RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2274
(244 letters)
>2zkr_o 60S ribosomal protein L18; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 188
Score = 130 bits (327), Expect = 6e-38
Identities = 61/102 (59%), Positives = 81/102 (79%)
Query: 36 GVDICHKYDRRVRRTKPKSKDVYLELLVKLYRFLTRRTNSKFNKIILKRLFMSKINRPPM 95
GVDI H DR+VRR +PKS+D+YL LLVKLYRFL RRTNS FN+++LKRLFMS+ NRPP+
Sbjct: 2 GVDIRHNKDRKVRRKEPKSQDIYLRLLVKLYRFLARRTNSTFNQVVLKRLFMSRTNRPPL 61
Query: 96 AISKIVRFMKKPTREGRVAVIVGTIVDDPRMWTIPKLTIVRF 137
++S+++R MK P RE + AV+VGT+ DD R+ +PKL +
Sbjct: 62 SLSRMIRKMKLPGRENKTAVVVGTVTDDVRILEVPKLKVCAL 103
Score = 42.7 bits (100), Expect = 3e-05
Identities = 20/27 (74%), Positives = 24/27 (88%)
Query: 168 LYRFLTRRTNSKFNKIILKRLFMSKIN 194
LYRFL RRTNS FN+++LKRLFMS+ N
Sbjct: 31 LYRFLARRTNSTFNQVVLKRLFMSRTN 57
>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 = 120 bits (301), Expect = 5e-34
Identities = 50/103 (48%), Positives = 72/103 (69%), Gaps = 1/103 (0%)
Query: 36 GVDIC-HKYDRRVRRTKPKSKDVYLELLVKLYRFLTRRTNSKFNKIILKRLFMSKINRPP 94
G+D ++ R RT PKS +VYL+LLVKLY FL RRT++ FNK++LK LF+SKINRPP
Sbjct: 2 GIDHTSKQHKRSGHRTAPKSDNVYLKLLVKLYTFLARRTDAPFNKVVLKALFLSKINRPP 61
Query: 95 MAISKIVRFMKKPTREGRVAVIVGTIVDDPRMWTIPKLTIVRF 137
+++S+I R +K+ + V+VGT+ DD R++ PK T+
Sbjct: 62 VSVSRIARALKQEGAANKTVVVVGTVTDDARIFEFPKTTVAAL 104
Score = 41.2 bits (96), Expect = 9e-05
Identities = 18/27 (66%), Positives = 23/27 (85%)
Query: 168 LYRFLTRRTNSKFNKIILKRLFMSKIN 194
LY FL RRT++ FNK++LK LF+SKIN
Sbjct: 32 LYTFLARRTDAPFNKVVLKALFLSKIN 58
>3iz5_R 60S ribosomal protein L18 (L18E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_R
Length = 188
Score = 118 bits (298), Expect = 1e-33
Identities = 54/100 (54%), Positives = 72/100 (72%), Gaps = 2/100 (2%)
Query: 36 GVD-ICHKYDRRVRRTKPKSKDVYLELLVKLYRFLTRRTNSKFNKIILKRLFMSKINRPP 94
G+D + ++R +R PKS DVYL+LLVKLYRFL RRT SKFN +ILKRLFMSK NRPP
Sbjct: 2 GIDLVAGGRNKRTKRVAPKSDDVYLKLLVKLYRFLVRRTKSKFNAVILKRLFMSKTNRPP 61
Query: 95 MAISKIVRFMKKPTREGRVAVIVGTIVDDPRMWTIPKLTI 134
+++ ++ FMK E +AV+VGTI DD R+ +P + +
Sbjct: 62 LSMRRLSNFMKGK-EEKNIAVVVGTITDDMRIQEVPAMKV 100
Score = 44.3 bits (104), Expect = 8e-06
Identities = 22/27 (81%), Positives = 23/27 (85%)
Query: 168 LYRFLTRRTNSKFNKIILKRLFMSKIN 194
LYRFL RRT SKFN +ILKRLFMSK N
Sbjct: 32 LYRFLVRRTKSKFNAVILKRLFMSKTN 58
>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 = 109 bits (274), Expect = 4e-30
Identities = 41/104 (39%), Positives = 69/104 (66%), Gaps = 3/104 (2%)
Query: 36 GVDI--CHKYDRRVRRTKPKSKDVYLELLVKLYRFLTRRTNSKFNKIILKRLFMSKINRP 93
+D+ + +R + KS +VY +LL+KLY+FL RRT+SKFN+ ILKRL S++N+
Sbjct: 2 AIDLHKQGRVVKRSVVRQTKSTNVYHKLLIKLYKFLVRRTDSKFNQNILKRLSSSRLNKF 61
