RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 032139
(146 letters)
>3iz5_O 60S ribosomal protein L27A (L15P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_O
Length = 144
Score = 169 bits (430), Expect = 2e-55
Identities = 118/146 (80%), Positives = 131/146 (89%), Gaps = 2/146 (1%)
Query: 1 MTTRFKKNRKKRGHVSAGHGRIGKHRKHPGGRGNAGGMHHHRILFDKYHPGFFGKVGMRY 60
MTTRFKKNRKKRGHVSAGHGRIGKHRKHPGGRGNAGGMHHHRILFDKYHPG+FGKVGMRY
Sbjct: 1 MTTRFKKNRKKRGHVSAGHGRIGKHRKHPGGRGNAGGMHHHRILFDKYHPGYFGKVGMRY 60
Query: 61 FHKLRNKFHCPIVNIDKLWSMVPQDVKAKASKDNVPMIDVTQFGYFKVLGKGVLPENQPV 120
FH+L N+FHCP VN+++LWSMVP + A A K P+IDVTQFGY KVLGKG+LP +P+
Sbjct: 61 FHRLSNRFHCPAVNVERLWSMVPAEAGAGAGK--APVIDVTQFGYTKVLGKGMLPPERPI 118
Query: 121 VVKAKLVSKTAEKKIKEAGGAVVLTA 146
VVKAKL+SK AEKKIK AGGAV+LTA
Sbjct: 119 VVKAKLISKVAEKKIKAAGGAVLLTA 144
>3o58_Y 60S ribosomal protein L28; ribosomal RNA and proteins, ribosome;
4.00A {Saccharomyces cerevisiae} PDB: 3o5h_Y 3izc_O
3izs_O 3u5e_a 3u5i_a 1s1i_V 3jyw_V
Length = 149
Score = 160 bits (406), Expect = 9e-52
Identities = 92/150 (61%), Positives = 112/150 (74%), Gaps = 5/150 (3%)
Query: 1 MTTRFKKNRKKRGHVSAGHGRIGKHRKHPGGRGNAGGMHHHRILFDKYHPGFFGKVGMRY 60
M +RF K RK RGHVSAG GRIGKHRKHPGGRG AGG HHHRI DKYHPG+FGKVGMRY
Sbjct: 1 MPSRFTKTRKHRGHVSAGKGRIGKHRKHPGGRGMAGGEHHHRINMDKYHPGYFGKVGMRY 60
Query: 61 FHKLRNKFHCPIVNIDKLWSMVPQDVKAKASK----DNVPMIDVTQFGYFKVLGKGVLPE 116
FHK + F P++N+DKLW+++P+D + + K + P+ID GY K+LGKG +P
Sbjct: 61 FHKQQAHFWKPVLNLDKLWTLIPEDKRDQYLKSASKETAPVIDTLAAGYGKILGKGRIP- 119
Query: 117 NQPVVVKAKLVSKTAEKKIKEAGGAVVLTA 146
N PV+VKA+ VSK AE+KI+ AGG V L A
Sbjct: 120 NVPVIVKARFVSKLAEEKIRAAGGVVELIA 149
>2zkr_l 60S ribosomal protein L27A; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 148
Score = 159 bits (404), Expect = 2e-51
Identities = 95/149 (63%), Positives = 114/149 (76%), Gaps = 4/149 (2%)
Query: 1 MTTRFKKNRKKRGHVSAGHGRIGKHRKHPGGRGNAGGMHHHRILFDKYHPGFFGKVGMRY 60
M +R +K RK RGHVS GHGRIGKHRKHPGGRGNAGGMHHHRI FDKYHPG+FGKVGM++
Sbjct: 1 MPSRLRKTRKLRGHVSHGHGRIGKHRKHPGGRGNAGGMHHHRINFDKYHPGYFGKVGMKH 60
