RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 031274
(162 letters)
>4a17_H RPL10, 60S ribosomal protein L10; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_H 4a1c_H 4a1e_H
Length = 215
Score = 179 bits (456), Expect = 3e-58
Identities = 94/131 (71%), Positives = 105/131 (80%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
MGRRPARCYRQ K KPYPKSR+ RGVPD +IRIYD G KK V+EFP+ VH+VS EKE +
Sbjct: 1 MGRRPARCYRQPKGKPYPKSRYNRGVPDARIRIYDSGRKKATVEEFPYVVHIVSDEKEQI 60
Query: 61 SSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
+SEALEAARIA NK + KF KDAFHLR RVHP+HVLRINKMLSCAGADRLQ+GMRGAFG
Sbjct: 61 TSEALEAARIAANKNLIKFISKDAFHLRCRVHPWHVLRINKMLSCAGADRLQSGMRGAFG 120
Query: 121 KPQAIVFMLKR 131
K +
Sbjct: 121 KALGKAARVDI 131
>2zkr_h 60S ribosomal protein L10; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 214
Score = 179 bits (456), Expect = 3e-58
Identities = 100/131 (76%), Positives = 108/131 (82%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
MGRRPARCYR KNKPYPKSRFCRGVPD KIRI+D+G KK VDEFP C H+VS E E +
Sbjct: 1 MGRRPARCYRYCKNKPYPKSRFCRGVPDAKIRIFDLGRKKAKVDEFPLCGHMVSDEYEQL 60
Query: 61 SSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
SSEALEAARI NKYM K GKD FH+RVR+HPFHV+RINKMLSCAGADRLQTGMRGAFG
Sbjct: 61 SSEALEAARICANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGADRLQTGMRGAFG 120
Query: 121 KPQAIVFMLKR 131
KPQ V +
Sbjct: 121 KPQGTVAKVHI 131
>3iz5_I 60S ribosomal protein L10 (L10E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_I 1s1i_I 3jyw_I
Length = 224
Score = 176 bits (446), Expect = 1e-56
Identities = 119/131 (90%), Positives = 122/131 (93%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
MGRRPARCYRQIKNKPYPKSR+CRGVPDPKIRIYDVGMKKKGVDEFP+CVHLVSWEKENV
Sbjct: 1 MGRRPARCYRQIKNKPYPKSRYCRGVPDPKIRIYDVGMKKKGVDEFPYCVHLVSWEKENV 60
Query: 61 SSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
SSEALEAARIACNKYM K AGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG
Sbjct: 61 SSEALEAARIACNKYMTKNAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
Query: 121 KPQAIVFMLKR 131
KPQ +
Sbjct: 121 KPQGTCARVDI 131
>1vq8_H 50S ribosomal protein L10E; 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.41.4.1 PDB: 1vq4_H*
1vq5_H* 1vq6_H* 1vq7_H* 1s72_H* 1vq9_H* 1vqk_H* 1vql_H*
1vqm_H* 1vqn_H* 1vqo_H* 1vqp_H* 2otj_H* 2otl_H* 2qa4_H*
2qex_H* 1yhq_H* 1yi2_H* 1yij_H* 1yit_H* ...
Length = 171
Score = 172 bits (437), Expect = 5e-56
Identities = 43/129 (33%), Positives = 71/129 (55%), Gaps = 1/129 (0%)
Query: 4 RPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSSE 63
+PA YR I Y + + G+P KI + +G K+K D++P + L+ E +
Sbjct: 1 KPASMYRDIDKPAYTRREYITGIPGSKIAQHKMGRKQKDADDYPVQISLIVEETVQLRHG 60
Query: 64 ALEAARIACNKYMAKFAGKDA-FHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKP 122
+LEA+R++ N+++ K G++ + + +R P VLR NK + AGADR+ GMR AFGK
Sbjct: 61 SLEASRLSANRHLIKELGEEGDYKMTLRKFPHQVLRENKQATGAGADRVSDGMRAAFGKI 120
Query: 123 QAIVFMLKR 131
++
Sbjct: 121 VGTAARVQA 129
>3j0l_J Ribosomal protein L10; mammalia, translation, elongation cycle,
tRNA, ribosome; 9.80A {Oryctolagus cuniculus} PDB:
3j0q_J 3izc_I 3izs_I 3o58_J 3o5h_J 3u5e_I 3u5i_I
Length = 219
Score = 172 bits (438), Expect = 2e-55
Identities = 96/129 (74%), Positives = 104/129 (80%)
Query: 3 RRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSS 62
RRPARCYR KNKPYPKSR+ R VPD KIRIYD+G KK VDEFP CVHLVS E E +SS
Sbjct: 1 RRPARCYRYQKNKPYPKSRYNRAVPDSKIRIYDLGKKKATVDEFPLCVHLVSNELEQLSS 60
Query: 63 EALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKP 122
EALEAARI NKYM +G+DAFHLRVRVHPFHVLRINKMLSCAGADRLQ GMRGA+GKP
Sbjct: 61 EALEAARICANKYMTTVSGRDAFHLRVRVHPFHVLRINKMLSCAGADRLQQGMRGAWGKP 120
Query: 123 QAIVFMLKR 131
+ +
Sbjct: 121 HGLAARVDI 129
>1ffk_F Ribosomal protein L10E; ribosome assembly, RNA-RNA, protein-RNA,
protein-protein; 2.40A {Haloarcula marismortui} SCOP:
d.41.4.1 PDB: 1jj2_H 1k73_J* 1k8a_J* 1k9m_J* 1kc8_J*
1kd1_J* 1kqs_H* 1m1k_J* 1m90_J* 1n8r_J* 1nji_J* 1q7y_J*
1q81_J* 1q82_J* 1q86_J* 1qvf_H 1qvg_H 1w2b_H 3cxc_H*
1giy_P ...
