RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2580
(65 letters)
>3drx_A BTB/POZ domain-containing protein KCTD5; golgi, grAsp55,
potassium channel domain T1, pentameric assembly,
HOST-virus interaction, nucleus; 3.11A {Homo sapiens}
PDB: 3dry_A
Length = 202
Score = 38.4 bits (89), Expect = 3e-05
Identities = 7/31 (22%), Positives = 15/31 (48%)
Query: 25 PCVAAASRYTAPVHIDVGGTIYTSSLETLTK 55
+ V ++VGGT + ++ +TL +
Sbjct: 2 ALAQRPGSVSKWVRLNVGGTYFLTTRQTLCR 32
>3drz_A BTB/POZ domain-containing protein KCTD5; potassium channel domain
T1, pentamer, unkno function; 1.90A {Homo sapiens}
Length = 107
Score = 36.5 bits (85), Expect = 6e-05
Identities = 7/19 (36%), Positives = 14/19 (73%)
Query: 37 VHIDVGGTIYTSSLETLTK 55
V ++VGGT + ++ +TL +
Sbjct: 8 VRLNVGGTYFLTTRQTLCR 26
>2nz0_B Potassium voltage-gated channel subfamily D membe; KV4.3, kchip1,
membrane protein; 3.20A {Homo sapiens} PDB: 2i2r_A
Length = 140
Score = 36.0 bits (83), Expect = 2e-04
Identities = 10/55 (18%), Positives = 18/55 (32%), Gaps = 14/55 (25%)
Query: 1 MSNSSSPTPTPPAPLAFNHKITGIPCVAAASRYTAPVHIDVGGTIYTSSLETLTK 55
M ++ P P PA R + ++V G + + TL +
Sbjct: 15 MPVANCPMPLAPAD--------------KNKRQDELIVLNVSGRRFQTWRTTLER 55
>1nn7_A Potassium channel KV4.2; teteramerization domain, voltage gated
potassium channel SHAL, membrane protein; 2.10A {Rattus
norvegicus} SCOP: d.42.1.2
Length = 105
Score = 32.7 bits (75), Expect = 0.002
Identities = 5/19 (26%), Positives = 12/19 (63%)
Query: 37 VHIDVGGTIYTSSLETLTK 55
+ ++V GT + + +TL +
Sbjct: 2 IVLNVSGTRFQTWQDTLER 20
>3kvt_A Potassium channel protein SHAW; tetramerization domain, molecular
recogni zinc-binding; 2.00A {Aplysia californica} SCOP:
d.42.1.2
Length = 115
Score = 33.2 bits (76), Expect = 0.002
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 37 VHIDVGGTIYTSSLETLTK 55
V I+VGG + + TL K
Sbjct: 7 VIINVGGIRHETYKATLKK 25
>3ovg_A Amidohydrolase; structural genomics, PSI-2, protein structure
initiative, NE SGX research center for structural
genomics, NYSGXRC, HAD, PSI; HET: KCX; 2.06A {Mycoplasma
synoviae} PDB: 3msr_A*
Length = 363
Score = 33.6 bits (76), Expect = 0.002
Identities = 9/51 (17%), Positives = 18/51 (35%)
Query: 15 LAFNHKITGIPCVAAASRYTAPVHIDVGGTIYTSSLETLTKLYLLEICYDM 65
+A K G + + + A + + E + K+ + EI M
Sbjct: 84 IANAVKNLGGNVIMSTGFHKAKFYDKYSSWLAVVPTEEIVKMCVAEIEEGM 134
>1s1g_A Potassium voltage-gated channel subfamily D membe; K+ channels,
tetramerization domain, T1 domain, transport PR; 2.60A
{Homo sapiens} SCOP: d.42.1.2
Length = 124
Score = 32.4 bits (74), Expect = 0.003
Identities = 5/25 (20%), Positives = 11/25 (44%)
Query: 31 SRYTAPVHIDVGGTIYTSSLETLTK 55
R + ++V G + + TL +
Sbjct: 9 KRQDELIVLNVSGRRFQTWRTTLER 33
>1t1d_A Protein (potassium channel KV1.1); potassium channels,
tetramerization domain, aplysia KV1.1, proton
transport, membrane protein; 1.51A {Aplysia
