RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16206
(821 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 = 365 bits (938), Expect = e-114
Identities = 142/574 (24%), Positives = 259/574 (45%), Gaps = 51/574 (8%)
Query: 2 KIVGIFGPNEEEVATAFEIAVRRINKDFKALPPDIILEPIVQHVENYDSLHTAKLMCNAT 61
+I G+F ++ +AF + + + + + L P + ++E +S C+
Sbjct: 4 QIGGLFPRGADQEYSAFRVGMVQFST------SEFRLTPHIDNLEVANSFAVTNAFCSQF 57
Query: 62 SEGIAAIFGPQSIENRNIIESMCQMFDIPHVEAFWDPNKYFIPTNGVHGVNVYPESHLIS 121
S G+ AIFG ++ N I S C + + + + + P+ +
Sbjct: 58 SRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFPT-----DGTHPFVIQMRPD---LK 109
Query: 122 KGISVIINDMDWDTFTIIYETHDNLVYLQQVLENAHDDDKEIRPGRPSVTIRQLPPDTDD 181
+ +I WD F +Y++ L LQ VL++A + ++ +V +
Sbjct: 110 GALLSLIEYYQWDKFAYLYDSDRGLSTLQAVLDSAAEKKWQVTA--INVGNINNDKKDET 167
Query: 182 YRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLMGDYQNYILSLTSYWINAHTVDF 241
YR L ++++ E ++LDC DK I+ Q + +YI+ + D
Sbjct: 168 YRSLFQDLELKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYII----ANLGFTDGDL 223
Query: 242 QDFQPGYANITTVRMINPTNPHIRSIMNGWIYEENERGRSLNVRAETVKIEAALMYDAVY 301
Q G A ++ ++++ + + + W E T+K +AL YDAV
Sbjct: 224 LKIQFGGAEVSGFQIVDYDDSLVSKFIERW--STLEEKEYPGAHTATIKYTSALTYDAVQ 281
Query: 302 LFAAALQSLGE------RKPLPTPLSCENPSSWQHGLGIGNLMKSITIDGMTGRINLDSQ 355
+ A ++L + R+ W G+ I +K + ++G++G I D
Sbjct: 282 VMTEAFRNLRKQRIEISRRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLSGNIKFDQN 341
Query: 356 TGRRNSFSLEFVEYVSDQWKVLGTWNTAFGLNHSRTVEQMDKEKKEKIENRTLTVTSKTF 415
G+R ++++ +E ++ + +G W+ + + ++ +E +T+ VT+
Sbjct: 342 -GKRINYTINIMELKTNGPRKIGYWSEVDKMV-------LTEDDTSGLEQKTVVVTT--- 390
Query: 416 AKLRVLFQGEPYMMKNPETGELY------GYSVDLIKMIANELNFTYKFVLERENTYGTL 469
PY+M L GY VDL IA F YK + + YG
Sbjct: 391 ------ILESPYVMMKANHAALAGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGAR 444
Query: 470 NPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRKPAKKQPD 529
+ T WNG++GEL +AD+AI LTIT R +DF+ PFM+LGISI+ +KP K +P
Sbjct: 445 DADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKPG 504
Query: 530 LFSFLEPLSFDVWVYMATAYLGVSLLLFFLARIS 563
+FSFL+PL++++W+ + AY+GVS++LF ++R S
Sbjct: 505 VFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFS 538
Score = 101 bits (252), Expect = 4e-22
Identities = 45/120 (37%), Positives = 62/120 (51%), Gaps = 3/120 (2%)
Query: 704 FVLERENTYGTLNPQTGKWNGLIGELQEQVDTF--ILFFIYSILFFIYT-FVNEAVSTRL 760
F++ R + Y + L+F ++S R+
Sbjct: 532 FLVSRFSPYEWHTEEFEDGRETQSSESTNEFGIFNSLWFSLGAFMQQGADISPRSLSGRI 591
Query: 761 VAGMWWFFTLIMISSYTANLAAFLTNTRMNPPIKNVEDLAKAGRIKYGCVEMGSTRNFFK 820
V G+WWFFTLI+ISSYTANLAAFLT RM PI++ EDL+K I YG ++ GST+ FF+
Sbjct: 592 VGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLSKQTEIAYGTLDSGSTKEFFR 651
Score = 94.1 bits (233), Expect = 6e-20
Identities = 44/103 (42%), Positives = 61/103 (59%), Gaps = 2/103 (1%)
Query: 565 GSRLRYSAKNSNVSLYQRMHSAMESSRPSVFVKSNKEGVERVVKEKGKYAFFMESTGIEY 624
+ + S ++++ +M + M S+ PSVFV++ EGV RV K KGKYA+ +EST EY
Sbjct: 643 SGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEY 702