Length = 157
Score = 151 bits (382), Expect = 9e-48
Identities = 33/147 (22%), Positives = 55/147 (37%), Gaps = 14/147 (9%)
Query: 4 RPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENVSSE 63
+P +R Y + + G+P I + +G +P V V + +
Sbjct: 1 KPGAHFRNSIKPAYTRREYISGIPGKGIAQFKMG-NNGAGPTYPAQVENVVEKPVQIRHN 59
Query: 64 ALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFGKPQ 123
ALEAAR A N+++ + R+R PFHV+R ++ GMR FGK
Sbjct: 60 ALEAARNAANRFVQNSGAAANYKFRIRKFPFHVIR----------EQDGDGMRAPFGKSV 109
Query: 124 ---AIVFMLKRLFVVQSSSFLVAKKSL 147
A F+ + + +
Sbjct: 110 GTAARSHGANHDFIAWVNPDPAVEFAW 136
>2pa2_A 60S ribosomal protein L10; QM protein, , structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 2.50A {Homo sapiens} SCOP: d.41.4.1
Length = 151
Score = 130 bits (328), Expect = 1e-39
Identities = 70/98 (71%), Positives = 78/98 (79%)
Query: 34 YDVGMKKKGVDEFPFCVHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHP 93
+D+G KK VDEFP C H+VS E E +SSEALEAARI NKYM K GKD FH+RVR+HP
Sbjct: 3 FDLGRKKAKVDEFPLCGHMVSDEYEQLSSEALEAARICANKYMVKSCGKDGFHIRVRLHP 62
Query: 94 FHVLRINKMLSCAGADRLQTGMRGAFGKPQAIVFMLKR 131
FHV+RINKMLSCAGADRLQTGMRGAFGKPQ V +
Sbjct: 63 FHVIRINKMLSCAGADRLQTGMRGAFGKPQGTVARVHI 100
>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 = 38.3 bits (88), Expect = 6e-04
Identities = 19/122 (15%), Positives = 34/122 (27%), Gaps = 31/122 (25%)
Query: 10 RQIKNKPYPKSRFC----RGVPDPK-IRIYDVGMK------KKGVDEF-----PFCVHLV 53
R +K+KPY C V + K +++ K K V +F + L
Sbjct: 236 RLLKSKPYEN---CLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD 292
Query: 54 SWEKENVSSEALEAARIACNKYMAKFAGKDAFHLR---VRVHPFHVLRINKMLSCAGADR 110
E + K+ L + +P + I + + G
Sbjct: 293 HHSMTLTPDEVKS--------LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR-DGLAT 343
Query: 111 LQ 112
Sbjct: 344 WD 345
Score = 30.2 bits (67), Expect = 0.28
Identities = 29/222 (13%), Positives = 52/222 (23%), Gaps = 85/222 (38%)
Query: 14 NKPYPKSRFCRGVPDPKIR-------------IYDVGMKKKG--------------VDEF 46
N+ + K R P K+R I G+ G +
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLID--GVLGSGKTWVALDVCLSYKVQCKM 180
Query: 47 PFCVHLVSWEKENVSSEALEAARIACNKYMAKF---------------AGKDAF--HLRV 89
F + ++ + N LE + + + + + L+
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS 240
Query: 90 RVHP--FHVLR-------INKM-LSC---------AGADRLQTG---------MRGAFGK 121
+ + VL N LSC D L
Sbjct: 241 KPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300
Query: 122 PQAIVFMLKRLFVVQSSSFL-VAKKSLSAE-SGVSPSLAAVI 161
+ K L +L + L E +P ++I
Sbjct: 301 DEV-----KSLL----LKYLDCRPQDLPREVLTTNPRRLSII 333
Score = 26.0 bits (56), Expect = 7.2
Identities = 14/88 (15%), Positives = 33/88 (37%), Gaps = 19/88 (21%)
Query: 10 RQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVH--LV-------SWEKENV 60
+ NK + S + + I I + ++ K E + +H +V +++ +++
Sbjct: 405 MVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDL 464
Query: 61 SSEALEAARIACNKYMAKFAGKDAFHLR 88
L+ +Y G HL+
