RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 032182
(146 letters)
>2zkr_t 60S ribosomal protein L26; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 145
Score = 151 bits (383), Expect = 2e-48
Identities = 99/147 (67%), Positives = 122/147 (82%), Gaps = 3/147 (2%)
Query: 1 MKYNPRVSSSRRKNRKAHFTAPSSVRRILMSAPLSTDLRQKYNVRSMPVRKDDEVQVVRG 60
MK+NP V+S R KNRK HF APS +RR +MS+PLS +LRQKYNVRSMP+RKDDEVQVVRG
Sbjct: 1 MKFNPFVTSDRSKNRKRHFNAPSHIRRKIMSSPLSKELRQKYNVRSMPIRKDDEVQVVRG 60
Query: 61 TYKGRE-GKVVQVYRRKWVIHIERITREKVNGSTVNVGINPSKVVITKLRLDKDRKSLLD 119
YKG++ GKVVQVYR+K+VI+IER+ REK NG+TV+VGI+PSKVVIT+L+LDKDRK +L+
Sbjct: 61 HYKGQQIGKVVQVYRKKYVIYIERVQREKANGTTVHVGIHPSKVVITRLKLDKDRKKILE 120
Query: 120 RKAKGRAAADKEKGTKFTPEDIMQSVD 146
RKAK R KEKG K+ E I + +
Sbjct: 121 RKAKSRQVG-KEKG-KYKEETIEKMQE 145
>4a17_S RPL26, 60S ribosomal protein L21; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_S 4a1c_S 4a1e_S
Length = 135
Score = 147 bits (371), Expect = 1e-46
Identities = 76/132 (57%), Positives = 101/132 (76%)
Query: 1 MKYNPRVSSSRRKNRKAHFTAPSSVRRILMSAPLSTDLRQKYNVRSMPVRKDDEVQVVRG 60
MK + VSS+RRK RKAHF +PS +R+ LMSA LS DLR KYNVRSMPVRKDDEV +VRG
Sbjct: 1 MKTHVEVSSARRKQRKAHFASPSHLRQTLMSAHLSKDLRSKYNVRSMPVRKDDEVLIVRG 60
Query: 61 TYKGREGKVVQVYRRKWVIHIERITREKVNGSTVNVGINPSKVVITKLRLDKDRKSLLDR 120
+KG +GKV QVYR+KW IH+E+I++ K+NG+ + ++ S++V+TKL+LDK R+SLL R
Sbjct: 61 KFKGNKGKVTQVYRKKWAIHVEKISKNKLNGAPYQIPLSASQLVLTKLKLDKSRQSLLTR 120
Query: 121 KAKGRAAADKEK 132
KA ++
Sbjct: 121 KAASLKTKGQKH 132
>3iz5_Y 60S ribosomal protein L26 (L24P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_Y
Length = 150
Score = 144 bits (365), Expect = 1e-45
Identities = 118/141 (83%), Positives = 132/141 (93%), Gaps = 2/141 (1%)
Query: 1 MKYNPRVSSSRRKNRKAHFTAPSSVRRILMSAPLSTDLRQKYNVRSMPVRKDDEVQVVRG 60
MK NPRV+SSRRK RKAHFTAPSSVRR+LMSA LST+LR KYNVRS+P+RKDDEVQVVRG
Sbjct: 1 MKRNPRVTSSRRKCRKAHFTAPSSVRRVLMSAALSTELRHKYNVRSIPIRKDDEVQVVRG 60
Query: 61 TYKGREGKVVQVYRRKWVIHIERITREKVNGSTVNVGINPSKVVITKLRLDKDRKSLLDR 120
+YKGREGKVVQVYRR+WVIH+ERITREKVNGSTVNVGI+PSKVV+TKL+LDKDRK++LDR
Sbjct: 61 SYKGREGKVVQVYRRRWVIHVERITREKVNGSTVNVGIHPSKVVVTKLKLDKDRKAILDR 120
Query: 121 KAKGRAAADKEKGTKFTPEDI 141
KA GR AADK KG KFT ED+
Sbjct: 121 KASGR-AADKAKG-KFTAEDV 139
>3u5e_Y L33, YL33, 60S ribosomal protein L26-A; translation, ribosome,
ribosomal R ribosomal protein, STM1, eukaryotic
ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_L
2ww9_L 2wwb_L 3o5h_X 3o58_X 3u5i_Y 1s1i_U 3izc_Y 3izs_Y
3jyw_U
Length = 127
Score = 142 bits (358), Expect = 9e-45
Identities = 70/124 (56%), Positives = 100/124 (80%)
Query: 2 KYNPRVSSSRRKNRKAHFTAPSSVRRILMSAPLSTDLRQKYNVRSMPVRKDDEVQVVRGT 61
K + VSS RRK RKA+FTAPSS RR+L+SAPLS +LR +Y ++++P+R+DDEV VVRG+
Sbjct: 3 KQSLDVSSDRRKARKAYFTAPSSQRRVLLSAPLSKELRAQYGIKALPIRRDDEVLVVRGS 62
Query: 62 YKGREGKVVQVYRRKWVIHIERITREKVNGSTVNVGINPSKVVITKLRLDKDRKSLLDRK 121
KG+EGK+ VYR K+ + ++++T+EKVNG++V + ++PSK+VITKL LDKDRK+L+ RK
Sbjct: 63 KKGQEGKISSVYRLKFAVQVDKVTKEKVNGASVPINLHPSKLVITKLHLDKDRKALIQRK 122
Query: 122 AKGR 125
Sbjct: 123 GGKL 126
>1vq8_T 50S ribosomal protein L24P; 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: b.34.5.1 PDB: 1vq4_T*
1vq5_T* 1vq6_T* 1vq7_T* 1s72_T* 1vq9_T* 1vqk_T* 1vql_T*
1vqm_T* 1vqn_T* 1vqo_T* 1vqp_T* 1yhq_T* 1yi2_T* 1yij_T*
1yit_T* 1yj9_T* 1yjn_T* 1yjw_T* 2otj_T* ...