Query: 625 EVEK-NCDLMQVGGLLDSKGYGIAMPT-SKFLAKFSFGFAKLR 665
++ CD M+VGG LDSKGYGIA P S + KL
Sbjct: 703 IEQRKPCDTMKVGGNLDSKGYGIATPKGSSLGTPVNLAVLKLS 745
Score = 56.7 bits (136), Expect = 2e-08
Identities = 23/68 (33%), Positives = 29/68 (42%), Gaps = 6/68 (8%)
Query: 671 EPYMMKNPETGELY------GYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNG 724
PY+M L GY VDL IA F YK + + YG + T WNG
Sbjct: 394 SPYVMMKANHAALAGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNG 453
Query: 725 LIGELQEQ 732
++GEL
Sbjct: 454 MVGELVYG 461
>3h6g_A Glutamate receptor, ionotropic kainate 2; membrane protein
glycoprotein, cell junction, cell membrane,
glycoprotein, ION transport; HET: NAG TLA; 2.70A {Rattus
norvegicus} PDB: 3h6h_A* 3qlv_C 3qlu_C* 3qlt_A* 3olz_A*
Length = 395
Score = 248 bits (635), Expect = 4e-75
Identities = 114/403 (28%), Positives = 196/403 (48%), Gaps = 34/403 (8%)
Query: 1 MKIVGIFGPNEEEVA----TAFEIAVRRINKDFKALPPDIILEPIVQHVENYDSLHTAKL 56
++ GIF E AF AV IN++ LP + L Q + YDS +K
Sbjct: 5 LRFGGIFEYVESGPMGAEELAFRFAVNTINRNRTLLP-NTTLTYDTQKINLYDSFEASKK 63
Query: 57 MCNATSEGIAAIFGPQSIENRNIIESMCQMFDIPHVEAFWDPN------KYFIPTNGVHG 110
C+ S G+AAIFGP + N ++S+C +PH++ W +++
Sbjct: 64 ACDQLSLGVAAIFGPSHSSSANAVQSICNALGVPHIQTRWKHQVSDNKDSFYV------- 116
Query: 111 VNVYPESHLISKGISVIINDMDWDTFTIIYETHDNLVYLQQVLENAHDDDKEIRPGRPSV 170
++YP+ +S+ I ++ W T T++Y+ L+ LQ++++ + +
Sbjct: 117 -SLYPDFSSLSRAILDLVQFFKWKTVTVVYDDSTGLIRLQELIKAPSRYNLRL------- 168
Query: 171 TIRQLPPDTDDYRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLMGDYQNYILSLT 230
IRQLP DT D +PLLKE+K E H++ DCS + ILKQA + +M +Y +YI +
Sbjct: 169 KIRQLPADTKDAKPLLKEMKRGKEFHVIFDCSHEMAAGILKQALAMGMMTEYYHYIFTT- 227
Query: 231 SYWINAHTVDFQDFQPGYANITTVRMINPTNPHIRSIMNGWIYEENERGRSLN--VRAET 288
++ +D + ++ N+T R++N N + SI+ W E + + +
Sbjct: 228 ---LDLFALDVEPYRYSGVNMTGFRILNTENTQVSSIIEKWSMERLQAPPKPDSGLLDGF 284
Query: 289 VKIEAALMYDAVYLFAAALQSLGERKPLPTPLSCENPSSWQHGLGIGNLMKSITIDGMTG 348
+ +AALMYDAV++ + A+Q + + L C W+ G +L+K +G+TG
Sbjct: 285 MTTDAALMYDAVHVVSVAVQQFPQMTV--SSLQCNRHKPWRFGTRFMSLIKEAHWEGLTG 342
Query: 349 RINLDSQTGRRNSFSLEFVEYVSDQWKVLGTWNTAFGLNHSRT 391
RI + G R F L+ + + + +GTW+ A GLN + +
Sbjct: 343 RITFNKTNGLRTDFDLDVISLKEEGLEKIGTWDPASGLNMTES 385
>3hsy_A Glutamate receptor 2; ligand-gated ION channel, synapse, cell CELL
membrane, endoplasmic reticulum, glycoprotein, ION TRA
ionic channel; HET: NAG BMA; 1.75A {Rattus norvegicus}
PDB: 3h5v_A* 3h5w_A 3o2j_A* 2wjw_A* 2wjx_A 3n6v_A
Length = 376
Score = 240 bits (614), Expect = 3e-72
Identities = 78/396 (19%), Positives = 164/396 (41%), Gaps = 29/396 (7%)
Query: 2 KIVGIFGPNEEEVATAFEIAVRRINKDFKALPPDIILEPIVQHVENYDSLHTAKLMCNAT 61
+I G+F ++ +AF + + + + + L P + ++E +S C+
Sbjct: 4 QIGGLFPRGADQEYSAFRVGMVQFSTS------EFRLTPHIDNLEVANSFAVTNAFCSQF 57
Query: 62 SEGIAAIFGPQSIENRNIIESMCQMFDIPHVEAFWDPNKYFIPTNGVHGVNVYPESHLIS 121
S G+ AIFG ++ N I S C + + + + + + P+ +
Sbjct: 58 SRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFPTDGTH-----PFVIQMRPD---LK 109
