RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 043606
(101 letters)
>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 = 145 bits (368), Expect = 9e-47
Identities = 82/101 (81%), Positives = 96/101 (95%)
Query: 1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+ +CKE GITA+H+K+RATGG +TKTPGP
Sbjct: 37 ETIARVTGGMKVKADRDESSPYAAMLAAQDVAAKCKEVGITAVHVKIRATGGTRTKTPGP 96
Query: 61 GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL 101
G Q+ALRALARSG++IGRIEDVTP+P+DSTR+KGGRRGRRL
Sbjct: 97 GGQAALRALARSGLRIGRIEDVTPVPSDSTRKKGGRRGRRL 137
>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 = 130 bits (328), Expect = 1e-40
Identities = 86/101 (85%), Positives = 90/101 (89%)
Query: 1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
ETL R+TGGMKVKADR+ESSPYAAM AA DV RCKE I ALHIKLRA GG +TK PGP
Sbjct: 51 ETLVRVTGGMKVKADREESSPYAAMQAAIDVVNRCKELKINALHIKLRAKGGVETKQPGP 110
Query: 61 GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL 101
GAQSALRALARSGMKIGRIEDVTPIPTDSTRR+GGRRGRRL
Sbjct: 111 GAQSALRALARSGMKIGRIEDVTPIPTDSTRREGGRRGRRL 151
>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 = 106 bits (268), Expect = 8e-32
Identities = 35/97 (36%), Positives = 49/97 (50%), Gaps = 9/97 (9%)
Query: 1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
GG + R +S+P+AA +AA+ + KE GI L + + K PGP
Sbjct: 29 ALGWATAGGSGFRGSR-KSTPFAAQVAAERCADAVKEYGIKNLEVMV--------KGPGP 79
Query: 61 GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRR 97
G +S +RAL +G +I I DVTPIP + R RR
Sbjct: 80 GRESTIRALNAAGFRITNITDVTPIPHNGCRPPKKRR 116
>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 = 100 bits (251), Expect = 3e-29
Identities = 28/97 (28%), Positives = 48/97 (49%), Gaps = 8/97 (8%)
Query: 1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
+ +GG+ + +PYAA LAA D +++ G+ ++ + +R G
Sbjct: 38 NPITWSSGGVIGYKGSRKGTPYAAQLAALDAAKKAMAYGMQSVDVIVRG--------TGA 89
Query: 61 GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRR 97
G + A+RAL SG+++ I D TP+P + R K R
Sbjct: 90 GREQAIRALQASGLQVKSIVDDTPVPHNGCRPKKKFR 126
>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 = 100 bits (250), Expect = 9e-29
Identities = 27/97 (27%), Positives = 44/97 (45%), Gaps = 8/97 (8%)
Query: 1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
+ + G +P+AA AA + + E+G+ + + K PG
Sbjct: 51 RVVSWASAGTCGFRGTKRGTPFAAQTAAGNAIRTVVEQGMQRAEVMI--------KGPGL 102
Query: 61 GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRR 97
G +ALRA+ RSG+ + + DVTP+P + R RR
Sbjct: 103 GRDAALRAIRRSGILLSFVRDVTPMPHNGCRPPKKRR 139
>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 = 33.4 bits (75), Expect = 0.005
Identities = 8/28 (28%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 1 ETLERITGGMKVKADRDESSPYAAMLAA 28
+ L+++ +K+ A D+S+P A+ A
Sbjct: 20 QALKKLQASLKLYA--DDSAPALAIKAT 45
>1o2d_A Alcohol dehydrogenase, iron-containing; TM0920, structural
genomics, JCSG, PSI, protein structure initiative; HET:
MSE NAP TRS; 1.30A {Thermotoga maritima} SCOP: e.22.1.2
PDB: 1vhd_A*
Length = 371
Score = 27.9 bits (63), Expect = 0.50
Identities = 13/74 (17%), Positives = 23/74 (31%), Gaps = 5/74 (6%)
Query: 27 AAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDVTPIP 86
+ G AL + TG + +K G + L + + ++V P
Sbjct: 28 ILEKRGNIIDLLGKRALVV----TGKSSSKKNGS-LDDLKKLLDETEISYEIFDEVEENP 82
Query: 87 TDSTRRKGGRRGRR 100
+ K R R
Sbjct: 83 SFDNVMKAVERYRN 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 = 27.7 bits (61), Expect = 0.59
Identities = 14/62 (22%), Positives = 20/62 (32%), Gaps = 23/62 (37%)
Query: 61 GAQS-----ALR---ALARS-------------GMKIGRIEDVTPIPTDSTRRKGGRRGR 99
G+Q L A+ G I I V P + T GG +G+
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDI--VINNPVNLTIHFGGEKGK 1682
Query: 100 RL 101
R+
Sbjct: 1683 RI 1684
Score = 25.0 bits (54), Expect = 6.2
Identities = 8/25 (32%), Positives = 12/25 (48%), Gaps = 3/25 (12%)
Query: 65 ALRALARSGMKIGRIEDVTPIPTDS 89
+ R L + G +E V +PT S
Sbjct: 5 STRPLT---LSHGSLEHVLLVPTAS 26
>2om6_A Probable phosphoserine phosphatase; rossmann fold, B-hairpin,
four-helix bundle, structural GENO NPPSFA; 2.20A
{Pyrococcus horikoshii}
Length = 235
Score = 27.1 bits (60), Expect = 0.87
Identities = 10/34 (29%), Positives = 15/34 (44%)
Query: 60 PGAQSALRALARSGMKIGRIEDVTPIPTDSTRRK 93
G + AL+ + G+K I +V P TR
Sbjct: 102 EGTKEALQFVKERGLKTAVIGNVMFWPGSYTRLL 135
>3dgz_A Thioredoxin reductase 2; oxidoreductase, rossmann, flavoprotein,
FAD, mitochondrion, redox-active center, selenium,
selenocysteine, transit PEPT; HET: FAD NA7; 2.25A {Mus
musculus} PDB: 1zkq_A* 1zdl_A*
Length = 488
Score = 26.7 bits (60), Expect = 1.2
Identities = 10/37 (27%), Positives = 16/37 (43%)
Query: 59 GPGAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGG 95
G G + + A+ G K+ + V P P + GG
Sbjct: 15 GSGGLACAKEAAQLGKKVAVADYVEPSPRGTKWGLGG 51
>2x8g_A Thioredoxin glutathione reductase; redox-active center,
detoxification pathway, oxidoreductase, flavoprotein;
HET: FAD PG4; 1.90A {Schistosoma mansoni} PDB: 2x8c_A*
2x8h_A* 2x99_A* 3h4k_A* 2v6o_A*
Length = 598
Score = 26.9 bits (60), Expect = 1.4
Identities = 12/37 (32%), Positives = 18/37 (48%)
Query: 59 GPGAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGG 95
G G +A + A+ G K ++ V P P +T GG
Sbjct: 116 GSGGLAAGKEAAKYGAKTAVLDYVEPTPIGTTWGLGG 152
>3qfa_A Thioredoxin reductase 1, cytoplasmic; protein-protein complex,
rossmann fold, HO pyridine nucleotide disulfide
oxidoreductase, electron TRAN oxidoreductase; HET: FAD;
2.20A {Homo sapiens} PDB: 3qfb_A* 2j3n_A* 2zzc_A*
2zzb_A* 2zz0_A* 2cfy_A* 1h6v_A* 3ean_A* 3eao_A*
Length = 519
Score = 26.4 bits (59), Expect = 1.6
Identities = 12/37 (32%), Positives = 19/37 (51%)
Query: 59 GPGAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGG 95
G G +A + A+ G K+ ++ VTP P + GG
Sbjct: 41 GSGGLAAAKEAAQYGKKVMVLDFVTPTPLGTRWGLGG 77
>1vj2_A Novel manganese-containing cupin TM1459; structural genomics,
