RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1718
(142 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 = 76.5 bits (188), Expect = 2e-19
Identities = 2/53 (3%), Positives = 8/53 (15%)
Query: 2 RPSRLKGIQTKNTKFTRDLVREVCGHAPYEKRAMELLKVSKDKRALKFLKRRV 54
+ ++ E + + R +
Sbjct: 25 KQLLNGQKIVVVRAEELNISGEFFRNKLKYHDFLRKATAFNKTRGPFHFRAPS 77
>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 = 74.7 bits (183), Expect = 1e-18
Identities = 7/53 (13%), Positives = 11/53 (20%)
Query: 2 RPSRLKGIQTKNTKFTRDLVREVCGHAPYEKRAMELLKVSKDKRALKFLKRRV 54
L Q ++ K L K K + + R
Sbjct: 28 VAKELLNGQRVVVVRCEEICMSGGLVRQKMKYLRFLRKRMNTKPSHGPIHFRA 80
>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 = 72.7 bits (178), Expect = 6e-18
Identities = 21/56 (37%), Positives = 30/56 (53%), Gaps = 3/56 (5%)
Query: 2 RPSRLKGIQTKNTKFTRDLVREVCGHAPYEKRAMELLKVSK---DKRALKFLKRRV 54
+ KG K R ++REV G APYEKR +EL+K K+A K ++R+
Sbjct: 26 SAVQRKGKLGKRVALVRQVIREVTGFAPYEKRIIELIKAGSAKDSKKATKIARKRL 81
>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 = 33.8 bits (76), Expect = 0.009
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 43 DKRALKFLKRRVSLYVLRSAVVL 65
+K+ALK L+ + LY SA L
Sbjct: 18 EKQALKKLQASLKLYADDSAPAL 40
Score = 25.3 bits (54), Expect = 7.1
Identities = 6/25 (24%), Positives = 9/25 (36%), Gaps = 6/25 (24%)
Query: 116 KLSTKPQRLFTPTPRPRVSGWALCV 140
KL +L+ P AL +
Sbjct: 24 KLQAS-LKLYADDSAP-----ALAI 42
>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 = 33.9 bits (77), Expect = 0.012
Identities = 23/139 (16%), Positives = 42/139 (30%), Gaps = 46/139 (33%)
Query: 3 PS---RLKGIQTKNTKFTRDLVREVCGHAPYEKR------------------------AM 35
PS + + + +D V + H P K+ +
Sbjct: 335 PSPMLSISNL---TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNL 391
Query: 36 ELLKVS----KDKRALKFLKRRVSLYVLRSAVVLCPTKSRKFDRATRDIIRDRESSHFQL 91
L K D+ + F +R++ + R V P S A+ I +D ++
Sbjct: 392 TLRKAKAPSGLDQSRIPFSERKLK-FSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSF 450
Query: 92 SQ---KIPTTFVKCESFYH 107
+ +IP V Y
Sbjct: 451 NAKDIQIP---V-----YD 461
Score = 28.1 bits (62), Expect = 1.1
Identities = 12/78 (15%), Positives = 26/78 (33%), Gaps = 8/78 (10%)
Query: 27 HAPYEKRAMELLKVSKDKRALKF----LKRRVSLYVLRSAVVLCPTKSRKFDRATRDIIR 82
H+ A +L+ K + F ++ + +Y L +R IIR
Sbjct: 428 HSHLLVPASDLINKDLVKNNVSFNAKDIQ--IPVYDTFDGSDLRVLSGSISERIVDCIIR 485
Query: 83 DRESSHFQLSQKIPTTFV 100
++ + + T +
Sbjct: 486 LP--VKWETTTQFKATHI 501
>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 = 26.7 bits (58), Expect = 3.3
Identities = 26/124 (20%), Positives = 45/124 (36%), Gaps = 29/124 (23%)
Query: 3 PSRLKGIQTK--NTKFTRDLVREVCGHAPYEKRAM--ELLKVSKD--KRALKFLKRRVSL 56
P +K + K + + DL REV P + ++ E ++ +++
Sbjct: 300 PDEVKSLLLKYLDCRPQ-DLPREVLTTNPR-RLSIIAESIRDGLATWDNWKHVNCDKLTT 357
Query: 57 YVLRSAVVLCPTKSRK-FDRATRDIIRDRESSHFQLSQKIPTTFVKCESFYHNSIMLTWY 115
+ S VL P + RK FDR + + F S IPT + L W+
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLS--V--------FPPSAHIPT----------ILLSLIWF 397
Query: 116 KLST 119
+
Sbjct: 398 DVIK 401
Score = 25.6 bits (55), Expect = 8.3
Identities = 21/133 (15%), Positives = 41/133 (30%), Gaps = 45/133 (33%)
Query: 45 RALKFLKRRVSLYVLRSA--VVL-----CPTKS-------------RKFD---------- 74
R +LK R +L LR A V++ K+ K D
Sbjct: 133 RLQPYLKLRQALLELRPAKNVLIDGVLGS-GKTWVALDVCLSYKVQCKMDFKIFWLNLKN 191
Query: 75 -RATRDIIRDRESSHFQLSQKIPTTFVKCESFYHNSIMLTWYKLSTKPQRLFTPTPRPRV 133
+ ++ + +Q+ + S + ++I L + + + +RL P
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTS-----RSDHSSNIKLRIHSIQAELRRLLKSKPYEN- 245
Query: 134 SGWALC----VWS 142
L V +
Sbjct: 246 ---CLLVLLNVQN 255
>2yk0_A Erythrocyte membrane protein 1; adhesin, pfemp1; 2.80A {Plasmodium
falciparum}
Length = 790
Score = 25.6 bits (56), Expect = 7.1
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 6 LKGIQTKNTKFTRDLVREVCGHAPYE 31
L+ + KNT DL+ V A YE
Sbjct: 146 LEFLDNKNTNTAHDLLGNVLVTAKYE 171
>3v7o_A Minor nucleoprotein VP30; ssgcid, seattle structural genomics
center for infectious disease, SMT, transcription; 2.25A
{Reston ebolavirus}
Length = 227
Score = 25.1 bits (54), Expect = 9.8
Identities = 10/35 (28%), Positives = 18/35 (51%)
Query: 59 LRSAVVLCPTKSRKFDRATRDIIRDRESSHFQLSQ 93
LR+ + LC +RKF ++ ++ + H L Q
Sbjct: 122 LRALLTLCAVLTRKFSKSQLGLLCETHLRHEGLGQ 156
>2xu0_A Erythrocyte membrane protein 1; adhesion, virulence,
duffy-binding-like-DO; 2.06A {Plasmodium falciparum palo
alto}
Length = 487
Score = 25.1 bits (55), Expect = 9.9
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 6 LKGIQTKNTKFTRDLVREVCGHAPYE 31
L+ + KNT DL+ V A YE
Sbjct: 143 LEFLDNKNTNTAHDLLGNVLVTAKYE 168
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 0.134 0.416
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: 2,024,541
Number of extensions: 99683
Number of successful extensions: 270
Number of sequences better than 10.0: 1
Number of HSP's gapped: 269
Number of HSP's successfully gapped: 26
Length of query: 142
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 58
Effective length of database: 4,356,429
Effective search space: 252672882
Effective search space used: 252672882
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: 52 (24.2 bits)