Query: 61 FHKLRNKFHCPIVNIDKLWSMVPQDVKAKASK---DNVPMIDVTQFGYFKVLGKGVLPEN 117
+H RN+ CP VN+DK W++V + + A+K P+IDV + GY+KVLGKG LP
Sbjct: 61 YHLKRNQSFCPTVNLDKPWTLVSEQTRVNAAKNKTGVAPIIDVVRSGYYKVLGKGKLP-K 119
Query: 118 QPVVVKAKLVSKTAEKKIKEAGGAVVLTA 146
QPV+VKAK S+ AE+KIK GGA VL A
Sbjct: 120 QPVIVKAKFFSRRAEEKIKSVGGACVLVA 148
>4a17_K L29, RPL27A, 60S ribosomal protein L27A; eukaryotic ribosome,
ribosome, eukaryotic initiation factor 60S, translation,
large ribosomal subunit; 3.52A {Tetrahymena thermophila}
PDB: 4a1a_K 4a1c_K 4a1e_K
Length = 149
Score = 151 bits (382), Expect = 3e-48
Identities = 96/150 (64%), Positives = 114/150 (76%), Gaps = 5/150 (3%)
Query: 1 MTTRFKKNRKKRGHVSAGHGRIGKHRKH--PGGRGNAGGMHHHRILFDKYHPGFFGKVGM 58
M + KK RK RGHVS GHGR+GKHRK GGRG AGGMHHHRIL +K+HPG++GK+GM
Sbjct: 1 MVSHLKKTRKLRGHVSHGHGRVGKHRKGGCRGGRGKAGGMHHHRILMEKWHPGYYGKLGM 60
Query: 59 RYFHKLRNKFHCPIVNIDKLWSMVPQDVKAKASK--DNVPMIDVTQFGYFKVLGKGVLPE 116
R FH +N HCP+VNIDKLWS+V + K ++ VP+IDVT+ G+FKVLGKG LP
Sbjct: 61 RTFHLKKNPLHCPVVNIDKLWSLVSDATRQKYAEDKKKVPVIDVTKAGFFKVLGKGRLP- 119
Query: 117 NQPVVVKAKLVSKTAEKKIKEAGGAVVLTA 146
NQPVVVKAK SKTAE++I GGA VLTA
Sbjct: 120 NQPVVVKAKYFSKTAERRIVAVGGACVLTA 149
>1vq8_L 50S ribosomal protein L15P; 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: c.12.1.1 PDB: 1vq4_L*
1vq5_L* 1vq6_L* 1vq7_L* 1s72_L* 1vq9_L* 1vqk_L* 1vql_L*
1vqm_L* 1vqn_L* 1vqo_L* 1vqp_L* 1yhq_L* 1yi2_L* 1yij_L*
1yit_L* 1yj9_L* 1yjn_L* 1yjw_L* 2otj_L* ...
Length = 165
Score = 111 bits (280), Expect = 2e-32
Identities = 35/151 (23%), Positives = 63/151 (41%), Gaps = 20/151 (13%)
Query: 6 KKNRKKRGHVSAGHGRIGKHRK--HPGGRGNAGGMHHHRILFDKYHPGFFGKVGMRYFHK 63
K +++RG + G G R H GGRG+AG H ++ GK G + K
Sbjct: 3 SKKKRQRGSRTHGGGSHKNRRGAGHRGGRGDAGRDKHE-----FHNHEPLGKSGFKRPQK 57
Query: 64 LRNKFHCPIVNIDKLWSMVPQDVKAKASKDN---------VPMIDVTQFGYFKVLGKGVL 114
++ + +++ ++ V ++ + + Y KVLG G +
Sbjct: 58 VQEEAA--TIDVREIDENVTLLAADDVAEVEDGGFRVDVRDVVEEADDADYVKVLGAGQV 115
Query: 115 PENQPVVVKAKLVSKTAEKKIKEAGGAVVLT 145
+ + A S+ A +K++ AGG+V LT
Sbjct: 116 --RHELTLIADDFSEGAREKVEGAGGSVELT 144
