RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780236|ref|YP_003064649.1| 50S ribosomal protein L17
[Candidatus Liberibacter asiaticus str. psy62]
(136 letters)
>3ofq_N 50S ribosomal protein L17; protein biosynthesis, ribosomes, RNA,
tRNA, transfer, antibi EXIT, peptidyl, ribosomal
subunit, large; 3.10A {Escherichia coli} PDB: 3fik_N
2wwq_N 3ofr_N* 3i1n_N 1p85_L 1p86_L 1vs8_N 1vs6_N 2aw4_N
2awb_N 1vt2_N 2i2v_N 2j28_N 2i2t_N* 2qao_N* 2qba_N*
2qbc_N* 2qbe_N 2qbg_N 2qbi_N* ...
Length = 120
Score = 168 bits (428), Expect = 3e-43
Identities = 69/119 (57%), Positives = 87/119 (73%)
Query: 1 MRHAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGL 60
MRH SGR+LNR SSHR+AMF NMA S++ HE I TTLPKAKELR +VE L+TL K +
Sbjct: 1 MRHRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEPLITLAKTDSV 60
Query: 61 HSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFVDRD 119
+ RLA ++ D ++V KLF + R++ R+GGY RI+K GFR GD+APMA IE VDR
Sbjct: 61 ANRRLAFARTRDNEIVAKLFNELGPRFASRAGGYTRILKCGFRAGDNAPMAYIELVDRS 119
>3bbo_P Ribosomal protein L17; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Nicotiana tabacum} SCOP: i.1.1.2
Length = 205
Score = 166 bits (422), Expect = 1e-42
Identities = 46/116 (39%), Positives = 69/116 (59%)
Query: 1 MRHAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGL 60
MRH KLNR R+A+ + ++ H +I TT +A+ +R V+K++T+ K G L
Sbjct: 90 MRHGRKVPKLNRPPDQRRALLRGLTTQLLKHGRIKTTKARARAVRKYVDKMITMAKDGSL 149
Query: 61 HSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFV 116
H R A+ I + +V+ LF + RY +R+GGY RI++ R GD+APMA IE V
Sbjct: 150 HKRRQALGFIYEKQIVHALFAEVPDRYGERNGGYTRIIRTLPRRGDNAPMAYIELV 205
>3i1n_N 50S ribosomal protein L17; ribosome structure, protein-RNA complex,
acetylation, ribonucleoprotein, ribosomal protein,
RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1p85_L 1p86_L 1vs8_N 2aw4_N
2awb_N 1vs6_N 2i2v_N 2j28_N 2i2t_N* 2qao_N* 2qba_N*
2qbc_N* 2qbe_N 2qbg_N 2qbi_N* 2qbk_N* 2qov_N 2qox_N
2qoz_N* 2qp1_N* ...
Length = 127
Score = 160 bits (407), Expect = 8e-41
Identities = 70/124 (56%), Positives = 89/124 (71%)
Query: 1 MRHAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGL 60
MRH SGR+LNR SSHR+AMF NMA S++ HE I TTLPKAKELR +VE L+TL K +
Sbjct: 1 MRHRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEPLITLAKTDSV 60
Query: 61 HSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFVDRDL 120
+ RLA ++ D ++V KLF + R++ R+GGY RI+K GFR GD+APMA IE VDR
Sbjct: 61 ANRRLAFARTRDNEIVAKLFNELGPRFASRAGGYTRILKCGFRAGDNAPMAYIELVDRSE 120
Query: 121 SAKG 124
A+
Sbjct: 121 KAEA 124
>1gd8_A 50S ribosomal protein L17; two domains, ribosomal protein S8-like
domain, Trp repressor-like domain, helix-turn-helix
motif; 2.30A {Thermus thermophilus} SCOP: d.188.1.1 PDB:
1vsa_L 1vsp_L 1yl3_0 2b66_R 2b9n_R 2b9p_R 2hgj_Q 2hgq_Q
2hgu_Q 2j01_R 2j03_R 2jl6_R 2jl8_R 2v47_R 2v49_R 2wdi_R
2wdj_R 2wdl_R 2wdn_R 2wh2_R ...
