RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16208
(116 letters)
>3kg2_A Glutamate receptor 2; ION channel, membrane protein, cell membrane,
glycoprotein, transport, membrane, postsynaptic cell
membrane, editing; HET: ZK1 NAG BMA; 3.60A {Rattus
norvegicus}
Length = 823
Score = 57.1 bits (137), Expect = 6e-11
Identities = 16/53 (30%), Positives = 26/53 (49%)
Query: 9 QKDEDETDNPELGIDNVGGVFVVLIAGCGVSFLFSLLEFLWNVRKVAVEEKLS 61
+ + L + NV GVF +L+ G G++ L +L+EF + R A K
Sbjct: 767 KDSGSKEKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEAKRMKGL 819
>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 = 31.2 bits (70), Expect = 0.054
Identities = 19/115 (16%), Positives = 43/115 (37%), Gaps = 20/115 (17%)
Query: 6 DTLQKDEDETDNPELGIDNVGGVFV--VLIAGCGVSF---LFSLL-----EFLW--NVRK 53
+ D++ T EL +G +V ++ F L L +L ++
Sbjct: 46 EGFAADDEPTTPAELVGKFLG--YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHA 103
Query: 54 VAVEEKLSPYEAFMLELKFAIRCY-----GTSKPVRRKASTPSLKSNSLANLDLF 103
+A + L + +++ K I+ Y +P +K+++ ++ N L
Sbjct: 104 LAA-KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLV 157
>1x9p_A Penton protein; jellyroll domain, anti-parallel beta sheet,
insertion domain, virus like particle; HET: C15; 3.30A
{Human adenovirus 2} PDB: 1x9t_A* 2bld_A 2c9f_A 2c9g_A
2c6s_A 1vsz_N 3iyn_M 3izo_A
Length = 523
Score = 28.2 bits (62), Expect = 0.73
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 30 VVLIAGCGVSFLFSLLEFLWNVRK 53
++L+ GCGV F S L L +RK
Sbjct: 192 IILLPGCGVDFTHSRLSNLLGIRK 215
>3rko_A NADH-quinone oxidoreductase subunit A; complex I, proton pump,
membrane protein, Na ubiquinone, cytoplasmic membrane;
HET: LFA CA7; 3.00A {Escherichia coli}
Length = 147
Score = 26.6 bits (59), Expect = 1.4
Identities = 8/37 (21%), Positives = 13/37 (35%), Gaps = 1/37 (2%)
Query: 28 VFVVLIAGCGVSFLFSLLEFLWNVRKVAVEEKLSPYE 64
+ LI G+ L + + R K P+E
Sbjct: 16 FAIFLIVAIGLCCLMLVGGWFLGGRA-RARSKNVPFE 51
>2b6c_A Hypothetical protein EF3068; structural genomis, DNA repair enzyme,
structural genomics, protein structure initiative; HET:
SO4; 2.10A {Enterococcus faecalis} SCOP: a.118.1.17
Length = 220
Score = 26.7 bits (58), Expect = 1.8
Identities = 10/50 (20%), Positives = 16/50 (32%), Gaps = 3/50 (6%)
Query: 52 RKVAVEEKLSPYEAFMLELKFAIRCYGTSKPVRRKASTPSLKSNSLANLD 101
+ E + A+M K G P R+ S LK + +
Sbjct: 8 QFQKNPETAAKMSAYM---KHQFVFAGIPAPERQALSKQLLKESHTWPKE 54
>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 = 26.7 bits (58), Expect = 2.1
Identities = 21/133 (15%), Positives = 42/133 (31%), Gaps = 39/133 (29%)
Query: 9 QKDEDETDNPELGIDNV-------------------GGVFVVLIAGCGVSFL-------F 42
Q+D DN NV V + + G G +++ +
Sbjct: 115 QRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY 174
Query: 43 SLLEFL-----W-NVRKVAVEEKLSPYEAFMLELKFAIRCYGTSKPVRRKASTPSLKSNS 96
+ + W N++ E + + +L + I TS+ +S L+ +S
Sbjct: 175 KVQCKMDFKIFWLNLKNCNSPETVL---EMLQKLLYQIDPNWTSRS--DHSSNIKLRIHS 229
Query: 97 LAN--LDLFNNKM 107
+ L +K