>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 = 43.1 bits (101), Expect = 9e-06
Identities = 29/155 (18%), Positives = 48/155 (30%), Gaps = 48/155 (30%)
Query: 14 HVSAGHGRIGKHRKHP--GGRGNAGG----MHHHRILFDKYHP---GFFGKVGMRYFHKL 64
V G+ ++ GG+GN + R L+ YH +
Sbjct: 148 AVGEGNAQL-----VAIFGGQGNTDDYFEEL---RDLYQTYHVLVGDLIKFSAETLSELI 199
Query: 65 RNKFHCPIV---NID-KLW----SMVPQD---VKAKASKDNVPMIDVTQFGYF----KVL 109
R V ++ W S P + S P+I V Q ++ K+L
Sbjct: 200 RTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPIS---CPLIGVIQLAHYVVTAKLL 256
Query: 110 G----------KGVLPENQPVVVKAKLV--SKTAE 132
G KG +Q +V A + + + E
Sbjct: 257 GFTPGELRSYLKGATGHSQGLVT-AVAIAETDSWE 290
>2zjr_I 50S ribosomal protein L15; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: c.12.1.1 PDB: 1nwx_J* 1nwy_J* 1sm1_J*
1xbp_J* 2zjp_I* 2zjq_I 1nkw_J 3cf5_I* 3dll_I* 3pio_I*
3pip_I* 1pnu_J 1pny_J 1vor_M 1vou_M 1vow_M 1voy_M 1vp0_M
Length = 156
Score = 38.3 bits (90), Expect = 2e-04
Identities = 14/40 (35%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 107 KVLGKGVLPENQPVVVKAKLVSKTAEKKIKEAGGAVVLTA 146
K+L G + ++ V V S A K ++ AGG VVL
Sbjct: 107 KLLASGEI--SRAVTVHVDAASAAAIKAVEAAGGRVVLPE 144
>3r8s_L 50S ribosomal protein L15; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
3fik_L 2wwq_L 3oat_L* 3oas_L* 3ofd_L 3ofc_L 3ofr_L*
3ofz_L* 3og0_L 3ofq_L 3r8t_L 3i1n_L 1p85_J 1p86_J 1vs8_L
1vs6_L 2aw4_L 2awb_L 1vt2_L 2i2v_L ...
Length = 143
Score = 37.1 bits (87), Expect = 4e-04
Identities = 19/78 (24%), Positives = 29/78 (37%), Gaps = 4/78 (5%)
Query: 65 RNKFHCPIVNIDKLWSMVPQDVKAKASKDNVPMIDVTQFGYFKVLGKGVLPENQPVVVKA 124
R + + L + V K I Q + KV+ G + PV V+
Sbjct: 68 RKAAITAEIRLSDLAKVEGGVVDLNTLKAAN--IIGIQIEFAKVILAGEV--TTPVTVRG 123
Query: 125 KLVSKTAEKKIKEAGGAV 142
V+K A I+ AGG +
Sbjct: 124 LRVTKGARAAIEAAGGKI 141
>3v2d_P 50S ribosomal protein L15; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
1vsp_J 2hgj_O 2hgq_O 2hgu_O 1vsa_J 2j03_P 2jl6_P 2jl8_P
2v47_P 2v49_P 2wdi_P 2wdj_P 2wdl_P 2wdn_P 2wh2_P 2wh4_P
2wrj_P 2wrl_P 2wro_P 2wrr_P ...
