RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 030434
(177 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 = 241 bits (617), Expect = 2e-82
Identities = 123/177 (69%), Positives = 143/177 (80%), Gaps = 1/177 (0%)
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 KPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKIIVSRKWYGFHQV 177
K G ARV IG +L SVR K+ + +A +AL RAK KFPGRQK++ S+KW GF ++
Sbjct: 121 KALGKAARVDIGSILFSVRVKEPHVKYAIDALTRAKAKFPGRQKVVTSQKW-GFTKL 176
>2zkr_h 60S ribosomal protein L10; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 214
Score = 240 bits (614), Expect = 5e-82
Identities = 133/177 (75%), Positives = 147/177 (83%), Gaps = 1/177 (0%)
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 KPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKIIVSRKWYGFHQV 177
KPQGT A+V IGQV++S+R K N H EALRRAKFKFPGRQKI +S+KW GF +
Sbjct: 121 KPQGTVAKVHIGQVIMSIRTKLQNKEHVIEALRRAKFKFPGRQKIHISKKW-GFTKF 176
>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 = 239 bits (612), Expect = 2e-81
Identities = 163/177 (92%), Positives = 169/177 (95%), Gaps = 1/177 (0%)
Query: 1 MGRRPARCYRQIKNKPYPKSRFCRGVPDPKIRIYDVGMKKKGVDEFPFCVHLVSWEKENV 60
MGRRPARCYRQIKNKPYPKSR+CRGVPDPKIRIYDVGMKKKGVDEFP+CVHLVSWEKENV
Sbjct: 1 MGRRPARCYRQIKNKPYPKSRYCRGVPDPKIRIYDVGMKKKGVDEFPYCVHLVSWEKENV 60
Query: 61 SSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
SSEALEAARIACNKYM K AGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG
Sbjct: 61 SSEALEAARIACNKYMTKNAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAFG 120
Query: 121 KPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKIIVSRKWYGFHQV 177
KPQGTCARV IGQVLLSVRCK+SN+ HA+EALRRAKFKFPGRQKII SRKW GF +
Sbjct: 121 KPQGTCARVDIGQVLLSVRCKESNAKHAEEALRRAKFKFPGRQKIIHSRKW-GFTKF 176
>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 = 233 bits (595), Expect = 1e-79
Identities = 60/166 (36%), Positives = 92/166 (55%), Gaps = 1/166 (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 QGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKIIVS 168
GT ARV G+ L + C ++ H +EA RRA K +I S
Sbjct: 121 VGTAARVQAGEQLFTAYCNVEDAEHVKEAFRRAYNKITPSCRIDSS 166
>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 = 232 bits (592), Expect = 1e-78
Identities = 128/172 (74%), Positives = 141/172 (81%), Gaps = 1/172 (0%)
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 QGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKIIVSRKWYGF 174
G ARV IGQ++ SVR KDSN E LRRA++KFPG+QKII+S+KW GF
Sbjct: 121 HGLAARVDIGQIIFSVRTKDSNKDVVVEGLRRARYKFPGQQKIILSKKW-GF 171
>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 = 209 bits (532), Expect = 3e-70
Identities = 42/167 (25%), Positives = 61/167 (36%), Gaps = 13/167 (7%)
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 GTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKIIVSRK 170
GT AR + A RRA K I S
Sbjct: 110 GTAARSHGANHDFIAWVNPDP--AVEFAWRRAYMKVTPTVNIDSSPA 154
>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 = 196 bits (498), Expect = 3e-65
Identities = 104/141 (73%), Positives = 116/141 (82%), Gaps = 1/141 (0%)
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 FHVLRINKMLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSLHAQEALR 153
FHV+RINKMLSCAGADRLQTGMRGAFGKPQGT ARV IGQV++S+R K N H EALR
Sbjct: 63 FHVIRINKMLSCAGADRLQTGMRGAFGKPQGTVARVHIGQVIMSIRTKLQNKEHVIEALR 122
Query: 154 RAKFKFPGRQKIIVSRKWYGF 174
RAKFKFPGRQKI +S+KW GF
Sbjct: 123 RAKFKFPGRQKIHISKKW-GF 142
>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 = 54.6 bits (131), Expect = 3e-10
Identities = 24/120 (20%), Positives = 46/120 (38%), Gaps = 16/120 (13%)
Query: 52 LVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRL 111
L++ E + S +EA RI +++ + + +R+ P +
Sbjct: 35 LIAMEPAWIKSNQIEACRIVMSRHF-----RRGGKIYIRIFPDKPVTKKPA--------- 80
Query: 112 QTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKIIVSRKW 171
+T M G + + V G+V+ V A+EA R A K P + K++ +
Sbjct: 81 ETRMGKGKGAVEYWVSVVKPGRVMFEVAGVTEE--QAKEAFRLAGHKLPIQTKMVKREVY 138
>3r8s_M 50S ribosomal protein L16; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
1p85_K 1p86_K 1vs8_M 1vs6_M 2aw4_M 2awb_M 1vt2_M 2i2v_M
2j28_M 2i2t_M* 2qao_M* 2qba_M* 2qbc_M* 2qbe_M 2qbg_M
2qbi_M* 2qbk_M* 2qov_M 2qox_M 2qoz_M* ...