Sbjct: 465 IPPYLD-------QYFYSHIG---HHLK 482
>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 = 37.7 bits (87), Expect = 0.001
Identities = 31/194 (15%), Positives = 57/194 (29%), Gaps = 64/194 (32%)
Query: 3 RRPARCY---RQIKNKPYPK---SRFCRGVPDPKIRIYDV----GMKKKGVDEF------ 46
+ + Y R + +P+ K S R V + ++ + G +E
Sbjct: 120 KELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQT 179
Query: 47 --PFCVHLVSWEKENVSSEALE---AARIACNKYMAKFAGKDAFH-LRVRVHPFHVLRIN 100
L+ S+E L + K + G + L +P + +
Sbjct: 180 YHVLVGDLIK-----FSAETLSELIRTTLDAEKVFTQ--GLNILEWLE---NPSNTPDKD 229
Query: 101 KMLSCAGADRLQTGMRGAFGKPQAIVFMLKRLFVVQSSSFLVA-----------KKSLSA 149
+LS I L + V+Q + ++V + L
Sbjct: 230 YLLSI------------------PISCPL--IGVIQLAHYVVTAKLLGFTPGELRSYLKG 269
Query: 150 ESGVSPSL-AAVII 162
+G S L AV I
Sbjct: 270 ATGHSQGLVTAVAI 283
Score = 31.2 bits (70), Expect = 0.14
Identities = 22/134 (16%), Positives = 36/134 (26%), Gaps = 47/134 (35%)
Query: 54 SWEK-ENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVH--------PFHVLRINK--- 101
SWE +A+ F + VR + P +L +
Sbjct: 288 SWESFFVSVRKAITVL----------------FFIGVRCYEAYPNTSLPPSILEDSLENN 331
Query: 102 ------MLSCAGADRLQ-----TGMRGAFGKPQAIVFMLK---RLFVV----QS-SSFLV 142
MLS + + Q + + L + VV QS +
Sbjct: 332 EGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNL 391
Query: 143 AKKSLSAESGVSPS 156
+ A SG+ S
Sbjct: 392 TLRKAKAPSGLDQS 405
>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 = 31.8 bits (71), Expect = 0.048
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 16/41 (39%)
Query: 123 QAIVFMLKRLFVVQSSSFLVAKKSLSAESGVSPSLA--AVI 161
QA+ K+L Q+S L K + +S +P+LA A +
Sbjct: 20 QAL----KKL---QAS--L---KLYADDS--APALAIKATM 46
>2zjr_J 50S ribosomal protein L16; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: d.41.4.2 PDB: 1sm1_K* 2zjp_J* 2zjq_J
1nkw_K 3cf5_J* 3dll_J* 3pio_J* 1njm_K* 1nwx_K* 1njp_K*
1xbp_K* 1y69_K 1nwy_K* 3pip_J* 1pnu_K 1pny_K 1vor_N
1vou_N 1vow_N 1voy_N ...
Length = 142
Score = 25.3 bits (55), Expect = 8.6
Identities = 17/99 (17%), Positives = 37/99 (37%), Gaps = 17/99 (17%)
Query: 52 LVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRL 111
L++ E + S +EA RI +++ + + +R+ P +
Sbjct: 35 LIAMEPAWIKSNQIEACRIVMSRHF-----RRGGKIYIRIFPDKPVTKKPA--------- 80
Query: 112 QTGMRGAFGKP---QAIVFMLKRLFVVQSSSFLVAKKSL 147
+T M G ++V + +F V + AK++
Sbjct: 81 ETRMGKGKGAVEYWVSVVKPGRVMFEVAGVTEEQAKEAF 119
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
0.326 0.137 0.417
Gapped
Lambda K H
0.267 0.0526 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,542,414
Number of extensions: 147830
Number of successful extensions: 277
Number of sequences better than 10.0: 1
Number of HSP's gapped: 274
Number of HSP's successfully gapped: 16
Length of query: 162
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 76
Effective length of database: 4,300,587
Effective search space: 326844612
Effective search space used: 326844612
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.7 bits)