Length = 118
Score = 157 bits (399), Expect = 7e-40
Identities = 63/118 (53%), Positives = 82/118 (69%), Gaps = 1/118 (0%)
Query: 1 MRHAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGL 60
MRH SGRKLNR SSHR A++ N A S++ H +I TT+PKAKELR V+ L+ L K+G L
Sbjct: 1 MRHLKSGRKLNRHSSHRLALYRNQAKSLLTHGRITTTVPKAKELRGFVDHLIHLAKRGDL 60
Query: 61 HSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRG-FRYGDSAPMAVIEFVD 117
H+ RL + + DV +V KLF IA RY DR GGY R++K R GD AP+A++E V+
Sbjct: 61 HARRLVLRDLQDVKLVRKLFDEIAPRYRDRQGGYTRVLKLAERRRGDGAPLALVELVE 118
>2zjr_K 50S ribosomal protein L17; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: d.188.1.1 PDB: 1nwx_L* 1nwy_L*
1sm1_L* 1xbp_L* 2zjp_K* 2zjq_K 1nkw_L 3cf5_K* 3dll_K*
1pnu_L 1pny_L 1vor_O 1vou_O 1vow_O 1voy_O 1vp0_O
Length = 116
Score = 149 bits (377), Expect = 2e-37
Identities = 59/116 (50%), Positives = 75/116 (64%)
Query: 1 MRHAISGRKLNRTSSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGL 60
MRH +GRKLNR SS R A+ A +++ +I TTL KAKELRP VE+L+T K G L
Sbjct: 1 MRHGKAGRKLNRNSSARVALARAQATALLREGRIQTTLTKAKELRPFVEQLITTAKGGDL 60
Query: 61 HSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFV 116
HS RL I D DVV K+ +A +Y++R GGY RI++ G R GD MA+IE V
Sbjct: 61 HSRRLVAQDIHDKDVVRKVMDEVAPKYAERPGGYTRILRVGTRRGDGVTMALIELV 116
>2cqm_A Ribosomal protein L17 isolog; alpha and beta (A+B), structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.188.1.1 PDB: 2ftc_J 3iy9_S
Length = 122
Score = 131 bits (331), Expect = 4e-32
Identities = 39/120 (32%), Positives = 62/120 (51%), Gaps = 2/120 (1%)
Query: 14 SSHRKAMFSNMAASIIWHEQIVTTLPKAKELRPIVEKLVTLGKKGGLHS--LRLAISKIG 71
SS + N+ ++ HE+I + E+R EKL+ GK G + +R+A +
Sbjct: 2 SSGSSGLLRNLLTGLVRHERIEAPWARVDEMRGYAEKLIDYGKLGDTNERAMRMADFWLT 61
Query: 72 DVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFVDRDLSAKGTPVSRKS 131
+ D++ KLF ++A RY D++GGY R+++ R D A MAVIE+ L P S
Sbjct: 62 EKDLIPKLFQVLAPRYKDQTGGYTRMLQIPNRSLDRAKMAVIEYKGNCLPPLPLPSGPSS 121
>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 = 33.8 bits (76), Expect = 0.014
Identities = 18/80 (22%), Positives = 21/80 (26%), Gaps = 55/80 (68%)
Query: 49 EK--LVTLGKKGGLH-SLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYG 105
EK L KK L SL+L Y+D
Sbjct: 18 EKQAL----KK--LQASLKL---------------------YAD---------------- 34
Query: 106 DSAPMAVIEFVDRDLSAKGT 125
DSAP L+ K T
Sbjct: 35 DSAPA---------LAIKAT 45
>3bow_A Calpain-2 catalytic subunit; cysteine protease, calcium, inhibitor,
cell membrane, cytoplasm, hydrolase, membrane, protease,
thiol protease; 2.40A {Rattus norvegicus} PDB: 3df0_A
1df0_A 1u5i_A 1kfu_L 1kfx_L
Length = 714
Score = 28.9 bits (64), Expect = 0.38
Identities = 12/66 (18%), Positives = 25/66 (37%), Gaps = 12/66 (18%)
Query: 61 HSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGY-----------LRIMKRGFRYGDSAP 109
+ +R A+ + G + +L +I R++D L I+ + F+ D
Sbjct: 625 YEMRKALEEAG-FKLPCQLHQVIVARFADDELIIDFDNFVRCLVRLEILFKIFKQLDPEN 683
Query: 110 MAVIEF 115
I+
Sbjct: 684 TGTIQL 689
>2v4n_A Multifunctional protein SUR E; hydrolase, surviVal protein,
stationary phase, phosphatase, mononucleotidase,
divalent metal ION; 1.7A {Salmonella typhimurium} PDB:
2v4o_A
Length = 254
Score = 25.4 bits (55), Expect = 5.1