Length = 136
Score = 49.2 bits (117), Expect = 3e-08
Identities = 21/108 (19%), Positives = 39/108 (36%), Gaps = 16/108 (14%)
Query: 60 VSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAF 119
+++ +EAAR A + + K + +RV P + + M
Sbjct: 41 LTARQIEAARRAMTRAV-----KRQGKIWIRVFPDKPITEKPL---------AVRMGKGK 86
Query: 120 GKPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKIIV 167
G + A + G+VL + A+EA + A K P + +
Sbjct: 87 GNVEYWVALIQPGKVLYEMDGVPEE--LAREAFKLAAAKLPIKTTFVT 132
>2ftc_I Mitochondrial ribosomal protein L16, 39S ribosomal protein L13,
mitochondrial; mitochondrial ribosome, large ribosomal
subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB:
3iy9_I
Length = 118
Score = 48.5 bits (115), Expect = 4e-08
Identities = 16/113 (14%), Positives = 32/113 (28%), Gaps = 13/113 (11%)
Query: 52 LVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRL 111
+++ + E R+ N+ M + PF + +
Sbjct: 19 ILALGGGYLHWGHFEMMRLTINRSMDPKNMFAIWR---VPAPFKPITRKSV--------- 66
Query: 112 QTGMRGAFGKPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQK 164
M G G V G++++ + + Q L + K P K
Sbjct: 67 GHRMGGGKGAIDHYVTPVKAGRLVVEMGGRCEFEE-VQGFLDQVAHKLPFAAK 118
>3bbo_O Ribosomal protein L16; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.2
Length = 135
Score = 46.9 bits (111), Expect = 2e-07
Identities = 24/108 (22%), Positives = 42/108 (38%), Gaps = 16/108 (14%)
Query: 60 VSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLRINKMLSCAGADRLQTGMRGAF 119
++S +EA R A + + + VR+ P + + +T M
Sbjct: 42 ITSRQIEAGRRAMTRNA-----RRGGKIWVRIFPDKPVTVRPA---------ETRMGSGK 87
Query: 120 GKPQGTCARVAIGQVLLSVRCKDSNSLHAQEALRRAKFKFPGRQKIIV 167
G P+ A V G++L + N A+ A+ A K P R + I+
Sbjct: 88 GSPEYWVAVVKPGRILYEISGVAEN--IARRAVAIAASKMPIRTQFII 133
>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 = 37.1 bits (85), Expect = 0.002
Identities = 32/195 (16%), Positives = 52/195 (26%), Gaps = 65/195 (33%)
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 LQTGMRGAFGKPQGTCARVAIGQVLLSVRCKD-----SNSLHAQE-ALRRAKFK----FP 160
V C +SL+ E A R F FP
Sbjct: 344 WDN---------------------WKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP 382
Query: 161 GRQKI---IVSRKWY 172
I ++S W+
Sbjct: 383 PSAHIPTILLSLIWF 397
Score = 26.4 bits (57), Expect = 8.0
Identities = 14/112 (12%), Positives = 31/112 (27%), Gaps = 30/112 (26%)
Query: 14 NKPYPKSRFCRGVPDPKIR-------------IYDVGMKKKG--------------VDEF 46
N+ + K R P K+R I G+ G +
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLID--GVLGSGKTWVALDVCLSYKVQCKM 180
Query: 47 PFCVHLVSWEKENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVHPFHVLR 98
F + ++ + N LE + + + + ++ H ++
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK-LRIHSIQ 231
