RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8483
(161 letters)
>3o58_A L10A, 60S ribosomal protein L1; ribosomal RNA and proteins,
ribosome; 4.00A {Saccharomyces cerevisiae} PDB: 3izc_A
3izs_A 1s1i_A 3o5h_A 2noq_G 3j0l_B 3j0o_B 3j0p_B 3j0q_B
3jyw_A
Length = 217
Score = 202 bits (516), Expect = 3e-67
Identities = 93/160 (58%), Positives = 121/160 (75%), Gaps = 1/160 (0%)
Query: 3 SKVSRDTLYECVNGVLNNAKVNKKR-FLQTVELQIGLKNYDPQKDKRFSGTVKLKHIPRP 61
SK++ + E V +L + KKR FL+TVELQ+GLKNYDPQ+DKRFSG++KL + PRP
Sbjct: 2 SKITSSQVREHVKELLKYSNETKKRNFLETVELQVGLKNYDPQRDKRFSGSLKLPNCPRP 61
Query: 62 KMQVCILGDQQHCDEAKAANVPFMDVEALKKLNKNKKLVKKLAKKYDAFLASDALIKQIP 121
M +CI GD D AK+ V M V+ LKKLNKNKKL+KKL+KKY+AF+AS+ LIKQ+P
Sbjct: 62 NMSICIFGDAFDVDRAKSCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIASEVLIKQVP 121
Query: 122 RLLGPGLNKAGKFPGLLSHQESMTQKIDEVKGTIKFQMKK 161
RLLGP L+KAGKFP +SH + + K+ +V+ TIKFQ+KK
Sbjct: 122 RLLGPQLSKAGKFPTPVSHNDDLYGKVTDVRSTIKFQLKK 161
>3iz5_A 60S ribosomal protein L1 (L1P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_A
Length = 216
Score = 197 bits (502), Expect = 4e-65
Identities = 107/159 (67%), Positives = 134/159 (84%)
Query: 3 SKVSRDTLYECVNGVLNNAKVNKKRFLQTVELQIGLKNYDPQKDKRFSGTVKLKHIPRPK 62
SK+ D + + + ++ A+ K++F +TVELQIGLKNYDPQKDKRFSG+VKL HIPRPK
Sbjct: 2 SKLQSDAVKDAITQIVGEAREKKRKFTETVELQIGLKNYDPQKDKRFSGSVKLPHIPRPK 61
Query: 63 MQVCILGDQQHCDEAKAANVPFMDVEALKKLNKNKKLVKKLAKKYDAFLASDALIKQIPR 122
M+VC+LGD QH D+A+ + +MDVE+LKK+NKNKKLVKKLAKKY AFLAS+A+IKQIPR
Sbjct: 62 MRVCMLGDAQHVDQAEKMGLDYMDVESLKKMNKNKKLVKKLAKKYHAFLASEAIIKQIPR 121
Query: 123 LLGPGLNKAGKFPGLLSHQESMTQKIDEVKGTIKFQMKK 161
LLGPGLNKAGKFP L+SHQES+ K++E K T+KFQ+KK
Sbjct: 122 LLGPGLNKAGKFPTLVSHQESLEAKVNETKATVKFQLKK 160
>1mzp_A 50S ribosomal protein L1P; ribosome, RNA-protein complex; 2.65A
{Sulfolobus acidocaldarius} SCOP: e.24.1.1 PDB: 1pnu_5
1pny_5 1vor_7 1vou_7 1vow_7 1voy_7 1vp0_7 3e1b_Z 3e1d_Z
Length = 217
Score = 184 bits (469), Expect = 5e-60
Identities = 44/159 (27%), Positives = 78/159 (49%), Gaps = 2/159 (1%)
Query: 5 VSRDTLYECVNGVLNNAKVNKKRFLQTVELQIGLKNYDPQK-DKRFSGTVKLKHIPRPKM 63
+++L E + L+ K+ F Q+VE+ + K D +K D + V L P
Sbjct: 3 ADKESLIEALKLALSTEYNVKRNFTQSVEIILTFKGIDMKKGDLKLREIVPLPKQPSKAK 62
Query: 64 QVCILGDQQHCDEAKAANVPF-MDVEALKKLNKNKKLVKKLAKKYDAFLASDALIKQIPR 122
+V ++ + + AK A+ + E L+KL K+ VKKLA++ + FL + + R
Sbjct: 63 RVLVVPSSEQLEYAKKASPKVVITREELQKLQGQKRPVKKLARQNEWFLINQESMALAGR 122
Query: 123 LLGPGLNKAGKFPGLLSHQESMTQKIDEVKGTIKFQMKK 161
+LGP L GKFP L + +++ I+ K ++ + K
Sbjct: 123 ILGPALGPRGKFPTPLPNTADISEYINRFKRSVLVKTKD 161
>2zkr_5 60S ribosomal protein L10A; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 212
Score = 182 bits (464), Expect = 2e-59
Identities = 35/158 (22%), Positives = 71/158 (44%), Gaps = 3/158 (1%)