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 59 GLHSLRLAISKIGDVDVV 76
G+ +L A+ + DV VV
Sbjct: 16 GIQTLAKALREFADVQVV 33
>2e6c_A 5'-nucleotidase SURE; SURE protein, cowith manganese ION and AMP,
hydrolase; 2.05A {Thermus thermophilus HB8} PDB: 2e6b_A
2e69_A 2e6e_A 2e6g_A 2e6h_A
Length = 244
Score = 25.1 bits (54), Expect = 5.3
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 59 GLHSLRLAISKIGDVDVV 76
GL +L A S+ G+V V
Sbjct: 15 GLWALAEAASQFGEVFVA 32
>1za0_A Possible acyl-[acyl-carrier protein] desaturase DESA2 (acyl-[ACP]
desaturase) (stearoyl-ACP...; four-helix bundle; 2.00A
{Mycobacterium tuberculosis H37RV} SCOP: a.25.1.2
Length = 275
Score = 24.8 bits (54), Expect = 6.4
Identities = 10/56 (17%), Positives = 19/56 (33%), Gaps = 1/56 (1%)
Query: 69 KIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRGFRYGDSAPMAVIEFVDRDLSAKG 124
+I + ++ L IA+ + ++ Y +A I DL G
Sbjct: 172 QIEE-PILAGLIDRIARDEVRHEEFFANLVTHCLDYTRDETIAAIAARAADLDVLG 226
>1l5x_A SurviVal protein E; structural genomics, putative acid
phosphatase, mixed alpha/beta protein, N-terminal
rossmann-fold like; 2.00A {Pyrobaculum aerophilum}
SCOP: c.106.1.1
Length = 280
Score = 24.6 bits (53), Expect = 6.8
Identities = 9/18 (50%), Positives = 10/18 (55%)
Query: 59 GLHSLRLAISKIGDVDVV 76
GL L +GDVDVV
Sbjct: 15 GLRLLYQFALSLGDVDVV 32
>2r2j_A Thioredoxin domain-containing protein 4; CRFS motif, chaperone,
endoplasmic reticulum, stress response; 2.60A {Homo
sapiens}
Length = 382
Score = 24.4 bits (52), Expect = 9.6
Identities = 14/80 (17%), Positives = 35/80 (43%), Gaps = 10/80 (12%)
Query: 42 KELRPIVEKLVTLGKKGGLHSLRLAISKIGDVDVVNKLFGIIAKRYSDRSGGYLRIMKRG 101
+ L PI E+ + K+ + ++ +++ D D + + A+RY L++ + G
Sbjct: 38 QMLHPIFEEASDVIKEEFPNENQVVFARV-DCDQHSDI----AQRYRISKYPTLKLFRNG 92
Query: 102 -----FRYGDSAPMAVIEFV 116
G + A+ +++
Sbjct: 93 MMMKREYRGQRSVKALADYI 112
>2phj_A 5'-nucleotidase SURE; SURE protein, putative acid phosphatase,
structural genomics, 3-D structure, mixed alpha/beta
protein, NPPSFA; 1.50A {Aquifex aeolicus VF5}
Length = 251
Score = 24.3 bits (52), Expect = 9.9
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 59 GLHSLRLAISKIGDVDVV 76
G+++LR A+ +G V VV
Sbjct: 16 GINALREALKSLGRVVVV 33
>3g5b_A Netrin receptor UNC5B; ZU5, death domain, UPA, apoptosis,
developmental protein, glycoprotein, immunoglobulin
domain, membrane, phosphoprotein; 2.00A {Rattus
norvegicus}
Length = 405
Score = 24.4 bits (52), Expect = 9.9
Identities = 6/25 (24%), Positives = 14/25 (56%)
Query: 55 GKKGGLHSLRLAISKIGDVDVVNKL 79
G L+SL A+ ++G +++ +
Sbjct: 375 QDDGDLNSLASALEEMGKSEMLVAM 399
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.321 0.135 0.382
Gapped
Lambda K H
0.267 0.0648 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,131,426
Number of extensions: 48798
Number of successful extensions: 111
Number of sequences better than 10.0: 1
Number of HSP's gapped: 108
Number of HSP's successfully gapped: 20
Length of query: 136
Length of database: 5,693,230
Length adjustment: 83
Effective length of query: 53
Effective length of database: 3,680,978
Effective search space: 195091834
Effective search space used: 195091834
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 (21.8 bits)
S2: 51 (23.6 bits)