RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2841
(178 letters)
>4a18_U RPL13, 60S ribosomal protein L36; ribosome, eukaryotic initiation
factor 6, EIF6, transla large ribosomal subunit, rRNA;
3.52A {Tetrahymena thermophila} PDB: 4a19_U 4a1b_U
4a1d_U
Length = 206
Score = 177 bits (449), Expect = 4e-57
Identities = 68/179 (37%), Positives = 100/179 (55%), Gaps = 2/179 (1%)
Query: 1 MIPNAHFHKDWQKYIKCWFNQPARKFRRRQARIKKAKEIAPRPAAGPLRPIVRCPTVRYH 60
+P A K Q IK +FNQ A+K R AR +A + PRP L+P+VR T RY+
Sbjct: 6 QLPVAQLRKHQQFRIKTFFNQAAQKKARLHARRAQAAAVFPRPT-EKLQPVVRKQTQRYN 64
Query: 61 KRVRAGRGFTLEEIRGAGLNARFARSVGIAVDARRRSKSMESLQLNIQRLKEYKSKLIVF 120
K + GRGFTL+E++ AG++A FA+S+GI VD RR+++ ESL+LN +RL Y SKL++F
Sbjct: 65 KSTKLGRGFTLQELKAAGISAAFAQSIGIKVDHRRKNRCQESLELNKKRLLAYVSKLVLF 124
Query: 121 PRREKK-KLRKGEATPEERKVATQLKGPLMPIRQSKPKSKARIPSEAEKKFSAFQTLRM 178
PR + K K T + A +P+ + KA +K ++ +R
Sbjct: 125 PRHQGKAKKGLVNDTADTSSAAQNALQTSVPLPSVSKREKAVSNIAELRKKKVYRIIRQ 183
>3u5e_L 60S ribosomal protein L13-A, 60S ribosomal protein L11-A;
translation, ribosome, ribosomal R ribosomal protein,
STM1, eukaryotic ribosome; 3.00A {Saccharomyces
cerevisiae} PDB: 3u5i_L
Length = 199
Score = 158 bits (400), Expect = 1e-49
Identities = 79/178 (44%), Positives = 106/178 (59%), Gaps = 13/178 (7%)
Query: 1 MIPNAHFHKDWQKYIKCWFNQPARKFRRRQARIKKAKEIAPRPAAGPLRPIVRCPTVRYH 60
I HF K WQ+ +K F+Q +K RR AR +A +IAPRP LRP+VR PTV+Y+
Sbjct: 8 PILKNHFRKHWQERVKVHFDQAGKKVSRRNARATRAAKIAPRPL-DLLRPVVRAPTVKYN 66
Query: 61 KRVRAGRGFTLEEIRGAGLNARFARSVGIAVDARRRSKSMESLQLNIQRLKEYKSKLIVF 120
++VRAGRGFTL E++ AGL A +AR++GIAVD RR++++ E N+QRLKEY+SK+IVF
Sbjct: 67 RKVRAGRGFTLAEVKAAGLTAAYARTIGIAVDHRRQNRNQEIFDANVQRLKEYQSKIIVF 126
Query: 121 PRREKKKLRKGEATPEERKVATQLKGPLMPIRQSKPKSKARIPSEAEKKFSAFQTLRM 178
PR K PI Q +AR + SAF+TLR+
Sbjct: 127 PRNGKAP----------EAEQVLSAAATFPIAQPATDVEARAVQ--DNGESAFRTLRL 172
>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 = 30.2 bits (67), Expect = 0.38
Identities = 17/75 (22%), Positives = 25/75 (33%), Gaps = 9/75 (12%)
Query: 96 RSKSMESLQLNIQRLKEYKSKLIVFPRREK---KKLRK--GEATPEE-RKVATQLKGPLM 149
S+ L+ R K + L VFP L + + V +L +
Sbjct: 359 IESSLNVLEPAEYR-KMFDR-LSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416
Query: 150 PIRQSKPKSKARIPS 164
+Q K S IPS
Sbjct: 417 VEKQPKE-STISIPS 430
>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 = 28.8 bits (63), Expect = 0.61
Identities = 7/36 (19%), Positives = 15/36 (41%), Gaps = 13/36 (36%)
Query: 124 EKKKLRKGEAT-----PEERKVATQLKGPLMPIRQS 154
EK+ L+K +A+ + P + I+ +
Sbjct: 18 EKQALKKLQASLKLYADDS--------APALAIKAT 45
