RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 041074
(452 letters)
>2b2h_A AMT-1, ammonium transporter; membrane protein, transport protein;
1.54A {Archaeoglobus fulgidus} PDB: 2b2f_A 2b2i_A 2b2j_A
Length = 399
Score = 317 bits (814), Expect = e-105
Identities = 135/441 (30%), Positives = 212/441 (48%), Gaps = 43/441 (9%)
Query: 10 LNKGDNAWQMISATLVGLQSVPGLVILYGSIVKKKWAVNSAFMALYAFAAVVICWATWAY 69
++ G+ AW + S LV + VPG+ Y +V++K AVN ++ + V+ W + Y
Sbjct: 1 MSDGNVAWILASTALV-MLMVPGVGFFYAGMVRRKNAVNMIALSFISLIITVLLWIFYGY 59
Query: 70 KMSFGDKLLPFWGKAGPALGQKFLIKQSALPETTQFHDDGSVETAMVLPFYPMASMVWFQ 129
+SFG+ + G L+ + + +Q
Sbjct: 60 SVSFGNDISGIIGGL-----NYALLSGVKGEDLL---------------------FMMYQ 93
Query: 130 CVFAAITLVILAGSVLGRMNIKAWMAFVPLWLTFSYTVGAFSLWGGGFLFHWGVMDYSGG 189
+FAA+T+ IL ++ R + +++ LWLTF Y A LWGGG+L G +D++GG
Sbjct: 94 MMFAAVTIAILTSAIAERAKVSSFILLSALWLTFVYAPFAHWLWGGGWLAKLGALDFAGG 153
Query: 190 YVIHLSSGIAGFTAAYWVGPRSTKDRERFPPNNVIMMLAGAGLLWMGWAGFNGGDPYTAN 249
V+H+SSG A A +G R+ + P+++ + L GA LLW GW GFNGG AN
Sbjct: 154 MVVHISSGFAALAVAMTIGKRAGFEEYSIEPHSIPLTLIGAALLWFGWFGFNGGSALAAN 213
Query: 250 IDSSMAVLNTNICAATSLLVWTWLDVIFFKKPSVIGAVQGMITGLVCITPGAGLVQGWAA 309
+ AV+ TN AA + VW + I KP +G V G I GL ITP AG V A
Sbjct: 214 DVAINAVVVTNTSAAVAGFVWMVIGWI-KGKPGSLGIVSGAIAGLAAITPAAGFVDVKGA 272
Query: 310 IVMGILSGSVPWFTMMFIHKRWTLLQKIDDTLSVFHTHAVAGLLGGVLTGLFAEPKLCSL 369
IV+G+++G V + M F K+ KID++L + H + GL G V G+ A P++
Sbjct: 273 IVIGLVAGIVCYLAMDFRIKK-----KIDESLDAWAIHGIGGLWGSVAVGILANPEV--- 324
Query: 370 FLPVTNSRGGVYGGSGGIQILKQLAGAAFIIGWNVVVTSIICVIINKVIPLRMTEEQLLI 429
N G+ G ++ QL A + +VT I+ ++ + LR++ ++ +
Sbjct: 325 -----NGYAGLLFG-NPQLLVSQLIAVASTTAYAFLVTLILAKAVDAAVGLRVSSQEEYV 378
Query: 430 G-DDAVHGEEAYALWGDGEKY 449
G D + H E AY L +
Sbjct: 379 GLDLSQHEEVAYTLEHHHHHH 399
>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 = 308 bits (792), Expect = e-102
Identities = 127/415 (30%), Positives = 207/415 (49%), Gaps = 32/415 (7%)
Query: 7 PDWLNKGDNAWQMISATLVGLQSVPGLVILYGSIVKKKWAVNSAFMALYAFAAVVICWAT 66
P +K DNA+ MI LV ++PG+ + YG +++ K ++ FA V I W
Sbjct: 2 PAVADKADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCILWVV 61
Query: 67 WAYKMSFGDKLLPFWGKAGPALGQKFLIKQSALPETTQFHDDGSVETAMVLPFYPMASMV 126
+ Y ++ G+ F+G + L ++E V+ V
Sbjct: 62 YGYSLASGEGN-NFFG----NINWLML---------------KNIELTAVMGSIYQYIHV 101
Query: 127 WFQCVFAAITLVILAGSVLGRMNIKAWMAFVPLWLTFSYTVGAFSLWGGGFLFHWGVMDY 186
FQ FA IT+ ++ G++ R+ A + FV +WLT SY A +WGGG L G +D+
Sbjct: 102 AFQGSFACITVGLIVGALAERIRFPAVLIFVVVWLTLSYIPIAHMVWGGGLLASHGALDF 161
Query: 187 SGGYVIHLSSGIAGFTAAYWVGPRSTKDRERFPPNNVIMMLAGAGLLWMGWAGFNGGDPY 246
+GG V+H+++ IAG AY +G R +E F P+N+ M+ G +L++GW GFN G
