RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2548
(207 letters)
>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 = 46.0 bits (108), Expect = 3e-06
Identities = 38/233 (16%), Positives = 67/233 (28%), Gaps = 64/233 (27%)
Query: 1 MGNCNAPKSITKSAVMYCLRCMVGYDIPLNQGCLTPIQIKLTPGSI---------LNPND 51
+ NCN+P+++ + + D IKL SI P +
Sbjct: 189 LKNCNSPETVLEMLQKLLYQ----IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE 244
Query: 52 NVAVVGGNVQTSQRVVDVILKAFGVAASSQGCMNNITFGDQTWGYYETVGGGAGASRIQD 111
N +V NVQ ++ AF + C +T + + + D
Sbjct: 245 NCLLVLLNVQNAK-----AWNAFNL-----SCKILLTTRFK--QVTDFLSAATTTHISLD 292
Query: 112 FAEGG-GPNINSGVHSHMTNTRITD--AEILETRYPIMLARFG--LREGSAGLG--KYSG 164
P+ + + R D E+L T P L+ +R+G A K+
Sbjct: 293 HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT-NPRRLSIIAESIRDGLATWDNWKHVN 351
Query: 165 GSGM---------------IREY-----VFRK-----PMTLCMLTERRVFWPQ 192
+ R+ VF + L ++ W
Sbjct: 352 CDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI------WFD 398
Score = 34.8 bits (79), Expect = 0.019
Identities = 29/165 (17%), Positives = 47/165 (28%), Gaps = 40/165 (24%)
Query: 4 CNAPKSITKSAVMYCLRC------MVGYDIPLNQGCLTPIQIKLTPGSILNPNDNVAVVG 57
P +T+ + R Y++ Q ++ L L P NV + G
Sbjct: 102 QRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ-PYLKLRQAL---LELRPAKNVLIDG 157
Query: 58 ----GNVQTSQRVVDVILKAFGVAASSQGCMNNITFGDQTW---GYYETVGGGAGASRIQ 110
G + +DV ++ V Q M+ F W + +Q
Sbjct: 158 VLGSGK---TWVALDV-CLSYKV----QCKMDFKIF----WLNLKNCNSP--ETVLEMLQ 203
Query: 111 DFAEGGGPNINSGVHSHMTNT--RITDAE------ILETRYPIML 147
PN S H +N RI + + Y L
Sbjct: 204 KLLYQIDPNWTSRS-DHSSNIKLRIHSIQAELRRLLKSKPYENCL 247
>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 = 26/161 (16%), Positives = 51/161 (31%), Gaps = 39/161 (24%)
Query: 37 IQIKLTPGSILNPNDNVAVVGGNVQTSQRVVDVILKAFGVAASSQGCMNNITFGDQTWGY 96
++I S++N N+ VV G Q+ + + KA + Q + I F
Sbjct: 366 VEI-----SLVNGAKNL-VVSGPPQSLYGLNLTLRKAKAPSGLDQ---SRIPF------- 409
Query: 97 YETVGGGAGASRIQDFAEGGGPNINSGVHSH-MTNTRITDAEILETRYPIMLARFGLREG 155
+ R F+ P + S HSH + ++++ L + +
Sbjct: 410 ---------SERKLKFSNRFLP-VASPFHSHLLVPA----SDLINKD----LVKNNVSFN 451
Query: 156 SAGLGK--YSGGSGM-IREYVFRKPMTLC-MLTERRVFWPQ 192
+ + Y G +R + + V W
Sbjct: 452 AKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWET 492
Score = 30.4 bits (68), Expect = 0.53
Identities = 24/133 (18%), Positives = 41/133 (30%), Gaps = 48/133 (36%)
Query: 109 IQDFAEG--GGPNINSGVHS---HMTNTRITDAEILETRY--------PIM------LAR 149
+ +F G +I++ T + E+++ P L R
Sbjct: 88 LTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFR 147
Query: 150 FGLREGSAGLGKYS--GGSGMIREYVFR---------KPM----------TLCMLTERRV 188
+ EG+A L + GG G +Y F + TL L +
Sbjct: 148 -AVGEGNAQL--VAIFGGQGNTDDY-FEELRDLYQTYHVLVGDLIKFSAETLSELIRTTL 203
Query: 189 ----FWPQGLQVL 197
+ QGL +L
Sbjct: 204 DAEKVFTQGLNIL 216
Score = 30.0 bits (67), Expect = 0.68
Identities = 32/160 (20%), Positives = 52/160 (32%), Gaps = 55/160 (34%)
Query: 28 PLNQGCLTPIQIKLTPGSI-LNPND-NVAVV----GGNVQT-----SQRVVDVILKAFGV 76
