RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy873
(141 letters)
>3u5e_D 60S ribosomal protein L5; translation, ribosome, ribosomal R
ribosomal protein, STM1, eukaryotic ribosome; 3.00A
{Saccharomyces cerevisiae} PDB: 3u5i_D 3izc_Q 3izs_Q
3o58_E 3o5h_E 3jyw_E 1s1i_E
Length = 297
Score = 89.9 bits (223), Expect = 2e-24
Identities = 7/50 (14%), Positives = 11/50 (22%)
Query: 91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDASA 140
I S V L+ + + + L W L
Sbjct: 64 IISSTITGDVVLAAAYSHELPRYGITHGLTNWAAAYATGLLIARRTLQKL 113
>4a17_W RPL31, 60S ribosomal protein L31; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_W 4a1c_W 4a1e_W
Length = 111
Score = 89.1 bits (221), Expect = 3e-24
Identities = 20/48 (41%), Positives = 32/48 (66%)
Query: 91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVDA 138
IR++P R+RVRL +R+N++E + + YTLV + V ++ L TE A
Sbjct: 63 IRNIPRRVRVRLCKRKNEEEGAQSQFYTLVQHLQVDSYHGLLTEKTKA 110
>2zkr_x 60S ribosomal protein L31; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 125
Score = 88.4 bits (219), Expect = 7e-24
Identities = 38/47 (80%), Positives = 44/47 (93%)
Query: 91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTWVPVPTFKELQTENVD 137
IR+VP+RIRVRLSR+RN+DEDSP+KLYTLVT+VPV TFK LQT NVD
Sbjct: 77 IRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVD 123
>3iz5_G 60S ribosomal protein L6 (L6E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_G
Length = 219
Score = 82.3 bits (203), Expect = 2e-21
Identities = 3/51 (5%), Positives = 8/51 (15%), Gaps = 2/51 (3%)
Query: 91 IRSVPFRIRVRLSRRRNDDEDSPHKLYTLVTW--VPVPTFKELQTENVDAS 139
++ + L R + + P
Sbjct: 72 RSTITPGTVLILLAGRYMGKRVVFLKQLQSGLLLITGPFKINGVPIRRVNQ 122
>1vq8_X 50S ribosomal protein L31E; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: d.29.1.1 PDB: 1vq4_X*
1vq5_X* 1vq6_X* 1vq7_X* 1s72_X* 1vq9_X* 1vqk_X* 1vql_X*
1vqm_X* 1vqn_X* 1vqo_X* 1vqp_X* 1yhq_X* 1yi2_X* 1yij_X*
1yit_X* 1yj9_X* 1yjn_X* 1yjw_X* 2otj_X* ...
Length = 92
Score = 38.2 bits (89), Expect = 8e-05
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 91 IRSVPFRIRVRLSRRRNDDED 111
+ P +IRVR +R + E
Sbjct: 64 RANTPSKIRVRAARFEEEGEA 84
>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 = 34.9 bits (79), Expect = 0.004
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 6/28 (21%)
Query: 7 LENSQKLQAVLPSVKDKSKPSAATSYTI 34
L+ S KL A D S P+ A T+
Sbjct: 25 LQASLKLYA--D---D-SAPALAIKATM 46
>1mq8_A ICAM-1, intercellular adhesion molecule-1, CD54 antigen; IG
superfamily, rossmann fold, metal mediated protein
interf immune system; HET: NAG; 3.30A {Homo sapiens}
SCOP: b.1.1.3 b.1.1.4
Length = 291
Score = 29.4 bits (65), Expect = 0.37
Identities = 18/112 (16%), Positives = 37/112 (33%), Gaps = 7/112 (6%)
Query: 5 LLLENSQKLQAVLPSVKDKSKPSAATSYTIGGVKVEFPVKAY-PSQISMMTKESSKYISS 63
LLL + + L +V++ S+P ++ G + + Y + + S