Query: 94 PMAISKIVRFMKKPTREGRVAVIVGTIVDDPRMWTIPKLTIVRF 137
P+++S+IV+ + + + +V V T+ +D R+ T+PKLT+
Sbjct: 62 PLSLSRIVKNLNET-NKEQVIVSTSTVTNDERLLTVPKLTVCAL 104
Score = 41.2 bits (96), Expect = 8e-05
Identities = 18/27 (66%), Positives = 23/27 (85%)
Query: 168 LYRFLTRRTNSKFNKIILKRLFMSKIN 194
LY+FL RRT+SKFN+ ILKRL S++N
Sbjct: 33 LYKFLVRRTDSKFNQNILKRLSSSRLN 59
>3jyw_O 60S ribosomal protein L18(A); eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus} PDB:
1s1i_O
Length = 121
Score = 103 bits (258), Expect = 2e-28
Identities = 43/82 (52%), Positives = 62/82 (75%)
Query: 54 SKDVYLELLVKLYRFLTRRTNSKFNKIILKRLFMSKINRPPMAISKIVRFMKKPTREGRV 113
S +VYL+LLVKLY FL RRT++ FNK++LK LF+SKINRPP+++S+I R +K+ +
Sbjct: 1 SDNVYLKLLVKLYTFLARRTDAPFNKVVLKALFLSKINRPPVSVSRIARALKQEGAANKT 60
Query: 114 AVIVGTIVDDPRMWTIPKLTIV 135
V+VGT+ DD R++ PK T+
Sbjct: 61 VVVVGTVTDDARIFEFPKTTVA 82
Score = 40.7 bits (95), Expect = 5e-05
Identities = 18/27 (66%), Positives = 23/27 (85%)
Query: 168 LYRFLTRRTNSKFNKIILKRLFMSKIN 194
LY FL RRT++ FNK++LK LF+SKIN
Sbjct: 12 LYTFLARRTDAPFNKVVLKALFLSKIN 38
>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 = 85.1 bits (211), Expect = 2e-21
Identities = 11/83 (13%), Positives = 29/83 (34%), Gaps = 6/83 (7%)
Query: 53 KSKDVYLELLVKLYRFLTRRTNSKFNKIILKRLFMSKINRPPMAISKIVRFMKKPTREGR 112
+ L L+ + R + + +RL + + + +I R+ + E
Sbjct: 2 SKTNPRLSSLIADLKSAARSSGGAVWGDVAERLEKPRRTHAEVNLGRIERYAQ----EDE 57
Query: 113 VAVIVGTIVDDPRMWTIPKLTIV 135
V+ G ++ + +T+
Sbjct: 58 TVVVPGKVLGSGVLQK--DVTVA 78
Score = 43.9 bits (104), Expect = 4e-06
Identities = 3/27 (11%), Positives = 8/27 (29%)
Query: 168 LYRFLTRRTNSKFNKIILKRLFMSKIN 194
+ R + + +RL +
Sbjct: 14 DLKSAARSSGGAVWGDVAERLEKPRRT 40
>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 = 35.8 bits (82), Expect = 0.012
Identities = 36/196 (18%), Positives = 54/196 (27%), Gaps = 79/196 (40%)
Query: 36 GVDICH--KYDRRVRRTKPKSKDVYLEL------LV------KLYRFLT--RR------- 72
+ Y + P K V + L LV LY R+
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGL 402
Query: 73 --TNSKFN--KIILKRLFM-------SKINRPPMAISKI--------VRF----MKKP-- 107
+ F+ K+ F+ S + P A I V F ++ P
Sbjct: 403 DQSRIPFSERKLKFSNRFLPVASPFHSHLLVP--ASDLINKDLVKNNVSFNAKDIQIPVY 460
Query: 108 -TREGR---------VAVIVGTIVDDPRMWTIPKLT------IVRF----------MKKP 141
T +G IV I+ P W T I+ F +
Sbjct: 461 DTFDGSDLRVLSGSISERIVDCIIRLPVKW--ETTTQFKATHILDFGPGGASGLGVLTHR 518
Query: 142 TREGR-VAVIVGTIVD 156
++G V VIV +D
Sbjct: 519 NKDGTGVRVIVAGTLD 534
Score = 33.9 bits (77), Expect = 0.055
Identities = 33/169 (19%), Positives = 61/169 (36%), Gaps = 66/169 (39%)
Query: 94 PM-AIS-----KIVRFMKK-----PTREGRVAVIVGTIVDDPRMWTI---PK-L----TI 134
PM +IS ++ ++ K P +V + ++V+ + + P+ L