Query: 122 KGISVIINDMDWDTFTIIYETHDNLVYLQQVLENAHDDDKEIRPGRPSVTIRQLPPDTDD 181
+ +I WD F +Y++ L LQ VL++A + ++ +V +
Sbjct: 110 GALLSLIEYYQWDKFAYLYDSDRGLSTLQAVLDSAAEKKWQVTA--INVGNINNDKKDET 167
Query: 182 YRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLMGDYQNYILSLTSYWINAHTVDF 241
YR L ++++ E ++LDC DK I+ Q + +YI++ + D
Sbjct: 168 YRSLFQDLELKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIA----NLGFTDGDL 223
Query: 242 QDFQPGYANITTVRMINPTNPHIRSIMNGWIYEENERGRSLNVRAETVKIEAALMYDAVY 301
Q G AN++ ++++ + + + W E T+K +AL YDAV
Sbjct: 224 LKIQFGGANVSGFQIVDYDDSLVSKFIERW--STLEEKEYPGAHTATIKYTSALTYDAVQ 281
Query: 302 LFAAALQSLGE------RKPLPTPLSCENPSSWQHGLGIGNLMKSITIDGMTGRINLDSQ 355
+ A ++L + R+ W G+ I +K + ++G++G I D
Sbjct: 282 VMTEAFRNLRKQRIEISRRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLSGNIKFDQN 341
Query: 356 TGRRNSFSLEFVEYVSDQWKVLGTWNTAFGLNHSRT 391
G+R ++++ +E ++ + +G W+ + + T
Sbjct: 342 -GKRINYTINIMELKTNGPRKIGYWSEVDKMVVTLT 376
>3o21_A Glutamate receptor 3; periplasmatic binding protein,
oligomerization, membrane, TR protein; HET: NAG; 2.20A
{Rattus norvegicus} PDB: 3p3w_A
Length = 389
Score = 235 bits (599), Expect = 5e-70
Identities = 84/393 (21%), Positives = 156/393 (39%), Gaps = 30/393 (7%)
Query: 2 KIVGIFGPNEEEVATAFEIAVRRINKDFKALPPDIILEPIVQHVENYDSLHTAKLMCNAT 61
I G+F N + +AF AV+ N + L V H+++ +S C+
Sbjct: 7 SIGGLFMRNTVQEHSAFRFAVQLYNTNQNTTEKPFHLNYHVDHLDSSNSFSVTNAFCSQF 66
Query: 62 SEGIAAIFGPQSIENRNIIESMCQMFDIPHVEAFWDPNKYFIPTNGVHGVNVYPESHLIS 121
S G+ AIFG + N + S C V + + + + P +
Sbjct: 67 SRGVYAIFGFYDQMSMNTLTSFCGALHTSFVTPSFPTDADVQ-----FVIQMRPA---LK 118
Query: 122 KGISVIINDMDWDTFTIIYETHDNLVYLQQVLENAHDDDKEIRPGRPSVTIRQLPP--DT 179
I +++ W+ F +Y+T LQ ++E A VT R + D
Sbjct: 119 GAILSLLSYYKWEKFVYLYDTERGFSVLQAIMEAA-------VQNNWQVTARSVGNIKDV 171
Query: 180 DDYRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLMGDYQNYILSLTSYWINAHTV 239
++R +++E+ E L+DC +++ TIL+Q + +Y+L+ + +
Sbjct: 172 QEFRRIIEEMDRRQEKRYLIDCEVERINTILEQVVILGKHSRGYHYMLA----NLGFTDI 227
Query: 240 DFQDFQPGYANITTVRMINPTNPHIRSIMNGWIYEENERGRSLNVRAETVKIEAALMYDA 299
+ G ANIT +++N NP ++ + W + + +K +AL +DA
Sbjct: 228 LLERVMHGGANITGFQIVNNENPMVQQFIQRW--VRLDEREFPEAKNAPLKYTSALTHDA 285
Query: 300 VYLFAAALQSLGERK------PLPTPLSCENPSSWQHGLGIGNLMKSITIDGMTGRINLD 353
+ + A A + L ++ W G+ I +K + + GMTG I D
Sbjct: 286 ILVIAEAFRYLRRQRVDVSRRGSAGDCLANPAVPWSQGIDIERALKMVQVQGMTGNIQFD 345
Query: 354 SQTGRRNSFSLEFVEYVSDQWKVLGTWNTAFGL 386
+ GRR +++++ E + G WN
Sbjct: 346 TY-GRRTNYTIDVYEMKVSGSRKAGYWNEYERF 377
>3saj_A Glutamate receptor 1; rossman fold, ION channel, membrane,
transport protein; HET: NAG BMA MAN; 2.50A {Rattus
norvegicus}
Length = 384
Score = 233 bits (595), Expect = 2e-69
Identities = 90/396 (22%), Positives = 165/396 (41%), Gaps = 34/396 (8%)
Query: 2 KIVGIFGPNEEEVATAFEIAVRRINKDFKALPPDIILEPIVQHVENYDSLHTAKLMCNAT 61
+I G+F + + AF A+ ++ + K L P + V DS C+
Sbjct: 12 QIGGLFPNQQSQEHAAFRFALSQLTEPPK-------LLPQIDIVNISDSFEMTYRFCSQF 64
Query: 62 SEGIAAIFGPQSIENRNIIESMCQMFDIPHVEAFWDPNKYFIPTNGVHGVNVYPESHLIS 121