Query: 5 VSRDTLYECVNGVLNNAKVNKKRFLQTVELQIGLKNYDP-QKDKRFSGTVKLKHIPRPKM 63
++ + V+ L +A ++ F +TV+L + L++ D R +V L +
Sbjct: 1 MADQEIENAVSRALEDAP--ERNFRETVDLAVNLRDLDLNDPSNRVDESVVLPAGTGQET 58
Query: 64 QVCILGDQQHCDEAKAANVPFMDVEALKKLNKNKKLVKKLAKKYDAFLASDALIKQIPRL 123
+ + + + A+ +D + L++L + K LA D F+A L++ I R
Sbjct: 59 TIVVFAEGETALRAEEVADDVLDEDELEELGGDDDAAKDLADDTDFFIAEKGLMQDIGRY 118
Query: 124 LGPGLNKAGKFPGLLSHQESMTQKIDEVKGTIKFQMKK 161
LG L GK P L + + + I+ +K T++ + +
Sbjct: 119 LGTVLGPRGKMPEPLDPDDDVVEVIERMKNTVQLRSGE 156
>1i2a_A 50S ribosomal protein L1P; primary rRNA-binding protein,
translation repressor, ribosome; 1.85A
{Methanocaldococcus jannaschii} SCOP: e.24.1.1 PDB:
1cjs_A 1u63_A 1dwu_A
Length = 219
Score = 176 bits (447), Expect = 1e-56
Identities = 39/158 (24%), Positives = 73/158 (46%), Gaps = 3/158 (1%)
Query: 5 VSRDTLYECVNGVLNNAKVNKKRFLQTVELQIGLKNYDPQK-DKRFSGTVKLKHIPRPKM 63
+ R+ L + V AK F Q+ E LK D +K + R V L H +
Sbjct: 1 MDREALLQAVKEARELAKPRN--FTQSFEFIATLKEIDMRKPENRIKTEVVLPHGRGKEA 58
Query: 64 QVCILGDQQHCDEAKAANVPFMDVEALKKLNKNKKLVKKLAKKYDAFLASDALIKQIPRL 123
++ ++G +A+ + + E +++L KNK+ ++K+AK +D F+A L+ I R
Sbjct: 59 KIAVIGTGDLAKQAEELGLTVIRKEEIEELGKNKRKLRKIAKAHDFFIAQADLMPLIGRY 118
Query: 124 LGPGLNKAGKFPGLLSHQESMTQKIDEVKGTIKFQMKK 161
+G L GK P + ++ ++ +K T+ +
Sbjct: 119 MGVILGPRGKMPKPVPANANIKPLVERLKKTVVINTRD 156
>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 = 32.1 bits (72), Expect = 0.065
Identities = 30/202 (14%), Positives = 61/202 (30%), Gaps = 58/202 (28%)
Query: 2 QSKVSRDTLYECVNGVLNNAKVNKKRFLQTVE----LQIGLKNYDPQKD----------- 46
Q + E + + N+ +V K + ++ L+ L P K+
Sbjct: 104 QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK 163
Query: 47 --------------KRFSGTV---KLKHIPRPK-----MQ-VCILGDQQHCDEAKAANVP 83
+ + LK+ P+ +Q + D + ++
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 84 FMDVE----ALKKLNKNKKLVKKL--------AKKYDAF-LASDALI----KQIPRLLGP 126
+ + L++L K+K L AK ++AF L+ L+ KQ+ L
Sbjct: 224 KLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSA 283
Query: 127 GLNKA---GKFPGLLSHQESMT 145
L+ E +
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKS 305
Score = 31.4 bits (70), Expect = 0.12
Identities = 20/116 (17%), Positives = 38/116 (32%), Gaps = 33/116 (28%)
Query: 22 KVNKKRFLQTVELQIGLKNYDPQKDKR-------FSGTVKLKHIPRPKMQV-CILGDQQH 73
VN + +E L +P + ++ F + IP + ++
Sbjct: 349 HVNCDKLTTIIE--SSLNVLEPAEYRKMFDRLSVFPPSAH---IP---TILLSLIW---- 396
Query: 74 CDEAKAANVPFMDVEA-LKKLNKNKKLVKKLAKK-----YDAFLASDALIKQIPRL 123
+V DV + KL+K LV+K K+ +L ++ L
Sbjct: 397 ------FDVIKSDVMVVVNKLHK-YSLVEKQPKESTISIPSIYLELKVKLENEYAL 445
Score = 30.2 bits (67), Expect = 0.35
Identities = 16/106 (15%), Positives = 38/106 (35%), Gaps = 22/106 (20%)
