RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 044901
(478 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 = 336 bits (864), Expect = e-112
Identities = 128/426 (30%), Positives = 203/426 (47%), Gaps = 35/426 (8%)
Query: 18 MNKGDNAWQLTAATLVGLQSIPGLVILYGSLVHKKWAINSAFMAFYAFAMVFVCWVGWAY 77
M+ G+ AW L + LV + +PG+ Y +V +K A+N ++F + + + W+ + Y
Sbjct: 1 MSDGNVAWILASTALV-MLMVPGVGFFYAGMVRRKNAVNMIALSFISLIITVLLWIFYGY 59
Query: 78 RMSFGERLVNFLGKPNVALDEKFLLGQAFLGYIPTATMVFFQGVFACITLILIAGALIGR 137
+SFG + +G L+ L G + +Q +FA +T+ ++ A+ R
Sbjct: 60 SVSFGNDISGIIG----GLNYALLSGVK----GEDLLFMMYQMMFAAVTIAILTSAIAER 111
Query: 138 MNFRAWMLFVPLWLTCSYTVAAFSIWCPNGWLAKLGIIDFAGGYVIHVSAGVAGFTASYW 197
+++L LWLT Y A +W GWLAKLG +DFAGG V+H+S+G A +
Sbjct: 112 AKVSSFILLSALWLTFVYAPFAHWLW-GGGWLAKLGALDFAGGMVVHISSGFAALAVAMT 170
Query: 198 VGPRSDKDREKFPPNNIILMLAGAGLLWMGWSGFNGGGPFAISTDASLAILNTHVCTSTS 257
+G R+ + P++I L L GA LLW GW GFNGG A + A A++ T+ + +
Sbjct: 171 IGKRAGFEEYSIEPHSIPLTLIGAALLWFGWFGFNGGSALAANDVAINAVVVTNTSAAVA 230
Query: 258 LLTWLLLDTSFYGKPSVIGAVQGMITGLVCITPAAGVVQGWAALFMGLISGSVPWYTMMV 317
W+++ GKP +G V G I GL ITPAAG V A+ +GL++G V + M
Sbjct: 231 GFVWMVIGW-IKGKPGSLGIVSGAIAGLAAITPAAGFVDVKGAIVIGLVAGIVCYL-AMD 288
Query: 318 LHNKIGLLRLVDDPMAVFHTHAVAGTLGGILTGFFAVPKLCRLFYMLPDWEKYIGLAYGL 377
K +D+ + + H + G G + G A P+ Y GL +G
Sbjct: 289 FRIKKK----IDESLDAWAIHGIGGLWGSVAVGILAN----------PEVNGYAGLLFG- 333
Query: 378 QNGRTSAGLRQMGVQLLGIAFVICLNIATTSIICWLIGLIVPLRLSKDELNIG-DEAVHG 436
+ + QL+ +A T I+ + V LR+S E +G D + H
Sbjct: 334 -------NPQLLVSQLIAVASTTAYAFLVTLILAKAVDAAVGLRVSSQEEYVGLDLSQHE 386
Query: 437 EKAFAL 442
E A+ L
Sbjct: 387 EVAYTL 392
>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 = 327 bits (841), Expect = e-109
Identities = 145/410 (35%), Positives = 210/410 (51%), Gaps = 30/410 (7%)
Query: 15 PEWMNKGDNAWQLTAATLVGLQSIPGLVILYGSLVHKKWAINSAFMAFYAFAMVFVCWVG 74
P +K DNA+ + LV +IPG+ + YG L+ K ++ FA+V + WV
Sbjct: 2 PAVADKADNAFMMICTALVLFMTIPGIALFYGGLIRGKNVLSMLTQVTVTFALVCILWVV 61
Query: 75 WAYRMSFGERLVNFLGKPNVALDEKFLLG---QAFLGYIPTATMVFFQGVFACITLILIA 131
+ Y ++ GE NF G ++ L A +G I V FQG FACIT+ LI
Sbjct: 62 YGYSLASGEGN-NFFG----NINWLMLKNIELTAVMGSIYQYIHVAFQGSFACITVGLIV 116
Query: 132 GALIGRMNFRAWMLFVPLWLTCSYTVAAFSIWCPNGWLAKLGIIDFAGGYVIHVSAGVAG 191
GAL R+ F A ++FV +WLT SY A +W G LA G +DFAGG V+H++A +AG
Sbjct: 117 GALAERIRFPAVLIFVVVWLTLSYIPIAHMVW-GGGLLASHGALDFAGGTVVHINAAIAG 175
Query: 192 FTASYWVGPRSDKDREKFPPNNIILMLAGAGLLWMGWSGFNGGGPFAISTDASLAILNTH 251
+Y +G R +E F P+N+ ++ G +L++GW GFN G + A+LA +NT
Sbjct: 176 LVGAYLIGKRVGFGKEAFKPHNLPMVFTGTAILYIGWFGFNAGSAGTANEIAALAFVNTV 235
Query: 252 VCTSTSLLTWLLLDTSFYGKPSVIGAVQGMITGLVCITPAAGVVQGWAALFMGLISGSVP 311
V T+ ++L W+ + + G PS++GA G I GLV +TPA G + AL +G+++G