Sbjct: 162 AGGTVVHINAAIAGLVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAG 221
Query: 247 TANIDSSMAVLNTNICAATSLLVWTWLDVIFFKKPSVIGAVQGMITGLVCITPGAGLVQG 306
TAN +++A +NT + A ++L W + + PS++GA G I GLV +TP G +
Sbjct: 222 TANEIAALAFVNTVVATAAAILGWIFGEWALRGLPSLLGACSGAIAGLVGVTPACGYIGV 281
Query: 307 WAAIVMGILSGSVPWFTMMFIHKRWTLLQKIDDTLSVFHTHAVAGLLGGVLTGLFAEPKL 366
A+++G+++G + + + + ++DD VF H V G++G ++TG+FA L
Sbjct: 282 GGALIIGVVAGLAGLWGVTMLKRLL----RVDDPCDVFGVHGVCGIVGCIMTGIFAASSL 337
Query: 367 CSLFLPVTNSRGGVYGGSGGIQILKQLAGAAFIIGWNVVVTSIICVIINKVIPLR 421
G G + G Q+L QL A I W+ VV I + + + LR
Sbjct: 338 --------GGVGFAEGVTMGHQLLVQLESIAITIVWSGVVAFIGYKLADLTVGLR 384
>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 = 221 bits (564), Expect = 8e-68
Identities = 72/407 (17%), Positives = 131/407 (32%), Gaps = 49/407 (12%)
Query: 38 GSIVKKKWAVNSAFMALYAFAAVVICWATWAYKMSFGDKLLPFWGKAGPALGQKFLIKQS 97
+ + +++N M L F +++ + + + G L+ G L + I
Sbjct: 12 RLVAQYNYSINILAMLLVGFGFLMVFVRRYGFSATTGTYLVVATGLPLYILLRANGIFGH 71
Query: 98 ALPETTQFHDDGSVETAMVLPFYPMASMVWFQCVFAAITLVILAGSVLGRMNIKAWMAFV 157
A P + FA T +I G+VLGR+ + +
Sbjct: 72 A--------------------LTPHSVDAVIYAEFAVATGLIAMGAVLGRLRVFQYALLA 111
Query: 158 PLWLTFSYTVGAFSLWGGGFLFHWGVMDYSGGYVIHLSSGIAGFTAAYWVGPRSTKDR-E 216
L++ Y + + + G D +G IH G + + + + +
Sbjct: 112 -LFIVPVYLLNEWLVLDNASGLTEGFQDSAGSIAIHAFGAYFGLGVSIALTTAAQRAQPI 170
Query: 217 RFPPNNVIMMLAGAGLLWMGWAGFNGGDPYTANIDSSMAVLNTNICAATSLLVWTWLDVI 276
+ + G+ +LW+ W F ++NT + + L +L +
Sbjct: 171 ESDATSDRFSMLGSMVLWLFWPSFATA--IVPFEQMPQTIVNTLLALCGATLATYFLSAL 228
Query: 277 FFK-KPSVIGAVQGMITGLVCITPGAGLVQGWAAIVMGILSGSVPWFTMMFIHKRWTLLQ 335
F K K S++ + G V I +V A V+G+L G++ +FI
Sbjct: 229 FHKGKASIVDMANAALAGGVAIGSVCNIVGPVGAFVIGLLGGAISVVGFVFIQPMLESKA 288
Query: 336 KIDDTLSVFHTHAVAGLLGGVLTGLFAEPKLCSLFLPVTNSRGGVYGGSGGIQILKQLAG 395
K DT V + H + GLLGG L + QL G
Sbjct: 289 KTIDTCGVHNLHGLPGLLGGFSAILIV-----------------------PGIAVAQLTG 325
Query: 396 AAFIIGWNVVVTSIICVIINKVIPLRMTEEQLLIGDD-AVHGEEAYA 441
+ ++ I +I + E A +E A
Sbjct: 326 IGITLALALIGGVIAGALIKLTGTTKQAYEDSHEFIHLAGPEDEHKA 372
>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 = 192 bits (488), Expect = 7e-56
Identities = 58/339 (17%), Positives = 122/339 (35%), Gaps = 26/339 (7%)
Query: 120 YPMASMVWFQCVFAAITLVILAGSVLGRMNIKAWMAFVPLWLTFSYTVGAFSLWGGGFLF 179
+ F ++ + G+VLG+++ + +T F++ L
Sbjct: 123 IVVGVENLINADFCVASVCVAFGAVLGKVSPIQLLIMTFFQVTL------FAVNEFILLN 176
Query: 180 HWGVMDYSGGYVIHLSSGIAGFTAAYWVGPRS---TKDRERFPPNNVIMMLAGAGLLWMG 236
V D G IH G T + R+ +K+R+ + + + G LWM
Sbjct: 177 LLKVKDAGGSMTIHTFGAYFGLTVTRILYRRNLEQSKERQNSVYQSDLFAMIGTLFLWMY 236
Query: 237 WAGFNGGDPYTANIDSSMAVLNTNICAATSLLVWTWLDVIFFK--KPSVIGAVQGMITGL 294
W FN Y + A +NT A +L + K K ++ + G