Length = 120
Score = 137 bits (347), Expect = 3e-43
Identities = 44/118 (37%), Positives = 67/118 (56%), Gaps = 1/118 (0%)
Query: 7 VSSSRRKNRKAHFTAPSSVRRILMSAPLSTDLRQKYNVRSMPVRKDDEVQVVRGTYKGRE 66
+S K RK+ AP R + A LS DLR++Y R++ V D V+V+RG + G E
Sbjct: 1 MSKQPDKQRKSQRRAPLHERHKQVRATLSADLREEYGQRNVRVNAGDTVEVLRGDFAGEE 60
Query: 67 GKVVQVYRRKWVIHIERITREKVNGSTVNVGINPSKVVITKLRL-DKDRKSLLDRKAK 123
G+V+ V K VIH+E +T EK +G V ++ S V +T L L D+ R++ L+ +
Sbjct: 61 GEVINVDLDKAVIHVEDVTLEKTDGEEVPRPLDTSNVRVTDLDLEDEKREARLESEDD 118
>3v2d_Y 50S ribosomal protein L24; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus}
PDB: 1vsp_S 2hgj_X 2hgq_X 2hgu_X 1vsa_S 2j03_Y 2jl6_Y
2jl8_Y 2v47_Y 2v49_Y 2wdi_Y 2wdj_Y 2wdl_Y 2wdn_Y 2wh2_Y
2wh4_Y 2wrj_Y 2wrl_Y 2wro_Y 2wrr_Y ...
Length = 110
Score = 37.6 bits (88), Expect = 2e-04
Identities = 19/44 (43%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 47 MPVRKDDEVQVVRGTYKGREGKVVQVYRRKWVIHIERITREKVN 90
M V+K D V V G YKGR GKV +V +K + E VN
Sbjct: 5 MHVKKGDTVLVASGKYKGRVGKVKEVLPKK-----YAVIVEGVN 43
>2zjr_R 50S ribosomal protein L24; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.34.5.1 PDB: 1nwx_S* 1nwy_S*
1sm1_S* 1xbp_S* 2d3o_S 2zjp_R* 2zjq_R 1nkw_S 3cf5_R*
3dll_R* 3pio_R* 3pip_R* 1pnu_S 1pny_S 1vor_V 1vou_V
1vow_V 1voy_V 1vp0_V
Length = 115
Score = 37.2 bits (87), Expect = 3e-04
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 47 MPVRKDDEVQVVRGTYKGREGKVVQVYRRKWVIHIERITREKVN 90
+ +K D V V+ G +KG+ GKV+ R +++ E VN
Sbjct: 14 LHFKKGDTVIVLSGKHKGQTGKVLLALPRD-----QKVVVEGVN 52
>3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 191
Score = 36.8 bits (85), Expect = 0.001
Identities = 9/44 (20%), Positives = 22/44 (50%), Gaps = 5/44 (11%)
Query: 47 MPVRKDDEVQVVRGTYKGREGKVVQVYRRKWVIHIERITREKVN 90
V+ D V+V+ G KG+ G++ ++++ + + +N
Sbjct: 67 RHVKVGDTVKVISGGEKGKIGEISKIHKHN-----STVIIKDLN 105
>3r8s_U 50S ribosomal protein L24; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
2j28_U* 3fik_U 2wwq_U 3oat_U* 3oas_U* 3ofd_U 3ofc_U
3ofr_U* 3ofz_U* 3og0_U 3ofq_U 3r8t_U 3i1n_U 1vs8_U
1vs6_U 1vt2_U 3i1p_U 3i1r_U 3i1t_U 3i20_U ...
