RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14597
(191 letters)
>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 = 58.7 bits (143), Expect = 8e-12
Identities = 43/118 (36%), Positives = 63/118 (53%), Gaps = 18/118 (15%)
Query: 29 GPQGRVKKLRSIVTALLKYERIEVYHYDGDEAR-------------DTHKETMDMADFWI 75
G G LR+++T L+++ERIE DE R DT++ M MADFW+
Sbjct: 1 GSSGSSGLLRNLLTGLVRHERIEAPWARVDEMRGYAEKLIDYGKLGDTNERAMRMADFWL 60
Query: 76 EEKNIVHKLFKVLVPRFQNTTVSYTRAYNAPIPHATPEKSDLSFHSVIELRGNPFPPL 133
EK+++ KLF+VL PR+++ T YTR + D + +VIE +GN PPL
Sbjct: 61 TEKDLIPKLFQVLAPRYKDQTGGYTR-----MLQIPNRSLDRAKMAVIEYKGNCLPPL 113
>3bbo_P Ribosomal protein L17; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.2
Length = 205
Score = 36.7 bits (85), Expect = 0.002
Identities = 29/102 (28%), Positives = 39/102 (38%), Gaps = 20/102 (19%)
Query: 37 LRSIVTALLKYERIEVYHYDGDEAR-------------DTHKETMDMADFWIEEKNIVHK 83
LR + T LLK+ RI+ R HK + +I EK IVH
Sbjct: 110 LRGLTTQLLKHGRIKTTKARARAVRKYVDKMITMAKDGSLHKRRQALG--FIYEKQIVHA 167
Query: 84 LFKVLVPRFQNTTVSYTRAYNAPIPHATPEKSDLSFHSVIEL 125
LF + R+ YTR I P + D + + IEL
Sbjct: 168 LFAEVPDRYGERNGGYTR-----IIRTLPRRGDNAPMAYIEL 204
>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*
3pio_K* 3pip_K* 1pnu_L 1pny_L 1vor_O 1vou_O 1vow_O
1voy_O 1vp0_O
Length = 116
Score = 35.6 bits (83), Expect = 0.002
Identities = 19/78 (24%), Positives = 30/78 (38%), Gaps = 15/78 (19%)
Query: 37 LRSIVTALLKYERIEVYHYDGDEAR-------------DTHKETMDMADFWIEEKNIVHK 83
R+ TALL+ RI+ E R D H + I +K++V K
Sbjct: 21 ARAQATALLREGRIQTTLTKAKELRPFVEQLITTAKGGDLHSRRLVAQ--DIHDKDVVRK 78
Query: 84 LFKVLVPRFQNTTVSYTR 101
+ + P++ YTR
Sbjct: 79 VMDEVAPKYAERPGGYTR 96
>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 = 35.6 bits (83), Expect = 0.002
Identities = 18/78 (23%), Positives = 31/78 (39%), Gaps = 15/78 (19%)
Query: 37 LRSIVTALLKYERIEVYHYDGDEAR-------------DTHKETMDMADFWIEEKNIVHK 83
R+ +LL + RI E R D H + + +++ +V K
Sbjct: 21 YRNQAKSLLTHGRITTTVPKAKELRGFVDHLIHLAKRGDLHARRLVLR--DLQDVKLVRK 78
Query: 84 LFKVLVPRFQNTTVSYTR 101
LF + PR+++ YTR
Sbjct: 79 LFDEIAPRYRDRQGGYTR 96
>3r8s_N 50S ribosomal protein L17; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
3fik_N 2wwq_N 3oat_N* 3oas_N* 3ofd_N 3ofc_N 3ofr_N*
3ofz_N* 3og0_N 3ofq_N 3r8t_N 3i1n_N 1p85_L 1p86_L 1vs8_N
1vs6_N 2aw4_N 2awb_N 1vt2_N 2i2v_N ...
