RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 046160
(114 letters)
>3b9w_A Ammonium transporter family; membrane protein, ammonia transport,
rhesus protein, transpo protein; HET: BOG; 1.30A
{Nitrosomonas europaea} PDB: 3bhs_A 3b9y_A* 3b9z_A*
Length = 407
Score = 45.9 bits (109), Expect = 4e-07
Identities = 10/89 (11%), Positives = 24/89 (26%), Gaps = 13/89 (14%)
Query: 16 ILAIKLNFDDPLEATRLHGGWGFIG-------------SQVTELSVIVGWVRETMGPLFH 62
+L K D LHG G +G +Q+T + + +
Sbjct: 283 MLESKAKTIDTCGVHNLHGLPGLLGGFSAILIVPGIAVAQLTGIGITLALALIGGVIAGA 342
Query: 63 ALHKLKMLRILEDEEITGLDISSDSGYAY 91
+ + ++ + ++
Sbjct: 343 LIKLTGTTKQAYEDSHEFIHLAGPEDEHK 371
>2b2h_A AMT-1, ammonium transporter; membrane protein, transport protein;
1.54A {Archaeoglobus fulgidus} PDB: 2b2f_A 2b2i_A 2b2j_A
Length = 399
Score = 36.0 bits (84), Expect = 0.001
Identities = 16/69 (23%), Positives = 26/69 (37%), Gaps = 2/69 (2%)
Query: 32 LHGGWGFIGSQVTELSVIVGWVRETMGPLFHALHKLKMLRILEDEEITGLDISS--DSGY 89
L G + SQ+ ++ + L A+ LR+ EE GLD+S + Y
Sbjct: 331 LFGNPQLLVSQLIAVASTTAYAFLVTLILAKAVDAAVGLRVSSQEEYVGLDLSQHEEVAY 390
Query: 90 AYVCSSKNH 98
+H
Sbjct: 391 TLEHHHHHH 399
>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 = 31.0 bits (70), Expect = 0.077
Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 11/49 (22%)
Query: 27 LEA--TRLHG-GWGFIGSQVTELSVIVGWVRET--MG---PLFHALHKL 67
LE R H W +Q+T I+GW R T M + + K+
Sbjct: 647 LETLFNRWHSESWA---NQLTVCGAIIGWTRGTGLMSANNIIAEGIEKM 692
>3hd6_A Ammonium transporter RH type C; ammonia, channel, rhesus,
glycoprotein, membran structural genomics, PSI-2,
protein structure initiative; HET: BOG; 2.10A {Homo
sapiens}
Length = 490
Score = 27.9 bits (62), Expect = 0.68
Identities = 5/61 (8%), Positives = 14/61 (22%), Gaps = 3/61 (4%)
Query: 34 GGWGFIGSQVTELSVIVGWVRETMGPLFHALHKLKMLRILEDEEI---TGLDISSDSGYA 90
Q+ L V + + L + ++ ++ +
Sbjct: 391 TARTQGKFQIYGLLVTLAMALMGGIIVGLILRLPFWGQPSDENCFEDAVYWEMPEGNSTV 450
Query: 91 Y 91
Y
Sbjct: 451 Y 451
>1z7e_A Protein aRNA; rossmann fold, OB-like fold, hydrolase; HET: ATP UGA;
3.00A {Escherichia coli} SCOP: b.46.1.1 c.2.1.2 c.65.1.1
Length = 660
Score = 27.7 bits (62), Expect = 1.0
Identities = 20/79 (25%), Positives = 29/79 (36%), Gaps = 31/79 (39%)
Query: 25 DPLEATRLHGGWGFIGSQVTELSVIVGWVRETMGPLFHALHKLKMLRILEDE--EITGLD 82
+ G GFIG+ +TE R+L ++ E+ GLD
Sbjct: 313 RRRTRVLILGVNGFIGNHLTE-------------------------RLLREDHYEVYGLD 347
Query: 83 ISSDSGYAYVCSSKNHPRF 101
I SD+ + NHP F
Sbjct: 348 IGSDA----ISRFLNHPHF 362
>1u7g_A Probable ammonium transporter; right handed helical bundle,
transmembrane helices, ammonia membrane protein, RH
protein, transport protein; HET: MSE BOG; 1.40A
{Escherichia coli} SCOP: f.44.1.1 PDB: 1u77_A* 1u7c_A*
1xqf_A 1xqe_A 2ns1_A* 2nop_A 2nmr_A 3c1g_A 3c1i_A*
3c1h_A* 2now_A 2npe_A 2npc_A 2npd_A 2npg_A 2npj_A
2nuu_A* 3c1j_A 2npk_A
Length = 385
