGHLVGRL------------ASVVAKQLLNGQKIVVVRAEELNISGEFF 48
Query: 61 GHAPYEKRAMELLKVSKDKRALKFLKRRLGTHIRAKRKREELSNILTQMRK 111
+ + R + +A R +
Sbjct: 49 RNKLKYHDFLRKATAFNKTRGPFHFRAPSRIFYKALRGMVSHKTARGKAAL 99
>3iz5_K 60S ribosomal protein L13A (L13P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_K
Length = 206
Score = 99.3 bits (247), Expect = 1e-28
Identities = 12/114 (10%), Positives = 26/114 (22%), Gaps = 12/114 (10%)
Query: 2 APRYELAVGLKKGHRNTKIKWANSLAQKTSKIVKMRPSRLKGIQTKNTKFTRDLVREVCG 61
+ V + H ++ + L Q ++
Sbjct: 5 SGVCAKRVVVDARHHMLG------------RLASIVAKELLNGQRVVVVRCEEICMSGGL 52
Query: 62 HAPYEKRAMELLKVSKDKRALKFLKRRLGTHIRAKRKREELSNILTQMRKAAHK 115
K L K K + + R I + R + + + A +
Sbjct: 53 VRQKMKYLRFLRKRMNTKPSHGPIHFRAPAKILWRTIRGMIPHKTARGEAALAR 106
>4a18_Q RPL36, 60S ribosomal protein L36; ribosome, eukaryotic initiation
factor 6, EIF6, transla large ribosomal subunit, rRNA;
3.52A {Tetrahymena thermophila} PDB: 4a19_Q 4a1b_Q
4a1d_Q
Length = 104
Score = 92.8 bits (230), Expect = 4e-26
Identities = 40/108 (37%), Positives = 54/108 (50%), Gaps = 12/108 (11%)
Query: 7 LAVGLKKGHRNTKIKWANSLAQKTSKIVKMRPSRLKGIQTKNTKFTRDLVREVCGHAPYE 66
AVG+ KG T++ K+ K + KG K R ++REV G APYE
Sbjct: 5 QAVGINKGFITTQL---------EKKLQKHSAVQRKGKLGKRVALVRQVIREVTGFAPYE 55
Query: 67 KRAMELLKVSK---DKRALKFLKRRLGTHIRAKRKREELSNILTQMRK 111
KR +EL+K K+A K ++RLGTH RAK K+ L + RK
Sbjct: 56 KRIIELIKAGSAKDSKKATKIARKRLGTHRRAKVKKALLEEAVRAQRK 103
>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 = 34.6 bits (79), Expect = 0.004
Identities = 22/159 (13%), Positives = 42/159 (26%), Gaps = 49/159 (30%)
Query: 2 APRYELAV-GLKKGHRNTKIKWANSLAQKTSKI------------VKMRPSRLKGI---- 44
P L++ L + + NS ++ V P L G+
Sbjct: 334 VPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL 393
Query: 45 ----------QTKNTKFT-RDLVREVCG-------HAPYEKRAMELLKVSKDKRALKFLK 86
Q++ F+ R L H+ A +L+ K + F
Sbjct: 394 RKAKAPSGLDQSR-IPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNA 452
Query: 87 RRL---------GTHIRAKRKREELSNILTQM--RKAAH 114
+ + G+ +R +S + R
Sbjct: 453 KDIQIPVYDTFDGSDLRV--LSGSISERIVDCIIRLPVK 489
Score = 25.4 bits (55), Expect = 5.2
Identities = 6/25 (24%), Positives = 11/25 (44%)
Query: 20 IKWANSLAQKTSKIVKMRPSRLKGI 44
+KW + K + I+ P G+
Sbjct: 488 VKWETTTQFKATHILDFGPGGASGL 512
>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 = 28.7 bits (63), Expect = 0.51
Identities = 15/133 (11%), Positives = 36/133 (27%), Gaps = 37/133 (27%)
Query: 7 LAVGL----KKGHRNTKIKWANSLAQKTSKIVKM-----RPSRLK------GIQTKNTKF 51
+ + + T W + K + I++ P+ + + +
Sbjct: 328 RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI 387
Query: 52 T--------RDLVREVCGHAPYEKRAMELLKVS-KDKRALKFLKRRLGTHIRAKRKREEL 102
D+++ +L K S +K+ + ++ K K E
Sbjct: 388 PTILLSLIWFDVIKSDV-----MVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLEN- 441
Query: 103 SNILTQMRKAAHK 115
A H+
Sbjct: 442 -------EYALHR 447