Sbjct: 42 LLLPGNNRKVYELSNVQEDSQPMCYSNCPDGQSTAKTFLTVYWTPERVELAPLPSWQPVG 101
Query: 64 MHLSVLCTVDLSCPI------WFWWGTSLINMDIRSVPFRIRVRLSRRRNDD 109
+L++ C V+ P L P + + RR+
Sbjct: 102 KNLTLRCQVEGGAPRANLTVVLLRGEKELKREPAVGEPAEVTTTVLVRRDHH 153
>2kl8_A OR15; structural genomics, PSI-2, protein structure initiative,
de novo protein, ferrodoxin fold; NMR {Artificial gene}
Length = 85
Score = 26.6 bits (58), Expect = 1.3
Identities = 13/62 (20%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 14 QAVLPSVKDKSKPSAATSYTIGGVKVEFPVKAYPSQISM-MTKESSKYISSMHLSVLCTV 72
+A+ ++ K + +YT+ G +E + P Q+ + KE+ + +++V T+
Sbjct: 17 KALKEMIRQARKFAGTVTYTLDGNDLEIRITGVPEQVRKELAKEAERLAKEFNITVTYTI 76
Query: 73 DL 74
L
Sbjct: 77 RL 78
>1zxq_A ICAM-2, intercellular adhesion molecule-2; immunoglobulin fold,
cell adhesion, glycoprotein, transmembr; HET: NAG; 2.20A
{Homo sapiens} SCOP: b.1.1.3 b.1.1.4
Length = 192
Score = 27.4 bits (60), Expect = 1.7
Identities = 14/71 (19%), Positives = 24/71 (33%), Gaps = 8/71 (11%)
Query: 40 EFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIR 99
F V P ++++ K S L V C+ + P TSL + +
Sbjct: 2 VFEVHVRPKKLAVEPKGS--------LEVNCSTTCNQPEVGGLETSLNKILLDEQAQWKH 53
Query: 100 VRLSRRRNDDE 110
+S +D
Sbjct: 54 YLVSNISHDTV 64
>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 = 27.3 bits (60), Expect = 1.9
Identities = 14/79 (17%), Positives = 27/79 (34%), Gaps = 26/79 (32%)
Query: 3 EDLLLENSQKLQAVLPSVKDKSKPSAATSYTIGGVKVEFPVKA---YPSQISMMTKESSK 59
DL+ +++ L ++ + D K +T G + PS
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEK-----VFTQG-----LNILEWLENPS-----NTPDKD 229
Query: 60 YISSMHLSVLCTVDLSCPI 78
Y L ++ +SCP+
Sbjct: 230 Y--------LLSIPISCPL 240
>3bn3_B ICAM-5, intercellular adhesion molecule 5, telencephalin; I domain,
integrin, allosteric mobility, cell adhesi immune
system; HET: NAG; 2.10A {Homo sapiens}
Length = 196
Score = 26.2 bits (57), Expect = 4.3
Identities = 11/70 (15%), Positives = 19/70 (27%), Gaps = 8/70 (11%)
Query: 40 EFPVKAYPSQISMMTKESSKYISSMHLSVLCTVDLSCPIWFWWGTSLINMDIRSVPFRIR 99
F P + S L + C+ + P TSL + +
Sbjct: 2 PFWADLQPRVAFVERGGS--------LWLNCSTNCPRPERGGLETSLRRNGTQRGLRWLA 53
Query: 100 VRLSRRRNDD 109
+L R +
Sbjct: 54 RQLVDIREPE 63
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
0.317 0.130 0.390
Gapped
Lambda K H
0.267 0.0628 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,009,223
Number of extensions: 100203
Number of successful extensions: 137
Number of sequences better than 10.0: 1
Number of HSP's gapped: 134
Number of HSP's successfully gapped: 13
Length of query: 141
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 57
Effective length of database: 4,356,429
Effective search space: 248316453
Effective search space used: 248316453
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 (21.7 bits)
S2: 52 (24.0 bits)