S+G+ AIFG N++ S C + + + T+ + + PE +
Sbjct: 65 SKGVYAIFGFYERRTVNMLTSFCGALHVCFITPSFPV-----DTSNQFVLQLRPE---LQ 116
Query: 122 KGISVIINDMDWDTFTIIYETHDNLVYLQQVLENAHDDDKEIRPGRPSVTIRQLPPDTDD 181
+ + II+ W TF IY+ L LQ+VL+ A + + ++ + L +
Sbjct: 117 EALISIIDHYKWQTFVYIYDADRGLSVLQRVLDTAAEKNWQV------TAVNILTTTEEG 170
Query: 182 YRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLMGDYQNYILSLTSYWINAHTVDF 241
YR L ++++ E +++DC ++ IL Q ++ G +YIL + +D
Sbjct: 171 YRMLFQDLEKKKERLVVVDCESERLNAILGQIVKLEKNGIGYHYIL----ANLGFMDIDL 226
Query: 242 QDFQPGYANITTVRMINPTNPHIRSIMNGWIYEENERGRSLNVRAETVKIEAALMYDAVY 301
F+ AN+T +++N T+ IM W ++ V + K +AL YD V
Sbjct: 227 NKFKESGANVTGFQLVNYTDTIPARIMQQW--RTSDSRDHTRVDWKRPKYTSALTYDGVK 284
Query: 302 LFAAALQSLGE------RKPLPTPLSCENPSSWQHGLGIGNLMKSITIDGMTGRINLDSQ 355
+ A A QSL R+ W G+ I ++ + +G+TG + + +
Sbjct: 285 VMAEAFQSLRRQRIDISRRGNAGDCLANPAVPWGQGIDIQRALQQVRFEGLTGNVQFNEK 344
Query: 356 TGRRNSFSLEFVEYVSDQWKVLGTWNTAFGLNHSRT 391
GRR +++L +E D + +G WN +
Sbjct: 345 -GRRTNYTLHVIEMKHDGIRKIGYWNEDDKFVPAAL 379
>3om0_A Glutamate receptor, ionotropic kainate 5; membrane protein, ION
channel; HET: NAG BMA GOL; 1.40A {Rattus norvegicus}
PDB: 3om1_A* 3qlu_A* 3qlv_A
Length = 393
Score = 231 bits (589), Expect = 2e-68
Identities = 81/405 (20%), Positives = 179/405 (44%), Gaps = 22/405 (5%)
Query: 2 KIVGIFGPNE---EEVATAFEIAVRRINKDFKALPPDIILEPIVQHVENYDSLHTAKLMC 58
++ I A +A +IN +P +E + ++ T MC
Sbjct: 6 RMAAILDDQTVCGRGERLALALAREQINGI-IEVPAKARVEVDIFELQRDSQYETTDTMC 64
Query: 59 NATSEGIAAIFGPQ-SIENRNIIESMCQMFDIPHVEAFWDPNKYFIPTNGVHGVNVYPES 117
+G+ ++ GP S + + + +C +IPH++ + + V++YP +
Sbjct: 65 QILPKGVVSVLGPSSSPASASTVSHICGEKEIPHIKVGPEETP-RLQYLRFASVSLYPSN 123
Query: 118 HLISKGISVIINDMDWDTFTIIYETHDNLVYLQQVLENAHDDDKEIRPGRPSVTIRQLPP 177
+S +S I+ ++ + ++I + L+ L++++ + + ++++R L
Sbjct: 124 EDVSLAVSRILKSFNYPSASLICAKAECLLRLEELV-------RGFLISKETLSVRMLDD 176
Query: 178 DTDDYRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLMGDYQNYILSLTSYWINAH 237
+ D PLLKEI++ S I++D + + +L++A E+ + + YIL+ ++
Sbjct: 177 -SRDPTPLLKEIRDDKVSTIIIDANASISHLVLRKASELGMTSAFYKYILT----TMDFP 231
Query: 238 TVDFQDFQPGYANITTVRMINPTNPHIRSIMNGWIYEENERGRSLNVRAETVKIEAALMY 297
+ +NI M N ++P + + R + AALM+
Sbjct: 232 ILHLDGIVEDSSNILGFSMFNTSHPFYPEFVRSL--NMSWRENCEASTYPGPALSAALMF 289
Query: 298 DAVYLFAAALQSLGERKPL-PTPLSCENPSSWQHGLGIGNLMKSITIDGMTGRINLDSQT 356
DAV++ +A++ L + + PL+C + + W HG + N ++ + DG+TGR+ +S+
Sbjct: 290 DAVHVVVSAVRELNRSQEIGVKPLACTSANIWPHGTSLMNYLRMVEYDGLTGRVEFNSK- 348
Query: 357 GRRNSFSLEFVEYVSDQWKVLGTWNTAFGLNHSRTVEQMDKEKKE 401
G+R +++L +E + +G W + L + T + +
Sbjct: 349 GQRTNYTLRILEKSRQGHREIGVWYSNRTLAMNATTLDILELVPR 393
>3g3k_A Glutamate receptor, ionotropic kainate 2; membrane protein, cell
junction, cell membrane, glycoprotein, ION transport,
ionic channel, membrane; HET: GLU IPA; 1.24A {Rattus
norvegicus} PDB: 3g3j_A* 3g3i_A* 2i0b_A* 3g3h_A* 3g3g_A*
3g3f_A* 1s7y_A* 1s9t_A* 1sd3_A* 1tt1_A* 1s50_A* 2xxr_A*
2xxt_A* 2xxx_A* 2xxw_A* 2xxy_A* 2xxu_A* 2xxv_A* 3qxm_A*
2i0c_A* ...