Length = 102
Score = 35.2 bits (82), Expect = 0.001
Identities = 15/34 (44%), Positives = 20/34 (58%)
Query: 46 SMPVRKDDEVQVVRGTYKGREGKVVQVYRRKWVI 79
+ +R+DDEV V+ G KG+ GKV V VI
Sbjct: 1 AAKIRRDDEVIVLTGKDKGKRGKVKNVLSSGKVI 34
>2ftc_N Mitochondrial ribosomal protein L24; mitochondrial ribosome,
large ribosomal subunit, ribosomal R ribosome; 12.10A
{Bos taurus} PDB: 3iy9_N
Length = 96
Score = 33.3 bits (77), Expect = 0.006
Identities = 13/28 (46%), Positives = 21/28 (75%), Gaps = 1/28 (3%)
Query: 53 DEVQVVRGTYKGREGKVVQVYRRK-WVI 79
D V+++ G G++GKVVQV R++ WV+
Sbjct: 2 DTVEILEGKDAGKQGKVVQVIRQRNWVV 29
>3ty4_A Probable homoisocitrate dehydrogenase; B-hydroxyacid oxidative
decarboxylase, amino-acid biosynthes lysine
biosynthesis; 1.55A {Schizosaccharomyces pombe} PDB:
3ty3_A
Length = 366
Score = 33.7 bits (78), Expect = 0.015
Identities = 16/65 (24%), Positives = 23/65 (35%), Gaps = 13/65 (20%)
Query: 38 LRQKYN-------VRSMPVRKDDEVQ--VVR----GTYKGREGKVVQVYRRKWVIHIERI 84
LR+K V+S+ K V +VR Y E V ++ I RI
Sbjct: 100 LRKKMGLYANVRPVKSLDGAKGKPVDLVIVRENTECLYVKEERMVQNTPGKRVAEAIRRI 159
Query: 85 TREKV 89
+ E
Sbjct: 160 SEEAS 164
>3g8r_A Probable spore coat polysaccharide biosynthesis P; structural
genomics, protein structure initiative; 2.49A
{Chromobacterium violaceum atcc 12472}
Length = 350
Score = 29.5 bits (67), Expect = 0.38
Identities = 9/67 (13%), Positives = 23/67 (34%), Gaps = 13/67 (19%)
Query: 75 RKWVIHIERITREKVNGSTVNVGINPSKVVITKLRLDKDRKSLLDRKAKGRAAADKEKGT 134
R+W+ R + G + ++ ++ + L R+ + A G
Sbjct: 246 RRWLAAAARA--LAMLGDGEDDAVSETE----QASLRSLRRGV-------FATRPVAAGE 292
Query: 135 KFTPEDI 141
T +++
Sbjct: 293 ALTADNV 299
>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 = 28.5 bits (63), Expect = 0.85
Identities = 13/62 (20%), Positives = 24/62 (38%), Gaps = 18/62 (29%)
Query: 46 SMPVRKDDEVQVVRGTYKGREGKVVQVYRRKWVIHIERITREKVNGSTVN-VGINPSKVV 104
M + + V+VV R G +Q + R+++ S + INP +V
Sbjct: 1776 VMSI--ESLVEVVFY----R-GMTMQ----------VAVPRDELGRSNYGMIAINPGRVA 1818
Query: 105 IT 106
+
Sbjct: 1819 AS 1820
>2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear
protein; 1.45A {Homo sapiens}
Length = 127
Score = 27.6 bits (61), Expect = 0.94
Identities = 7/33 (21%), Positives = 14/33 (42%)
Query: 50 RKDDEVQVVRGTYKGREGKVVQVYRRKWVIHIE 82
+ V+ G Y+G EG + + + + I
Sbjct: 72 APGKRILVLNGGYRGNEGTLESINEKTFSATIV 104
>2vnu_D Exosome complex exonuclease RRP44; hydrolase-RNA complex, RNA
degradation, RNA-binding, RNA Pro; HET: 1PE; 2.30A
{Saccharomyces cerevisiae} SCOP: b.40.4.5 b.40.4.5
b.40.4.5 b.40.4.16
Length = 760
Score = 28.1 bits (63), Expect = 1.3
Identities = 8/26 (30%), Positives = 10/26 (38%)
Query: 52 DDEVQVVRGTYKGREGKVVQVYRRKW 77
D + R KVV + RR W
Sbjct: 134 KDAMIAQRSKKIQPTAKVVYIQRRSW 159
>2do3_A Transcription elongation factor SPT5; KOW motif, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
SCOP: b.34.5.5
Length = 69
Score = 25.5 bits (56), Expect = 3.0
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 53 DEVQVVRGTYKGREGKVVQV 72
D V+V+ G ++G G +V+V
Sbjct: 22 DHVKVIAGRFEGDTGLIVRV 41
>1vli_A Spore coat polysaccharide biosynthesis protein SP; 2636322, JCSG,
protein structure initiative, BS SPSE, PSI; 2.38A
