RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 032704
(135 letters)
>3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 191
Score = 146 bits (369), Expect = 9e-46
Identities = 85/125 (68%), Positives = 99/125 (79%), Gaps = 1/125 (0%)
Query: 1 MAAMAALQSSMTSLSISSNSFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPN 60
MAAM LQSS TSLS+SSNSF GQRL + PCLIV+R+KRWERK+CKPN
Sbjct: 1 MAAMV-LQSSFTSLSLSSNSFLGQRLFPSPTTLQVKTEGHSPCLIVMRIKRWERKDCKPN 59
Query: 61 SLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQ 120
SLP LHK HVK GDTVKVI+G +KGKIGEI+K+ +HNSTV++KD+N KTKHVK +EE EQ
Sbjct: 60 SLPKLHKRHVKVGDTVKVISGGEKGKIGEISKIHKHNSTVIIKDLNFKTKHVKSKEEGEQ 119
Query: 121 GQIIK 125
GQIIK
Sbjct: 120 GQIIK 124
>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 = 77.6 bits (192), Expect = 6e-20
Identities = 23/60 (38%), Positives = 36/60 (60%)
Query: 66 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 125
KMHVK GDTV V +G KG++G++ +V V+V+ +N+ K V+ + QG I+
Sbjct: 3 VKMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVRVSPKYPQGGFIE 62
>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 = 77.6 bits (192), Expect = 7e-20
Identities = 21/68 (30%), Positives = 34/68 (50%)
Query: 58 KPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREE 117
K+H K GDTV V++G KG+ G++ + V+V+ +N+ TK+VK
Sbjct: 4 PSAGSHHNDKLHFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEGVNVITKNVKPSMT 63
Query: 118 EEQGQIIK 125
QG +
Sbjct: 64 NPQGGQEQ 71
>2ftc_N Mitochondrial ribosomal protein L24; mitochondrial ribosome, large
ribosomal subunit, ribosomal R ribosome; 12.10A {Bos
taurus} PDB: 3iy9_N
Length = 96
Score = 67.6 bits (166), Expect = 4e-16
Identities = 17/53 (32%), Positives = 32/53 (60%), Gaps = 1/53 (1%)
Query: 73 GDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQGQIIK 125
GDTV+++ G D GK G++ +V R + V+V +N +++ K + +G +I
Sbjct: 1 GDTVEILEGKDAGKQGKVVQVIRQRNWVVVGGLNTHYRYIGKT-MDYRGTMIP 52
>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 = 58.3 bits (142), Expect = 2e-12
Identities = 20/59 (33%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 68 MHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVK-KREEEEQGQIIK 125
++ D V V+ G DKGK G++ V V+V+ INL KH K + G I++
Sbjct: 2 AKIRRDDEVIVLTGKDKGKRGKVKNVLSSG-KVIVEGINLVKKHQKPVPALNQPGGIVE 59
>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 = 46.4 bits (110), Expect = 9e-08
Identities = 18/73 (24%), Positives = 33/73 (45%), Gaps = 6/73 (8%)
Query: 44 LIVVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK 103
+ L R+E + + V AGDTV+V+ G G+ GE+ V + + V+
Sbjct: 23 QVRATLSADLREEYGQRN------VRVNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVE 76
Query: 104 DINLKTKHVKKRE 116
D+ L+ ++
Sbjct: 77 DVTLEKTDGEEVP 89
>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 = 39.7 bits (92), Expect = 5e-05
Identities = 11/51 (21%), Positives = 25/51 (49%)
Query: 66 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKRE 116
