RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 033131
(126 letters)
>3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 191
Score = 147 bits (373), Expect = 1e-46
Identities = 80/125 (64%), Positives = 98/125 (78%)
Query: 1 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKIE 60
HVK GDTVKVI+G +KGKIGEI+K+ +HNSTV++KD+N KTKHVK +EE EQGQIIKIE
Sbjct: 67 RHVKVGDTVKVISGGEKGKIGEISKIHKHNSTVIIKDLNFKTKHVKSKEEGEQGQIIKIE 126
Query: 61 APIHSSNVMLYSKEMEVASRVGHKVLDDGTRVRYLIKTGEIIDSAENWKKLKEANRQEKT 120
A IHSSNVML KE EVA RVGHK+L+D +VRYLIKTGEI+D+ + WK+++ E
Sbjct: 127 AAIHSSNVMLILKEQEVADRVGHKILEDVRKVRYLIKTGEIVDTPDRWKEIQNKKESETA 186
Query: 121 EVATA 125
A
Sbjct: 187 VAVAA 191
>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 = 127 bits (321), Expect = 1e-39
Identities = 38/106 (35%), Positives = 60/106 (56%)
Query: 1 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKIE 60
MHVK GDTV V +G KG++G++ +V V+V+ +N+ K V+ + QG I+ E
Sbjct: 5 MHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFIEKE 64
Query: 61 APIHSSNVMLYSKEMEVASRVGHKVLDDGTRVRYLIKTGEIIDSAE 106
AP+H+S V +RV K L++G ++R K G +D+ E
Sbjct: 65 APLHASKVRPICPACGKPTRVRKKFLENGKKIRVCAKCGGALDTEE 110
>2ftc_N Mitochondrial ribosomal protein L24; mitochondrial ribosome, large
ribosomal subunit, ribosomal R ribosome; 12.10A {Bos
taurus} PDB: 3iy9_N
Length = 96
Score = 118 bits (298), Expect = 3e-36
Identities = 29/97 (29%), Positives = 51/97 (52%), Gaps = 1/97 (1%)
Query: 6 GDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKIEAPIHS 65
GDTV+++ G D GK G++ +V R + V+V +N +++ K + +G +I EAP+
Sbjct: 1 GDTVEILEGKDAGKQGKVVQVIRQRNWVVVGGLNTHYRYIGKTMDY-RGTMIPSEAPLLH 59
Query: 66 SNVMLYSKEMEVASRVGHKVLDDGTRVRYLIKTGEII 102
V L + + + + G RVR ++G II
Sbjct: 60 RQVKLVDPMDRKPTEIEWRFTEAGERVRVSTRSGRII 96
>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 = 118 bits (298), Expect = 5e-36
Identities = 36/103 (34%), Positives = 58/103 (56%), Gaps = 1/103 (0%)
Query: 1 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKIE 60
+H K GDTV V++G KG+ G++ + V+V+ +N+ TK+VK QG + E
Sbjct: 14 LHFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEGVNVITKNVKPSMTNPQGGQEQRE 73
Query: 61 APIHSSNVMLYSKEMEVASRVGHKVLDDGTRVRYLIKTGEIID 103
+H+S V L E A+RV ++ DG +VR + +G+ ID
Sbjct: 74 LALHASKVALVDPETGKATRVRKQI-VDGKKVRVAVASGKTID 115
>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 = 97.2 bits (243), Expect = 8e-28
Identities = 36/103 (34%), Positives = 53/103 (51%), Gaps = 3/103 (2%)
Query: 1 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVK-KREEEEQGQIIKI 59
++ D V V+ G DKGK G++ V V+V+ INL KH K + G I++
Sbjct: 2 AKIRRDDEVIVLTGKDKGKRGKVKNVLSSG-KVIVEGINLVKKHQKPVPALNQPGGIVEK 60
Query: 60 EAPIHSSNVMLYSKEMEVASRVGHKVLDDGTRVRYLIKTGEII 102
EA I SNV +++ A RVG + +DG +VR+ E I
Sbjct: 61 EAAIQVSNVAIFNAATGKADRVGFR-FEDGKKVRFFKSNSETI 102
>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 = 53.3 bits (128), Expect = 2e-10
Identities = 21/82 (25%), Positives = 39/82 (47%), Gaps = 11/82 (13%)
Query: 1 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKIE 60
+ V AGDTV+V+ G G+ GE+ V + + V+D+ L+ + ++
Sbjct: 41 VRVNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVEDVTLEKTDGE-----------EVP 89
Query: 61 APIHSSNVMLYSKEMEVASRVG 82
P+ +SNV + ++E R
Sbjct: 90 RPLDTSNVRVTDLDLEDEKREA 111
>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 = 42.7 bits (100), Expect = 2e-06
Identities = 14/70 (20%), Positives = 30/70 (42%), Gaps = 11/70 (15%)
Query: 1 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKIE 60
+ ++ D V V+ G KG+ G+I+ V+R V V + + + +
Sbjct: 48 LPIRRDDEVLVVRGSKKGQEGKISSVYRLKFAVQVDKVTKEKVNGA-----------SVP 96
Query: 61 APIHSSNVML 70
+H S +++
Sbjct: 97 INLHPSKLVI 106
>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 = 41.6 bits (97), Expect = 6e-06
Identities = 16/70 (22%), Positives = 32/70 (45%), Gaps = 11/70 (15%)
Query: 1 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKIE 60
M V+ D V ++ G KG G++T+V+R + V+ I+ + +
Sbjct: 47 MPVRKDDEVLIVRGKFKGNKGKVTQVYRKKWAIHVEKISKNKLNGA-----------PYQ 95
Query: 61 APIHSSNVML 70
P+ +S ++L
Sbjct: 96 IPLSASQLVL 105
>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 = 39.0 bits (90), Expect = 9e-05