{Bacillus subtilis} SCOP: b.85.1.1 c.1.10.6
Length = 385
Score = 26.1 bits (58), Expect = 4.9
Identities = 5/28 (17%), Positives = 11/28 (39%), Gaps = 7/28 (25%)
Query: 114 RKSLLDRKAKGRAAADKEKGTKFTPEDI 141
+ + A +KG F+ ++I
Sbjct: 315 YRGI-------FTTAPIQKGEAFSEDNI 335
>2rr8_A Iqgap1 protein; F-actin binding protein, protein binding; NMR {Homo
sapiens}
Length = 190
Score = 25.7 bits (56), Expect = 5.7
Identities = 8/43 (18%), Positives = 12/43 (27%), Gaps = 4/43 (9%)
Query: 99 NPSKVVITKLRLDKDRKSLLDRKAKGRAAADKEKGTKFTPEDI 141
N + + L L + D FT E+I
Sbjct: 124 NMPRCIYCIHAL----SLYLFKLGLAPQIQDLYGKVDFTEEEI 162
>2wqp_A Polysialic acid capsule biosynthesis protein SIAC; NEUB, inhibitor,
TIM barrel, sialic acid synthase, transfera; HET: WQP;
1.75A {Neisseria meningitidis} PDB: 2zdr_A 1xuz_A*
1xuu_A 3cm4_A
Length = 349
Score = 26.0 bits (58), Expect = 6.1
Identities = 5/28 (17%), Positives = 11/28 (39%), Gaps = 7/28 (25%)
Query: 114 RKSLLDRKAKGRAAADKEKGTKFTPEDI 141
S+ A D +KG + +++
Sbjct: 290 FASV-------VADKDIKKGELLSGDNL 310
>3p8b_B Transcription antitermination protein NUSG; transcription
elongation factor, RNA polymerase, transferase
transcription complex; 1.80A {Pyrococcus furiosus} PDB:
3qqc_D
Length = 152
Score = 25.1 bits (55), Expect = 7.8
Identities = 11/41 (26%), Positives = 22/41 (53%)
Query: 47 MPVRKDDEVQVVRGTYKGREGKVVQVYRRKWVIHIERITRE 87
+ D V+V+ G +KG++ KVV++ K + ++ I
Sbjct: 90 SGLEPGDLVEVIAGPFKGQKAKVVKIDESKDEVVVQFIDAI 130
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding,
exonucle binding, mitochondrion, rRNA processing; 3.00A
{Saccharomyces cerevisiae}
Length = 977
Score = 25.5 bits (56), Expect = 8.0
Identities = 8/26 (30%), Positives = 10/26 (38%)
Query: 52 DDEVQVVRGTYKGREGKVVQVYRRKW 77
D + R KVV + RR W
Sbjct: 351 KDAMIAQRSKKIQPTAKVVYIQRRSW 376
>3sq6_A ACHBP, neuronal acetylcholine receptor subunit alpha-7,
acetylcholine-binding protein; nicotinic receptor; HET:
EPJ NAG; 2.80A {Homo sapiens} PDB: 3sq9_A*
Length = 204
Score = 25.2 bits (55), Expect = 8.4
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 34 LSTDLRQKYNVRSMPVRKDDEVQV 57
L +L + YN +P ++D V V
Sbjct: 6 LYKELVKNYNPDVIPTQRDRPVTV 29
>1tjy_A Sugar transport protein; protein-ligand complex, signaling protein;
HET: PAV; 1.30A {Salmonella typhimurium} SCOP: c.93.1.1
PDB: 1tm2_A 3t95_A* 3ejw_A*
Length = 316
Score = 25.4 bits (56), Expect = 8.4
Identities = 10/53 (18%), Positives = 21/53 (39%)
Query: 89 VNGSTVNVGINPSKVVITKLRLDKDRKSLLDRKAKGRAAADKEKGTKFTPEDI 141
+ +NVG + I K+ + + + +AKG + F ++I
Sbjct: 259 LKNMPMNVGDSLDIPGIGKVTVSPNSEQGYHYEAKGNGIVLLPERVIFNKDNI 311
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
0.316 0.131 0.361
Gapped
Lambda K H
0.267 0.0769 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,165,774
Number of extensions: 122484
Number of successful extensions: 337
Number of sequences better than 10.0: 1
Number of HSP's gapped: 335
Number of HSP's successfully gapped: 41
Length of query: 146
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 61
Effective length of database: 4,328,508
Effective search space: 264038988
Effective search space used: 264038988
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 (21.6 bits)
S2: 53 (24.1 bits)