RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 028411
(209 letters)
>2e5a_A Lipoyltransferase 1; lipoyl-AMP, ligase; HET: LAQ; 2.10A {Bos
taurus} PDB: 3a7u_A
Length = 347
Score = 92.3 bits (229), Expect = 1e-22
Identities = 30/166 (18%), Positives = 52/166 (31%), Gaps = 10/166 (6%)
Query: 16 RDQVPVMKRFTGGGTVVVDKGTVFVTLICNKDDVPGVQPFPRSIMSWSGLLYNQVFKGI- 74
+ V + +R +GGGTV D G + +T K ++ + ++ V +
Sbjct: 65 EEGVKLARRRSGGGTVYHDMGNINLTFFTTKKKYDRME-NLKLVVRA----LKAVHPHLD 119
Query: 75 ADFQLRENDYVFGNRKFGGNAQSITKNRWIHHTSFLWDYAEGNMA-FLKQPARAPEYRME 133
R + + G K G A I +N HH + L ++ LK P +
Sbjct: 120 VQATKRFDLLLDGQFKISGTASKIGRNAAYHHCTLLCGTDGTFLSSLLKSPYQGIRSNAT 179
Query: 134 RGHTEFICRMNEYLP---RTDFIEKTTEAVETYFSVKNVNLEATEE 176
+ + E P I T + N
Sbjct: 180 ASTPALVKNLMEKDPTLTCEVVINAVATEYATSHQIDNHIHLINPT 225
>1vqz_A Lipoate-protein ligase, putative; class II AARS and biotin
synthetases fold, SUFE/NIFU fold, S genomics; HET: MSE;
1.99A {Streptococcus pneumoniae} SCOP: d.224.1.3
d.104.1.3
Length = 341
Score = 90.9 bits (226), Expect = 5e-22
Identities = 36/152 (23%), Positives = 63/152 (41%), Gaps = 7/152 (4%)
Query: 16 RDQVPVMKRFTGGGTVVVDKGTVFVTLICNKDDVPGVQPFPRSIMSWSGLLYNQVFK-GI 74
+ + V++R +GGG V D + T+I +D+ S+S + N + + G+
Sbjct: 72 ENGIEVVRRISGGGAVYHDLNNLNYTIISKEDENKA-----FDFKSFSTPVINTLAQLGV 126
Query: 75 ADFQLRENDYVFGNRKFGGNAQSITKNRWIHHTSFLWDYAEGNMA-FLKQPARAPEYRME 133
ND +KF GNAQ+ R +HH L+D +A LK E +
Sbjct: 127 KAEFTGRNDLEIDGKKFCGNAQAYINGRIMHHGCLLFDVDLSVLANALKVSKDKFESKGV 186
Query: 134 RGHTEFICRMNEYLPRTDFIEKTTEAVETYFS 165
+ + + LP+ +EK + + Y
Sbjct: 187 KSVRARVTNIINELPKKITVEKFRDLLLEYMK 218
>3a7r_A Lipoate-protein ligase A; adenylate-forming enzyme, lipoic acid,
ATP-binding, cytoplasm, nucleotide-binding, transferase,
lipoyl; HET: LAQ; 2.05A {Escherichia coli} PDB: 1x2h_A*
3a7a_A* 1x2g_A*
Length = 337
Score = 88.7 bits (220), Expect = 2e-21
Identities = 38/156 (24%), Positives = 61/156 (39%), Gaps = 15/156 (9%)
Query: 16 RDQVPVMKRFTGGGTVVVDKGTVFVTLICNKDDVPGVQPFPRSIMSWSGLLYNQVFKGI- 74
D V + +R +GGG V D G T + K + +++ L G+
Sbjct: 62 EDNVRLARRSSGGGAVFHDLGNTCFTFMAGKPEYD-KTISTSIVLNALNAL------GVS 114
Query: 75 ADFQLRENDYVF----GNRKFGGNAQSITKNRWIHHTSFLWDYAEGNMA-FLKQPARAPE 129
A+ R ND V G+RK G+A TK+R HH + L + +A +L +
Sbjct: 115 AEASGR-NDLVVKTVEGDRKVSGSAYRETKDRGFHHGTLLLNADLSRLANYLNPDKKKLA 173
Query: 130 YRMERGHTEFICRMNEYLPRTDFIEKTTEAVETYFS 165
+ + + E LP E+ EA+ F
Sbjct: 174 AKGITSVRSRVTNLTELLPGIT-HEQVCEAITEAFF 208
>2c8m_A Lipoate-protein ligase A; lipoylation; HET: LPA; 1.89A
