RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 044248
(489 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 = 253 bits (649), Expect = 6e-80
Identities = 78/419 (18%), Positives = 127/419 (30%), Gaps = 53/419 (12%)
Query: 72 AGSVRAKN-TMNIMLTNVLDAAAGGLFYYLFGFAFAFGTPSNGFIGRHNFALKSFPTSNF 130
A V N ++NI+ ++ +F +GF+ GT G + L
Sbjct: 11 ARLVAQYNYSINILAMLLVGFGFLMVFVRRYGFSATTGTYLVVATGLPLYILLRANGIFG 70
Query: 131 D-----YSYFLYQWAFAIAAAGITSGSIAERTQFVAYLIYSSFLTGFVYPVVSHWFWSVD 185
+ FA+A I G++ R + Y + + F+ VY + +
Sbjct: 71 HALTPHSVDAVIYAEFAVATGLIAMGAVLGRLRVFQYALLALFIV-PVYLLNEWLVLD-N 128
Query: 186 GWASASNTGDLLFGSGVIDFAGSGVVHMVGGIAGLWGAYIEGPRIGRFDRSGQSVLRGHS 245
G D AGS +H G GL + R S
Sbjct: 129 AS---------GLTEGFQDSAGSIAIHAFGAYFGLGVSIALTTAAQRAQPIE---SDATS 176
Query: 246 ASLVVLGTFMLWFGWYGFNPGSFTKILSAYNTGSHYGQWSAIGRTAVTTTLAGCTAALTT 305
+LG+ +LW W F + + +T V T LA C A L T
Sbjct: 177 DRFSMLGSMVLWLFWPSFATAI--------------VPFEQMPQTIVNTLLALCGATLAT 222
Query: 306 L-FGKRILSGHWNVTDVCNGLLGGFAAITAGCSVVEPWAAIVCGFVAAVVLIAC-----N 359
G ++ D+ N L G AI + C++V P A V G + + +
Sbjct: 223 YFLSALFHKGKASIVDMANAALAGGVAIGSVCNIVGPVGAFVIGLLGGAISVVGFVFIQP 282
Query: 360 KLAEKAKYDDPLEAAQLHGGCGAWGVIFTALLLRRNSPYGLFMGGGGKLLAAHVIQILVV 419
L KAK D LHG G G L+ + A + I +
Sbjct: 283 MLESKAKTIDTCGVHNLHGLPGLLGGFSAILI-------------VPGIAVAQLTGIGIT 329
Query: 420 AGWVSATMGPLFFILHKLKLLRISPEDEMAGMDLTRHGGFAYVYHDDDDVQSNGIQLRK 478
++ + + ED + L + ++ L+
Sbjct: 330 LALALIGGVIAGALIKLTGTTKQAYEDSHEFIHLAGPEDEHKAERLVLEAKTEIQGLKN 388
>2b2h_A AMT-1, ammonium transporter; membrane protein, transport protein;
1.54A {Archaeoglobus fulgidus} PDB: 2b2f_A 2b2i_A 2b2j_A
Length = 399
Score = 246 bits (630), Expect = 3e-77
Identities = 118/415 (28%), Positives = 180/415 (43%), Gaps = 31/415 (7%)
Query: 49 DSTYLLFSAYLVFSMQLGFAMLCAGSVRAKNTMNIMLTNVLDAAAGGLFYYLFGFAFAFG 108
+ ++L S LV M G AG VR KN +N++ + + L + +G++ +FG
Sbjct: 5 NVAWILASTALVMLMVPGVGFFYAGMVRRKNAVNMIALSFISLIITVLLWIFYGYSVSFG 64
Query: 109 TPSNGFIGR-HNFALKSFPTSNFDYSYFLYQWAFAIAAAGITSGSIAERTQFVAYLIYSS 167
+G IG + L D + +YQ FA I + +IAER + ++++ S+
Sbjct: 65 NDISGIIGGLNYALLSGVKGE--DLLFMMYQMMFAAVTIAILTSAIAERAKVSSFILLSA 122
Query: 168 FLTGFVYPVVSHWFWSVDGWASASNTGDLLFGSGVIDFAGSGVVHMVGGIAGLWGAYIEG 227
FVY +HW W GW L G +DFAG VVH+ G A L A G
Sbjct: 123 LWLTFVYAPFAHWLWG-GGW---------LAKLGALDFAGGMVVHISSGFAALAVAMTIG 172
Query: 228 PRIGRFDRSGQSVLRGHSASLVVLGTFMLWFGWYGFNPGSFTKILSAYNTGSHYGQWSAI 287
R G + + HS L ++G +LWFGW+GFN GS L+A +
Sbjct: 173 KRAG----FEEYSIEPHSIPLTLIGAALLWFGWFGFNGGS---ALAANDVA--------- 216
Query: 288 GRTAVTTTLAGCTAALTTLFGKRILSGHWNVTDVCNGLLGGFAAITAGCSVVEPWAAIVC 347