Query: 1 MQSKVSRDTLYECVNGVLNNAKVNKKRFLQTVELQIGLKNYDPQKDKRFSGTVKLKHIPR 60
++ K+ D+ +G + N LQ LK Y K + + P+
Sbjct: 503 LEQKIRHDSTAWNASGSILNT-------LQQ------LKFY-----KPYI----CDNDPK 540
Query: 61 PKMQVCILGDQQHCDEAKAANVPFMDVEALKKLNKNKKLVKKLAKK 106
+ V + D E + D+ + + +++ + ++ K+
Sbjct: 541 YERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQ 586
>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 = 29.1 bits (64), Expect = 0.43
Identities = 10/35 (28%), Positives = 13/35 (37%), Gaps = 16/35 (45%)
Query: 97 KKLVKKLA---KKYDAFLASDALIKQIPRLLGPGL 128
K+ +KKL K Y A D+ P L
Sbjct: 19 KQALKKLQASLKLY----ADDS---------APAL 40
Score = 25.3 bits (54), Expect = 8.4
Identities = 6/15 (40%), Positives = 8/15 (53%), Gaps = 1/15 (6%)
Query: 30 QTVE-LQIGLKNYDP 43
Q ++ LQ LK Y
Sbjct: 20 QALKKLQASLKLYAD 34
>2ihb_B Regulator of G-protein signalling 10, guanine nucleotide-binding
protein G(K) subunit A; RGS, heterotrimeric G protein,
signall complex; HET: GDP; 2.71A {Homo sapiens} PDB:
2i59_A
Length = 153
Score = 28.5 bits (63), Expect = 0.73
Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 70 DQQHCDEAKAANVPF-MDVEALKKLNKNKKLVKKLAKKYDAFLASDA 115
++ +E NV F + E KK+ ++ +K + Y FL+S A
Sbjct: 53 KKEFSEE----NVLFWLACEDFKKMQDKTQMQEKAKEIYMTFLSSKA 95
>2ihd_A RGS8, regulator of G-protein signaling 8; signaling protein,
structural genomics, structura genomics consortium, SGC,
signaling protein; 1.70A {Homo sapiens} PDB: 2ode_B*
2bt2_A
Length = 155
Score = 28.0 bits (62), Expect = 0.88
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 5/47 (10%)
Query: 70 DQQHCDEAKAANVPF-MDVEALKKLNKNKKLVKKLAKKYDAFLASDA 115
+ +E N+ F + E KK KLV K + ++ F+ A
Sbjct: 57 KTEFSEE----NLEFWLACEEFKKTRSTAKLVSKAHRIFEEFVDVQA 99
>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint
center for structural genomics, JCSG, protein structu
initiative, PSI; 2.10A {Thermotoga maritima} SCOP:
c.37.1.12
Length = 256
Score = 27.9 bits (63), Expect = 1.2
Identities = 12/39 (30%), Positives = 16/39 (41%), Gaps = 7/39 (17%)
Query: 100 VKKLAKKYDAFLASDALIKQIPR-----LLGPGLNKAGK 133
VK L K+ + +I L+GP N AGK
Sbjct: 18 VKDLRKRIGKKEILKGISFEIEEGEIFGLIGP--NGAGK 54
>2dlv_A RGS18, regulator of G-protein signaling 18; RGS domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 140
Score = 26.5 bits (58), Expect = 2.7
Identities = 11/47 (23%), Positives = 21/47 (44%), Gaps = 5/47 (10%)
Query: 70 DQQHCDEAKAANVPF-MDVEALKKLNKNKKLVKKLAKKYDAFLASDA 115
+ +E N+ F + E KK +++ K Y+ F+ +DA
Sbjct: 37 KTEFSEE----NIEFWIACEDFKKSKGPQQIHLKAKAIYEKFIQTDA 79
>2dlr_A RGS10, regulator of G-protein signaling 10; RGS domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 149
Score = 26.5 bits (58), Expect = 3.0
Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 70 DQQHCDEAKAANVPF-MDVEALKKLNKNKKLVKKLAKKYDAFLASDA 115
