RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3566
(105 letters)
>2vqe_J 30S ribosomal protein S10, 30S ribosomal protein S6; tRNA-binding,
rRNA-binding, metal-binding, zinc-finger, translation;
HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP:
d.58.15.1 PDB: 1gix_M* 1hnw_J* 1hnx_J* 1hnz_J* 1hr0_J
1ibk_J* 1ibl_J* 1ibm_J 1jgo_M* 1jgp_M* 1jgq_M* 1ml5_M*
1xmo_J* 1xmq_J* 1xnq_J* 1xnr_J* 1yl4_M 2b64_J* 2b9m_J*
2b9o_J* ...
Length = 105
Score = 30.4 bits (69), Expect = 0.034
Identities = 13/65 (20%), Positives = 28/65 (43%), Gaps = 2/65 (3%)
Query: 40 VQLKGYDFPVLESYQKFVYKIAASLSIQSDESWALPPQKFNITRMEPNSSVVDA--NYHL 97
++L+G+D L++ + + + A Q LP + T + D+ ++ L
Sbjct: 6 IKLRGFDHKTLDASAQKIVEAARRSGAQVSGPIPLPTRVRRFTVIRGPFKHKDSREHFEL 65
Query: 98 RIYER 102
R + R
Sbjct: 66 RTHNR 70
>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 = 31.7 bits (71), Expect = 0.035
Identities = 15/107 (14%), Positives = 37/107 (34%), Gaps = 29/107 (27%)
Query: 2 KFNAFSSVSDSGSKTTNLFEPD---YLDHLNPEIPLYDEVNVQLKGYDFPVLESYQKFVY 58
K S+ ++ N + Y ++ P Y+ ++ + F+
Sbjct: 506 KIRHDSTAWNASGSILNTLQ-QLKFYKPYICDNDPKYER-----------LVNAILDFLP 553
Query: 59 KIAASLSIQSDESWALPPQKFNITR---MEPNSSVVDANYHLRIYER 102
KI +L I S + ++ R M + ++ + + + +R
Sbjct: 554 KIEENL-ICSKYT--------DLLRIALMAEDEAIFEEAH--KQVQR 589
Score = 27.5 bits (60), Expect = 0.78
Identities = 16/126 (12%), Positives = 36/126 (28%), Gaps = 45/126 (35%)
Query: 6 FSSVSDSGSKTTNLFEPDYLDHL----NPEIPLYDEVNVQLKGYDFPVLESYQKFVYKIA 61
V D ++ + +DH+ + F L S Q+ + +
Sbjct: 35 CKDVQDM---PKSILSKEEIDHIIMSKDAVSGTL---------RLFWTLLSKQEEMVQKF 82
Query: 62 ASLSIQSDESWALPP-----------------------------QKFNITRMEPNSSVVD 92
++ + + + P K+N++R++P +
Sbjct: 83 VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ 142
Query: 93 ANYHLR 98
A LR
Sbjct: 143 ALLELR 148
Score = 26.0 bits (56), Expect = 3.1
Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 4/59 (6%)
Query: 49 VLESYQKFVYKIAASLSIQSDESWALPPQKFNITRMEPNSSVVDANYH--LRIYERNVQ 105
VLE QK +Y+I + + +SD S + + + E + Y L + NVQ
Sbjct: 198 VLEMLQKLLYQIDPNWTSRSDHSSN-IKLRIHSIQAELRRLLKSKPYENCLLVL-LNVQ 254
>3r8n_J 30S ribosomal protein S10; protein biosynthesis, RNA, tRNA,
transfer RNA, 16S ribosomal subunit, RRF; 3.00A
{Escherichia coli} PDB: 2ykr_J 3fih_J* 2wwl_J 3oar_J
3oaq_J 3ofb_J 3ofa_J 3ofp_J 3ofx_J 3ofy_J 3ofo_J 3r8o_J
4a2i_J 3i1m_J 1p6g_J 1p87_J* 1vs7_J* 2avy_J 2aw7_J
1vs5_J ...