{Thermoplasma acidophilum} SCOP: d.104.1.3 PDB: 2art_A*
2aru_A* 2c7i_A 2ars_A* 3r07_A
Length = 262
Score = 80.9 bits (200), Expect = 7e-19
Identities = 28/171 (16%), Positives = 64/171 (37%), Gaps = 10/171 (5%)
Query: 16 RDQVPVMKRFTGGGTVVVDKGTVFVTLICNKDDVPGVQPFPRS----IMSWSGLLYNQVF 71
++ + + +R+TGGG V D G + +++ + DD+ F + S L +
Sbjct: 64 KNGIMLARRYTGGGAVYHDLGDLNFSVVRSSDDMDITSMFRTMNEAVVNSLRILGLDARP 123
Query: 72 KGIADFQLRE---NDYVFGNRKFGGNAQSITKNRWIHHTSFLWDYAEGNMA-FLKQPARA 127
+ D + D + G +K G A ++ K + H + L ++ LK P
Sbjct: 124 GELNDVSIPVNKKTDIMAGEKKIMGAAGAMRKGAKLWHAAMLVHTDLDMLSAVLKVPDEK 183
Query: 128 PEYRMERGHTEFICRMNEYLPRT--DFIEKTTEAVETYFSVKNVNLEATEE 176
++ + E + + +++ + + + TE+
Sbjct: 184 FRDKIAKSTRERVANVTDFVDVSIDEVRNALIRGFSETLHIDFREDTITEK 234
>2p5i_A BH3822 protein; PFAM03099, structural genomics, PSI-2, protein
structure initiative, NEW YORK structural genomix
research consortium; 2.21A {Bacillus halodurans c-125}
SCOP: d.104.1.3
Length = 288
Score = 61.5 bits (149), Expect = 1e-11
Identities = 22/170 (12%), Positives = 49/170 (28%), Gaps = 13/170 (7%)
Query: 16 RDQVPVMKRFTGGGTVVVDKGTVFVTLICNKDDVPGVQPFPRSIMSW-----SGLLYNQV 70
Q V+ R +GG VV+D G + ++L+ ++ + +
Sbjct: 82 GFQHDVIVRNSGGLAVVLDSGILNLSLVLKEEKGFSIDDGYELMYELICSMFQDHREQIE 141
Query: 71 FKGIAD-FQLRENDYVFGNRKFGGNAQSITKNRWIHHTSFLWDYAEGNMAFLKQPARAP- 128
+ I + D +KF G +Q + + A + +
Sbjct: 142 AREIVGSYCPGSYDLSIDGKKFAGISQRRIRGGVAVQIYLCVSGSGAERAKMIRTFYDKA 201
Query: 129 ------EYRMERGHTEFICRMNEYLPRTDFIEKTTEAVETYFSVKNVNLE 172
++ R E + ++E L + + +L
Sbjct: 202 VAGQPTKFVYPRIKPETMASLSELLGQPHNVSDVLLKALMTLQQHGASLL 251
>2p0l_A Lipoate-protein ligase A; PFAM, lopoate-protein ligase A, 10425H,
structural genomics, structure initiative, PSI-2; 2.04A
{Streptococcus agalactiae} SCOP: d.104.1.3
Length = 288
Score = 59.6 bits (144), Expect = 5e-11
Identities = 26/180 (14%), Positives = 50/180 (27%), Gaps = 25/180 (13%)
Query: 16 RDQVPVMKRFTGGGTVVVDKGTVFVTLICNKDDVPGVQPFPRSIMSWSGLLYNQVFKGIA 75
+ R GG VV D+G + +L+ +P V SI ++ + + +
Sbjct: 79 SRGYEPVVRNFGGLAVVADEGILNFSLV-----IPDVFERKLSISDGYLIMVDFIRSIFS 133
Query: 76 DFQLR-------------ENDYVFGNRKFGGNAQSITKNRWIHHTSFLWDYAEGNMAF-L 121
DF + D +KF G AQ KN + + +
Sbjct: 134 DFYQPIEHFEVETSYCPGKFDLSINGKKFAGLAQRRIKNGIAVSIYLSVCGDQKGRSQMI 193
Query: 122 KQPARA------PEYRMERGHTEFICRMNEYLPRTDFIEKTTEAVETYFSVKNVNLEATE 175
+ E + +++ L +E + + N
Sbjct: 194 SDFYKIGLGDTGSPIAYPNVDPEIMANLSDLLDCPMTVEDVIDRMLISLKQVGFNDRLLM 253
