RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5754
(67 letters)
>3iz5_Q 60S ribosomal protein L5 (L18P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_Q
Length = 304
Score = 54.3 bits (130), Expect = 7e-11
Identities = 24/67 (35%), Positives = 28/67 (41%), Gaps = 8/67 (11%)
Query: 1 MYKKAHENIRADPAHIKKEKKTPTVDSKGKIQKPKRWNKKKLTLAQRKERVSTAKANFLK 60
+YKK H IRADP K KK P KR+N KKLT QRK +
Sbjct: 239 LYKKVHAAIRADPTMAKSTKKEP--------ATHKRYNLKKLTYEQRKASLVERLNALNS 290
Query: 61 KLGKETA 67
G +
Sbjct: 291 SAGADDD 297
>2zkr_n 60S ribosomal protein L5; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 297
Score = 53.1 bits (127), Expect = 2e-10
Identities = 29/66 (43%), Positives = 40/66 (60%), Gaps = 9/66 (13%)
Query: 1 MYKKAHENIRADPAHIKKEKKTPTVDSKGKIQKPKRWNKKKLTLAQRKERVSTAKANFLK 60
MYKKAH IR +P + KK KK K KRWN+ K++LAQ+K+RV+ KA+FL+
Sbjct: 239 MYKKAHAAIRENPVYEKKPKKEV---------KKKRWNRPKMSLAQKKDRVAQKKASFLR 289
Query: 61 KLGKET 66
+
Sbjct: 290 AQERAA 295
>4a17_M RPL5, 60S ribosomal protein L5; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_M 4a1c_M 4a1e_M
Length = 301
Score = 53.2 bits (127), Expect = 2e-10
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 1 MYKKAHENIRADPAHIKKEKKTPTVDSKGKIQKPKRWNKKKLTLAQRKERVSTAKANFLK 60
++ K H IR +P +K KK K++ KLT AQRK+RV T L
Sbjct: 246 LFTKVHAEIRKNPERVKSTKKNDKPKR-----DHKKFYPTKLTAAQRKDRVKTKFQLALS 300
Query: 61 K 61
+
Sbjct: 301 Q 301
>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 = 50.5 bits (120), Expect = 2e-09
Identities = 20/61 (32%), Positives = 29/61 (47%), Gaps = 3/61 (4%)
Query: 1 MYKKAHENIRADPAHIKKEKKTPTVDSKGKIQKPKRWNKKKLTLAQRKERVSTAKANFLK 60
+Y AHE IRADPA EKK + K++ + KL+ +R RV+ A
Sbjct: 239 IYTSAHEAIRADPAFKPTEKKFTKEQYAAE---SKKYRQTKLSKEERAARVAAKIAALAG 295
Query: 61 K 61
+
Sbjct: 296 Q 296
>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 = 28.9 bits (64), Expect = 0.088
Identities = 7/30 (23%), Positives = 15/30 (50%), Gaps = 3/30 (10%)
Query: 30 KIQKPKRWNKKKLTLAQRKERVSTAKANFL 59
K + P ++ ++ ++RK + S FL
Sbjct: 395 KAKAPSGLDQSRIPFSERKLKFSN---RFL 421
>3obq_A Tumor susceptibility gene 101 protein; protein transprot, ubiquitin
binding, protein transport; 1.40A {Homo sapiens} PDB:
3obs_A 3obu_A 3obx_A 3p9g_A* 3p9h_A* 2f0r_A 1kpp_A
1kpq_A 1m4p_A 1m4q_A 1s1q_A
Length = 146
Score = 27.2 bits (60), Expect = 0.29
Identities = 10/37 (27%), Positives = 12/37 (32%), Gaps = 2/37 (5%)
Query: 12 DPAHIKKEKKTPTVDSKGKIQKP--KRWNKKKLTLAQ 46
P K VD+ GKI P W + L
Sbjct: 91 KPTSSMTIKTGKHVDANGKIYLPYLHEWKHPQSDLLG 127
>3u5i_q A0, L10E, 60S acidic ribosomal protein P0; translation, ribosome,
ribosomal R ribosomal protein, STM1; 3.00A
{Saccharomyces cerevisiae} PDB: 3izc_s 3izs_s 3j16_G*
3o5h_M 3jyw_8
Length = 312
Score = 24.3 bits (52), Expect = 3.2
Identities = 10/64 (15%), Positives = 20/64 (31%), Gaps = 7/64 (10%)
Query: 6 HENIRADPAHIKKEKKT--PTVDSKGKIQKPKRWNKKKLTLAQRKERVSTAKANFLKKLG 63
N +P + PT ++G I + + +V ++A+ L L
Sbjct: 123 AVNTGMEPGKTSFFQALGVPTKIARGTI-----EIVSDVKVVDAGNKVGQSEASLLNLLN 177
Query: 64 KETA 67
Sbjct: 178 ISPF 181
>1vzo_A Ribosomal protein S6 kinase alpha 5; protein kinase, transferase,
phosphorylation, serine/threonine protein kinase; 1.8A
{Homo sapiens} SCOP: d.144.1.7
Length = 355
Score = 23.8 bits (52), Expect = 5.2
Identities = 10/64 (15%), Positives = 17/64 (26%)
Query: 1 MYKKAHENIRADPAHIKKEKKTPTVDSKGKIQKPKRWNKKKLTLAQRKERVSTAKANFLK 60
M H + + + G+ + + L E+V LK
Sbjct: 1 MAHHHHHHEEEGGSSGGAAGTSADGGDGGEQLLTVKHELRTANLTGHAEKVGIENFELLK 60
Query: 61 KLGK 64
LG
Sbjct: 61 VLGT 64
>3rpj_A Curlin genes transcriptional regulator; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG,
transcription RE; 1.90A {Proteus mirabilis}
Length = 134
Score = 23.4 bits (50), Expect = 6.3
Identities = 6/36 (16%), Positives = 10/36 (27%)
Query: 29 GKIQKPKRWNKKKLTLAQRKERVSTAKANFLKKLGK 64
G K W + ++ E + F L
Sbjct: 77 GLFDKNGDWVNQVISKKDVIESIHETLIRFHDFLQA 112
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 23.2 bits (49), Expect = 9.4
Identities = 13/62 (20%), Positives = 27/62 (43%), Gaps = 9/62 (14%)
Query: 5 AHENIRADPAHIKK--EKKTPTV---DSKGKIQKPKRWNKKKLTL----AQRKERVSTAK 55
+ + +P I+K E++ + D+ K+ + + K K L ++ E+V K
Sbjct: 76 QADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNK 135
Query: 56 AN 57
N
Sbjct: 136 IN 137
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
0.309 0.123 0.340
Gapped
Lambda K H
0.267 0.0530 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 919,909
Number of extensions: 39436
Number of successful extensions: 78
Number of sequences better than 10.0: 1
Number of HSP's gapped: 71
Number of HSP's successfully gapped: 18
Length of query: 67
Length of database: 6,701,793
Length adjustment: 38
Effective length of query: 29
Effective length of database: 5,640,795
Effective search space: 163583055
Effective search space used: 163583055
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 51 (23.9 bits)