RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8857
(133 letters)
>3bbn_K Ribosomal protein S11; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 140
Score = 211 bits (538), Expect = 5e-72
Identities = 62/133 (46%), Positives = 93/133 (69%)
Query: 1 MAKVLNNTNARIRKKIKKHITEGVAHIHASFNNTIITITDRKGCTLSWASSGSVNFKGSR 60
+ N + + + I +GV H+ ASFNNTI+T+TD +G +SWAS+G+ F+G++
Sbjct: 8 IGSRRNGRISSRKSASARKIPKGVIHVQASFNNTIVTVTDVRGRVVSWASAGTCGFRGTK 67
Query: 61 KSTPFAAQVAAESAGKIAIEHGIKNLEVRIKGPGPGRESSVRALNNLGIKITQIEDVTPI 120
+ TPFAAQ AA +A + +E G++ EV IKGPG GR++++RA+ GI ++ + DVTP+
Sbjct: 68 RGTPFAAQTAAGNAIRTVVEQGMQRAEVMIKGPGLGRDAALRAIRRSGILLSFVRDVTPM 127
Query: 121 PHNGCRPSKRRRV 133
PHNGCRP K+RRV
Sbjct: 128 PHNGCRPPKKRRV 140
>3r8n_K 30S ribosomal protein S11; protein biosynthesis, RNA, tRNA,
transfer RNA, 16S ribosomal subunit, RRF; 3.00A
{Escherichia coli} PDB: 2ykr_K 3fih_K* 3iy8_K 2wwl_K
3oar_K 3oaq_K 3ofb_K 3ofa_K 3ofp_K 3ofx_K 3ofy_K 3ofo_K
3r8o_K 4a2i_K 3i1m_K 1vs7_K* 3e1a_C 3e1c_C 1vs5_K 3i1o_K
...
Length = 117
Score = 209 bits (535), Expect = 7e-72
Identities = 81/117 (69%), Positives = 96/117 (82%)
Query: 17 KKHITEGVAHIHASFNNTIITITDRKGCTLSWASSGSVNFKGSRKSTPFAAQVAAESAGK 76
+K +++GVAHIHASFNNTI+TITDR+G L WA++G F+GSRKSTPFAAQVAAE
Sbjct: 1 RKQVSDGVAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSRKSTPFAAQVAAERCAD 60
Query: 77 IAIEHGIKNLEVRIKGPGPGRESSVRALNNLGIKITQIEDVTPIPHNGCRPSKRRRV 133
E+GIKNLEV +KGPGPGRES++RALN G +IT I DVTPIPHNGCRP K+RRV
Sbjct: 61 AVKEYGIKNLEVMVKGPGPGRESTIRALNAAGFRITNITDVTPIPHNGCRPPKKRRV 117
>2vqe_K 30S ribosomal protein S11, 30S ribosomal protein S6; tRNA-binding,
rRNA-binding, metal-binding, zinc-finger, translation;
HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: c.55.4.1
PDB: 1gix_N* 1hnw_K* 1hnx_K* 1hnz_K* 1hr0_K 1ibk_K*
1ibl_K* 1ibm_K 1j5e_K 1jgo_N* 1jgp_N* 1jgq_N* 1ml5_N*
1n32_K* 1n33_K* 1n34_K 1n36_K 1xmo_K* 1xmq_K* 1xnq_K*
...
Length = 129
Score = 204 bits (521), Expect = 1e-69
Identities = 63/132 (47%), Positives = 93/132 (70%), Gaps = 6/132 (4%)
Query: 1 MAKVLNNTNARIRKKIKKHITEGVAHIHASFNNTIITITDRKGCTLSWASSGSVNFKGSR 60
MAK +KK+K+ + G A+IHAS+NNTI+TITD G ++W+S G + +KGSR
Sbjct: 1 MAK------KPSKKKVKRQVASGRAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGSR 54
Query: 61 KSTPFAAQVAAESAGKIAIEHGIKNLEVRIKGPGPGRESSVRALNNLGIKITQIEDVTPI 120
K TP+AAQ+AA A K A+ +G+++++V ++G G GRE ++RAL G+++ I D TP+
Sbjct: 55 KGTPYAAQLAALDAAKKAMAYGMQSVDVIVRGTGAGREQAIRALQASGLQVKSIVDDTPV 114
Query: 121 PHNGCRPSKRRR 132
PHNGCRP K+ R
Sbjct: 115 PHNGCRPKKKFR 126
>3u5c_O RP59A, 40S ribosomal protein S14-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_K 3o30_H 3o2z_H 3u5g_O 1s1h_K
3jyv_K*
Length = 137
Score = 192 bits (490), Expect = 8e-65
Identities = 46/132 (34%), Positives = 71/132 (53%), Gaps = 9/132 (6%)
Query: 10 ARIRKKIKKHITEGVAHIHASFNNTIITITDRKGCTLSWASSGSVNFKGSR-KSTPFAAQ 68
+ + + GVA I+ASFN+T + +TD G +G + K R +S+P+AA
Sbjct: 2 SNVVQARDNSQVFGVARIYASFNDTFVHVTDLSGKETIARVTGGMKVKADRDESSPYAAM 61
Query: 69 VAAESAGKIAIEHGIKNLEVRI--------KGPGPGRESSVRALNNLGIKITQIEDVTPI 120