Sbjct: 230 IQAELRRLLKSKP 242
>3jxy_A Alkylpurine DNA glycosylase ALKD; heat repeat, DNA binding, DNA
glycosylase, DNA alkylation, L complex, hydrolase-DNA
complex; HET: DNA; 1.50A {Bacillus cereus} PDB: 3jx7_A*
3bvs_A 3jy1_A* 3jxz_A*
Length = 232
Score = 26.2 bits (57), Expect = 2.9
Identities = 10/50 (20%), Positives = 17/50 (34%), Gaps = 3/50 (6%)
Query: 52 RKVAVEEKLSPYEAFMLELKFAIRCYGTSKPVRRKASTPSLKSNSLANLD 101
EK P +M K G P RR+ ++ ++L +
Sbjct: 14 TAHQNPEKAEPMARYM---KNHFLFLGIQTPERRQLLKDIIQIHTLPDQK 60
>3dob_A Heat shock 70 kDa protein F44E5.5; structural genomics,
APC90015.11, peptide-binding domain, HS 2, protein
structure initiative; 2.39A {Caenorhabditis elegans}
Length = 152
Score = 24.9 bits (55), Expect = 7.1
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 20 LGIDNVGGVFVVLI 33
LGI+ GGV LI
Sbjct: 10 LGIETAGGVMTNLI 23
>4dx5_A Acriflavine resistance protein B; multidrug efflux protein,
membrane protein, transpor; HET: LMT OCT D10 HEX D12 MIY
C14 LMU DD9 UND GOL; 1.90A {Escherichia coli} PDB:
2hrt_A* 2gif_A* 4dx7_A* 4dx6_A* 3noc_A* 1oy6_A* 1oy9_A*
1oyd_A* 1oy8_A* 1oye_A 2rdd_A* 2w1b_A* 3d9b_A 2i6w_A*
3nog_A* 1t9x_A* 1t9t_A* 1t9v_A* 1t9w_A* 1t9u_A* ...
Length = 1057
Score = 24.8 bits (55), Expect = 8.2
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 50 NVRKVAVEEKLSPYEA 65
NV +V EE L P EA
Sbjct: 415 NVERVMAEEGLPPKEA 430
>1yuw_A Heat shock cognate 71 kDa protein; chaperone; 2.60A {Bos taurus}
SCOP: b.130.1.1 c.55.1.1 c.55.1.1 PDB: 3c7n_B* 2v7z_A*
Length = 554
Score = 24.8 bits (55), Expect = 8.3
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 20 LGIDNVGGVFVVLI 33
LGI+ GGV VLI
Sbjct: 401 LGIETAGGVMTVLI 414
>2v50_A Multidrug resistance protein MEXB; DDM, RND, membrane, detergent,
transport, cell membrane, transmembrane, membrane
protein; HET: LMT; 3.00A {Pseudomonas aeruginosa PA01}
Length = 1052
Score = 24.8 bits (55), Expect = 9.0
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 50 NVRKVAVEEKLSPYEA 65
NV +V EE LSP EA
Sbjct: 415 NVERVMAEEGLSPREA 430
>2op6_A Heat shock 70 kDa protein D; HSP70/peptide-binding domain,
structural genomics, APC90014. 2, protein structure
initiative; 1.85A {Caenorhabditis elegans}
Length = 152
Score = 24.5 bits (54), Expect = 9.0
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 20 LGIDNVGGVFVVLI 33
LGI+ VGGV LI
Sbjct: 10 LGIETVGGVMTKLI 23
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 0.135 0.390
Gapped
Lambda K H
0.267 0.0806 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,689,284
Number of extensions: 91385
Number of successful extensions: 301
Number of sequences better than 10.0: 1
Number of HSP's gapped: 301
Number of HSP's successfully gapped: 20
Length of query: 116
Length of database: 6,701,793
Length adjustment: 79
Effective length of query: 37
Effective length of database: 4,496,034
Effective search space: 166353258
Effective search space used: 166353258
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: 51 (23.3 bits)