Sbjct: 237 WPSFNSAISYHGD-SQHRAAINTYCSLAACVLTSVAISSALHKKGKLDMVHIQNATLAGG 295
Query: 295 VCI-TPGAGLVQGWAAIVMGILSGSVPWFTMMFIHKRWTLLQKIDDTLSVFHTHAVAGLL 353
V + T ++ + A+++G + G + +++ I DT + + H + G++
Sbjct: 296 VAVGTAAEMMLMPYGALIIGFVCGIISTLGFVYLTPFLESRLHIQDTCGINNLHGIPGII 355
Query: 354 GGVLTGLFAEPKLCSLF-----LPVTNSRGGVYGGSGGIQILKQLAGAAFIIGWNVVVTS 408
GG++ + A ++ + + +G + Q Q+ G + ++
Sbjct: 356 GGIVGAVTAASASLEVYGKEGLVHSFDFQGFNGDWTARTQGKFQIYGLLVTLAMALMGGI 415
Query: 409 IICVIINKVIPLRMTEEQLLIGDDAV------HGEEAYA 441
I+ +I+ + ++E +DAV Y
Sbjct: 416 IVGLILRLPFWGQPSDENCF--EDAVYWEMPEGNSTVYI 452
>3p02_A Uncharacterized protein; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-biology; 1.55A {Bacteroides ovatus}
Length = 317
Score = 32.0 bits (72), Expect = 0.33
Identities = 19/109 (17%), Positives = 35/109 (32%), Gaps = 20/109 (18%)
Query: 136 TLVILAGSVLGRMNIK----------AWMAFVPLWLT----FSYTVGAFSLWGGGFLFHW 181
L I AG + I+ W +PL + +Y V + L
Sbjct: 95 ELTIPAGQSHALLPIEFSLDGLDDSQKW--ALPLKVCEDANGTYAVNPRKYYRTAVLRPI 152
Query: 182 GVMDYSGGYVIHLSSGIAGFTAAYWVGPRSTKDRERFPPN-NVIMMLAG 229
++SG + S + G A S+ + + +++ AG
Sbjct: 153 LFNEFSGRFS---GSSLLGTMAGESDIKFSSTEIKLNVVTDSIVFFYAG 198
>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 = 30.6 bits (68), Expect = 1.2
Identities = 38/255 (14%), Positives = 67/255 (26%), Gaps = 88/255 (34%)
Query: 210 RSTKDRERFPPNNVIMMLAGAGLLWMGWAGFNGGDPYTANIDSSMAVLNTNICAATSLLV 269
R D + F NV + PY L A L
Sbjct: 118 RLYNDNQVFAKYNV-----------------SRLQPYLK--------LRQ---ALLEL-- 147
Query: 270 WTWLDVIFFKKPSVIGAVQGMITGLVCITPGAGLVQGWAAI-------VMGILSGSVPWF 322
+P+ + G+ G+G + W A+ V + + W
Sbjct: 148 ----------RPAKNVLIDGV--------LGSG--KTWVALDVCLSYKVQCKMDFKIFWL 187
Query: 323 TM-------MFIHKRWTLLQKIDDTLSVFHTHAVAGLLG-----GVLTGLFAEPKL--CS 368
+ + LL +ID + H+ L L L C
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247
Query: 369 LFL-PVTNSRGGVYGGSGGIQILKQLAGAAFIIGWNVVVTSIICVIINKVIPLRMTEEQL 427
L L V N++ AF + +++T+ + + + T L
Sbjct: 248 LVLLNVQNAK-----------AWN-----AFNLSCKILLTTRFKQVTDFLSAATTTHISL 291
Query: 428 LIGDDAVHGEEAYAL 442
+ +E +L
Sbjct: 292 DHHSMTLTPDEVKSL 306
>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 = 30.4 bits (68), Expect = 1.6
Identities = 46/281 (16%), Positives = 84/281 (29%), Gaps = 97/281 (34%)
Query: 159 LWLTFSYTVGAFSLWGGGFLFHWGVMDYSGGYVIHLSSGIAGFTAAY--------WVGPR 210
L+ T+ VG + +S + L + W+
Sbjct: 176 LYQTYHVLVGDL-------------IKFSAETLSELIRTTLDAEKVFTQGLNILEWL--- 219
Query: 211 STKDRERFPPNNVIMMLAGA-------GLLWMGW-------AGFNGGDPYTANIDSSMAV 256
++ P + L G++ + GF G+ +
Sbjct: 220 --ENPSNTPDKDY---LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGE--LRSYLKGATG 272