+ ++ D V+V+ G KG+ G++ +V+R + V+ I + +
Sbjct: 45 RSIPIRKDDEVQVVRGSYKGREGKVVQVYRRRWVIHVERITREKVNGSTVN 95
>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 = 37.7 bits (87), Expect = 2e-04
Identities = 13/51 (25%), Positives = 25/51 (49%)
Query: 66 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKRE 116
M V+ D V ++ G KG G++T+V+R + V+ I+ + +
Sbjct: 45 RSMPVRKDDEVLIVRGKFKGNKGKVTQVYRKKWAIHVEKISKNKLNGAPYQ 95
>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 = 37.3 bits (86), Expect = 2e-04
Identities = 12/51 (23%), Positives = 23/51 (45%)
Query: 66 HKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKRE 116
+ ++ D V V+ G KG+ G+I+ V+R V V + + +
Sbjct: 46 KALPIRRDDEVLVVRGSKKGQEGKISSVYRLKFAVQVDKVTKEKVNGASVP 96
>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 = 37.3 bits (86), Expect = 7e-04
Identities = 22/134 (16%), Positives = 42/134 (31%), Gaps = 36/134 (26%)
Query: 12 TSLSISSNSFF-GQRL--SFPSLSPITVKPTDKPCLIVVRLKRWERKECKPNSLPVLHK- 67
L + + SFF +L F + P +PT+ + +P + L
Sbjct: 18 HVLLVPTASFFIASQLQEQFNKILP---EPTEGFA-----------ADDEPTTPAELVGK 63
Query: 68 --MHVKAGDTVKVIAGCDKGKIGEITK-VFRH-NSTVMV-KDINLKTKH--VKKREEEEQ 120
+V ++ G+ ++ + + DI H K +E
Sbjct: 64 FLGYV-----SSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI-----HALAAKLLQEND 113
Query: 121 GQIIKVYSLI-CYF 133
++K LI Y
Sbjct: 114 TTLVKTKELIKNYI 127
>3p8b_B Transcription antitermination protein NUSG; transcription
elongation factor, RNA polymerase, transferase
transcription complex; 1.80A {Pyrococcus furiosus} PDB:
3qqc_D
Length = 152
Score = 32.5 bits (74), Expect = 0.018
Identities = 14/61 (22%), Positives = 31/61 (50%), Gaps = 8/61 (13%)
Query: 70 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK--------DINLKTKHVKKREEEEQG 121
++ GD V+VIAG KG+ ++ K+ V+V+ + +K +V+ + ++
Sbjct: 92 LEPGDLVEVIAGPFKGQKAKVVKIDESKDEVVVQFIDAIVPIPVTIKGDYVRLISKLQKE 151
Query: 122 Q 122
+
Sbjct: 152 E 152
>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 = 32.9 bits (74), Expect = 0.023
Identities = 13/120 (10%), Positives = 31/120 (25%), Gaps = 33/120 (27%)
Query: 11 MTSLSISSNSFFGQRLSFPSLSPITVKPTDKPCLIVVRLKRWERKECKPNSLPVLHKMHV 70
+ L + + R S + + L+R + + N L VL
Sbjct: 202 LQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA------ELRRLLKSKPYENCLLVL----- 250
Query: 71 KAGDTVKVIAGCDKGKIGEITKVFRHNSTVMV--KDINL-------KTKHVKKREEEEQG 121
V + + F + +++ + + T H+ +
Sbjct: 251 ---LNV-----QNA----KAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISL-DHHSMT 297
Score = 32.1 bits (72), Expect = 0.041
Identities = 17/146 (11%), Positives = 44/146 (30%), Gaps = 46/146 (31%)
Query: 4 MAALQSSMTSLSISSNSFFGQRLSF----PSLSPITVKPTDKPCLIVVRLKRWERKECKP 59
M+ +++ S+ + + QR + V +P ++L++ E +P
Sbjct: 95 MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV-SRLQP---YLKLRQA-LLELRP 149
Query: 60 NSLPVLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKR---- 115
++ + G GK T + D+ + V+ +