V T + A + I G + +G + G AAIT V+ AIV
Sbjct: 217 INAVVVTNTSAAVAGFVWMVIGWI-KGKPGSLGIVSGAIAGLAAITPAAGFVDVKGAIVI 275
Query: 348 GFVAAVVLIACNKLAEKAKYDDPLEAAQLHGGCGAWGVIFTALLLRRN-SPYGLFMGGGG 406
G VA +V K K D+ L+A +HG G WG + +L + Y + G
Sbjct: 276 GLVAGIVCYLAMDFRIKKKIDESLDAWAIHGIGGLWGSVAVGILANPEVNGYAGLLFGNP 335
Query: 407 KLLAAHVIQILVVAGWVSATMGPLFFILHKLKLLRISPEDEMAGMDLTRHGGFAY 461
+LL + +I + + L + LR+S ++E G+DL++H AY
Sbjct: 336 QLLVSQLIAVASTTAYAFLVTLILAKAVDAAVGLRVSSQEEYVGLDLSQHEEVAY 390
>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 = 215 bits (551), Expect = 1e-65
Identities = 106/404 (26%), Positives = 169/404 (41%), Gaps = 37/404 (9%)
Query: 49 DSTYLLFSAYLVFSMQL-GFAMLCAGSVRAKNTMNIMLTNVLDAAAGGLFYYLFGFAFAF 107
D+ +++ LV M + G A+ G +R KN ++++ + A + + ++G++ A
Sbjct: 9 DNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCILWVVYGYSLAS 68
Query: 108 GTPSNGFIGR------HNFALKSFPTSNFDYSYFLYQWAFAIAAAGITSGSIAERTQFVA 161
G N F G N L + S + Y + +Q +FA G+ G++AER +F A
Sbjct: 69 G-EGNNFFGNINWLMLKNIELTAVMGSIYQYIHVAFQGSFACITVGLIVGALAERIRFPA 127
Query: 162 YLIYSSFLTGFVYPVVSHWFWSVDGWASASNTGDLLFGSGVIDFAGSGVVHMVGGIAGLW 221
LI+ Y ++H W G L G +DFAG VVH+ IAGL
Sbjct: 128 VLIFVVVWLTLSYIPIAHMVWG-GGL---------LASHGALDFAGGTVVHINAAIAGLV 177
Query: 222 GAYIEGPRIGRFDRSGQSVLRGHSASLVVLGTFMLWFGWYGFNPGSFTKILSAYNTGSHY 281
GAY+ G R+G G+ + H+ +V GT +L+ GW+GFN GS +A
Sbjct: 178 GAYLIGKRVG----FGKEAFKPHNLPMVFTGTAILYIGWFGFNAGS---AGTANEIA--- 227
Query: 282 GQWSAIGRTAVTTTLAGCTAALTTLFGKRILSGHWNVTDVCNGLLGGFAAITAGCSVVEP 341
V T +A A L +FG+ L G ++ C+G + G +T C +
Sbjct: 228 ------ALAFVNTVVATAAAILGWIFGEWALRGLPSLLGACSGAIAGLVGVTPACGYIGV 281
Query: 342 WAAIVCGFVAAVV-LIACNKLAEKAKYDDPLEAAQLHGGCGAWGVIFTALLLRR--NSPY 398
A++ G VA + L L + DDP + +HG CG G I T +
Sbjct: 282 GGALIIGVVAGLAGLWGVTMLKRLLRVDDPCDVFGVHGVCGIVGCIMTGIFAASSLGGVG 341
Query: 399 GLFMGGGGKLLAAHVIQILVVAGWVSATMGPLFFILHKLKLLRI 442
G L + I + W + + LR+
Sbjct: 342 FAEGVTMGHQLLVQLESIAITIVWSGVVAFIGYKLADLTVGLRV 385
>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 = 194 bits (494), Expect = 2e-56
Identities = 71/404 (17%), Positives = 114/404 (28%), Gaps = 58/404 (14%)
Query: 92 AAGGLFYYLFGFAFAFGTPSNGFIGRHNFALKSFPTSNFDYSYFLYQWAFAIAAAGITSG 151
+A G + L F + G+ H + L F +A+ + G
Sbjct: 92 SAVGFNFLLAAFGIQWALLMQGWF--HFLQDRYIVVGVE----NLINADFCVASVCVAFG 145
Query: 152 SIAERTQFVAYLIYSSFLTGFVYPVVSHWFWSVDGWASASNTGDLLFGSGVIDFAGSGVV 211
++ + + LI + + V LL V D GS +
Sbjct: 146 AVLGKVSPIQLLIMT------FFQVTLFAVNE----------FILLNLLKVKDAGGSMTI 189
Query: 212 HMVGGIAGLWGAYIEGPRIGRFDRSGQSVLRGHSASLVVLGTFMLWFGWYGFNPGSFTKI 271
H G GL I R + Q+ S ++GT LW W FN
