RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 031394
(160 letters)
>3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 191
Score = 182 bits (464), Expect = 9e-60
Identities = 102/157 (64%), Positives = 123/157 (78%)
Query: 3 VKPTDKPCLIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFR 62
PCLIV+R+KRWERK+CKPNSLP LHK HVK GDTVKVI+G +KGKIGEI+K+ +
Sbjct: 35 KTEGHSPCLIVMRIKRWERKDCKPNSLPKLHKRHVKVGDTVKVISGGEKGKIGEISKIHK 94
Query: 63 HNSTVMVKDINLKTKHVKKREEEEQGQIIKIEAPIHSSNVMLYSKEMEVASRVGHKVLDD 122
HNSTV++KD+N KTKHVK +EE EQGQIIKIEA IHSSNVML KE EVA RVGHK+L+D
Sbjct: 95 HNSTVIIKDLNFKTKHVKSKEEGEQGQIIKIEAAIHSSNVMLILKEQEVADRVGHKILED 154
Query: 123 GTRVRYLIKTGEIIDSAENWKKLKEANRQEKTEVATA 159
+VRYLIKTGEI+D+ + WK+++ E A
Sbjct: 155 VRKVRYLIKTGEIVDTPDRWKEIQNKKESETAVAVAA 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 = 131 bits (331), Expect = 2e-40
Identities = 39/108 (36%), Positives = 61/108 (56%)
Query: 33 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 92
KMHVK GDTV V +G KG++G++ +V V+V+ +N+ K V+ + QG I+
Sbjct: 3 VKMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFIE 62
Query: 93 IEAPIHSSNVMLYSKEMEVASRVGHKVLDDGTRVRYLIKTGEIIDSAE 140
EAP+H+S V +RV K L++G ++R K G +D+ E
Sbjct: 63 KEAPLHASKVRPICPACGKPTRVRKKFLENGKKIRVCAKCGGALDTEE 110
>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 = 123 bits (311), Expect = 2e-37
Identities = 37/113 (32%), Positives = 59/113 (52%), Gaps = 1/113 (0%)
Query: 25 KPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREE 84
K+H K GDTV V++G KG+ G++ + V+V+ +N+ TK+VK
Sbjct: 4 PSAGSHHNDKLHFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEGVNVITKNVKPSMT 63
Query: 85 EEQGQIIKIEAPIHSSNVMLYSKEMEVASRVGHKVLDDGTRVRYLIKTGEIID 137
QG + E +H+S V L E A+RV ++ DG +VR + +G+ ID
Sbjct: 64 NPQGGQEQRELALHASKVALVDPETGKATRVRKQI-VDGKKVRVAVASGKTID 115
>2ftc_N Mitochondrial ribosomal protein L24; mitochondrial ribosome, large
ribosomal subunit, ribosomal R ribosome; 12.10A {Bos
taurus} PDB: 3iy9_N
Length = 96
Score = 119 bits (301), Expect = 4e-36
Identities = 29/97 (29%), Positives = 51/97 (52%), Gaps = 1/97 (1%)
Query: 40 GDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIKIEAPIHS 99
GDTV+++ G D GK G++ +V R + V+V +N +++ K + +G +I EAP+
Sbjct: 1 GDTVEILEGKDAGKQGKVVQVIRQRNWVVVGGLNTHYRYIGKTMDY-RGTMIPSEAPLLH 59
Query: 100 SNVMLYSKEMEVASRVGHKVLDDGTRVRYLIKTGEII 136
V L + + + + G RVR ++G II
Sbjct: 60 RQVKLVDPMDRKPTEIEWRFTEAGERVRVSTRSGRII 96
>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 = 98.8 bits (247), Expect = 7e-28
Identities = 36/103 (34%), Positives = 53/103 (51%), Gaps = 3/103 (2%)
Query: 35 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVK-KREEEEQGQIIKI 93
++ D V V+ G DKGK G++ V V+V+ INL KH K + G I++
Sbjct: 2 AKIRRDDEVIVLTGKDKGKRGKVKNVLSSG-KVIVEGINLVKKHQKPVPALNQPGGIVEK 60
Query: 94 EAPIHSSNVMLYSKEMEVASRVGHKVLDDGTRVRYLIKTGEII 136
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 = 54.5 bits (131), Expect = 2e-10
Identities = 21/84 (25%), Positives = 39/84 (46%), Gaps = 11/84 (13%)
Query: 33 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 92
+ V AGDTV+V+ G G+ GE+ V + + V+D+ L+ + +
Sbjct: 39 RNVRVNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVEDVTLEKTDGE-----------E 87
Query: 93 IEAPIHSSNVMLYSKEMEVASRVG 116
+ P+ +SNV + ++E R
Sbjct: 88 VPRPLDTSNVRVTDLDLEDEKREA 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 = 43.5 bits (102), Expect = 3e-06
Identities = 14/72 (19%), Positives = 30/72 (41%), Gaps = 11/72 (15%)