>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 = 37.0 bits (85), Expect = 0.002
Identities = 30/166 (18%), Positives = 49/166 (29%), Gaps = 69/166 (41%)
Query: 54 SWEK-ENVSSEALEAARIACNKYMAKFAGKDAFHLRVRVH--------PFHVLRINK--- 101
SWE +A+ F + VR + P +L +
Sbjct: 288 SWESFFVSVRKAITVL----------------FFIGVRCYEAYPNTSLPPSILEDSLENN 331
Query: 102 ------MLSCAGADR--LQTGMRGAFGKPQGTCARVAIG-QVLLSVRCKDSN-------- 144
MLS + + +Q + T + + G QV +S+ N
Sbjct: 332 EGVPSPMLSISNLTQEQVQDYVN-------KTNSHLPAGKQVEISLVNGAKNLVVSGPPQ 384
Query: 145 SLHA-QEALRRAK---------FKFPGRQKIIVSRKWYG-----FH 175
SL+ LR+AK F R+ +R + FH
Sbjct: 385 SLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNR--FLPVASPFH 428
Score = 34.3 bits (78), Expect = 0.021
Identities = 33/210 (15%), Positives = 61/210 (29%), Gaps = 66/210 (31%)
Query: 3 RRPARCY---RQIKNKPYPK---SRFCRGVPDPKIRIYDV----GMKKKGVDEF------ 46
+ + Y R + +P+ K S R V + ++ + G +E
Sbjct: 120 KELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQT 179
Query: 47 --PFCVHLVSWEKENVSSEALE---AARIACNKYMAKFAGKDAFH-LRVRVH-------- 92
L+ S+E L + K + G + L +
Sbjct: 180 YHVLVGDLIK-----FSAETLSELIRTTLDAEKVFTQ--GLNILEWLENPSNTPDKDYLL 232
Query: 93 ------PF-------HVLRINKMLSCAGADRLQTGMRGAFGKPQGTCARVAIGQVLLSVR 139
P H + K+L + L++ ++GA G QG VAI +
Sbjct: 233 SIPISCPLIGVIQLAHYVVTAKLLGFTPGE-LRSYLKGATGHSQGLVTAVAIAE------ 285
Query: 140 CKDSNSLH--AQEALR-------RAKFKFP 160
S ++A+ R +P
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVRCYEAYP 315
>2zsk_A PH1733, 226AA long hypothetical aspartate racemase; alpha/beta
fold, unknown function; 2.55A {Pyrococcus horikoshii}
Length = 226
Score = 26.2 bits (57), Expect = 5.5
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 129 VAIGQVLLSVRCKDSNSLHAQEALRRA 155
+AI Q +SV DS +H ++ + A
Sbjct: 198 LAIKQGDVSVEVFDSAEIHMRKLIELA 224
>1jfl_A Aspartate racemase; alpha-beta structure, HOMO-dimer, homologous
domains, isomer; 1.90A {Pyrococcus horikoshii} SCOP:
c.78.2.1 c.78.2.1 PDB: 2dx7_A* 1iu9_A
Length = 228
Score = 26.2 bits (57), Expect = 6.0
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 129 VAIGQVLLSVRCKDSNSLHAQEALRRA 155
V + Q L V D + A+ A++ A
Sbjct: 199 VVLKQDDLKVPLIDPMDVIAEVAVKVA 225
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
0.327 0.139 0.442
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: 2,860,496
Number of extensions: 163699
Number of successful extensions: 395
Number of sequences better than 10.0: 1
Number of HSP's gapped: 386
Number of HSP's successfully gapped: 21
Length of query: 177
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 90
Effective length of database: 4,272,666
Effective search space: 384539940
Effective search space used: 384539940
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 54 (25.0 bits)