Sbjct: 150 AKNVLIDGV-----------LGS--GK------------TWVALDV-CLSYKVQCKMDFK 183
Query: 116 -------EEEEQGQIIKVYSLICYFI 134
++++ + Y I
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQI 209
Score = 27.5 bits (60), Expect = 1.9
Identities = 26/132 (19%), Positives = 47/132 (35%), Gaps = 34/132 (25%)
Query: 6 ALQSSMTSLSISSN-SFFGQRLS-FPSLSPITVKPTDKPCLIVVRLKRWERKECKPNSLP 63
++SS+ L + F RLS FP + I ++ + W K + +
Sbjct: 358 IIESSLNVLEPAEYRKMF-DRLSVFPPSAHIPTI-------LLSLI--WFDVI-KSDVMV 406
Query: 64 VLHKMHVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLKTKHVKKREEEEQ--G 121
V++K+H + + ST+ + I L+ K K E E
Sbjct: 407 VVNKLHKYS------LVEKQ-----------PKESTISIPSIYLELK--VKLENEYALHR 447
Query: 122 QIIKVYSLICYF 133
I+ Y++ F
Sbjct: 448 SIVDHYNIPKTF 459
>2zkr_t 60S ribosomal protein L26; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 145
Score = 31.1 bits (70), Expect = 0.057
Identities = 11/50 (22%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 66 HKMHVKAGDTVKVIAGCDKGK-IGEITKVFRHNSTVMVKDINLKTKHVKK 114
M ++ D V+V+ G KG+ IG++ +V+R + ++ + + +
Sbjct: 45 RSMPIRKDDEVQVVRGHYKGQQIGKVVQVYRKKYVIYIERVQREKANGTT 94
>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 = 29.3 bits (66), Expect = 0.083
Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 4/53 (7%)
Query: 69 HVKAGDTVKVIAGCDKGKIGEITKVFRHNSTVM----VKDINLKTKHVKKREE 117
+ K GD VKVIAG +G G I +V + + + ++ + + ++ E
Sbjct: 17 YFKMGDHVKVIAGRFEGDTGLIVRVEENFVILFSDLTMHELKVLPRDLQLCSE 69
>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 = 30.7 bits (68), Expect = 0.10
Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 10/30 (33%)
Query: 48 RLKRWERKECKPNSLPVLHKMHVKAGDTVK 77
LK + +S P L +KA T++
Sbjct: 28 SLKLYA-----DDSAPAL---AIKA--TME 47
>2ckk_A KIN17; beta barrel, ribosomal protein, ribonucleoprotein, nuclear
protein; 1.45A {Homo sapiens}
Length = 127
Score = 28.4 bits (63), Expect = 0.43
Identities = 5/33 (15%), Positives = 12/33 (36%)
Query: 71 KAGDTVKVIAGCDKGKIGEITKVFRHNSTVMVK 103
G + V+ G +G G + + + +
Sbjct: 72 APGKRILVLNGGYRGNEGTLESINEKTFSATIV 104
>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 = 27.1 bits (60), Expect = 0.50
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 73 GDTVKVIAGCDKGKIGEITKVFRHNSTVMVKDINLK 108
GD V+V G G+I V + T+M K +LK
Sbjct: 11 GDNVEVCEGELINLQGKILSVDGNKITIMPKHEDLK 46
>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 = 27.2 bits (60), Expect = 1.8
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 41 KPCLIVVRLKRWERKECKPNSLPVLHKMHVKAG 73
K ++ VR W K +P+++P K+ K G
Sbjct: 142 KLSVVPVRRGYWGNKIGQPHTVP--CKVTGKCG 172
>1n0e_A Protein MRAZ; cell division and cell WALL biosynthesis protein,
structural genomics, BSGC structure funded by NIH;
2.70A {Mycoplasma pneumoniae} SCOP: b.129.1.2 PDB:
1n0f_A 1n0g_A
Length = 166
Score = 26.2 bits (58), Expect = 2.7
Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 6/51 (11%)