Length = 259
Score = 207 bits (529), Expect = 1e-61
Identities = 95/269 (35%), Positives = 138/269 (51%), Gaps = 38/269 (14%)
Query: 404 ENRTLTVTSKTFAKLRVLFQGEPYMMKNPE------TGELYGYSVDLIKMIANELNFTYK 457
NR+L VT+ EPY++ GY +DL++ ++ L FTY+
Sbjct: 2 SNRSLIVTTIL---------EEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTHLGFTYE 52
Query: 458 FVLERENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGIS 517
L + YG + G+WNG++ EL + +ADLA+ L IT R +DF+ PFMTLGIS
Sbjct: 53 IRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREEVIDFSKPFMTLGIS 112
Query: 518 ILYRKPAKKQPDLFSFLEPLSFDVWVYMATAYLGVSLLLFFLARISSGSRLRYSAKNSNV 577
ILYR + + L+ + G ++ F K S +
Sbjct: 113 ILYR-----KGTPIDSADDLAKQTKIEYGAVEDGATMTFF---------------KRSKI 152
Query: 578 SLYQRMHSAMESSRPSVFVKSNKEGVERVVKEKGKYAFFMESTGIEYEVEKNCDLMQVGG 637
S Y +M + M S R SV VKSN+EG++RV+ YAF MEST IE+ ++NC+L Q+GG
Sbjct: 153 STYDKMWAFMSSRRQSVLVKSNEEGIQRVL--TSDYAFLMESTTIEFVTQRNCNLTQIGG 210
Query: 638 LLDSKGYGIAMPT-SKFLAKFSFGFAKLR 665
L+DSKGYG+ P S + K + KL+
Sbjct: 211 LIDSKGYGVGTPMGSPYRDKITLAILKLQ 239
Score = 72.7 bits (178), Expect = 3e-14
Identities = 41/165 (24%), Positives = 65/165 (39%), Gaps = 43/165 (26%)
Query: 671 EPYMMKNPE------TGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNG 724
EPY++ GY +DL++ ++ L FTY+ L + YG + G+WNG
Sbjct: 14 EPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTHLGFTYEIRLVEDGKYGAQDDVNGQWNG 73
Query: 725 LIGELQEQVDTFILFFIYSILFFIYTFVNEAVSTRLVAGM--------WWFFTLIMISSY 776
++ EL + VA + F+ ++
Sbjct: 74 MVRELIDHKADLA-----------------------VAPLAITYVREEVIDFSKPFMTLG 110
Query: 777 TANLAAFLTNTRMNPPIKNVEDLAKAGRIKYGCVEMGSTRNFFKV 821
+ L R PI + +DLAK +I+YG VE G+T FFK
Sbjct: 111 ISIL------YRKGTPIDSADDLAKQTKIEYGAVEDGATMTFFKR 149
>1yae_A Glutamate receptor, ionotropic kainate 2; kainate receptor,
membrane protein; HET: NAG FUC DOQ; 3.11A {Rattus
norvegicus} SCOP: c.94.1.1
Length = 312
Score = 206 bits (526), Expect = 1e-60
Identities = 107/289 (37%), Positives = 154/289 (53%), Gaps = 25/289 (8%)
Query: 401 EKIENRTLTVTSKTFAKLRVLFQGEPYMMKNPE------TGELYGYSVDLIKMIANELNF 454
+ + NR+L VT+ EPY++ GY +DL++ ++ L F
Sbjct: 8 DSLSNRSLIVTTIL---------EEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGF 58
Query: 455 TYKFVLERENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTL 514
TY+ L + YG + G+WNG++ EL + +ADLA+ L IT R +DF+ PFMTL
Sbjct: 59 TYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTL 118
Query: 515 GISILYRKPAKKQPDLFSFLEPLSFDVWVYMATAYLGVSL-LLFFLARISSGSRLRYSA- 572
GISILYRKP P +FSFL S S L +I G+ +
Sbjct: 119 GISILYRKPNGTNPGVFSFLNGGSLVPRGSERMESPIDSADDLAKQTKIEYGAVEDGATM 178
Query: 573 ---KNSNVSLYQRMHSAMESSRPSVFVKSNKEGVERVVKEKGKYAFFMESTGIEYEVEKN 629
K S +S Y +M + M S R SV VKSN+EG++RV+ YAF MEST IE+ ++N
Sbjct: 179 TFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVL--TSDYAFLMESTTIEFVTQRN 236
Query: 630 CDLMQVGGLLDSKGYGIAMPT-SKFLAKFSFGFAKLRVLFQGEPYMMKN 677
C+L Q+GGL+DSKGYG+ P S + K + +L+ +G+ +MMK
Sbjct: 237 CNLTQIGGLIDSKGYGVGTPMGSPYRDKITIAILQLQ--EEGKLHMMKE 283
Score = 90.6 bits (224), Expect = 6e-20
Identities = 44/165 (26%), Positives = 72/165 (43%), Gaps = 20/165 (12%)
Query: 671 EPYMMKNPE------TGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNG 724
EPY++ GY +DL++ ++ L FTY+ L + YG + G+WNG
Sbjct: 23 EPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNG 82
Query: 725 LIGELQEQV------DTFILFFIYSILFFIYTFVNEAVS---TRLVAGMWWFFTLIMISS 775
++ EL + I + ++ F F+ +S + F+ + S
Sbjct: 83 MVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRKPNGTNPGVFSFLNGGS 142
Query: 776 YTANLAAFLTNTRMNPPIKNVEDLAKAGRIKYGCVEMGSTRNFFK 820
+ RM PI + +DLAK +I+YG VE G+T FFK
Sbjct: 143 LV-----PRGSERMESPIDSADDLAKQTKIEYGAVEDGATMTFFK 182
>1mqi_A Glutamate receptor 2; GLUR2, ligand binding core, S1S2, partial
agonist, WILLARDIINES, fluoro-WILLARDIINE, membrane
protein; HET: FWD; 1.35A {Rattus norvegicus} SCOP:
c.94.1.1 PDB: 1ftj_A* 1ftl_A* 1fto_A 1fw0_A* 1m5b_A*
1ftm_A* 1m5c_A* 1mm6_A* 1mm7_A* 1mqg_A* 1m5e_A* 1mqj_A*
1ms7_A* 1mxu_A* 1mxv_A 1mxw_A 1mxx_A 1mxy_A 1mxz_A
1my0_A ...