Score = 26.4 bits (59), Expect = 2.4
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 12 IGLNILAIKLNFDDPLEATRLHGGWGFIGSQVT 44
G+ +L L DDP + +HG G +G +T
Sbjct: 297 WGVTMLKRLLRVDDPCDVFGVHGVCGIVGCIMT 329
>2jpu_A ORF C02003 protein; solution structure, SSR10, NESG, structural
genomics, PSI-2, protein structure initiative; NMR
{Sulfolobus solfataricus} PDB: 2q00_A
Length = 129
Score = 25.3 bits (55), Expect = 3.9
Identities = 6/42 (14%), Positives = 12/42 (28%), Gaps = 2/42 (4%)
Query: 16 ILAIKLNFDDPLEATRLHGGW--GFIGSQVTELSVIVGWVRE 55
+L I+ N + + G W + L +
Sbjct: 40 LLVIENNLKEITNNVKNKGRWKSENLFKASKLLRSNNTEIPI 81
>2bll_A Protein YFBG; decarboxylase, short chain dehydrogenase, L-ARA4N
biosynthes methyltransferase, transferase; 2.3A
{Escherichia coli} SCOP: c.2.1.2 PDB: 1u9j_A 1z73_A
1z75_A 1z7b_A 1z74_A
Length = 345
Score = 25.1 bits (55), Expect = 6.8
Identities = 20/70 (28%), Positives = 26/70 (37%), Gaps = 31/70 (44%)
Query: 34 GGWGFIGSQVTELSVIVGWVRETMGPLFHALHKLKMLRILE--DEEITGLDISSDSGYAY 91
G GFIG+ +TE R+L E+ GLDI SD+
Sbjct: 7 GVNGFIGNHLTE-------------------------RLLREDHYEVYGLDIGSDA---- 37
Query: 92 VCSSKNHPRF 101
+ NHP F
Sbjct: 38 ISRFLNHPHF 47
>3rpc_A Possible metal-dependent hydrolase; structural genomics,
PSI-biology, protein structure initiati midwest center
for structural genomics; 1.49A {Veillonella parvula}
Length = 264
Score = 24.7 bits (54), Expect = 7.8
Identities = 10/77 (12%), Positives = 20/77 (25%), Gaps = 8/77 (10%)
Query: 26 PLEATRLHGGWGFIGSQVTELSVIVGWVRETMGPLFHALHKLKMLRILEDEEITGLDISS 85
L GFI ++ S+ + H + + + L
Sbjct: 96 NTADKELITSQGFIDVRIIFESLEFNGITLRKTGGSHGTV-----EMYANPVLAPL-AGD 149
Query: 86 DSGYAYVCSSKNHPRFY 102
G + + + P Y
Sbjct: 150 AMG--VIFEAADEPTVY 164
>3slg_A PBGP3 protein; structural genomics, seattle structural genomics
center for infectious disease, ssgcid, melioidosis,
glanders; 2.10A {Burkholderia pseudomallei}
Length = 372
Score = 24.7 bits (54), Expect = 8.4
Identities = 16/70 (22%), Positives = 24/70 (34%), Gaps = 31/70 (44%)
Query: 34 GGWGFIGSQVTELSVIVGWVRETMGPLFHALHKLKMLRILE--DEEITGLDISSDSGYAY 91
G GFIG +++ RILE D E+ G+D+ +D
Sbjct: 31 GVNGFIGHHLSK-------------------------RILETTDWEVFGMDMQTDR---- 61
Query: 92 VCSSKNHPRF 101
+ H R
Sbjct: 62 LGDLVKHERM 71
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
0.322 0.141 0.444
Gapped
Lambda K H
0.267 0.0743 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,831,392
Number of extensions: 96936
Number of successful extensions: 324
Number of sequences better than 10.0: 1
Number of HSP's gapped: 323
Number of HSP's successfully gapped: 27
Length of query: 114
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 37
Effective length of database: 4,551,876
Effective search space: 168419412
Effective search space used: 168419412
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 (21.9 bits)
S2: 51 (23.4 bits)