Score = 28.3 bits (62), Expect = 0.58
Identities = 21/144 (14%), Positives = 44/144 (30%), Gaps = 51/144 (35%)
Query: 16 RNTKIKWANSLAQKTSKIVKMR-------PSRLKGIQTK--NTKFTRDLVREVCGHAP-- 64
R ++ + L+ T+ + + P +K + K + + DL REV P
Sbjct: 273 RFKQV--TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ-DLPREVLTTNPRR 329
Query: 65 ----------YEKRAMELLKVSKDK------RALKFLK----RRL---------GTHIRA 95
V+ DK +L L+ R++ HI
Sbjct: 330 LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPT 389
Query: 96 KR--------KREELSNILTQMRK 111
+ ++ ++ ++ K
Sbjct: 390 ILLSLIWFDVIKSDVMVVVNKLHK 413
Score = 27.5 bits (60), Expect = 1.1
Identities = 14/107 (13%), Positives = 35/107 (32%), Gaps = 16/107 (14%)
Query: 11 LKKGHRNTKIK---WANSLAQKTSKIVKMRPSRLKGIQTKNTKFTRDLVREVCGH--APY 65
+ + W +L K ++V+ ++ + N KF ++
Sbjct: 55 IMSKDAVSGTLRLFW--TLLSKQEEMVQKF---VEEVLRINYKFLMSPIKTEQRQPSMMT 109
Query: 66 EKRAMELLKVSKDKRALKFLKRRLGTHIRAKRKREELSNILTQMRKA 112
+ ++ D + F K ++ + +L L ++R A
Sbjct: 110 RMYIEQRDRLYNDNQ--VFAKY----NVSRLQPYLKLRQALLELRPA 150
Score = 27.5 bits (60), Expect = 1.3
Identities = 11/55 (20%), Positives = 21/55 (38%), Gaps = 7/55 (12%)
Query: 61 GH----APYEKRAMELLKVSKDKRALKFLKRRLGTHIRAKRKREELSNILTQMRK 111
GH + +R V D +FL++++ A + N L Q++
Sbjct: 478 GHHLKNIEHPERMTLFRMVFLD---FRFLEQKIRHDSTAWNASGSILNTLQQLKF 529
>3qfu_A 78 kDa glucose-regulated protein homolog; HSP70, KAR2, BIP,
chaperone; HET: ADP; 1.80A {Saccharomyces cerevisiae}
PDB: 3qfp_A 3qml_A 3ldo_A* 3ldl_A 3ldn_A* 3ldp_A*
Length = 394
Score = 25.2 bits (56), Expect = 6.8
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 8/30 (26%)
Query: 75 VSKDKRALKFLKRRLGTHI-RAKRKREELS 103
VS + +AL +L +AKR LS
Sbjct: 266 VSDNNKAL----AKLKREAEKAKR---ALS 288
>3i33_A Heat shock-related 70 kDa protein 2; protein-ADP complex,
ATP-binding, chaperone, nucleotide-BIND phosphoprotein,
stress response; HET: ADP; 1.30A {Homo sapiens} PDB:
1hx1_A 3jxu_A* 2qwl_A* 2qw9_A* 2qwm_A* 1hpm_A* 1ngi_A*
1ngj_A* 3hsc_A* 1ngb_A* 3ldq_A* 3fzf_A* 3fzk_A* 3fzl_A*
3fzm_A* 3fzh_A* 3m3z_A* 1ngh_A* 1ngd_A* 1ngf_A* ...
Length = 404
Score = 24.8 bits (55), Expect = 8.9
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 8/30 (26%)
Query: 75 VSKDKRALKFLKRRLGTHI-RAKRKREELS 103
+ +KRA+ RRL T RAKR LS
Sbjct: 274 IGPNKRAV----RRLRTACERAKR---TLS 296
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
0.319 0.130 0.366
Gapped
Lambda K H
0.267 0.0559 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,622,242
Number of extensions: 82790
Number of successful extensions: 231
Number of sequences better than 10.0: 1
Number of HSP's gapped: 227
Number of HSP's successfully gapped: 24
Length of query: 115
Length of database: 6,701,793
Length adjustment: 78
Effective length of query: 37
Effective length of database: 4,523,955
Effective search space: 167386335
Effective search space used: 167386335
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (23.8 bits)