Sbjct: 190 HTFGAYFGLTVTRILYRRNLEQSKERQN-SVYQSDLFAMIGTLFLWMYWPSFNSAISYH- 247
Query: 272 LSAYNTGSHYGQWSAIGRTAVTTTLAGCTAALTTLFGKRILSGHWNVTDVCNGLLGGFAA 331
G +LA C + G ++ + N L G A
Sbjct: 248 ----------GDSQHRAAINTYCSLAACVLTSVAISSALHKKGKLDMVHIQNATLAGGVA 297
Query: 332 I-TAGCSVVEPWAAIVCGFVAAVVLIACNK-----LAEKAKYDDPLEAAQLHGGCGAWGV 385
+ TA ++ P+ A++ GFV ++ L + D LHG G G
Sbjct: 298 VGTAAEMMLMPYGALIIGFVCGIISTLGFVYLTPFLESRLHIQDTCGINNLHGIPGIIGG 357
Query: 386 IFTALL-----LRRNSPYGLFMGGGGKL----------LAAHVIQILVVAGWVSATMGPL 430
I A+ L GL + + +LV +
Sbjct: 358 IVGAVTAASASLEVYGKEGLVHSFDFQGFNGDWTARTQGKFQIYGLLVTLAMALMGGIIV 417
Query: 431 FFILHKLKLLRISPEDEM---AGMDLTRHGGFAYVYHDDDDVQS 471
IL + S E+ ++ Y+ D S
Sbjct: 418 GLILRLPFWGQPSDENCFEDAVYWEMPEGNSTVYIPEDPTFKPS 461
>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 = 56.6 bits (136), Expect = 1e-08
Identities = 83/570 (14%), Positives = 147/570 (25%), Gaps = 205/570 (35%)
Query: 3 TSLSCSADQLASFFG---PNATDATSAASLICSQLEAINNKFSDTAYAVDSTYLLFSAYL 59
T+ A QL F P T+ +A + E L +L
Sbjct: 24 TASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE------------------LVGKFL 65
Query: 60 VFSMQLGFAMLCAGSVRAKN--TMNIMLTNVLDAAAGGLF--YYLFG-----FAFAFGTP 110
G+ + V + +L L F YL G A
Sbjct: 66 ------GY---VSSLVEPSKVGQFDQVLNLCLTE-----FENCYLEGNDIHALAAKLLQE 111
Query: 111 SNGFIGRHNFALKSF---------PTSNFDYSYFLYQWAFAIAAAGITS--------GSI 153
++ + + +K++ P S F G G+
Sbjct: 112 NDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL-----FRAVGEGNAQLVAIFGGQGNT 166
Query: 154 AE-----RTQFVAYLIYSSFLTGFVYPVVSHWFWSVDGWASASNTGDLLFGSGVIDFAGS 208
+ R Y Y + + + + + +F G ++
Sbjct: 167 DDYFEELRDL---YQTYHVLVGDLIKFSAET----LSELIRTTLDAEKVFTQG-LNILE- 217
Query: 209 GVVHMVGGIAGLWGAYIEGPRIGRFDRSGQSVLRGHSASLVVLGTFMLWFGWY------- 261
W +E P + + L S ++G ++ Y
Sbjct: 218 ------------W---LENPS----NTPDKDYLLSIPISCPLIG--VIQLAHYVVTAKLL 256
Query: 262 GFNPGSFTKILSAYNTGSHYGQWSAIGRTAVTTT----LAGCTAALTTLF--GKRILSGH 315
GF PG L TG G +A+ A T + A+T LF G R +
Sbjct: 257 GFTPGELRSYLKG-ATGHSQGLVTAVA-IAETDSWESFFVSVRKAITVLFFIGVR---CY 311
Query: 316 --WNVTDVCNGLLGGFAAITAGCSVVEPWAAIVCGFVAAVVLIACNKLAEKAKYDDPLEA 373
+ T + +L ++ V P + + + + D +
Sbjct: 312 EAYPNTSLPPSILE--DSLENNEGVPSPMLS-ISN-------------LTQEQVQDYVNK 355
Query: 374 AQLHGGCGAWGVIFTALLLRRNSPYGLFMGGGGKLLAAHVIQILVVAGWVSATMGPLFFI 433
H G + +L N + LVV+G + G L
Sbjct: 356 TNSHLPAGKQ--VEISL---VNGA-----------------KNLVVSGPPQSLYG-LNLT 392
Query: 434 LHKLK----------------------LLRIS---------PEDEMAGMDLTRHGGFAY- 461
L K K L ++ P ++ DL ++ ++
Sbjct: 393 LRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKN-NVSFN 451
Query: 462 -------VYHDDDDVQSNGIQLRKIEPTAT 484