Length = 150
Score = 37.5 bits (88), Expect = 4e-04
Identities = 18/38 (47%), Positives = 25/38 (65%), Gaps = 3/38 (7%)
Query: 107 KVLGKGVLPENQPVVVKAKLVSKTAEKKIKEAGGAVVL 144
K+LG+G E +P+ V A SK+A +K+K AGG VL
Sbjct: 113 KILGEG---EAKPLKVVAHAFSKSALEKLKAAGGEPVL 147
>3bbo_N Ribosomal protein L15; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 257
Score = 37.9 bits (88), Expect = 4e-04
Identities = 15/80 (18%), Positives = 37/80 (46%), Gaps = 7/80 (8%)
Query: 72 IVNIDKLWSMVPQ-----DVKAKASKDNVPMIDVTQFGYFKVLGKGVLPENQPVVVKAKL 126
VN+ + + Q ++ +K + + K+L G L ++ + +KA
Sbjct: 144 NVNLTDIENAGFQDGEEVSLETLKAKRVINPSGRERKLPLKILADGEL--SKKLTIKAGA 201
Query: 127 VSKTAEKKIKEAGGAVVLTA 146
S +A++K++ AG ++++
Sbjct: 202 FSTSAKEKLEYAGCSLIVLP 221
>1vq8_O 50S ribosomal protein L18E; 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: c.12.1.1 PDB: 1vq4_O*
1vq5_O* 1vq6_O* 1vq7_O* 1s72_O* 1vq9_O* 1vqk_O* 1vql_O*
1vqm_O* 1vqn_O* 1vqo_O* 1vqp_O* 1yhq_O* 1yi2_O* 1yij_O*
1yit_O* 1yj9_O* 1yjn_O* 1yjw_O* 2otj_O* ...
Length = 116
Score = 33.9 bits (78), Expect = 0.004
Identities = 20/38 (52%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 107 KVLGKGVLPENQPVVVKAKLVSKTAEKKIKEAGGAVVL 144
KVLG GVL + V V A S TAE KI + G AV L
Sbjct: 64 KVLGSGVLQK--DVTVAAVDFSGTAETKIDQVGEAVSL 99
>3jyw_O 60S ribosomal protein L18(A); eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus} PDB:
1s1i_O
Length = 121
Score = 29.9 bits (67), Expect = 0.14
Identities = 10/37 (27%), Positives = 14/37 (37%)
Query: 107 KVLGKGVLPENQPVVVKAKLVSKTAEKKIKEAGGAVV 143
V + E V A + A KI +AGG +
Sbjct: 66 TVTDDARIFEFPKTTVAALRFTAGARAKIVKAGGECI 102
>4a17_N RPL18, 60S ribosomal protein L5; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_N 4a1c_N 4a1e_N
Length = 181
Score = 28.8 bits (64), Expect = 0.54
Identities = 11/45 (24%), Positives = 17/45 (37%)
Query: 99 DVTQFGYFKVLGKGVLPENQPVVVKAKLVSKTAEKKIKEAGGAVV 143
+ V L + V A ++TA K+I AGG +
Sbjct: 78 EQVIVSTSTVTNDERLLTVPKLTVCALKFTETARKRILAAGGKCL 122
>3izc_R 60S ribosomal protein RPL18 (L18E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_R
3o58_R 3o5h_R 3u5e_Q 3u5i_Q
Length = 186
Score = 27.7 bits (61), Expect = 1.2
Identities = 10/37 (27%), Positives = 14/37 (37%)
Query: 107 KVLGKGVLPENQPVVVKAKLVSKTAEKKIKEAGGAVV 143
V + E V A + A KI +AGG +
Sbjct: 86 TVTDDARIFEFPKTTVAALRFTAGARAKIVKAGGECI 122
>1pj5_A N,N-dimethylglycine oxidase; channelling, FAD binding, folate
binding, amine oxidase, oxidoreductase; HET: FAD; 1.61A
{Arthrobacter globiformis} SCOP: b.44.2.1 c.3.1.2
d.16.1.5 d.250.1.1 PDB: 1pj6_A* 1pj7_A* 3gsi_A*
Length = 830
Score = 27.7 bits (62), Expect = 1.6
Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 10/58 (17%)
Query: 88 AKASKDNVPMIDVTQFGYFKVLGKGVLPENQPVVVKAKLVSKTAEKKIKEAGGAVVLT 145