Query: 257 LNTNICAATSL-LVWTWLDVIFFKKPSVIGAVQGM-ITGLVC--ITPGAGLVQGWAAIVM 312
+ + A ++ +W FF SV A+ + G+ C P L +I+
Sbjct: 273 HSQGLVTAVAIAETDSWES--FFV--SVRKAITVLFFIGVRCYEAYPNTSL---PPSILE 325
Query: 313 GILSGS--VPWFTMMF-IH--KRWTLLQKIDDT-----------LSVF--HTHAV-AG-- 351
L + VP + M I + + ++ T +S+ + V +G
Sbjct: 326 DSLENNEGVP--SPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPP 383
Query: 352 --LLGGVL--------TGL------FAE--PKLCSLFLPVT 374
L G L +GL F+E K + FLPV
Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVA 424
Score = 28.1 bits (62), Expect = 7.2
Identities = 28/149 (18%), Positives = 47/149 (31%), Gaps = 46/149 (30%)
Query: 83 KAGPALGQ--------KFLIKQSALPETTQFHDD--GSVETAMVLPFYPMASMVWFQC-- 130
KA L Q K LP + FH + ++ ++ +
Sbjct: 397 KAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPA-SDLINKDLVKNNVSFNAKDI 455
Query: 131 ---VFAAIT---LVILAGSVLGRMNIKAWMAFVPL-W---LTFSYTVGAFSLWGGGFLFH 180
V+ L +L+GS+ R I + +P+ W F T H
Sbjct: 456 QIPVYDTFDGSDLRVLSGSISER--IVDCIIRLPVKWETTTQFKAT-------------H 500
Query: 181 WGVMDY-SGGYVIHLSSGIAGFTAAYWVG 208
++D+ GG +SG+ T G
Sbjct: 501 --ILDFGPGG-----ASGLGVLTHRNKDG 522
>2j7a_C Cytochrome C quinol dehydrogenase NRFH; cytochrome C nitrite
reductase, NRFA, NAPC/NIRT family, membrane complex,
oxidoreductase; HET: HEM LMT; 2.3A {Desulfovibrio
vulgaris} PDB: 2vr0_C*
Length = 159
Score = 28.2 bits (62), Expect = 3.9
Identities = 10/36 (27%), Positives = 18/36 (50%)
Query: 212 TKDRERFPPNNVIMMLAGAGLLWMGWAGFNGGDPYT 247
++++ R P + ++L GA L + A G YT
Sbjct: 2 SEEKSRNGPARLKLVLGGATLGVVALATVAFGMKYT 37
>2xov_A Rhomboid protease GLPG; membrane protein, hydrolase, intramembrane
protease; HET: BNG; 1.65A {Escherichia coli} PDB:
2ic8_A* 2nrf_A 2xtu_A* 2irv_A* 3b45_A* 2o7l_A* 2xow_A*
3txt_A* 2xtv_A* 3b44_A*
Length = 181
Score = 26.9 bits (60), Expect = 10.0
Identities = 11/62 (17%), Positives = 19/62 (30%), Gaps = 1/62 (1%)
Query: 181 WGVMDYSGGYVIHLSSGIAGFTAAYWV-GPRSTKDRERFPPNNVIMMLAGAGLLWMGWAG 239
+ +SG + LS + W+ G R + +I L W G
Sbjct: 97 YVQQKFSGPWFGGLSGVVYALMGYVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFDLFG 156
Query: 240 FN 241
+
Sbjct: 157 MS 158
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
0.325 0.139 0.459
Gapped
Lambda K H
0.267 0.0718 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,297,405
Number of extensions: 450338
Number of successful extensions: 1022
Number of sequences better than 10.0: 1
Number of HSP's gapped: 991
Number of HSP's successfully gapped: 42
Length of query: 452
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 355
Effective length of database: 3,993,456
Effective search space: 1417676880
Effective search space used: 1417676880
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 (26.5 bits)