Sbjct: 337 PMLSISNLTQEQVQDYVNKTNSHLP-AGKQVEI---SLVNGAKNLVVSGPPQSLYGLNLT 392
Query: 135 VRFMKKPTREGRVAVIVGTIVDDPRMWTIP----KLTLY-RFLTRRTNSKF--------N 181
+R K P+ +D R IP KL RFL S F +
Sbjct: 393 LRKAKAPSG-----------LDQSR---IPFSERKLKFSNRFL--PVASPFHSHLLVPAS 436
Query: 182 KIILKRLFMSKINSISERELDVKPTNTLALLPVFPTVT----RKLTSDL 226
+I K L + + S + +++ + PV+ T R L+ +
Sbjct: 437 DLINKDLVKNNV-SFNAKDIQI---------PVYDTFDGSDLRVLSGSI 475
>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 = 34.4 bits (78), Expect = 0.031
Identities = 34/263 (12%), Positives = 63/263 (23%), Gaps = 102/263 (38%)
Query: 2 HLVCAQQIPNC--------NKTMQVK----SCNII--SQYSSGSSGQNGVDICHKYDRRV 47
L+ ++ NC N SC I+ +++ + + H
Sbjct: 236 RLLKSKPYENCLLVLLNVQNAKA-WNAFNLSCKILLTTRFKQVTDFLSAATTTHI--SLD 292
Query: 48 RRTKPKSKDVYLELLVKLYRFLTRRTNSKFNKIILKRLFMSKINRPPMAISKIVRFMKKP 107
+ + D LL+K +L + + L R + N P +S I ++
Sbjct: 293 HHSMTLTPDEVKSLLLK---YL----DCRPQD--LPRE-VLTTN--PRRLSIIAESIR-- 338
Query: 108 TREGRVAVIVGTIVDDPRMWTIPKLTIVRFMKKPTREGRVAVIVGTIVDDPRMWTIPKLT 167
D W
Sbjct: 339 --------------DGLATWD--------------------------------------- 345
Query: 168 LYRFLTRRTNSKFNKIILKRLFMSKINSISEREL---------DVK-PTNTLALL--PVF 215
K II ++ + R++ PT L+L+ V
Sbjct: 346 ---NWKHVNCDKLTTII--ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI 400
Query: 216 PTVTRKLTSDLKAASL-NGHEDE 237
+ + + L SL E
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKE 423
Score = 33.3 bits (75), Expect = 0.070
Identities = 22/154 (14%), Positives = 49/154 (31%), Gaps = 17/154 (11%)
Query: 41 HKYDRRVRRTKPKSKDVYLELLVKLYRFLTRRTNSKFNKIILKRLFMSKINRPPMAISKI 100
H D + + KD+ + K IL + + I A+S
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 101 VR----FMKKPTREGRVAVIVGTIVDDPRMWTIPKLTIVRFMKKPTREGRVAVIVGTIVD 156
+R + K V V ++ + + + ++P+ R+ + D
Sbjct: 65 LRLFWTLLSKQEEM--VQKFVEEVLRINYKFLMSPIKTE--QRQPSMMTRMYI---EQRD 117
Query: 157 DPRMWTIPKLTLYRFLTRRTNSKFNKII--LKRL 188
R++ ++ ++R + K+ L L
Sbjct: 118 --RLYNDNQVFAKYNVSRL--QPYLKLRQALLEL 147
Score = 27.9 bits (61), Expect = 3.8
Identities = 15/93 (16%), Positives = 32/93 (34%), Gaps = 17/93 (18%)
Query: 2 HLVCAQQIPNCN---------KTMQVKSCNIISQYSSGSSGQNGVDICHKYDRRVRRTKP 52
HL + + ++ K + + +++ S N + Y + P
Sbjct: 480 HLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDP 539
Query: 53 KSKDVYLELLVKLYRFLTR-RTN---SKFNKII 81
K Y L+ + FL + N SK+ ++
Sbjct: 540 K----YERLVNAILDFLPKIEENLICSKYTDLL 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 = 30.3 bits (67), Expect = 0.37
Identities = 8/23 (34%), Positives = 10/23 (43%), Gaps = 8/23 (34%)
Query: 220 RKLTSDLK--AASLNGHEDEEPA 240
+KL + LK A D PA
Sbjct: 23 KKLQASLKLYAD------DSAPA 39
