RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5069
(113 letters)
>3l1l_A Arginine/agmatine antiporter; TCDB 2.A.3.2.5, ADIC, Arg-bound,
amino-acid transport, cell inner membrane, cell
membrane, membrane; HET: ARG BNG; 3.00A {Escherichia
coli} PDB: 3h5m_A* 3h6b_A 3lrb_A 3lrc_A 3ob6_A* 3hqk_A
3ncy_A
Length = 445
Score = 54.7 bits (132), Expect = 3e-10
Identities = 13/61 (21%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 50 LKPKMTLLNGITVIVGSIIGSGIFVSPTGVLKETGSVNLALVVWTISGVFSMVGAYCYSE 109
K+ L+ ++ G+I+GSG+F+ P + G A+ W ++ + ++ + Y++
Sbjct: 6 DAHKVGLIPVTLMVSGAIMGSGVFLLPANLASTGGI---AIYGWLVTIIGALGLSMVYAK 62
Query: 110 L 110
+
Sbjct: 63 M 63
>3gia_A Uncharacterized protein MJ0609; membrane protein, transporter, cell
membrane, membrane, transmembrane, transport protein;
HET: D10 BCN; 2.32A {Methanocaldococcus jannaschii} PDB:
3gi9_C* 3gi8_C
Length = 444
Score = 41.5 bits (98), Expect = 1e-05
Identities = 16/62 (25%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 50 LKPKMTLLNGITVIVGSIIGSGIFVSPTGVLKETG-SVNLALVVWTISGVFSMVGAYCYS 108
K++L +++ VG +IG+ IF K G ++ + +SG+++++ AY Y+
Sbjct: 4 KNKKLSLWEAVSMAVGVMIGASIFSIFGVGAKIAGRNLPETFI---LSGIYALLVAYSYT 60
Query: 109 EL 110
+L
Sbjct: 61 KL 62
>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 = 32.7 bits (74), Expect = 0.018
Identities = 23/129 (17%), Positives = 38/129 (29%), Gaps = 41/129 (31%)
Query: 3 VSRKNSKESSA--GGKRESDIPLEEATEH--SPIFETAEPGGQTRAEDTVCLKPKMTLLN 58
+ N + GG++ I E+ + IFET G+ + E +
Sbjct: 1664 IVINNPVNLTIHFGGEKGKRI-----RENYSAMIFETI-VDGKLKTEK---------IFK 1708
Query: 59 GITVIVGSIIGSGIFVSPTGVLKETGSVNL--ALVVWTIS--------GVFSMVGAYC-- 106
I S F S G+L T AL + + G+ +
Sbjct: 1709 EINEHSTSYT----FRSEKGLLSAT--QFTQPALTLMEKAAFEDLKSKGLIPADATFAGH 1762
Query: 107 ----YSELV 111
Y+ L
Sbjct: 1763 SLGEYAALA 1771
>3etc_A AMP-binding protein; adenylate-forming acyl-COA synthetase ligase,
ligase; HET: PGE 1PE EPE; 2.10A {Methanosarcina
acetivorans}
Length = 580
Score = 28.3 bits (64), Expect = 0.48
Identities = 15/52 (28%), Positives = 18/52 (34%), Gaps = 9/52 (17%)
Query: 14 GGKRESDIPLEEA-TEHSPIFETAEPGGQTRAEDTVCL--------KPKMTL 56
G E I + E SPIFE T+ ED + PKM
Sbjct: 193 GDVLEGWIDFRKELEESSPIFERPTGEVSTKNEDICLVYFSSGTAGFPKMVE 244
>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 = 28.3 bits (62), Expect = 0.52
Identities = 13/75 (17%), Positives = 22/75 (29%), Gaps = 15/75 (20%)
Query: 1 MVVSRKNSKESSAGGKRESDIPLEEATEHSPIFETAEPGG------QTRAEDTVCLKPKM 54
++ +R + I L+ HS E R +D L ++
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLD---HHSMTLTPDEVKSLLLKYLDCRPQD---LPREV 322
Query: 55 TLLNGITVIVGSIIG 69
N + SII
Sbjct: 323 LTTNPRRL---SIIA 334
>1mr7_A Streptogramin A acetyltransferase; LEFT-handed parallel beta-helix
domain; 1.80A {Enterococcus faecium} SCOP: b.81.1.3 PDB:
1khr_A* 1kk5_A 1kk4_A 1kk6_A 1mr9_A* 1mrl_A* 3dho_A*
Length = 209
Score = 27.1 bits (60), Expect = 1.1
Identities = 9/52 (17%), Positives = 21/52 (40%)
Query: 24 EEATEHSPIFETAEPGGQTRAEDTVCLKPKMTLLNGITVIVGSIIGSGIFVS 75
+H P + G T + V + + ++ G+ + G+I+ + V
Sbjct: 96 NGWEKHMPKLDQLPIKGDTIIGNDVWIGKDVVIMPGVKIGDGAIVAANSVVV 147
>4djk_A Probable glutamate/gamma-aminobutyrate antiporter; LEUT,
glutamate-GABA antiporter, transport protein; 3.10A
{Escherichia coli} PDB: 4dji_A
Length = 511
Score = 27.1 bits (60), Expect = 1.2
Identities = 7/52 (13%), Positives = 19/52 (36%), Gaps = 1/52 (1%)
Query: 60 ITVI-VGSIIGSGIFVSPTGVLKETGSVNLALVVWTISGVFSMVGAYCYSEL 110
+T++ +I S + T +L + ++ + C +E+
Sbjct: 13 LTLLGFFAITASMVMAVYEYPTFATSGFSLVFFLLLGGILWFIPVGLCAAEM 64
>4e8l_A Virginiamycin A acetyltransferase; structural genomics, antibiotic