A ++ V M D+T +V G G L KL+ + + + GAV T
Sbjct: 493 AWKTRTAVAMYDMTPLKRLEVSGPGAL----------KLLQELTTADLAKKPGAVTYT 540
>2e6i_A Tyrosine-protein kinase ITK/TSK; BTK, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 64
Score = 25.0 bits (54), Expect = 3.5
Identities = 7/19 (36%), Positives = 10/19 (52%)
Query: 35 AGGMHHHRILFDKYHPGFF 53
+ G + L KYHP F+
Sbjct: 2 SSGSSGNNSLVPKYHPNFW 20
>1esw_A Amylomaltase; (beta,alpha)8-barrel, glucanotransferase,
alpha-amylase FAMI acarbose, transferase; HET: ACR;
1.90A {Thermus aquaticus} SCOP: c.1.8.1 PDB: 1cwy_A*
1fp8_A 1fp9_A 2owc_A* 2oww_A* 2owx_A* 2x1i_A*
Length = 500
Score = 26.5 bits (59), Expect = 4.2
Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 1/63 (1%)
Query: 57 GMRYFHKLRNKFHCPIVNIDKLWSMVPQDVKAKASKDNVPMIDVTQFGYFKVLGKGVLPE 116
G + F K++ F V + L ++ +V+A + +P + V QF + + LP
Sbjct: 321 GEKLFQKIQEVFGEVPVLAEDL-GVITPEVEALRDRFGLPGMKVLQFAFDDGMENPFLPH 379
Query: 117 NQP 119
N P
Sbjct: 380 NYP 382
>1clc_A Endoglucanase CELD; EC: 3.2.1.4; cellulase, glycosyl hydrolase;
1.90A {Clostridium thermocellum} SCOP: a.102.1.2
b.1.18.2
Length = 639
Score = 26.0 bits (57), Expect = 6.6
Identities = 8/50 (16%), Positives = 16/50 (32%), Gaps = 11/50 (22%)
Query: 96 PMIDVTQFGYFKVLGKGVLPENQPVVVKAKLVSKTAEKKIKEAGGAVVLT 145
I + G+ K KA + + + + + G +V T
Sbjct: 42 SRIRLNSIGFIPNHSK-----------KATIAANCSTFYVVKEDGTIVYT 80
>3ib5_A Sex pheromone precursor; YP_536235.1, structural genomics, joint
center for structural genomics, JCSG; 1.35A
{Lactobacillus salivarius UCC118}
Length = 348
Score = 25.2 bits (55), Expect = 8.8
Identities = 13/60 (21%), Positives = 20/60 (33%), Gaps = 4/60 (6%)
Query: 74 NIDKLWSMVPQDVKAKASKDNVPMIDVTQFGYFKVLGKGVLPENQPVVVKAKLVSKTAEK 133
+ ++P K DN D T F F+ K P V + + KT +
Sbjct: 225 ETNIKSYVLPATEDNKLPNDN----DSTSFDNFQKEVKNFFPNISNVTGQGQYKDKTLQG 280
>1nln_A Adenain; thiol hydrolase, viral proteinase, peptide cofactor;
1.60A {Human adenovirus 2} SCOP: d.3.1.7 PDB: 1avp_A
Length = 204
Score = 25.3 bits (55), Expect = 8.9
Identities = 10/30 (33%), Positives = 12/30 (40%), Gaps = 10/30 (33%)
Query: 45 FDKYHPGFFGKVGMRYFHKLRNKFHCPIVN 74
+DK PGF +K C IVN
Sbjct: 25 YDKRFPGFVSP----------HKLACAIVN 44
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
0.322 0.139 0.430
Gapped
Lambda K H
0.267 0.0546 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,413,397
Number of extensions: 141656
Number of successful extensions: 424
Number of sequences better than 10.0: 1
Number of HSP's gapped: 393
Number of HSP's successfully gapped: 31
Length of query: 146
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 61
Effective length of database: 4,328,508
Effective search space: 264038988
Effective search space used: 264038988
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: 53 (24.6 bits)