Query: 33 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 92
+ ++ D V V+ G KG+ G+I+ V+R V V + + +
Sbjct: 46 KALPIRRDDEVLVVRGSKKGQEGKISSVYRLKFAVQVDKVTKEKVNGA-----------S 94
Query: 93 IEAPIHSSNVML 104
+ +H S +++
Sbjct: 95 VPINLHPSKLVI 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 = 42.4 bits (99), Expect = 7e-06
Identities = 16/72 (22%), Positives = 32/72 (44%), Gaps = 11/72 (15%)
Query: 33 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 92
M V+ D V ++ G KG G++T+V+R + V+ I+ +
Sbjct: 45 RSMPVRKDDEVLIVRGKFKGNKGKVTQVYRKKWAIHVEKISKNKLNGA-----------P 93
Query: 93 IEAPIHSSNVML 104
+ P+ +S ++L
Sbjct: 94 YQIPLSASQLVL 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 = 40.1 bits (93), Expect = 6e-05
Identities = 15/78 (19%), Positives = 35/78 (44%), Gaps = 11/78 (14%)
Query: 33 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 92
+ ++ D V+V+ G KG+ G++ +V+R + V+ I + +
Sbjct: 45 RSIPIRKDDEVQVVRGSYKGREGKVVQVYRRRWVIHVERITREKVNGS-----------T 93
Query: 93 IEAPIHSSNVMLYSKEME 110
+ IH S V++ +++
Sbjct: 94 VNVGIHPSKVVVTKLKLD 111
>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 = 19/168 (11%), Positives = 52/168 (30%), Gaps = 48/168 (28%)
Query: 13 VVRLKR-WERKEC----KPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTV 67
V RL+ + ++ +P ++ + G GK T
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGV-----------LGS--GK------------TW 165
Query: 68 MVKDINLKTKHVKKR-----------EEEEQGQIIKIEAPIHSSNVMLYSKEMEVASRVG 116
+ D+ + V+ + ++++ + ++ + +S +
Sbjct: 166 VALDV-CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224
Query: 117 HKVLDDGTRVRYLIKTGE------IIDSAENWKKLKEANRQEKTEVAT 158
++ +R L+K+ ++ + +N K N K + T
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT 272
Score = 33.3 bits (75), Expect = 0.030
Identities = 22/161 (13%), Positives = 43/161 (26%), Gaps = 54/161 (33%)
Query: 15 RLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMV--KDI 72
L+R + + N L VL V + + F + +++ +
Sbjct: 233 ELRRLLKSKPYENCLLVL--------LNV-----QNA----KAWNAFNLSCKILLTTRFK 275
Query: 73 NL-------KTKHVKKREEEEQGQIIKIEAPIHSSNVMLYSKEME--VASRVGHKVLD-- 121
+ T H+ + L E++ + + + D
Sbjct: 276 QVTDFLSAATTTHISL-DHHSMT---------------LTPDEVKSLLLKYLDCRPQDLP 319
Query: 122 ----DGT-RVRYLIKTGE-IIDSAENWKKLKEANRQEKTEV 156
R +I E I D W K N + T +
Sbjct: 320 REVLTTNPRRLSII--AESIRDGLATWDNWKHVNCDKLTTI 358
>2zkr_t 60S ribosomal protein L26; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 145
Score = 33.1 bits (75), Expect = 0.015
Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 12/73 (16%)
Query: 33 HKMHVKAGDTVKVIAGCDKGK-IGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQII 91
M ++ D V+V+ G KG+ IG++ +V+R + ++ + + +
Sbjct: 45 RSMPIRKDDEVQVVRGHYKGQQIGKVVQVYRKKYVIYIERVQREKANGT----------- 93
Query: 92 KIEAPIHSSNVML 104
+ IH S V++
Sbjct: 94 TVHVGIHPSKVVI 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 = 34.3 bits (78), Expect = 0.015
Identities = 26/150 (17%), Positives = 47/150 (31%), Gaps = 69/150 (46%)
Query: 26 PNSL----PVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKK 81
P SL L K K +G D+ +I F +
Sbjct: 383 PQSLYGLNLTLRK--------AKAPSGLDQSRIP-----FS------------------E 411
Query: 82 REEEEQGQIIKIEAPIHSS----------------NVMLYSKEMEVASRVGHKVLD--DG 123
R+ + + + + +P HS NV +K++++ V D DG
Sbjct: 412 RKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIP------VYDTFDG 465
Query: 124 TRVRYLIKTGEIIDS-AE-------NWKKL 145
+ +R L +G I + + W+
Sbjct: 466 SDLRVL--SGSISERIVDCIIRLPVKWETT 493
>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 = 30.3 bits (67), Expect = 0.16
Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 10/30 (33%)
Query: 15 RLKRWERKECKPNSLPVLHKMHVKAGDTVK 44
LK + +S P L +KA T++
Sbjct: 28 SLKLYA-----DDSAPAL---AIKA--TME 47
Score = 28.0 bits (61), Expect = 1.1
Identities = 5/24 (20%), Positives = 14/24 (58%), Gaps = 6/24 (25%)
Query: 85 EEQGQIIKIEAPIHSSNVMLYSKE 108
E+Q + K++ +++ LY+ +
Sbjct: 18 EKQ-ALKKLQ-----ASLKLYADD 35
>3p8b_B Transcription antitermination protein NUSG; transcription
elongation factor, RNA polymerase, transferase
transcription complex; 1.80A {Pyrococcus furiosus} PDB:
3qqc_D
Length = 152
Score = 29.8 bits (67), Expect = 0.27
Identities = 14/61 (22%), Positives = 31/61 (50%), Gaps = 8/61 (13%)
Query: 37 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK--------DINLKTKHVKKREEEEQG 88
++ GD V+VIAG KG+ ++ K+ V+V+ + +K +V+ + ++
Sbjct: 92 LEPGDLVEVIAGPFKGQKAKVVKIDESKDEVVVQFIDAIVPIPVTIKGDYVRLISKLQKE 151
Query: 89 Q 89
+
Sbjct: 152 E 152
>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 = 27.8 bits (62), Expect = 0.45
Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 4/53 (7%)
Query: 36 HVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVM----VKDINLKTKHVKKREE 84
+ K GD VKVIAG +G G I +V + + + ++ + + ++ E
Sbjct: 17 YFKMGDHVKVIAGRFEGDTGLIVRVEENFVILFSDLTMHELKVLPRDLQLCSE 69
>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 = 25.6 bits (56), Expect = 2.5
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 40 GDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLK 75
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 = 4.2
Identities = 16/79 (20%), Positives = 31/79 (39%), Gaps = 21/79 (26%)
Query: 78 HVKKREEEEQGQIIKIEAPIHSSNVMLYSKEMEVASR-VGHKVLDDGTRVRYLIKTGEII 136
++K EE++ ++ +++A SK ME R K L++ + +
Sbjct: 86 SIRKWREEQRKRLQELDAA---------SKVMEQEWREKAKKDLEEWNQRQ--------- 127
Query: 137 DSAENWKKLKEANRQEKTE 155
+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 = 26.0 bits (57), Expect = 4.4
Identities = 5/33 (15%), Positives = 12/33 (36%)
Query: 38 KAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK 70
G + V+ G +G G + + + +
Sbjct: 72 APGKRILVLNGGYRGNEGTLESINEKTFSATIV 104
>2aja_A Ankyrin repeat family protein; NESG, Q5ZSV0, structural genomics,
PSI, protein structure initiative; 2.80A {Legionella
pneumophila} SCOP: a.118.24.1
Length = 376
Score = 26.1 bits (57), Expect = 5.4
Identities = 5/50 (10%), Positives = 16/50 (32%), Gaps = 6/50 (12%)
Query: 111 VASRVGHKVLDDGTRVRYLIKTGEIIDSAENWKKLKEANRQEKTEVATAA 160
+A R+G++ L+ ++ + + ++ A
Sbjct: 325 LALRLGNQGA-----CALLLSIPSVLALTKA-NNYYINETGGRLDLRAVA 368
>3iz6_E 40S ribosomal protein S2 (S5P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
2zkq_e 1s1h_E
Length = 274
Score = 25.6 bits (56), Expect = 7.9
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 8 KPCLIVVRLKRWERKECKPNSLPVLHKMHVKAG 40
K ++ VR W K +P+++P K+ K G
Sbjct: 142 KLSVVPVRRGYWGNKIGQPHTVP--CKVTGKCG 172
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
0.315 0.130 0.371
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: 2,354,757
Number of extensions: 132295
Number of successful extensions: 411
Number of sequences better than 10.0: 1
Number of HSP's gapped: 400
Number of HSP's successfully gapped: 39
Length of query: 160
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 74
Effective length of database: 4,300,587
Effective search space: 318243438
Effective search space used: 318243438
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 (24.6 bits)