Length = 120
Score = 34.4 bits (80), Expect = 0.005
Identities = 19/78 (24%), Positives = 29/78 (37%), Gaps = 15/78 (19%)
Query: 37 LRSIVTALLKYERIEVYHYDGDEAR-------------DTHKETMDMADFWIEEKNIVHK 83
R++ +L+++E I+ E R + A + IV K
Sbjct: 21 FRNMAGSLVRHEIIKTTLPKAKELRRVVEPLITLAKTDSVANRRLAFA--RTRDNEIVAK 78
Query: 84 LFKVLVPRFQNTTVSYTR 101
LF L PRF + YTR
Sbjct: 79 LFNELGPRFASRAGGYTR 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 = 31.6 bits (71), Expect = 0.16
Identities = 28/176 (15%), Positives = 43/176 (24%), Gaps = 84/176 (47%)
Query: 9 LVSRLRIPILAKHRRLRNPEGP-QGRV----KKLR----------------------SIV 41
L LR + + P G Q R+ +KL+ I
Sbjct: 389 LNLTLR--------KAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLIN 440
Query: 42 TALLKYE--------RIEVYH-YDGDEARDTHKETMDMADFWIEEKNIVHKLFKVLVPRF 92
L+K +I VY +DG + R +I ++ ++
Sbjct: 441 KDLVKNNVSFNAKDIQIPVYDTFDGSDLRV-------------LSGSISERIVDCII--- 484
Query: 93 QNTTVSYTRAYNAPIPHATPEKSDLSFHSVIELRGNPFP-------PLVQRAVDSR 141
V + H L F G P L R D
Sbjct: 485 -RLPVKWETTTQFKATHI------LDF-------G---PGGASGLGVLTHRNKDGT 523
>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 = 31.4 bits (70), Expect = 0.21
Identities = 27/168 (16%), Positives = 52/168 (30%), Gaps = 32/168 (19%)
Query: 4 AEVTKLVSRLRIPILAKHRRLRN-----PEGPQGRVKKLRSIVTALLK---YERIEVYHY 55
+ S + + + RL N + R++ + ALL+ + + +
Sbjct: 99 KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGV 158
Query: 56 DG--------DEARDTH-KETMDMADFWIE--EKNIVHKLFKVLVPRFQNTTVSYTRAYN 104
G D + MD FW+ N + ++L Q +
Sbjct: 159 LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML----QKLLYQIDPNWT 214
Query: 105 APIPHATPEKSDLSFHSVIE-----LRGNPFPP--LVQRAVDSRLHIQ 145
+ H++ K L HS+ L+ P+ LV V +
Sbjct: 215 SRSDHSSNIK--LRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN 260
Score = 28.3 bits (62), Expect = 1.8
Identities = 14/93 (15%), Positives = 36/93 (38%), Gaps = 9/93 (9%)
Query: 1 MNQAEVTKLVSRLRIPILAKH---RRLRNPEGPQGRVKKLRSIVTALLKYERIEVYHYDG 57
+ E + ++ R+ L +++R+ + + + L Y+ Y D
Sbjct: 481 LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP---YICDN 537
Query: 58 DEARDTHKETMDMADFWIE-EKNIVHKLFKVLV 89
D + + + DF + E+N++ + L+
Sbjct: 538 DPKYE--RLVNAILDFLPKIEENLICSKYTDLL 568
>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 = 28.8 bits (63), Expect = 0.79
Identities = 6/23 (26%), Positives = 11/23 (47%), Gaps = 6/23 (26%)
Query: 3 QAEVTKLVSRLRI------PILA 19
+ + KL + L++ P LA
Sbjct: 19 KQALKKLQASLKLYADDSAPALA 41
Score = 28.4 bits (62), Expect = 1.1
Identities = 9/48 (18%), Positives = 15/48 (31%), Gaps = 18/48 (37%)
Query: 77 EKNIVHKLFKVLVPRFQNTTVSYTRAYNAPIPHATPEKSDLSFHSVIE 124