Length = 263
Score = 196 bits (499), Expect = 2e-57
Identities = 96/269 (35%), Positives = 131/269 (48%), Gaps = 37/269 (13%)
Query: 405 NRTLTVTSKTFAKLRVLFQGEPYMMKNP------ETGELYGYSVDLIKMIANELNFTYKF 458
N+T+ VT+ PY+M GY VDL IA F YK
Sbjct: 3 NKTVVVTTILE---------SPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKL 53
Query: 459 VLERENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISI 518
+ + YG + T WNG++GEL +AD+AI LTIT R +DF+ PFM+LGISI
Sbjct: 54 TIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISI 113
Query: 519 LYRKPAKKQPDLFSFLEPLSFDVWVYMATAYLGVSLLLFFLARISSGSRLRYSAKNSNVS 578
+ +K + E LS + T G + F + S ++
Sbjct: 114 MIKKGTPIESA-----EDLSKQTEIAYGTLDSGSTKEFF---------------RRSKIA 153
Query: 579 LYQRMHSAMESSRPSVFVKSNKEGVERVVKEKGKYAFFMESTGIEYEVEKN-CDLMQVGG 637
++ +M + M S+ PSVFV++ EGV RV K KGKYA+ +EST EY ++ CD M+VGG
Sbjct: 154 VFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGG 213
Query: 638 LLDSKGYGIAMPT-SKFLAKFSFGFAKLR 665
LDSKGYGIA P S + KL
Sbjct: 214 NLDSKGYGIATPKGSSLGNAVNLAVLKLN 242
Score = 84.3 bits (208), Expect = 4e-18
Identities = 40/156 (25%), Positives = 62/156 (39%), Gaps = 27/156 (17%)
Query: 671 EPYMMKNP------ETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNG 724
PY+M GY VDL IA F YK + + YG + T WNG
Sbjct: 14 SPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNG 73
Query: 725 LIGELQEQVDTFILFFIYSILFFIYTFVNEAVSTRLVAGMWWFFTLIMISSYTANLAAFL 784
++GEL + A++ + + +I S +L +
Sbjct: 74 MVGELVYGK------------------ADIAIAPLTITLVRE--EVIDFSKPFMSLGISI 113
Query: 785 TNTRMNPPIKNVEDLAKAGRIKYGCVEMGSTRNFFK 820
+ PI++ EDL+K I YG ++ GST+ FF+
Sbjct: 114 M-IKKGTPIESAEDLSKQTEIAYGTLDSGSTKEFFR 148
>2v3u_A Glutamate receptor delta-2 subunit; postsynaptic membrane,
ionotropic glutamate receptors, transmembrane, membrane
protein; 1.74A {Rattus norvegicus} PDB: 2v3t_A
Length = 265
Score = 187 bits (475), Expect = 4e-54
Identities = 67/269 (24%), Positives = 117/269 (43%), Gaps = 34/269 (12%)
Query: 405 NRTLTVTSKTFAKLRVLFQGEPYMMKNP----ETGELYGYSVDLIKMIANELNFTYKFVL 460
L V + P++M + + + G+S+D++ ++N L F Y+ +
Sbjct: 2 GVVLRVVTVLEE---------PFVMVSENVLGKPKKYQGFSIDVLDALSNYLGFNYEIYV 52
Query: 461 ERENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILY 520
++ YG+ + G WNGL+GEL +RAD+ I LTIT +R VDFT +M + +L
Sbjct: 53 APDHKYGSPQ-EDGTWNGLVGELVFKRADIGISALTITPDRENVVDFTTRYMDYSVGVLL 111
Query: 521 RKPAKKQPDLFSFLEPLSFDVWVYMATAYLGVSLLLFFLARISSGSRLRYSAKNSNVSLY 580
R+ L+ LS + T + ++ R +Y
Sbjct: 112 RRGTS-----IQSLQDLSKQTDIPYGTVLDSAVYQHVRMKGLNPFERDS---------MY 157
Query: 581 QRMHSAMESSRPSVF-VKSNKEGVERVVKEKGKYAFFMESTGIEYEVEKN--CDLMQVGG 637
+M + S S V ++ G+++V + G YAF ++ +EY + C VG
Sbjct: 158 SQMWRMINRSNGSENNVLESQAGIQKV--KYGNYAFVWDAAVLEYVAINDPDCSFYTVGN 215
Query: 638 LLDSKGYGIAMP-TSKFLAKFSFGFAKLR 665
+ +GYGIA+ S + FS +L+
Sbjct: 216 TVADRGYGIALQHGSPYRDVFSQRILELQ 244
Score = 68.2 bits (166), Expect = 1e-12
Identities = 34/156 (21%), Positives = 64/156 (41%), Gaps = 28/156 (17%)
Query: 671 EPYMMKNP----ETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLI 726
EP++M + + + G+S+D++ ++N L F Y+ + ++ YG+ + G WNGL+