californica} SCOP: d.42.1.2 PDB: 1eod_A 1eof_A 1eoe_A
1a68_A 1qdv_A 1exb_E* 1qdw_A 1dsx_A
Length = 100
Score = 31.7 bits (72), Expect = 0.004
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 37 VHIDVGGTIYTSSLETLTK 55
V I+V G + + L+TL +
Sbjct: 3 VVINVSGLRFETQLKTLNQ 21
>3cse_A Dihydrofolate reductase; protein-ligand complex, oxidoreductase;
HET: NAP N22; 1.60A {Candida glabrata} PDB: 3eej_A*
3eek_A* 3eel_A* 3eem_A* 3qlx_A* 3qly_A* 3qlz_A*
Length = 227
Score = 25.1 bits (55), Expect = 1.6
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 42 GGTIYTSSLETLTKLYLLEI 61
GG IY S++ + +I
Sbjct: 123 GGEIYRQSMDLADHWLITKI 142
>3s9u_A Dihydrofolate reductase; oxidoreductase; HET: NAP 5DR; 1.90A
{Bacillus anthracis} PDB: 3sa1_A* 3sa2_A* 3sai_A*
3e0b_A* 3jvx_A* 3jwm_A* 3jwk_A* 3jw5_A* 3jwf_A* 3jwc_A*
3jw3_A* 3dat_A* 2qk8_A* 3fl8_A* 3fl9_A* 2kgk_A*
Length = 165
Score = 24.8 bits (55), Expect = 1.7
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 42 GGTIYTSSLETLTKLYLLEI 61
G IY L + KLY+ +I
Sbjct: 101 GAQIYDLFLPYVDKLYITKI 120
>1df7_A DHFR, dihydrofolate reductase; structure-based inhibitor design,
folateanalogs, rossmann fold; HET: NDP MTX; 1.70A
{Mycobacterium tuberculosis} SCOP: c.71.1.1 PDB: 1dg5_A*
1dg7_A* 1dg8_A* 2cig_A*
Length = 159
Score = 24.8 bits (55), Expect = 2.1
Identities = 6/20 (30%), Positives = 11/20 (55%)
Query: 42 GGTIYTSSLETLTKLYLLEI 61
GG +Y +L T+ + E+
Sbjct: 96 GGQVYALALPYATRCEVTEV 115
>2w9h_A DHFR, dihydrofolate reductase; oxidoreductase, one-carbon
metabolism; HET: TOP; 1.48A {Staphylococcus aureus} PDB:
2w9g_A* 3sqy_X* 3srq_X* 3srr_X* 3srs_X* 3sru_X* 3srw_X*
3frd_X* 3fre_X* 3frf_X* 3fyv_X* 3fyw_X* 3sr5_X* 3frb_X*
3fra_X* 3fy8_X* 3fy9_X* 3fq0_A* 3f0b_X* 3f0s_X* ...
Length = 159
Score = 24.8 bits (55), Expect = 2.2
Identities = 4/20 (20%), Positives = 11/20 (55%)
Query: 42 GGTIYTSSLETLTKLYLLEI 61
G T++ ++ + +Y+ I
Sbjct: 95 GQTLFEEMIDKVDDMYITVI 114
>1vdr_A DHFR, dihydrofolate reductase; oxidoreductase, halophilic enzyme;
2.55A {Haloferax volcanii} SCOP: c.71.1.1 PDB: 2ith_A
2jyb_A
Length = 162
Score = 24.4 bits (54), Expect = 2.2
Identities = 5/20 (25%), Positives = 8/20 (40%)
Query: 42 GGTIYTSSLETLTKLYLLEI 61
G IY L ++ L +
Sbjct: 102 GAAIYALFQPHLDRMVLSRV 121
>3ia4_A Dihydrofolate reductase; NADPH, methotrexate, oxidoreductase; HET:
NDP MTX; 1.70A {Moritella profunda} PDB: 3ia5_A 2zza_A*
Length = 162
Score = 24.4 bits (54), Expect = 2.4
Identities = 9/20 (45%), Positives = 10/20 (50%)
Query: 42 GGTIYTSSLETLTKLYLLEI 61
G TIY L +LYL I
Sbjct: 98 GATIYNQCLAAADRLYLTHI 117
>3ix9_A Dihydrofolate reductase; central beta sheet surrounded by 4 alpha
helices, oxidoreductase; HET: NDP MTX; 1.95A
{Streptococcus pneumoniae}
Length = 190
Score = 24.5 bits (54), Expect = 2.4
Identities = 4/20 (20%), Positives = 9/20 (45%)
Query: 42 GGTIYTSSLETLTKLYLLEI 61
G I+ + L ++ + I
Sbjct: 122 GKQIFQAFEPYLDEVIVTHI 141