>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 = 35.4 bits (81), Expect = 0.011
Identities = 26/146 (17%), Positives = 43/146 (29%), Gaps = 32/146 (21%)
Query: 46 KDDVPGVQPFPRSIMSWSGLLYNQVFKGIADF--QLRENDYVF-----GNRKF--GGNAQ 96
+D + + P ++S S L QV + L V G + G Q
Sbjct: 325 EDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQ 384
Query: 97 SITK-NRWIHHTSFLWDYAEGNMAFLKQPARAP-EYRMERGHTEFICRMNEYLPRT---- 150
S+ N + A L Q +R P R + F LP
Sbjct: 385 SLYGLNLTLRKAK-----APSG---LDQ-SRIPFSERKLKFSNRF-------LPVASPFH 428
Query: 151 -DFIEKTTEAVETYFSVKNVNLEATE 175
+ ++ + NV+ A +
Sbjct: 429 SHLLVPASDLINKDLVKNNVSFNAKD 454
Score = 32.3 bits (73), Expect = 0.11
Identities = 27/167 (16%), Positives = 41/167 (24%), Gaps = 75/167 (44%)
Query: 60 MSWSGL-LYNQ--VFKGI---ADFQLREN------DYVFGNRK-----FGG-NAQSITKN 101
M G+ LY + + AD ++ D V N FGG + I +N
Sbjct: 1631 M---GMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIREN 1687
Query: 102 RWIHHTSFLWDYAEGNMAFLKQPARAPEYRMERGHTEFICRMNEYLPRTDFIEKTTEAVE 161
Y+ M F V+
Sbjct: 1688 -----------YSA--MIF------------------------------------ETIVD 1698
Query: 162 TYFSVKNVNLEATEEPCGAEFVPSTRLLSKQELEEALGTQPEIIGVS 208
+ + E E F LLS + TQP + +
Sbjct: 1699 GKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF-----TQPALTLME 1740
Score = 26.9 bits (59), Expect = 5.4
Identities = 32/234 (13%), Positives = 67/234 (28%), Gaps = 103/234 (44%)
Query: 53 QPFPRSIMSWSGLLYNQVFKGIADFQLRENDYVFGNRKFGGNAQSITKNRW-----IHHT 107
+PF + S L+ V +G A FGG Q T + + ++ T
Sbjct: 135 RPFDKKSNS---ALFRAVGEGNAQL------VAI----FGG--QGNTDDYFEELRDLYQT 179
Query: 108 --SFLWD----------------------YAEGN--MAFLKQPARAP--EY--------- 130
+ D + +G + +L+ P+ P +Y
Sbjct: 180 YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCP 239
Query: 131 ---RMERGHTEFICRMNEYLPRT----------------------------DFIEKTTEA 159
++ H ++ + P F +A
Sbjct: 240 LIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKA 299
Query: 160 VETYFSV--------KNVNLEAT---EEPCGAEFVPSTRL----LSKQELEEAL 198
+ F + N +L + + E VPS L L+++++++ +
Sbjct: 300 ITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYV 353
>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 = 30.2 bits (67), Expect = 0.61
Identities = 26/142 (18%), Positives = 45/142 (31%), Gaps = 31/142 (21%)
Query: 46 KD-DVPGVQPFPRSIMSWSGLLYNQVFKGIADFQLREN--DYVFGNRKFGGNAQSITKNR 102
+ D VQ P+SI+S + I + + +F + + +
Sbjct: 31 DNFDCKDVQDMPKSILS------KEEIDHIIMSKDAVSGTLRLFW--TLLSKQEEMVQ-- 80
Query: 103 WIHHTSFLWDYAEGNMAFLKQPARAPEYRMERGHTE-FI-CRMNEY----------LPRT 150