++ +E NV F + E KK+ ++ +K + Y FL+S A
Sbjct: 37 KKEFSEE----NVLFWLACEDFKKMQDKTQMQEKAKEIYMTFLSSKA 79
>3hn0_A Nitrate transport protein; ABC transporter, structural genomics,
joint center for struc genomics, JCSG, protein structure
initiative; 1.75A {Parabacteroides distasonis}
Length = 283
Score = 26.4 bits (58), Expect = 4.5
Identities = 8/51 (15%), Positives = 16/51 (31%), Gaps = 2/51 (3%)
Query: 75 DEAKAANVPFMDV--EALKKLNKNKKLVKKLAKKYDAFLASDALIKQIPRL 123
+ + F D + +K + K +++ F K I R
Sbjct: 190 PTMEKYRIAFEDALRASCQKAVRYPKETIHSLEEHGIFAQGALTPKSIERC 240
>2gai_A DNA topoisomerase I; zinc ribbon; HET: DNA; 1.70A {Thermotoga
maritima} PDB: 2gaj_A*
Length = 633
Score = 26.4 bits (59), Expect = 5.2
Identities = 10/23 (43%), Positives = 14/23 (60%), Gaps = 3/23 (13%)
Query: 95 KNKKLV---KKLAKKYDAFLASD 114
+K+V K LAKK + +ASD
Sbjct: 62 GKEKVVEKLKDLAKKGELLIASD 84
>1ufm_A COP9 complex subunit 4; helix-turn-helix, structural genomics,
riken structural genomics/proteomics initiative, RSGI,
signaling protein; NMR {Mus musculus} SCOP: a.4.5.47
Length = 84
Score = 25.1 bits (55), Expect = 5.8
Identities = 10/45 (22%), Positives = 21/45 (46%)
Query: 117 IKQIPRLLGPGLNKAGKFPGLLSHQESMTQKIDEVKGTIKFQMKK 161
+++ LL KA K + + M ID++ G + F+ ++
Sbjct: 33 FEELGALLEIPAAKAEKIASQMITEGRMNGFIDQIDGIVHFETRE 77
>3c7l_A Regulator of G-protein signaling 16; RGS, RGS16, GAP, GTPase
activating protein, heterotrimeric G-protein,
lipoprotein, palmitate, phosphoprotein; 1.89A {Mus
musculus} PDB: 3c7k_B* 2ik8_B*
Length = 137
Score = 25.4 bits (55), Expect = 6.5
Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 75 DEAKAANVPF-MDVEALKKLNKNKKLVKKLAKKYDAFLASDA 115
E N+ F + E KK+ KL + +D ++ S+A
Sbjct: 41 TEFSEENLEFWLACEEFKKIRSATKLASRAHHIFDEYIRSEA 82
>2c92_A 6,7-dimethyl-8-ribityllumazine synthase; transferase, riboflavin
biosynthesis, inhibitor binding; HET: TP6; 1.6A
{Mycobacterium tuberculosis} PDB: 1w29_A* 1w19_A*
2c94_A* 2c97_A* 2c9b_A* 2c9d_A* 2vi5_A*
Length = 160
Score = 25.2 bits (56), Expect = 8.5
Identities = 6/19 (31%), Positives = 13/19 (68%)
Query: 100 VKKLAKKYDAFLASDALIK 118
++LA+ +DA +A +I+
Sbjct: 66 AQELARNHDAVVALGVVIR 84
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 0.134 0.377
Gapped
Lambda K H
0.267 0.0766 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,311,029
Number of extensions: 129005
Number of successful extensions: 421
Number of sequences better than 10.0: 1
Number of HSP's gapped: 413
Number of HSP's successfully gapped: 33
Length of query: 161
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 75
Effective length of database: 4,300,587
Effective search space: 322544025
Effective search space used: 322544025
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: 53 (24.1 bits)