Identities = 15/76 (19%), Positives = 35/76 (46%), Gaps = 11/76 (14%)
Query: 1 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKIE 60
+ ++ D V+V+ G KG+ G++ +V+R + V+ I + + +
Sbjct: 47 IPIRKDDEVQVVRGSYKGREGKVVQVYRRRWVIHVERITREKVNGS-----------TVN 95
Query: 61 APIHSSNVMLYSKEME 76
IH S V++ +++
Sbjct: 96 VGIHPSKVVVTKLKLD 111
>2zkr_t 60S ribosomal protein L26; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 145
Score = 32.7 bits (74), Expect = 0.013
Identities = 15/71 (21%), Positives = 33/71 (46%), Gaps = 12/71 (16%)
Query: 1 MHVKAGDTVKVIAGCDKGK-IGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKI 59
M ++ D V+V+ G KG+ IG++ +V+R + ++ + + + +
Sbjct: 47 MPIRKDDEVQVVRGHYKGQQIGKVVQVYRKKYVIYIERVQREKANGT-----------TV 95
Query: 60 EAPIHSSNVML 70
IH S V++
Sbjct: 96 HVGIHPSKVVI 106
>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 = 31.6 bits (71), Expect = 0.056
Identities = 25/162 (15%), Positives = 49/162 (30%), Gaps = 69/162 (42%)
Query: 11 VIAGCDKGKIGE-ITKVFRH---NSTVMVKDINLKTKHV------------------KKR 48
I+ + ++ + + K H V + +N V K
Sbjct: 340 SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP 399
Query: 49 EEEEQGQI------IK-------IEAPIHSS----------------NVMLYSKEMEVAS 79
+Q +I +K + +P HS NV +K++++
Sbjct: 400 SGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIP- 458
Query: 80 RVGHKVLD--DGTRVRYLIKTGEIIDS-AE-------NWKKL 111
V D DG+ +R L +G I + + W+
Sbjct: 459 -----VYDTFDGSDLRVL--SGSISERIVDCIIRLPVKWETT 493
>3p8b_B Transcription antitermination protein NUSG; transcription
elongation factor, RNA polymerase, transferase
transcription complex; 1.80A {Pyrococcus furiosus} PDB:
3qqc_D
Length = 152
Score = 29.4 bits (66), Expect = 0.18
Identities = 14/61 (22%), Positives = 31/61 (50%), Gaps = 8/61 (13%)
Query: 3 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK--------DINLKTKHVKKREEEEQG 54
++ GD V+VIAG KG+ ++ K+ V+V+ + +K +V+ + ++
Sbjct: 92 LEPGDLVEVIAGPFKGQKAKVVKIDESKDEVVVQFIDAIVPIPVTIKGDYVRLISKLQKE 151
Query: 55 Q 55
+
Sbjct: 152 E 152
>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 = 0.27
Identities = 5/24 (20%), Positives = 14/24 (58%), Gaps = 6/24 (25%)
Query: 51 EEQGQIIKIEAPIHSSNVMLYSKE 74
E+Q + K++ +++ LY+ +
Sbjct: 18 EKQ-ALKKLQ-----ASLKLYADD 35
>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 = 27.0 bits (60), Expect = 0.57
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 2 HVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVM 34
+ K GD VKVIAG +G G I +V + +
Sbjct: 17 YFKMGDHVKVIAGRFEGDTGLIVRVEENFVILF 49
>2e6z_A Transcription elongation factor SPT5; KOW motif, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 59
Score = 24.8 bits (54), Expect = 3.1
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 6 GDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLK 41
GD V+V G G+I V + T+M K +LK
Sbjct: 11 GDNVEVCEGELINLQGKILSVDGNKITIMPKHEDLK 46
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 26.3 bits (57), Expect = 3.2
Identities = 16/79 (20%), Positives = 31/79 (39%), Gaps = 21/79 (26%)
Query: 44 HVKKREEEEQGQIIKIEAPIHSSNVMLYSKEMEVASR-VGHKVLDDGTRVRYLIKTGEII 102
++K EE++ ++ +++A SK ME R K L++ + +
Sbjct: 86 SIRKWREEQRKRLQELDAA---------SKVMEQEWREKAKKDLEEWNQRQ--------- 127
Query: 103 DSAENWKKLKEANRQEKTE 121
+E +K K NR
Sbjct: 128 --SEQVEKNKINNRIADKA 144
>2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear
protein; 1.45A {Homo sapiens}
Length = 127
Score = 25.7 bits (56), Expect = 3.6
Identities = 5/33 (15%), Positives = 12/33 (36%)
Query: 4 KAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK 36
G + V+ G +G G + + + +
Sbjct: 72 APGKRILVLNGGYRGNEGTLESINEKTFSATIV 104
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
0.312 0.128 0.349
Gapped
Lambda K H
0.267 0.0536 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,838,979
Number of extensions: 101178
Number of successful extensions: 219
Number of sequences better than 10.0: 1
Number of HSP's gapped: 209
Number of HSP's successfully gapped: 33
Length of query: 126
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 44
Effective length of database: 4,412,271
Effective search space: 194139924
Effective search space used: 194139924
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (23.9 bits)