F+ + N FL P + E R T +I R Y + R
Sbjct: 81 -----KFVEEVLRINYKFLMSPIKT-EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRL 134
Query: 151 DFIEKTTEAVETYFSVKNVNLE 172
K +A+ KNV ++
Sbjct: 135 QPYLKLRQALLELRPAKNVLID 156
>2wm9_A Dedicator of cytokinesis protein 9; polymorphism, cell membrane,
phosphoprotein, nucleotide-binding, alternative
splicing; 2.20A {Homo sapiens} PDB: 2wmn_A* 2wmo_A*
Length = 428
Score = 27.0 bits (59), Expect = 5.0
Identities = 6/49 (12%), Positives = 18/49 (36%)
Query: 133 ERGHTEFICRMNEYLPRTDFIEKTTEAVETYFSVKNVNLEATEEPCGAE 181
+ E+I + + P ++ ++ + F +NV + +
Sbjct: 168 DEDGKEYIYKEPKLTPLSEISQRLLKLYSDKFGSENVKMIQDSGKVNPK 216
>1g8k_A Arsenite oxidase; molybdopterin, [3Fe-4S] cluster, [2Fe-2S] rieske,
oxidoreductase; HET: MGD; 1.64A {Alcaligenes faecalis}
SCOP: b.52.2.2 c.81.1.1 PDB: 1g8j_A*
Length = 825
Score = 27.0 bits (60), Expect = 5.6
Identities = 8/47 (17%), Positives = 15/47 (31%), Gaps = 9/47 (19%)
Query: 151 DFIEKTTEAVETYFSVKNVNLEATEEPCGAEFVPSTRLLSKQELEEA 197
FIE T+ + ++L+ G + L+ A
Sbjct: 326 PFIEAHTKGFDDAVKTNRLSLDECSNITG---------VPVDMLKRA 363
>3vhl_A Dedicator of cytokinesis protein 8; signal transduction, guanine
nucleotide exchang factor, GTPA signaling protein; 2.08A
{Mus musculus}
Length = 288
Score = 26.5 bits (58), Expect = 6.8
Identities = 5/49 (10%), Positives = 12/49 (24%)
Query: 138 EFICRMNEYLPRTDFIEKTTEAVETYFSVKNVNLEATEEPCGAEFVPST 186
EF+ + + + F + V + P +
Sbjct: 33 EFVYKEPAITKLPEISHRLEGFYGQCFGAEFVEVIKDSTPVDKTKLDPN 81
>1pxz_A Major pollen allergen JUN A 1; parallel beta-helix, cedar pollen;
1.70A {Juniperus ashei} SCOP: b.80.1.1
Length = 346
Score = 26.2 bits (57), Expect = 9.2
Identities = 10/41 (24%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 73 GIADFQLRENDYVFGNRKFGGNAQSI--TKNRWIHHTSFLW 111
+ D + E+ V G+A ++ N WI H S
Sbjct: 130 VLGDVLVSESIGVEPVHAQDGDAITMRNVTNAWIDHNSLSD 170
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
0.320 0.137 0.413
Gapped
Lambda K H
0.267 0.0554 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,306,263
Number of extensions: 188863
Number of successful extensions: 412
Number of sequences better than 10.0: 1
Number of HSP's gapped: 406
Number of HSP's successfully gapped: 18
Length of query: 209
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 120
Effective length of database: 4,216,824
Effective search space: 506018880
Effective search space used: 506018880
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 (21.8 bits)
S2: 55 (25.4 bits)