resistance, center for struc genomics of infectious
diseases (csgid); 2.70A {Staphylococcus aureus}
Length = 219
Score = 26.8 bits (59), Expect = 1.6
Identities = 9/48 (18%), Positives = 22/48 (45%)
Query: 28 EHSPIFETAEPGGQTRAEDTVCLKPKMTLLNGITVIVGSIIGSGIFVS 75
++ P + G + V + +T++ G+ + G+II + V+
Sbjct: 105 KYMPSLKDLPLKGDIEIGNDVWIGRDVTIMPGVKIGDGAIIAAEAVVT 152
>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 = 26.8 bits (59), Expect = 1.8
Identities = 6/24 (25%), Positives = 11/24 (45%), Gaps = 1/24 (4%)
Query: 50 LKPKMTLLNGITV-IVGSIIGSGI 72
+ + + V VG+ GSG+
Sbjct: 1029 ITDPYEMYKYVHVSEVGNCSGSGM 1052
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding
mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli}
SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*
Length = 758
Score = 25.7 bits (57), Expect = 4.8
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 68 IGSGIFVSPTGVLK 81
+GS +F PTGV K
Sbjct: 488 VGSFLFAGPTGVGK 501
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 25.6 bits (57), Expect = 4.9
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 68 IGSGIFVSPTGVLK 81
IGS IF+ PTGV K
Sbjct: 521 IGSFIFLGPTGVGK 534
>2afr_A Cobalamin biosynthesis precorrin isomerase; 2.30A {Leptospira
interrogans} PDB: 2afv_A*
Length = 231
Score = 25.4 bits (55), Expect = 5.5
Identities = 15/70 (21%), Positives = 29/70 (41%), Gaps = 13/70 (18%)
Query: 28 EHSPIFETAEPGGQTRAEDTVCLKPKMTLLNGITVIVGSIIGSGIFVSPTGVLK-----E 82
+ E A+ TRA +++ LLN +++G+ +PT +L+
Sbjct: 103 SDEDVIENAKRKNSTRAIESIQKANSFNLLNESIIVIGN--------APTALLEIEKLIR 154
Query: 83 TGSVNLALVV 92
+ AL+V
Sbjct: 155 QEGIKPALIV 164
>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus
thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*
Length = 311
Score = 25.2 bits (56), Expect = 5.5
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 68 IGSGIFVSPTGVLK 81
IGS +F+ PTGV K
Sbjct: 47 IGSFLFLGPTGVGK 60
>3eev_A Chloramphenicol acetyltransferase; beta-helix, structural genomics,
center for STR genomics of infectious diseases, csgid;
2.61A {Vibrio cholerae o1 biovar el tor}
Length = 212
Score = 24.9 bits (54), Expect = 6.6
Identities = 9/48 (18%), Positives = 19/48 (39%)
Query: 28 EHSPIFETAEPGGQTRAEDTVCLKPKMTLLNGITVIVGSIIGSGIFVS 75
+ + G T V + + ++ G+ + G+II S V+
Sbjct: 98 NFADARDGFTRSGDTIIGHDVWIGTEAMIMPGVKIGHGAIIASRSVVT 145
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A
{Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20
c.37.1.20
Length = 854
Score = 25.2 bits (56), Expect = 7.0
Identities = 9/14 (64%), Positives = 11/14 (78%)
Query: 68 IGSGIFVSPTGVLK 81
IGS +F+ PTGV K
Sbjct: 588 IGSFLFLGPTGVGK 601
>2aeu_A Hypothetical protein MJ0158; selenocysteine synthase, PLP,
pyridoxal phosphate, HOMO- oligomerization, unknown
function; 1.70A {Methanocaldococcus jannaschii} SCOP:
c.67.1.8 PDB: 2aev_A*
Length = 374
Score = 24.8 bits (54), Expect = 8.0
Identities = 1/34 (2%), Positives = 7/34 (20%)
Query: 54 MTLLNGITVIVGSIIGSGIFVSPTGVLKETGSVN 87
+ L + + + + +
Sbjct: 94 LALKPKKVIHYLPELPGHPSIERSCKIVNAKYFE 127
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
0.314 0.132 0.371
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,616,171
Number of extensions: 89126
Number of successful extensions: 160
Number of sequences better than 10.0: 1
Number of HSP's gapped: 158
Number of HSP's successfully gapped: 20
Length of query: 113
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 36
Effective length of database: 4,551,876
Effective search space: 163867536
Effective search space used: 163867536
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (23.3 bits)