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 27.9 bits (62), Expect = 3.4
Identities = 5/32 (15%), Positives = 12/32 (37%), Gaps = 2/32 (6%)
Query: 112 RVAVIVGTIVDDPRMWTIPKLTIVRFMKKPTR 143
V G+ + + + + RF +P +
Sbjct: 1043 EVGNCSGSGM--GGVSALRGMFKDRFKDEPVQ 1072
>2zwa_A Leucine carboxyl methyltransferase 2; HET: SAH CIT; 1.70A
{Saccharomyces cerevisiae} PDB: 2zw9_A* 2zzk_A*
Length = 695
Score = 27.8 bits (61), Expect = 3.9
Identities = 16/99 (16%), Positives = 33/99 (33%), Gaps = 7/99 (7%)
Query: 103 FMKKPTREGRVAVI-VGTIVDDPRMWTIPKLTIVRFMKKPTREGRVAVIVGTIVDDPRMW 161
F+ K + R I G + R++ I + +++ ++ ++ V+ DP +
Sbjct: 70 FVPKKIK--RSPCINRGYWL---RLFAIRSR-LNSIIEQTPQDKKIVVVNLGCGYDPLPF 123
Query: 162 TIPKLTLYRFLTRRTNSKFNKIILKRLFMSKINSISERE 200
+ + F I L KI I
Sbjct: 124 QLLDTNNIQSQQYHDRVSFIDIDYSDLLKIKIELIKTIP 162
>4eam_A Lactase, beta-galactosidase; glycoside hydrolase, chemical
biology, allosteric activation switchable enzyme,
chemical rescue; 1.70A {Sulfolobus solfataricus P2}
PDB: 4ean_A 1uws_A* 1uwr_A* 1uwq_A* 1uwt_A* 1uwu_A*
2ceq_A* 2cer_A* 1gow_A 1uwi_A
Length = 489
Score = 27.3 bits (61), Expect = 5.5
Identities = 8/49 (16%), Positives = 15/49 (30%), Gaps = 12/49 (24%)
Query: 22 NIISQYSSGSSGQNGVDICHKYDRRVRRTKPKSKDVYL--ELLVKLYRF 68
N+ + SG +NG Y ++ +K+ R
Sbjct: 42 NMAAGLVSGDLPENGPGYWGNYKT----------FHDNAQKMGLKIARL 80
>1qvb_A Beta-glycosidase; TIM-barrel, thermostable, hydrolase; 2.40A
{Thermosphaera aggregans} SCOP: c.1.8.4
Length = 481
Score = 26.9 bits (60), Expect = 6.2
Identities = 10/49 (20%), Positives = 14/49 (28%), Gaps = 12/49 (24%)
Query: 22 NIISQYSSGSSGQNGVDICHKYDRRVRRTKPKSKDVYL--ELLVKLYRF 68
N + SG +NG + D L +L V R
Sbjct: 41 NTAAGLVSGDFPENGPGYWNLNQ----------NDHDLAEKLGVNTIRV 79
>3iac_A Glucuronate isomerase; IDP02065, structural genom center for
structural genomics of infectious diseases, CSGI; 2.22A
{Salmonella typhimurium}
Length = 473
Score = 26.6 bits (58), Expect = 9.4
Identities = 6/39 (15%), Positives = 20/39 (51%)
Query: 134 IVRFMKKPTREGRVAVIVGTIVDDPRMWTIPKLTLYRFL 172
++R +++ ++ G ++ VG + D + + +R +
Sbjct: 395 MLRQLEQLSQMGLLSQFVGMLTDSRSFLSYTRHEYFRRI 433
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
0.323 0.136 0.398
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,675,312
Number of extensions: 220836
Number of successful extensions: 373
Number of sequences better than 10.0: 1
Number of HSP's gapped: 371
Number of HSP's successfully gapped: 27
Length of query: 244
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 153
Effective length of database: 4,160,982
Effective search space: 636630246
Effective search space used: 636630246
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (25.3 bits)