L I L ++ N D + V G +++ S+R+VD I++
Sbjct: 430 HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRL--- 486
Query: 77 AASSQGCMNNITFGDQTWGYYETVGGGAGASRIQDFAEGGGPNINSGVHSHMTNTRITDA 136
+ W ET A+ I DF GP SG+ +T+ R D
Sbjct: 487 ------PVK--------W---ETTTQ-FKATHILDF----GPGGASGL-GVLTH-RNKDG 522
Query: 137 EILETRYPIMLARFGLREGSAGLGKYSGGSGMIREYVFRK 176
G+R AG + +Y F++
Sbjct: 523 T-------------GVRVIVAG----TLDINPDDDYGFKQ 545
>3laz_A D-galactarate dehydratase; structural genomics, PSI-2, protein
structure initiative, midwest center for structural
genomics, MCSG; 1.92A {Escherichia coli}
Length = 99
Score = 31.7 bits (72), Expect = 0.046
Identities = 21/102 (20%), Positives = 33/102 (32%), Gaps = 33/102 (32%)
Query: 46 ILNPNDNVAVVGGNVQTSQRVVDVILKA-----FGVAASS---QG---CMNNITFGDQTW 94
++ DNVA++ V D LKA G+ QG + +I +
Sbjct: 20 KVHDTDNVAII---------VNDNGLKAGTRFPDGLELIEHIPQGHKVALLDIPANGEII 70
Query: 95 GYYETVGGGAGASRIQDFAEGGGPNINSGVHSHMTNTRITDA 136
Y E +G A R I G + + +A
Sbjct: 71 RYGEVIG---YAVR----------AIPRGSWIDESMVVLPEA 99
>3k3s_A Altronate hydrolase; structural genomics, PSI-2, protein STR
initiative, midwest center for structural genomics,
MCSG; HET: MSE; 2.15A {Shigella flexneri 2a str}
Length = 105
Score = 28.6 bits (64), Expect = 0.59
Identities = 22/91 (24%), Positives = 33/91 (36%), Gaps = 18/91 (19%)
Query: 46 ILNPNDNVAVVGGNVQTSQRVV----DVILKAFGVAASSQGCMNNITFGDQTWGYYETVG 101
++ DNVAV ++ V V L+ VA + + +I G Y +G
Sbjct: 26 KIHALDNVAVALADLAEGTEVSVDNQTVTLRQ-DVARGHKFALTDIAKGANVIKYGLPIG 84
Query: 102 GGAGASRIQDFAEGGGPNINSGVHSHMTNTR 132
A +I +G H H NTR
Sbjct: 85 ---YALA----------DIAAGEHVHAHNTR 102
>3zzh_A Acetylglutamate kinase; transferase, arginine biosynthesis; HET:
ARG NLG; 2.10A {Saccharomyces cerevisiae} PDB: 3zzg_A
3zzf_A*
Length = 307
Score = 28.3 bits (64), Expect = 1.8
Identities = 9/32 (28%), Positives = 13/32 (40%), Gaps = 6/32 (18%)
Query: 115 GGGPNINS-----GVHSHMTN-TRITDAEILE 140
G GP +N G+ + RITD +
Sbjct: 86 GTGPQVNGRLEAQGIEPDYIDGIRITDEHTMA 117
>3d2m_A Putative acetylglutamate synthase; protein-COA-Glu ternary complex,
transferase; HET: COA GLU; 2.21A {Neisseria gonorrhoeae}
PDB: 2r8v_A* 3b8g_A* 2r98_A* 3d2p_A*
Length = 456
Score = 28.3 bits (64), Expect = 2.0
Identities = 7/32 (21%), Positives = 10/32 (31%), Gaps = 6/32 (18%)
Query: 115 GGGPNINS-----GVHSHMTN-TRITDAEILE 140
G ++ G H R+TD L
Sbjct: 82 GAYHFLDRLAAAQGRTPHYCRGLRVTDETSLG 113
>3bo9_A Putative nitroalkan dioxygenase; TM0800, structural genomics center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: MSE 2PE; 2.71A {Thermotoga maritima MSB8}
Length = 326
Score = 27.6 bits (62), Expect = 2.8
Identities = 11/25 (44%), Positives = 17/25 (68%), Gaps = 3/25 (12%)
Query: 125 HSHMT-NTRITDAEILETRYPIMLA 148
H HMT TR+T ++LE +PI++
Sbjct: 10 HHHMTVRTRVT--DLLEIEHPILMG 32
>3p6l_A Sugar phosphate isomerase/epimerase; TIM barrel, structural
genomics, joint center for structural genomics, JCSG;
HET: CIT; 1.85A {Parabacteroides distasonis}
Length = 262
Score = 27.5 bits (61), Expect = 3.1