Length = 98
Score = 29.2 bits (66), Expect = 0.097
Identities = 14/65 (21%), Positives = 26/65 (40%), Gaps = 2/65 (3%)
Query: 40 VQLKGYDFPVLESYQKFVYKIAASLSIQSDESWALPPQKFNITRMEPNSSVVDA--NYHL 97
++LK +D +++ + + A Q LP +K T + DA Y +
Sbjct: 4 IRLKAFDHRLIDQATAEIVETAKRTGAQVRGPIPLPTRKERFTVLISPHVNKDARDQYEI 63
Query: 98 RIYER 102
R + R
Sbjct: 64 RTHLR 68
>3bbn_J Ribosomal protein S10; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 197
Score = 29.7 bits (66), Expect = 0.14
Identities = 13/67 (19%), Positives = 32/67 (47%), Gaps = 2/67 (2%)
Query: 38 VNVQLKGYDFPVLESYQKFVYKIAASLSIQSDESWALPPQKFNITRMEPNSSVVDA--NY 95
+ ++L+ Y P++E K + A + + ++ LP +K ++ DA ++
Sbjct: 101 IRIKLRSYWVPLIEDSCKQIMDAARTTNAKTMGPVPLPTKKRIFCVLKSPHVHKDARFHF 160
Query: 96 HLRIYER 102
+R ++R
Sbjct: 161 EIRTHQR 167
>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 = 28.0 bits (61), Expect = 0.39
Identities = 11/32 (34%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 54 QKFVYKIAASLSIQSDESWALPPQKFNITRME 85
++ + K+ ASL + +D+S A P T ME
Sbjct: 19 KQALKKLQASLKLYADDS-A-PALAIKAT-ME 47
>3u5c_U 40S ribosomal protein S20; translation, ribosome, ribosomal,
ribosomal R ribosomal protein, eukaryotic ribosome,
RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB:
3izb_J 3o30_N 3o2z_N 3u5g_U 1s1h_J 3jyv_J*
Length = 121
Score = 25.6 bits (56), Expect = 2.6
Identities = 8/43 (18%), Positives = 15/43 (34%)
Query: 40 VQLKGYDFPVLESYQKFVYKIAASLSIQSDESWALPPQKFNIT 82
+ L LE+ + K A ++ LP + I+
Sbjct: 24 ITLTSTKVKQLENVSSNIVKNAEQHNLVKKGPVRLPTKVLKIS 66
>3al5_A HTYW5, JMJC domain-containing protein C2ORF60; tRNA modification
enzyme, unknown function; 2.50A {Homo sapiens} PDB:
3al6_A*
Length = 338
Score = 25.7 bits (56), Expect = 3.2
Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 5/45 (11%)
Query: 12 SGSKTTNLFEPDYLDHLNPEIPLYDEVNVQLKGYDFPVLESYQKF 56
+G K LF P +L + + +N+ D P L Y F
Sbjct: 195 TGKKRVVLFSPRDAQYLYLKGTKSEVLNI-----DNPDLAKYPLF 234
>3iz6_J 40S ribosomal protein S20 (S10P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 128
Score = 24.5 bits (53), Expect = 6.2
Identities = 12/65 (18%), Positives = 21/65 (32%), Gaps = 2/65 (3%)
Query: 40 VQLKGYDFPVLESYQKFVYKIAASLSIQSDESWALPPQKFNITRMEPNSSVVDANYHLRI 99
+ L LE + K A S++ +P + +IT S +
Sbjct: 31 ITLSSKSVKNLEKVCGDLVKGAKDKSLKVKGPVRMPTKVLHIT--TRKSPCGEGTNTWDR 88
Query: 100 YERNV 104
+E V
Sbjct: 89 FEMRV 93
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 0.132 0.382
Gapped
Lambda K H
0.267 0.0656 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,543,167
Number of extensions: 75226
Number of successful extensions: 119
Number of sequences better than 10.0: 1
Number of HSP's gapped: 119
Number of HSP's successfully gapped: 19
Length of query: 105
Length of database: 6,701,793
Length adjustment: 70
Effective length of query: 35
Effective length of database: 4,747,323
Effective search space: 166156305
Effective search space used: 166156305
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 (21.6 bits)
S2: 51 (23.6 bits)