>2w3w_A Dihydrofolate reductase; nonclassical antifolates, one-carbon
metabolism, lipophilic antifolates, NADP,
oxidoreductase; HET: VG9 NDP; 1.60A {Mycobacterium
avium} PDB: 2w3v_A*
Length = 167
Score = 24.4 bits (54), Expect = 2.4
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 42 GGTIYTSSLETLTKLYLLEI 61
G IY +L T+ + EI
Sbjct: 104 GAQIYLLALPHATRCEVTEI 123
>3tq8_A Dihydrofolate reductase; oxidoreductase-oxidoreductase inhib
complex; HET: NDP TOP; 1.90A {Coxiella burnetii} PDB:
3tq9_A* 3tqa_A* 3tqb_A*
Length = 178
Score = 24.5 bits (54), Expect = 2.5
Identities = 6/20 (30%), Positives = 9/20 (45%)
Query: 42 GGTIYTSSLETLTKLYLLEI 61
G I+ +L K+ L I
Sbjct: 98 GARIFKEALPKADKMILTII 117
>3dau_A Dihydrofolate reductase; oxidoreductase, pseudo-rossmann fold,
adenine nucleotide BIN domain, antibiotic resistance,
methotrexate resistance; HET: MTX NAP; 1.50A
{Escherichia coli} PDB: 1ddr_A* 1dds_A* 3k74_A 1ra9_A*
1dre_A* 1drh_A* 1dyi_A* 1dyh_A* 1jol_A* 1jom_A* 1ra1_A*
1dyj_A* 1ra3_A* 1ra8_A* 1ra2_A* 1rb2_A* 1rb3_A* 1rc4_A*
1rd7_A* 1re7_A* ...
Length = 159
Score = 24.4 bits (54), Expect = 2.5
Identities = 9/20 (45%), Positives = 10/20 (50%)
Query: 42 GGTIYTSSLETLTKLYLLEI 61
GG +Y L KLYL I
Sbjct: 96 GGRVYEQFLPKAQKLYLTHI 115
>1zdr_A Dihydrofolate reductase; DHFR, NADP, oxidoreductase; 2.00A
{Geobacillus stearothermophilus}
Length = 164
Score = 24.4 bits (54), Expect = 2.6
Identities = 4/20 (20%), Positives = 13/20 (65%)
Query: 42 GGTIYTSSLETLTKLYLLEI 61
G ++ +++ + +LY+ +I
Sbjct: 98 GAELFRATMPIVDRLYVTKI 117
>3ttg_A Putative aminomethyltransferase; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG; 2.00A
{Leptospirillum rubarum}
Length = 355
Score = 24.5 bits (54), Expect = 2.6
Identities = 2/42 (4%), Positives = 12/42 (28%)
Query: 8 TPTPPAPLAFNHKITGIPCVAAASRYTAPVHIDVGGTIYTSS 49
+ +F G + + + + + + ++
Sbjct: 153 FDNNFSGSSFRMLKNGGYVLIHPTSFQHNLDVGLQADLFIPI 194
>3dfr_A Dihydrofolate reductase; oxido-reductase; HET: NDP MTX; 1.70A
{Lactobacillus casei} SCOP: c.71.1.1 PDB: 1ao8_A*
1bzf_A* 1dis_A* 1diu_A* 1lud_A* 2hm9_A* 2hqp_A* 2l28_A
2lf1_A*
Length = 162
Score = 24.0 bits (53), Expect = 3.8
Identities = 4/20 (20%), Positives = 10/20 (50%)
Query: 42 GGTIYTSSLETLTKLYLLEI 61
G I+T+ + + L + +
Sbjct: 99 GAQIFTAFKDDVDTLLVTRL 118
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
0.317 0.131 0.397
Gapped
Lambda K H
0.267 0.0785 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 964,462
Number of extensions: 41549
Number of successful extensions: 125
Number of sequences better than 10.0: 1
Number of HSP's gapped: 125
Number of HSP's successfully gapped: 21
Length of query: 65
Length of database: 6,701,793
Length adjustment: 36
Effective length of query: 29
Effective length of database: 5,696,637
Effective search space: 165202473
Effective search space used: 165202473
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.3 bits)