Sbjct: 236 VATAAAILGWIFGEWALRGLPSLLGACSGAIAGLVGVTPACGYIGVGGALIIGVVAGLAG 295
Query: 312 WYTMMVLHNKIGLLRLVDDPMAVFHTHAVAGTLGGILTGFFAVPKLCRLFYMLPDWEKYI 371
+ + +L + VDDP VF H V G +G I+TG FA L +
Sbjct: 296 LWGVTMLKRLLR----VDDPCDVFGVHGVCGIVGCIMTGIFAASSLGG-----------V 340
Query: 372 GLAYGLQNGRTSAGLRQMGVQLLGIAFVICLNIATTSIICWLIGLIVPLR 421
G A G+ G Q+ VQL IA I + I L L V LR
Sbjct: 341 GFAEGVTMG------HQLLVQLESIAITIVWSGVVAFIGYKLADLTVGLR 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 = 1e-67
Identities = 72/394 (18%), Positives = 125/394 (31%), Gaps = 41/394 (10%)
Query: 51 KKWAINSAFMAFYAFAMVFVCWVGWAYRMSFGERLVNFLGKPNVALDEKFLLGQAFLGYI 110
++IN M F + V + + + G LV G P L G
Sbjct: 17 YNYSINILAMLLVGFGFLMVFVRRYGFSATTGTYLVVATGLPLYILLRAN--GIFGHALT 74
Query: 111 PTATMVFFQGVFACITLILIAGALIGRMNFRAWMLFVPLWLTCSYTVAAFSIWCPNGWLA 170
P + FA T ++ GA++GR+ + L L++ Y + + + N
Sbjct: 75 PHSVDAVIYAEFAVATGLIAMGAVLGRLRVFQYALLA-LFIVPVYLLNEWLVL-DNASGL 132
Query: 171 KLGIIDFAGGYVIHVSAGVAGFTASYWVGPRSDKDR-EKFPPNNIILMLAGAGLLWMGWS 229
G D AG IH G S + + + + + + + G+ +LW+ W
Sbjct: 133 TEGFQDSAGSIAIHAFGAYFGLGVSIALTTAAQRAQPIESDATSDRFSMLGSMVLWLFWP 192
Query: 230 GFNGGGPFAISTDASLAILNTHVCTSTSLLTWLLLDTSF-YGKPSVIGAVQGMITGLVCI 288
F I+NT + + L L F GK S++ + G V I
Sbjct: 193 SFATA--IVPFEQMPQTIVNTLLALCGATLATYFLSALFHKGKASIVDMANAALAGGVAI 250
Query: 289 TPAAGVVQGWAALFMGLISGSVPWYTMMVLHNKIGLLRLVDDPMAVFHTHAVAGTLGGIL 348
+V A +GL+ G++ + + + D V + H + G LGG
Sbjct: 251 GSVCNIVGPVGAFVIGLLGGAISVVGFVFIQPMLESKAKTIDTCGVHNLHGLPGLLGGFS 310
Query: 349 TGFFAVPKLCRLFYMLPDWEKYIGLAYGLQNGRTSAGLRQMGVQLLGIAFVICLNIATTS 408
QL GI + L +
Sbjct: 311 AILIVP--------------------------------GIAVAQLTGIGITLALALIGGV 338
Query: 409 IICWLIGLIVPLRLSKDELNIG-DEAVHGEKAFA 441
I LI L + + ++ + A ++ A
Sbjct: 339 IAGALIKLTGTTKQAYEDSHEFIHLAGPEDEHKA 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 = 198 bits (506), Expect = 3e-58
Identities = 67/419 (15%), Positives = 144/419 (34%), Gaps = 34/419 (8%)
Query: 60 MAFYAFAMVFVCWVGWAYRMSFGERLVNFLGKPNVALDEKFLLGQAFLGYIPTATMVFFQ 119
M F F + + + L+ G L + + YI
Sbjct: 74 MVFVGFGFLMTFLQRYGFSAVGFNFLLAAFGIQWALLMQGWF-HFLQDRYIVVGVENLIN 132
Query: 120 GVFACITLILIAGALIGRMNFRAWMLFVPLWLTCSYTVAAFSIWCPNGWLAKLGIIDFAG 179
F ++ + GA++G+++ ++ V F++ L L + D G
Sbjct: 133 ADFCVASVCVAFGAVLGKVSPIQLLIMTFFQ------VTLFAVN-EFILLNLLKVKDAGG 185
Query: 180 GYVIHVSAGVAGFTASYWVGPRS---DKDREKFPPNNIILMLAGAGLLWMGWSGFNGGGP 236
IH G T + + R+ K+R+ + + + G LWM W FN
Sbjct: 186 SMTIHTFGAYFGLTVTRILYRRNLEQSKERQNSVYQSDLFAMIGTLFLWMYWPSFNSAIS 245
Query: 237 FAISTDASLAILNTHVCTSTSLLTWLLLDTSF--YGKPSVIGAVQGMITGLVCI-TPAAG 293
+ A +NT+ + +LT + + ++ GK ++ + G V + T A
Sbjct: 246 YHG-DSQHRAAINTYCSLAACVLTSVAISSALHKKGKLDMVHIQNATLAGGVAVGTAAEM 304
Query: 294 VVQGWAALFMGLISGSVPWYTMMVLHNKIGLLRLVDDPMAVFHTHAVAGTLGGILTGFFA 353