Sbjct: 13 EPFVMVSENVLGKPKKYQGFSIDVLDALSNYLGFNYEIYVAPDHKYGSPQ-EDGTWNGLV 71
Query: 727 GELQE-QVDTFILFFIYSILFFIYTFVNEAVSTRLVAGMWWFFTLIMISSYTANLAAFLT 785
GEL + D I A++ FT +
Sbjct: 72 GELVFKRADIGI----------------SALTITPDRENVVDFTTRYMDYSVG------V 109
Query: 786 NTRMNPPIKNVEDLAKAGRIKYGCVEMGSTRNFFKV 821
R I++++DL+K I YG V + ++
Sbjct: 110 LLRRGTSIQSLQDLSKQTDIPYGTVLDSAVYQHVRM 145
>1pb7_A N-methyl-D-aspartate receptor subunit 1; ligand binding receptor,
NR1, ligand binding protein; 1.35A {Rattus norvegicus}
SCOP: c.94.1.1 PDB: 1pbq_A* 1y1m_A 1y1z_A 1y20_A 2a5t_A*
1pb8_A 1pb9_A
Length = 292
Score = 140 bits (355), Expect = 2e-37
Identities = 58/246 (23%), Positives = 103/246 (41%), Gaps = 31/246 (12%)
Query: 426 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTL----NPQTGKWNGLIG 481
P ++ YG+ +DL+ +A +NFTY+ L + +GT N +WNG++G
Sbjct: 52 PGSPRHTVPQCCYGFCIDLLIKLARTMNFTYEVHLVADGKFGTQERVNNSNKKEWNGMMG 111
Query: 482 ELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRKPAK-KQPDLFSFLEPLSFD 540
EL +AD+ + LTI +ER ++F+ PF G++IL +K + + P
Sbjct: 112 ELLSGQADMIVAPLTINNERAQYIEFSKPFKYQGLTILVKKGTRITGINDPRLRNPSDKF 171
Query: 541 VWVYMATAYLGVSLLLFFLARISSGSRLRYSAKNSNVSLYQRMHSAMESSRPSVFVKSNK 600
++ + + + + M+ ME +S
Sbjct: 172 IYATVKQSSVDIYF--------------------RRQVELSTMYRHME----KHNYESAA 207
Query: 601 EGVERVVKEKGKYAFFMESTGIEYEVEKNCDLMQVGGLLDSKGYGIAMP-TSKFLAKFSF 659
E ++ V++ +AF +S +E+E + CDL+ G L G+GI M S + S
Sbjct: 208 EAIQA-VRDNKLHAFIWDSAVLEFEASQKCDLVTTGELFFRSGFGIGMRKDSPWKQNVSL 266
Query: 660 GFAKLR 665
K
Sbjct: 267 SILKSH 272
Score = 58.1 bits (140), Expect = 3e-09
Identities = 20/63 (31%), Positives = 33/63 (52%), Gaps = 4/63 (6%)
Query: 672 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTL----NPQTGKWNGLIG 727
P ++ YG+ +DL+ +A +NFTY+ L + +GT N +WNG++G
Sbjct: 52 PGSPRHTVPQCCYGFCIDLLIKLARTMNFTYEVHLVADGKFGTQERVNNSNKKEWNGMMG 111
Query: 728 ELQ 730
EL
Sbjct: 112 ELL 114
>3qek_A NMDA glutamate receptor subunit; amino terminal domain, ION
channel, NMDA receptor, allosteri modulation,
phenylethanolamine, polyamine; HET: NAG BMA; 2.00A
{Xenopus laevis} PDB: 3qel_A* 3qem_A* 3q41_A*
Length = 384
Score = 134 bits (338), Expect = 3e-34
Identities = 69/416 (16%), Positives = 128/416 (30%), Gaps = 68/416 (16%)
Query: 2 KIVGIFGPNEEEVATAFEIAVRRINKDFKALPPDIILEPIVQHVENYDSLHTAKLMCNA- 60
I + + E F AV + NK I L +++ A +C
Sbjct: 7 NIGAVLSTKKHE--QIFREAVNQANKRH--FTRKIQL-QATSVTHRPNAIQMALSVCEDL 61
Query: 61 TSEGIAAIF-----GPQSIENRNIIESMCQMFDIPHVEAFWDPNKYFIPTNGVHGVNVYP 115
S + AI P I + IP + + Y + + + P
Sbjct: 62 ISSQVYAILVSHPPAPTDHLTPTPISYTAGFYRIPVIGLTTRMSIYSDKSIHLSFLRTVP 121
Query: 116 ESHLISKGISVIINDMDWDTFTIIYETHDNLVYLQQVLENAHDD---------------- 159
+ ++ +W+ +I Q+ LE +
Sbjct: 122 PYSHQALVWFEMMRLFNWNHVILIVSDDHEGRAAQKKLETLLEGKESKSKKRNYENLDQL 181
Query: 160 DKEIRPGRPSVTIRQLPPDTDDYRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLM 219
+ + G + + Q P T + LL E K I+L S D + K A + +
Sbjct: 182 SYDNKRGPKADKVLQFEPGTKNLTALLLEAKELEARVIILSASEDDATAVYKSAAMLDMT 241
Query: 220 GDYQNYILSLTSYWINAHTVDFQDFQPGYANITTVRMINPTNPHIRSIMNGWIYEENERG 279