Identities = 9/81 (11%), Positives = 21/81 (25%), Gaps = 12/81 (14%)
Query: 70 ILKAFGVAASSQGCMNNITFGD--------QTWG--YYETVGGGAGASRIQDFAEGGGPN 119
+ + G+ G D + + + ++ ++
Sbjct: 71 LAASKGIKIVGTGVYVAEKSSDWEKMFKFAKAMDLEFITCEPALSDWDLVEKLSKQYN-- 128
Query: 120 INSGVHSHMTNTRITDAEILE 140
I VH+H + E L
Sbjct: 129 IKISVHNHPQPSDYWKPENLL 149
>3l86_A Acetylglutamate kinase; ARGB, amino-acid biosynthesis, arginine
biosynthesi binding, nucleotide-binding, transferase;
HET: ADP NLG; 2.06A {Streptococcus mutans}
Length = 279
Score = 27.5 bits (62), Expect = 3.3
Identities = 9/32 (28%), Positives = 12/32 (37%), Gaps = 6/32 (18%)
Query: 115 GGGPNINS-----GVHSHMTN-TRITDAEILE 140
GGG IN V N R+T + +
Sbjct: 74 GGGFAINKLMEENQVPVKKINGLRVTSKDDMV 105
>2gjl_A Hypothetical protein PA1024; 2-nitropropane dioxygenase,
2-nitropropane, FMN, oxidoreduct; HET: FMN; 2.00A
{Pseudomonas aeruginosa PAO1} PDB: 2gjn_A*
Length = 328
Score = 27.3 bits (61), Expect = 3.6
Identities = 7/21 (33%), Positives = 9/21 (42%), Gaps = 2/21 (9%)
Query: 128 MTNTRITDAEILETRYPIMLA 148
+ TR T E +PIM
Sbjct: 3 VFRTRFT--ETFGVEHPIMQG 21
>4ab7_A Protein Arg5,6, mitochondrial; transferase, arginine biosynthesis,
amino acid kinase domain GCN5-related acetyltransferase,
GNAT; HET: NLG; 3.25A {Saccharomyces cerevisiae} PDB:
3zzi_A*
Length = 464
Score = 27.3 bits (61), Expect = 4.1
Identities = 13/63 (20%), Positives = 20/63 (31%), Gaps = 22/63 (34%)
Query: 100 VGGGAGASRIQDFAE----------------GGGPNINS-----GVHSHMTN-TRITDAE 137
VGG + + + A G GP +N G+ + RITD
Sbjct: 55 VGGAIISDNLHELASCLAFLYHVGLYPIVLHGTGPQVNGRLEAQGIEPDYIDGIRITDEH 114
Query: 138 ILE 140
+
Sbjct: 115 TMA 117
>3s6k_A Acetylglutamate kinase; synthase, transferase; 2.80A {Xanthomonas
campestris PV}
Length = 467
Score = 27.3 bits (61), Expect = 4.2
Identities = 8/32 (25%), Positives = 13/32 (40%), Gaps = 6/32 (18%)
Query: 115 GGGPNINS-----GVHSHMTN-TRITDAEILE 140
G GP +++ G+ N R+T L
Sbjct: 99 GAGPQLDAELSAAGIEKQTVNGLRVTSPHALA 130
>1j8r_A PAPG adhesin, pyelonephritic adhesin; PAG adhesin, GBO4,
structural genomics, PSI, protein structure initiative;
HET: NGA GLA GAL BGC; 1.80A {Escherichia coli} SCOP:
b.2.3.3 PDB: 1j8s_A
Length = 196
Score = 26.7 bits (58), Expect = 4.3
Identities = 15/49 (30%), Positives = 20/49 (40%)
Query: 50 NDNVAVVGGNVQTSQRVVDVILKAFGVAASSQGCMNNITFGDQTWGYYE 98
D + GGNV +QR + G+A + N F D W YY
Sbjct: 10 GDVNSYQGGNVVITQRPQFITSWRPGIATVTWNQCNGPEFADGFWAYYR 58
>2o18_A Thiamine biosynthesis lipoprotein APBE; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.20A {Escherichia coli} PDB:
3pnd_A*
Length = 340
Score = 26.8 bits (60), Expect = 4.8
Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 3/46 (6%)
Query: 52 NVAVVGGNVQTSQRVVDVILKAFGVAASSQGCMNNITFG--DQTWG 95
N + S+ + D++ + + A + G M +IT G WG
Sbjct: 70 NDSQSLSPWPVSEAMADIVTTSLRIGAKTDGAM-DITVGPLVNLWG 114
>2buf_A Acetylglutamate kinase; acetyglutamate kinase, ADP, arginine
biosynthesis, FEED-BACK inhibition, hexamer,
transferase; HET: NLG ADP; 2.95A {Pseudomonas