++ + AL +G + G + + L + + D + + H + G +GGI+ A
Sbjct: 305 MLMPYGALIIGFVCGIISTLGFVYLTPFLESRLHIQDTCGINNLHGIPGIIGGIVGAVTA 364
Query: 354 VPKLCRLFYMLPDWEKYIGLAYGLQNGRTSAGLRQMGVQLLGIAFVICLNIATTSIICWL 413
++ + + Q Q+ G+ + + + I+ +
Sbjct: 365 ASASLEVYGKEGLVHSFDFQGFNGD----WTARTQGKFQIYGLLVTLAMALMGGIIVGLI 420
Query: 414 IGLIVPLRLSKDELNIGDEAVHGEKAFALVDDRERFEVSPKHNSVYDIEEFSYVGSRSV 472
+ L + S + +D +E+ +++VY E+ ++ S
Sbjct: 421 LRLPFWGQPSDEN---------------CFEDAVYWEMPEGNSTVYIPEDPTFKPSGPS 464
>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 = 40.8 bits (95), Expect = 0.001
Identities = 59/406 (14%), Positives = 112/406 (27%), Gaps = 165/406 (40%)
Query: 82 GERLVNFLGKPNVALDEKFL-----------LGQA--------FLGYIPTATMVFFQGVF 122
G ++ +L P+ D+ +L + Q LG+ P + +G
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT 271
Query: 123 ACITLILIAGALIGRMNFRAWMLFVPLWLTCSYTVAAFSIWCPNGWLAKLGIIDFAGGYV 182
++ A A +A W F
Sbjct: 272 GHSQGLVTAVA-----------------------IAETDSW-----------ESF----- 292
Query: 183 IHVSAGVAGFTASYWVGPRSDKDREKFPPNNI---IL-------------MLAGAGL--- 223
+ T +++G R E +P ++ IL ML+ + L
Sbjct: 293 --FVSVRKAITVLFFIGVRC---YEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQE 347
Query: 224 -LWMGWSGFNGGGPFAISTDASLAILNTH---VCTS--TSLLTWLLLDTSFYGKPSVIGA 277
+ + N P ++++N V + SL L+ + + G
Sbjct: 348 QVQDYVNKTNSHLPA--GKQVEISLVNGAKNLVVSGPPQSLYG---LNLTLRKAKAPSGL 402
Query: 278 VQGMITG-----------LVCIT---------PAAGVVQGWAALFMGLISGSVPWYTMMV 317
Q I L + PA+ ++ L+ +V +
Sbjct: 403 DQSRIPFSERKLKFSNRFLP-VASPFHSHLLVPASDLINKD------LVKNNVSF----- 450
Query: 318 LHNKIGLLRLVDDPMAVFHTH------AVAGTLGGILTGFFAVPKLCRLFYMLP-DWEK- 369
+++ P V+ T ++G++ ++ LP WE
Sbjct: 451 ---NAKDIQI---P--VYDTFDGSDLRVLSGSI---------SERIVDCIIRLPVKWETT 493
Query: 370 ------YIGLAYGLQNGRTS--AGLRQMGVQLLGIAFVICLNIATT 407
+I L +G G S L G+ VI +A T
Sbjct: 494 TQFKATHI-LDFGP--GGASGLGVLTHRNKDGTGVR-VI---VAGT 532
Score = 30.8 bits (69), Expect = 1.1
Identities = 86/545 (15%), Positives = 148/545 (27%), Gaps = 213/545 (39%)
Query: 41 LVILYGSLVHKKWAINSAFMAFYAFAMVFVCWVGWAYRMSFGERLVNFLGKP--NVALDE 98
L + +GSL H + F A + + F + L +P A D+
Sbjct: 9 LTLSHGSLEHV-LLV-PTASFFIASQL----------QEQFNKIL----PEPTEGFAADD 52
Query: 99 KF-----LLGQAFLGYIPTATMVFFQGVF-ACITLIL---------------IAGALIGR 137
+ L+G+ FLGY+ + G F + L L +A L+
Sbjct: 53 EPTTPAELVGK-FLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQE 111
Query: 138 MNFRAWMLFVPLWLTCSYTVAA-----FSIWCPNGWL-------AKLGIIDFAGGYVIHV 185
++ + T F + A+L I F GG
Sbjct: 112 N--DTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI-F-GG----- 162
Query: 186 SAGVAGFTASYWVGPRSDKDRE---KFPPNNIILMLAGAGLLWMGWSGFNGGGPFAISTD 242
G T Y+ ++ R+ + L+ A L T
Sbjct: 163 ----QGNTDDYF-----EELRDLYQTYHVLVGDLIKFSAETLS----------ELI-RTT 202