EK + KL Q + Y + P L+ + +E
Sbjct: 18 EKQALKKL--------QASLKLYA-------DDSAPA---LAIKATME 47
>3if2_A Aminotransferase; YP_265399.1, structura genomics, joint center for
structural genomics, JCSG, prote structure initiative,
PSI-2; HET: PLP; 2.50A {Psychrobacter arcticus 273-4}
Length = 444
Score = 28.1 bits (63), Expect = 1.6
Identities = 7/53 (13%), Positives = 12/53 (22%), Gaps = 1/53 (1%)
Query: 51 EVYHYDGDEARDTHKETMDMADFWIEEKNIVHKLFKVLVPRFQNTT-VSYTRA 102
+ D K +D ++ + R N T T
Sbjct: 174 HIDEVTHDGEEGFFKYRVDFEALENLPALKEGRIGAICCSRPTNPTGNVLTDE 226
>4f1n_A Kpago; argonaute, RNAI, RNAse H, RNA binding protein-RNA complex;
3.19A {Vanderwaltozyma polyspora}
Length = 1046
Score = 27.3 bits (59), Expect = 3.7
Identities = 5/43 (11%), Positives = 12/43 (27%)
Query: 14 RIPILAKHRRLRNPEGPQGRVKKLRSIVTALLKYERIEVYHYD 56
++ IL H L + ++ ++ Y
Sbjct: 31 KVDILTNHILLAVGNDVPTEKIDKELVPKLDGWWKTAFIFTYH 73
>2xt6_A 2-oxoglutarate decarboxylase; lyase, KDH, KGD; HET: TPP; 2.74A
{Mycobacterium smegmatis}
Length = 1113
Score = 27.2 bits (61), Expect = 4.8
Identities = 11/37 (29%), Positives = 16/37 (43%), Gaps = 2/37 (5%)
Query: 66 ETMDMADFWIEEKNIVHKL--FKVLVPRFQNTTVSYT 100
ETM F ++IV + K+ F T+S T
Sbjct: 106 ETMRFGQFIAAYEDIVRRARDGKLTAEDFSGVTISLT 142
>3i8t_A Galectin-4; S-type lectin, carbohydrate binding, molecular
recognition, sugar binding protein; HET: LBT; 2.10A {Mus
musculus} PDB: 2dyc_A
Length = 164
Score = 26.2 bits (57), Expect = 5.3
Identities = 8/37 (21%), Positives = 16/37 (43%)
Query: 103 YNAPIPHATPEKSDLSFHSVIELRGNPFPPLVQRAVD 139
YN +P+ P LS + ++G + + V+
Sbjct: 25 YNPTLPYKRPIPGGLSVGMSVYIQGMAKENMRRFHVN 61
>3nhq_A Bacteriophytochrome; photoreceptor, PAS, signaling, signaling
protei; HET: BLA; 2.55A {Pseudomonas aeruginosa} PDB:
3c2w_A* 3g6o_A* 3ibr_A*
Length = 505
Score = 26.5 bits (58), Expect = 6.6
Identities = 4/38 (10%), Positives = 15/38 (39%)
Query: 22 RRLRNPEGPQGRVKKLRSIVTALLKYERIEVYHYDGDE 59
+++ + + + + Y+R+ Y + D+
Sbjct: 132 AQVQLHNDTASLLSNVTDELRRMTGYDRVMAYRFRHDD 169
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 0.366
Gapped
Lambda K H
0.267 0.0415 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,835,966
Number of extensions: 163488
Number of successful extensions: 318
Number of sequences better than 10.0: 1
Number of HSP's gapped: 316
Number of HSP's successfully gapped: 31
Length of query: 191
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 103
Effective length of database: 4,244,745
Effective search space: 437208735
Effective search space used: 437208735
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: 54 (25.4 bits)