Query: 25 RLSFPS-----LSP-ITVKPTDKPCLIVVRLKRWERKECKPNSLPVLHKMH 69
R+S P+ I + + CL V + + +++ + NS P K
Sbjct: 40 RISLPAKLRAFFEGSIVINRGFENCLEVRKPQDFQKYFEQFNSFPSTQKDT 90
>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich
RE receptor-like kinases, leucine-rich repeat; HET: NAG
BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A*
3rj0_A*
Length = 768
Score = 26.4 bits (59), Expect = 4.1
Identities = 7/24 (29%), Positives = 11/24 (45%), Gaps = 3/24 (12%)
Query: 9 SSMTSLSISSNSFFGQRLSFPSLS 32
++ L +SSN+F P L
Sbjct: 200 VNLEFLDVSSNNFST---GIPFLG 220
>3u5c_C Guanine nucleotide-binding protein subunit beta-L protein (ASC1,
RACK1); translation, ribosome, ribosomal, ribosomal R
ribosomal protein, eukaryotic ribosome, RNA-protein C;
3.00A {Saccharomyces cerevisiae} PDB: 3izb_E 3o30_B
3o2z_B 3u5g_C 3jyv_E* 1s1h_E
Length = 254
Score = 26.0 bits (57), Expect = 4.1
Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 2/33 (6%)
Query: 41 KPCLIVVRLKRWERKECKPNSLPVLHKMHVKAG 73
K +I +R W +P+SL K K G
Sbjct: 133 KLSVIPIRRGYWGTNLGQPHSLA--TKTTGKCG 163
>2oug_A Transcriptional activator RFAH; transcription factor, virulence,
transcription pausing, transcription elongation; 2.10A
{Escherichia coli}
Length = 162
Score = 25.2 bits (56), Expect = 6.0
Identities = 11/62 (17%), Positives = 23/62 (37%), Gaps = 11/62 (17%)
Query: 36 VKPTDKPCLI----VVRLKRWERKECKPNSLPVLHKMHVKAGDTVKVIAGCDKGKIGEIT 91
V+ P ++ + +L ++ K+ + P GD V + G +G T
Sbjct: 79 VRFGASPAIVPSAVIHQLSVYKPKDIVDPATP-------YPGDKVIITEGAFEGFQAIFT 131
Query: 92 KV 93
+
Sbjct: 132 EP 133
>2qf4_A Cell shape determining protein MREC; filament A-lytic protease
fold, structural protein; 1.20A {Streptococcus
pneumoniae} PDB: 2qf5_A
Length = 172
Score = 25.3 bits (56), Expect = 6.2
Identities = 8/32 (25%), Positives = 13/32 (40%), Gaps = 4/32 (12%)
Query: 70 VKAGDTVKVIAGCDKGKIGEITKVFRHNSTVM 101
IA G IG ++KV +++ V
Sbjct: 35 ASENMLA--IAN--GGLIGSVSKVEENSTIVN 62
>3vkj_A Isopentenyl-diphosphate delta-isomerase; type 2 isopentenyl
diphosphate isomerase; HET: FNR; 1.70A {Sulfolobus
shibatae} PDB: 2zrv_A* 2zrw_A* 2zrx_A* 2zry_A* 2zrz_A*
3b03_A* 3b04_A* 3b05_A* 3b06_A* 2zru_A*
Length = 368
Score = 25.6 bits (56), Expect = 7.2
Identities = 6/27 (22%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 10 SMTSLSISSNSFFGQRLSFPSL-SPIT 35
S + ++ + FF + +S P + + +T
Sbjct: 43 SFSEINTKT-KFFRKEISVPVMVTGMT 68
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
0.320 0.133 0.388
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: 1,960,300
Number of extensions: 104097
Number of successful extensions: 327
Number of sequences better than 10.0: 1
Number of HSP's gapped: 326
Number of HSP's successfully gapped: 41
Length of query: 135
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 51
Effective length of database: 4,356,429
Effective search space: 222177879
Effective search space used: 222177879
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.3 bits)