Query: 243 ASLAILNTHVCTSTSLLTWL----------LLDTSFYGKPSVIGAVQ-----------GM 281
+ T ++L WL L + P +IG +Q G
Sbjct: 203 LDAEKVFTQGL---NILEWLENPSNTPDKDYLLSIPISCP-LIGVIQLAHYVVTAKLLGF 258
Query: 282 ITGLV------CITPAAGVVQGWAALFMGLISGSVPW-------YTMMVLHNKIGL---- 324
G + + G+V A+ I+ + W + + IG+
Sbjct: 259 TPGELRSYLKGATGHSQGLV---TAVA---IAETDSWESFFVSVRKAITVLFFIGVRCYE 312
Query: 325 --------LRLVDD----------PMAVFHTHAVAG-TLGGILTGFFAVPKLCRLFYMLP 365
+++D PM +++ T + V K LP
Sbjct: 313 AYPNTSLPPSILEDSLENNEGVPSPML-----SISNLTQEQVQD---YVNKTNS---HLP 361
Query: 366 DWEKYIGLAYGLQNGRTSAGLRQMGVQLLGIAFVICLNIATTSIICWLIGLIVPLRLSK- 424
K + ++ L NG + V+ + L GL + LR +K
Sbjct: 362 A-GKQVEIS--LVNGAKN--------------LVVSGPPQS------LYGLNLTLRKAKA 398
Query: 425 ----DELNI--GDEAVHGEKAF-----------------ALVDDRERFEVSPKHNS---- 457
D+ I + + F + D + VS
Sbjct: 399 PSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 458 VYDIE 462
VYD
Sbjct: 459 VYDTF 463
Score = 30.8 bits (69), Expect = 1.1
Identities = 18/92 (19%), Positives = 32/92 (34%), Gaps = 28/92 (30%)
Query: 26 QLT--AATLVGLQSIPGLV--ILYGSLVHKKWAINSAFMA-------FY-----AFAMVF 69
QL T L PG + L G+ H + + + +A F+ A ++F
Sbjct: 245 QLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLF 304
Query: 70 VCWVGWAYRMSFGERLVNFLGKPNVALDEKFL 101
++G ++ PN +L L
Sbjct: 305 --FIGVRCYEAY----------PNTSLPPSIL 324
>3scy_A Hypothetical bacterial 6-phosphogluconolactonase; 7-bladed
beta-propeller, structural genomics, joint center F
structural genomics, JCSG; HET: MSE; 1.50A {Bacteroides
fragilis} PDB: 3fgb_A
Length = 361
Score = 29.8 bits (67), Expect = 2.0
Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 156 TVAAFSIWCPNGWLAKLGIIDFAGGYVIHVSA-GVAGFTASYWVG 199
V+AF+ G L L G +++ G TA+Y G
Sbjct: 76 AVSAFAFDKEKGTLHLLNTQKTMGADPCYLTTNGKNIVTANYSGG 120
>3ewl_A Uncharacterized conserved protein BF1870; alpha-beta fold,
structural genomics, PSI-2, protein structu initiative;
2.00A {Bacteroides fragilis}
Length = 142
Score = 26.9 bits (60), Expect = 9.5
Identities = 5/34 (14%), Positives = 13/34 (38%)
Query: 11 DEANPEWMNKGDNAWQLTAATLVGLQSIPGLVIL 44
W+ + A + L +++ P + +L
Sbjct: 83 VYMPQGWIVGWNKAGDIRTRQLYDIRATPTIYLL 116
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
0.326 0.141 0.461
Gapped
Lambda K H
0.267 0.0645 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,678,209
Number of extensions: 477145
Number of successful extensions: 1145
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1112
Number of HSP's successfully gapped: 24
Length of query: 478
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 381
Effective length of database: 3,993,456
Effective search space: 1521506736
Effective search space used: 1521506736
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 59 (26.7 bits)