VY D G LR + + +
Sbjct: 452 AKDIQIPVYDTFD-----GSDLRVLSGSIS 476
>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 = 38.3 bits (88), Expect = 0.007
Identities = 23/119 (19%), Positives = 38/119 (31%), Gaps = 34/119 (28%)
Query: 388 TALL-LRRNSP---YGLFMGGGGK-LLAAHVIQILVVAG-------WVS--------ATM 427
ALL LR G + G GK +A V V W++ +
Sbjct: 142 QALLELRPAKNVLIDG--VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL 199
Query: 428 GPLFFILHKLKLLRISPEDEMAGMDLTRHGGFAYV--------YHDD----DDVQSNGI 474
L +L+++ S D + + L H A + Y + +VQ+
Sbjct: 200 EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA 258
>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 = 30.6 bits (69), Expect = 1.6
Identities = 30/193 (15%), Positives = 49/193 (25%), Gaps = 70/193 (36%)
Query: 201 GVIDFAGSGVVHMVGGIAGLWGAYIE----GPRIGRFDRSGQSVLRGHSASLVVLGTFML 256
G +GSG+ GG++ L G + + P L+ + + ML
Sbjct: 1045 GNC--SGSGM----GGVSALRGMFKDRFKDEPVQNDI-------LQESFINTMSAWVNML 1091
Query: 257 WFGWYGFNPGSFTKILSAYNTGSHYGQWSAIGRTAVTT--------TLAGCTAALTTLFG 308
G T + A T ++ V T + G
Sbjct: 1092 LISSSGPI---KT-PVGACATSVE-----SVD-IGVETILSGKARICIVGGYDDFQEE-- 1139
Query: 309 KRILSGHWNVTDVCNGLLGGFAAITAGCSVVE-------------PWAAIVCGFV----A 351
F + A + +E P GF+ A
Sbjct: 1140 ----------------GSFEFGNMKATSNTLEEFEHGRTPAEMSRPATTTRNGFMEAQGA 1183
Query: 352 AVVLIACNKLAEK 364
+ +I LA K
Sbjct: 1184 GIQIIMQADLALK 1196
>3ar4_A Sarcoplasmic/endoplasmic reticulum calcium ATPase; P-type ATPase,
hydrolase, calcium transport, calcium binding binding;
HET: ATP TG1 PTY; 2.15A {Oryctolagus cuniculus} PDB:
2ear_A* 2eas_A* 2eat_A* 2eau_A* 2dqs_A* 2zbe_A 2zbf_A*
2zbg_A* 3ar2_A* 2zbd_A* 3ar3_A* 3ar5_A* 3ar6_A* 3ar7_A*
3ar8_A* 3ar9_A* 3n5k_A* 1kju_A 1iwo_A 1t5s_A* ...
Length = 995
Score = 29.1 bits (66), Expect = 4.4
Identities = 10/59 (16%), Positives = 17/59 (28%)
Query: 248 LVVLGTFMLWFGWYGFNPGSFTKILSAYNTGSHYGQWSAIGRTAVTTTLAGCTAALTTL 306
+G WF + PG L+ + + + T AL+ L
Sbjct: 847 AATVGAAAWWFMYAEDGPGVTYHQLTHFMQCTEDHPHFEGLDCEIFEAPEPMTMALSVL 905
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
0.324 0.138 0.435
Gapped
Lambda K H
0.267 0.0537 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,802,028
Number of extensions: 495926
Number of successful extensions: 1422
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1381
Number of HSP's successfully gapped: 25
Length of query: 489
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 392
Effective length of database: 3,993,456
Effective search space: 1565434752
Effective search space used: 1565434752
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 59 (26.9 bits)