>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis,
CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA
synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A*
3qo8_A* 3qo5_A
Length = 485
Score = 29.1 bits (66), Expect = 0.89
Identities = 18/93 (19%), Positives = 29/93 (31%), Gaps = 17/93 (18%)
Query: 61 KRVRAGRGFTLEEIRGAGLNARFARSVG-----IAVDARRRSKSMESLQLNIQRLKEYKS 115
+G E I+ A R SV IA + + N +
Sbjct: 5 NAFLVEKGGDPEIIK-ASQKKRGD-SVELVDEIIAEYKEWVKLRFDLDEHNKKLNS--VQ 60
Query: 116 KLIVFPRREKKKLRKGEATP---EERKVATQLK 145
K I K+ K +A E+ K++ + K
Sbjct: 61 KEI-----GKRFKAKEDAKDLIAEKEKLSNEKK 88
>3hrp_A Uncharacterized protein; NP_812590.1, structural genomics protein
of unknown function structural genomics; HET: MSE; 1.70A
{Bacteroides thetaiotaomicron vpi-5482}
Length = 409
Score = 28.8 bits (64), Expect = 1.1
Identities = 7/18 (38%), Positives = 9/18 (50%)
Query: 76 GAGLNARFARSVGIAVDA 93
G A FA+ G+ VD
Sbjct: 315 GLREEALFAQPNGMTVDE 332
>3vbb_A Seryl-tRNA synthetase, cytoplasmic; coiled-coil, ligase; 2.89A
{Homo sapiens}
Length = 522
Score = 27.4 bits (61), Expect = 2.7
Identities = 21/114 (18%), Positives = 35/114 (30%), Gaps = 9/114 (7%)
Query: 61 KRVRAGRGFTLEEIRGAGLNARFARSVG-----IAVDARRRSKSMESLQLNIQRLKEYKS 115
R +G IR RF G + D+ R + LN + S
Sbjct: 6 DLFRVDKGGDPALIR-ETQEKRFK-DPGLVDQLVKADSEWRRCRFRADNLNKLKNL--CS 61
Query: 116 KLIVFPRREKKKLRKGEATPEERKVATQLKGPLMPIRQSKPKSKARIPSEAEKK 169
K I ++K+ + E+ PE L + + K R+ +
Sbjct: 62 KTIGEKMKKKEPVGDDESVPENVLSFDDLTADALANLKVSQIKKVRLLIDEAIL 115
>2wsi_A FAD synthetase; transferase, nucleotidyltransferase,
nucleotide-binding; HET: FAD; 1.90A {Saccharomyces
cerevisiae}
Length = 306
Score = 25.7 bits (55), Expect = 9.2
Identities = 10/63 (15%), Positives = 24/63 (38%)
Query: 101 ESLQLNIQRLKEYKSKLIVFPRREKKKLRKGEATPEERKVATQLKGPLMPIRQSKPKSKA 160
++ + Y L R+ + +A + K+ + + ++ IR + P +A
Sbjct: 115 TLENFVLETSERYCLSLYESQRQSGASVNMADAFRDFIKIYPETEAIVIGIRHTDPFGEA 174
Query: 161 RIP 163
P
Sbjct: 175 LKP 177
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
0.322 0.134 0.396
Gapped
Lambda K H
0.267 0.0539 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,731,771
Number of extensions: 158684
Number of successful extensions: 406
Number of sequences better than 10.0: 1
Number of HSP's gapped: 400
Number of HSP's successfully gapped: 24
Length of query: 178
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 91
Effective length of database: 4,272,666
Effective search space: 388812606
Effective search space used: 388812606
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 (21.9 bits)
S2: 54 (25.0 bits)