joint for structural genomics, JCSG; 1.65A {Thermotoga
maritima} SCOP: b.82.1.10
Length = 126
Score = 24.4 bits (53), Expect = 7.0
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 74 MKIGRIEDVTPIPTDSTRRKGGRRG 98
M + R DVTP + + +G R+
Sbjct: 13 MILKRAYDVTPQKISTDKVRGVRKR 37
>3s3l_A CERJ; acyltransferase, FABH homologue, KS III homologue, dimethyl
transfer, transferase; 2.00A {Streptomyces tendae} PDB:
3t5y_A* 3t6s_A* 3t8e_A 3t5y_B*
Length = 357
Score = 24.5 bits (54), Expect = 7.7
Identities = 9/41 (21%), Positives = 18/41 (43%), Gaps = 3/41 (7%)
Query: 39 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRI 79
GI ++ + A+ + P A++A AL R + +
Sbjct: 39 GIESVTV---ASDAEEDAPPRMAARAARAALGRGDVDPADV 76
>3gra_A Transcriptional regulator, ARAC family; transcription regulator,
PSI-II, structural genomics structure initiative; 2.30A
{Pseudomonas putida}
Length = 202
Score = 24.1 bits (53), Expect = 9.5
Identities = 9/27 (33%), Positives = 11/27 (40%)
Query: 51 GGNKTKTPGPGAQSALRALARSGMKIG 77
GG +T P L A GM +G
Sbjct: 79 GGLRTPLKYPELDRLLNDCAAHGMALG 105
>3p3b_A Mandelate racemase/muconate lactonizing protein; enolase
superfamily fold, galacturonate dehydratase, D-tartr
galacturonate, lyase; HET: TAR; 1.65A {Geobacillus SP}
PDB: 3ops_A* 3n4f_A* 3qpe_A*
Length = 392
Score = 24.3 bits (53), Expect = 9.6
Identities = 8/56 (14%), Positives = 20/56 (35%), Gaps = 2/56 (3%)
Query: 15 DRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALA 70
D + AA+ Q+ + + +G K++ G + G + + +
Sbjct: 139 DLHLADERAAVALMQEEAMQGYAKGQRH--FKIKVGRGGRHMPLWEGTKRDIAIVR 192
>1te2_A Putative phosphatase; structural genomics, phosphates, PSI, protein
S initiative, midwest center for structural genomics,
MCSG; HET: MSE; 1.76A {Escherichia coli} SCOP: c.108.1.6
Length = 226
Score = 24.1 bits (53), Expect = 9.7
Identities = 5/18 (27%), Positives = 9/18 (50%)
Query: 60 PGAQSALRALARSGMKIG 77
PG + A+ G+ +G
Sbjct: 97 PGVREAVALCKEQGLLVG 114
>2wlr_A Putative thiosulfate sulfurtransferase YNJE; rhodanese domains;
HET: EPE; 1.45A {Escherichia coli} PDB: 2wlx_A* 3ipo_A*
3ipp_A
Length = 423
Score = 24.3 bits (53), Expect = 9.7
Identities = 5/28 (17%), Positives = 11/28 (39%)
Query: 15 DRDESSPYAAMLAAQDVSQRCKERGITA 42
+ ES P ++ + + + GI
Sbjct: 175 NEVESEPLWNKVSDEQLKAMLAKHGIRH 202
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 0.131 0.367
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,549,241
Number of extensions: 83246
Number of successful extensions: 230
Number of sequences better than 10.0: 1
Number of HSP's gapped: 226
Number of HSP's successfully gapped: 42
Length of query: 101
Length of database: 6,701,793
Length adjustment: 67
Effective length of query: 34
Effective length of database: 4,831,086
Effective search space: 164256924
Effective search space used: 164256924
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: 42 (22.0 bits)
S2: 51 (23.4 bits)