+AA+ E GI + V+I K PGPG ++++RAL G++I +IEDVTP+
Sbjct: 62 LAAQDVAAKCKEVGITAVHVKIRATGGTRTKTPGPGGQAALRALARSGLRIGRIEDVTPV 121
Query: 121 PHNGCRPSKRRR 132
P + R RR
Sbjct: 122 PSDSTRKKGGRR 133
>2xzm_K RPS14E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_K 3j0o_K 3j0l_K 2zkq_k 3iz6_K 3jyv_K*
Length = 151
Score = 170 bits (433), Expect = 5e-56
Identities = 46/135 (34%), Positives = 64/135 (47%), Gaps = 9/135 (6%)
Query: 7 NTNARIRKKIKKHITEGVAHIHASFNNTIITITDRKGCTLSWASSGSVNFKGSRK-STPF 65
+ GV HI A++N+T I +TD G +G + K R+ S+P+
Sbjct: 13 VISYGPPNVGANENVFGVCHIMATWNDTFIHVTDLSGRETLVRVTGGMKVKADREESSPY 72
Query: 66 AAQVAAESAGKIAIEHGIKNLEVR--------IKGPGPGRESSVRALNNLGIKITQIEDV 117
AA AA E I L ++ K PGPG +S++RAL G+KI +IEDV
Sbjct: 73 AAMQAAIDVVNRCKELKINALHIKLRAKGGVETKQPGPGAQSALRALARSGMKIGRIEDV 132
Query: 118 TPIPHNGCRPSKRRR 132
TPIP + R RR
Sbjct: 133 TPIPTDSTRREGGRR 147
>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 = 36.1 bits (82), Expect = 0.001
Identities = 10/36 (27%), Positives = 15/36 (41%), Gaps = 7/36 (19%)
Query: 80 EHGIKNLEVRIKGPGPGRESSVRALNNLGIKITQIE 115
+ +K L+ +K S A L IK T +E
Sbjct: 19 KQALKKLQASLKLYADD---SAPA---LAIKAT-ME 47
>1ovy_A 50S ribosomal protein L18; ribosome; NMR {Geobacillus
stearothermophilus} SCOP: c.55.4.1
Length = 120
Score = 32.9 bits (76), Expect = 0.010
Identities = 27/87 (31%), Positives = 33/87 (37%), Gaps = 23/87 (26%)
Query: 10 ARIRKKIKKHITEGVA------------HIHASFNNTIITITDRKGCTLSWASSGSVNFK 57
ARIRKKI G HI+A I D K T+ AS+ F
Sbjct: 16 ARIRKKIF-----GTTERPRLSVFRSNKHIYAQI------IDDTKSATIVSASTLDKEFG 64
Query: 58 GSRKSTPFAAQVAAESAGKIAIEHGIK 84
+ AA+ E K A+E GIK
Sbjct: 65 LDSTNNIEAAKKVGELVAKRALEKGIK 91
>3v2d_S 50S ribosomal protein L18; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus}
PDB: 1vsp_M 2hgj_R 2hgq_R 2hgu_R 1vsa_M 2j03_S 2jl6_S
2jl8_S 2v47_S 2v49_S 2wdi_S 2wdj_S 2wdl_S 2wdn_S 2wh2_S
2wh4_S 2wrj_S 2wrl_S 2wro_S 2wrr_S ...
Length = 112
Score = 32.5 bits (75), Expect = 0.013
Identities = 23/82 (28%), Positives = 37/82 (45%), Gaps = 15/82 (18%)
Query: 10 ARIRKKIKKH------ITEGVAHIHASFNNTIITITDRKGCTLSWASSGSVNFKGSRKST 63
R+R +IK+ + + HI+A I D KG TL ASS ++ KG++
Sbjct: 12 FRVRNRIKRTGRLRLSVFRSLKHIYAQI------IDDEKGVTLVSASSLALKLKGNKTE- 64
Query: 64 PFAAQVAAESAGKIAIEHGIKN 85
A+ + + A+ GIK
Sbjct: 65 --VARQVGRALAEKALALGIKQ 84
>3bbo_Q Ribosomal protein L18; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 161
Score = 29.7 bits (67), Expect = 0.19
Identities = 19/92 (20%), Positives = 31/92 (33%), Gaps = 27/92 (29%)
Query: 10 ARIRKKIKKHITEGVA------------HIHASFNNTIITITDRKGCTLSWASSGSVNFK 57
RIRKK++ G H++ I D K TL+ AS+ +
Sbjct: 53 VRIRKKVE-----GTPERPRLCVFRSNKHLYVQV------IDDSKMHTLASASTMQKSIS 101
Query: 58 GSRKSTPFAAQVAAESAGKI----AIEHGIKN 85
+ A+ G++ +E GI
Sbjct: 102 EELDYSSSPTIEVAKKVGEVIASACLEKGITK 133
>3r8s_O 50S ribosomal protein L18; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
3fik_O 2wwq_O 3oat_O* 3oas_O* 3ofd_O 3ofc_O 3ofr_O*
3ofz_O* 3og0_O 3ofq_O 3r8t_O 3i1n_O 1p85_M 1p86_M
1vs8_O 1vs6_O 2aw4_O 2awb_O 1vt2_O 2i2v_O ...