aeruginosa} SCOP: c.73.1.2
Length = 300
Score = 26.3 bits (59), Expect = 6.8
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 6/32 (18%)
Query: 115 GGGPNINS-----GVHSHMTN-TRITDAEILE 140
GGGP I + SH + R+TDA ++
Sbjct: 66 GGGPQIGDLLKRLSIESHFIDGMRVTDAATMD 97
>2rd5_A Acetylglutamate kinase-like protein; protein-protein complex,
regulation of arginine biosynthesis nitrogen metabolism,
kinase, transferase, transcription; HET: ARG ADP NLG
ATP; 2.51A {Arabidopsis thaliana}
Length = 298
Score = 26.4 bits (59), Expect = 7.1
Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 6/32 (18%)
Query: 115 GGGPNINS-----GVHSHMTN-TRITDAEILE 140
GGGP+IN + + + R+TDA +E
Sbjct: 76 GGGPDINRYLKQLNIPAEFRDGLRVTDATTME 107
>2ap9_A NAG kinase, acetylglutamate kinase, AGK; structural genomics,
protein structure initiative, NYSGXRC, PSI; 2.80A
{Mycobacterium tuberculosis} SCOP: c.73.1.2
Length = 299
Score = 26.3 bits (59), Expect = 7.4
Identities = 10/32 (31%), Positives = 15/32 (46%), Gaps = 6/32 (18%)
Query: 115 GGGPNINS-----GVHSHMTN-TRITDAEILE 140
GGGP I + G+ R+T E+L+
Sbjct: 65 GGGPQITAMLRRLGIEGDFKGGFRVTTPEVLD 96
>2bty_A Acetylglutamate kinase; N-acetyl-L-glutamate kinase, amino acid
kinase, phosphoryl group transfer, arginine metabolism,
transferase; HET: ARG NLG; 2.75A {Thermotoga maritima}
SCOP: c.73.1.2
Length = 282
Score = 26.3 bits (59), Expect = 7.5
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 6/32 (18%)
Query: 115 GGGPNINS-----GVHSHMTN-TRITDAEILE 140
GGGP I+ G+ N R+TD + +E
Sbjct: 61 GGGPAISQMMKDLGIEPVFKNGHRVTDEKTME 92
>2v5h_A Acetylglutamate kinase; amino-acid biosynthesis, transcription
regulation, transfera cyanobacteria, transcription; HET:
NLG; 2.75A {Synechococcus elongatus} PDB: 2jj4_A*
Length = 321
Score = 26.0 bits (58), Expect = 8.2
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 6/32 (18%)
Query: 115 GGGPNINS-----GVHSHMTN-TRITDAEILE 140
GGGP IN+ G+ N R+TDA+ +E
Sbjct: 89 GGGPEINAWLGRVGIEPQFHNGLRVTDADTME 120
>1vrm_A Hypothetical protein TM1553; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI; HET: UNL; 1.58A {Thermotoga maritima} SCOP:
d.96.2.1
Length = 325
Score = 26.0 bits (58), Expect = 8.6
Identities = 9/42 (21%), Positives = 16/42 (38%), Gaps = 3/42 (7%)
Query: 57 GGNVQTSQRVVDVILKAFGVAASSQGCMNNITFG--DQTWGY 96
V+ + +I A A + G + T G + WG+
Sbjct: 76 NEWVEVDEETYSLIKAACAFAELTDGAF-DPTVGRLLELWGF 116
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
0.319 0.137 0.419
Gapped
Lambda K H
0.267 0.0700 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,162,194
Number of extensions: 190159
Number of successful extensions: 340
Number of sequences better than 10.0: 1
Number of HSP's gapped: 338
Number of HSP's successfully gapped: 31
Length of query: 207
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 118
Effective length of database: 4,216,824
Effective search space: 497585232
Effective search space used: 497585232
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 (21.7 bits)
S2: 55 (25.0 bits)