Length = 116
Score = 28.3 bits (64), Expect = 0.44
Identities = 21/88 (23%), Positives = 30/88 (34%), Gaps = 22/88 (25%)
Query: 10 ARIRKKIKKHITEGV--------AHIHASFNNTIITITDRKGCTLSWASSGSVNFKGSRK 61
R R+K+++ HI+A I L AS+ K
Sbjct: 11 TRARRKLQE--LGATRLVVHRTPRHIYAQV------IAPNGSEVLVAASTVEKAIAEQLK 62
Query: 62 STPFAAQVAAESAGKI----AIEHGIKN 85
T AA + GK A+E GIK+
Sbjct: 63 YTGNKD--AAAAVGKAVAERALEKGIKD 88
>2pcr_A Inositol-1-monophosphatase; bipolar disorder, struct genomics,
NPPSFA, national project on protein structural AN
functional analyses; 2.60A {Aquifex aeolicus}
Length = 264
Score = 27.5 bits (62), Expect = 1.1
Identities = 7/27 (25%), Positives = 13/27 (48%), Gaps = 2/27 (7%)
Query: 70 AAESAGKIAIEH--GIKNLEVRIKGPG 94
AA + G++ E+ +K + KG
Sbjct: 14 AALAGGQVLKENFGKVKKENIEEKGEK 40
>2zjr_L 50S ribosomal protein L18; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: c.55.4.1 PDB: 1sm1_M* 2zjp_L* 2zjq_L
1nkw_M 3cf5_L* 3dll_L* 3pio_L* 3pip_L* 1nwy_M* 1nwx_M*
1xbp_M* 1pnu_M 1pny_M 1vor_P 1vou_P 1vow_P 1voy_P
1vp0_P
Length = 114
Score = 26.8 bits (60), Expect = 1.4
Identities = 20/85 (23%), Positives = 30/85 (35%), Gaps = 20/85 (23%)
Query: 11 RIRKKIKKHITEGVA----------HIHASFNNTIITITDRKGCTLSWASSGSVNFKGSR 60
R R+K++ HI+A I D +G TL+ ASS ++
Sbjct: 12 RTRRKVRTTTAASGRLRLSVYRSSKHIYAQI------IDDSRGQTLAAASSAALKSGNKT 65
Query: 61 KSTPFAAQVAAESAGKIAIEHGIKN 85
A ++ A E GIK
Sbjct: 66 D----TAAAVGKALAAAAAEKGIKQ 86
>3zss_A Putative glucanohydrolase PEP1A; alpha-glucan biosynthesis,
glycoside hydrolase FA; 1.80A {Streptomyces coelicolor}
PDB: 3zst_A* 3zt5_A* 3zt6_A* 3zt7_A*
Length = 695
Score = 26.4 bits (58), Expect = 3.4
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 114 IEDVTPIPHNGCRPSKR 130
+ DV P+ G RP+K
Sbjct: 43 VLDVRPVVQRGRRPAKA 59
>1tqy_B Actinorhodin polyketide putative beta-ketoacyl SY;
alpha-beta-alpha-beta-alpha, heterodimer, transferase;
2.00A {Streptomyces coelicolor} SCOP: c.95.1.1 c.95.1.1
Length = 415
Score = 25.1 bits (56), Expect = 8.1
Identities = 8/30 (26%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 57 KGSRKSTPFA--AQVAAESAGKIAIEHGIK 84
+G + + + A A + G+I+I HG++
Sbjct: 130 EGPKSVSVYESFAWFYAVNTGQISIRHGMR 159
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
0.316 0.131 0.376
Gapped
Lambda K H
0.267 0.0591 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,995,425
Number of extensions: 110177
Number of successful extensions: 312
Number of sequences better than 10.0: 1
Number of HSP's gapped: 305
Number of HSP's successfully gapped: 20
Length of query: 133
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 50
Effective length of database: 4,384,350
Effective search space: 219217500
Effective search space used: 219217500
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: 52 (24.1 bits)