G +++ I+ + + P ++NG +
Sbjct: 242 GAGYVWLV--GEREISGSALRY----------------APDGIIGLQLINGKNESAH--- 280
Query: 280 RSLNVRAETVKIEAALMYDAVYLFAAALQSLGERKPLPTPLS--CENPSSWQHGLGI-GN 336
+ DAV + A A+ L E + + P N + W+ G
Sbjct: 281 ----------------ISDAVAVVAQAIHELFEMENITDPPRGCVGNTNIWKTGPLFKRV 324
Query: 337 LMKSITIDGMTGRINLDSQTGRRNSFSLEFVEYVSDQWKVLGTWNTAFGLNHSRTV 392
LM S DG+TGRI + G R + + + +G +N ++ + + R +
Sbjct: 325 LMSSKYPDGVTGRIEFNED-GDRKFAQYSIMNLQNRKLVQVGIFNGSYIIQNDRKI 379
>3qel_B Glutamate [NMDA] receptor subunit epsilon-2; ION channel,
allosteric modulation, phenylethanolamine,
N-glycosylation, extracellular; HET: NAG BMA MAN FUC
QEL; 2.60A {Rattus norvegicus} PDB: 3qem_B* 3jpw_A*
3jpy_A*
Length = 364
Score = 129 bits (324), Expect = 1e-32
Identities = 50/391 (12%), Positives = 108/391 (27%), Gaps = 55/391 (14%)
Query: 1 MKIVGIFGPNEEEVATAFEIAVRRINKDFKALPPDIILEPIVQHVENYDSLHTAKLMCNA 60
+ I I +EVA + A + + ++ + + D +C+
Sbjct: 5 IGIAVILVGTSDEVA--IKDAHEKDD----FHHLSVVPRVELVAMNETDPKSIITRICDL 58
Query: 61 -TSEGIAAIFGPQSIENR---NIIESMCQMFDIPHVEAFWDPNKYFIP-TNGVHGVNVYP 115
+ I + + I++ + P + + P
Sbjct: 59 MSDRKIQGVVFADDTDQEAIAQILDFISAQTLTPILGIHGGSSMIMADKDESSMFFQFGP 118
Query: 116 ESHLISKGISVIINDMDWDTFTIIYETHDNLVYLQQVLENAHDDDKEIRPGRPSVTIRQL 175
+ + I+ + DW F+I+ + + ++ + V + +
Sbjct: 119 SIEQQASVMLNIMEEYDWYIFSIVTTYFPGYQDFVNKIRSTIEN-SFVGWELEEVLLLDM 177
Query: 176 PPDTDDYRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLMGDYQNYILSLTSYWIN 235
D D + ++K ILL C+ ++ I + A V L G
Sbjct: 178 SLD-DGDSKIQNQLKKLQSPIILLYCTKEEATYIFEVANSVGLTG--------------- 221
Query: 236 AHTVDFQDFQPGYANITTVRMINPTNPHIRSIMNGWIYEENERGRSLNVRAETVKIEAAL 295
GY I + T+ G I + A
Sbjct: 222 ----------YGYTWIVPSLVAGDTDTVPSEFPTGLISVSYDEWDYG---------LPAR 262
Query: 296 MYDAVYLFAAALQSLGERKPL--PTPLSCEN--PSSWQHGLGIGNLMKSITIDGMTGRIN 351
+ D + + A + SC N + + ++T +G +
Sbjct: 263 VRDGIAIITTAASDMLSEHSFIPEPKSSCYNTHEKRIYQSNMLNRYLINVTFEGRDLSFS 322
Query: 352 LDSQTGRRNSFSLEFVEYVSDQ-WKVLGTWN 381
D G + L + ++ W+ +G W
Sbjct: 323 ED---GYQMHPKLVIILLNKERKWERVGKWK 350
>2rc8_A Glutamate [NMDA] receptor subunit 3A; membrane protein, cell
junction, glycoprotein, ION transport channel,
magnesium; 1.45A {Rattus norvegicus} PDB: 2rc7_A 2rc9_A
2rca_A 2rcb_A
Length = 294
Score = 110 bits (275), Expect = 1e-26
Identities = 57/244 (23%), Positives = 99/244 (40%), Gaps = 34/244 (13%)
Query: 426 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQE 485
P K YGY +DL++ +A ++NF + + + YG + G W GL+G+L
Sbjct: 61 PIKFKK----CCYGYCIDLLEQLAEDMNFDFDLYIVGDGKYGAW--KNGHWTGLVGDLLS 114
Query: 486 QRADLAICDLTITSERRAAVDFTMPFMTLGISILYRKPAKKQPDLFSFLEPLSFDVWVYM 545
A++A+ +I + R +DFT PF + + IL R + +
Sbjct: 115 GTANMAVTSFSINTARSQVIDFTSPFFSTSLGILVRTRGTELSG-IHDPKLHHPSQGF-- 171
Query: 546 ATAYLGVSLLLFFLARISSGSRLRYSAKNSNVSLYQRMHSAMESSRPSVFVKSNKEGVER 605
G+ SA++ + MH M V + +GV+
Sbjct: 172 -----------------RFGTVRESSAEDYVRQSFPEMHEYMR----RYNVPATPDGVQY 210
Query: 606 VVKEKGKY-AFFMESTGIEYEVEKN--CDLMQVGGLLDSKGYGIAMP-TSKFLAKFSFGF 661
+ + K AF M+ ++YEV + C L+ VG +GYGI +P S + S
Sbjct: 211 LKNDPEKLDAFIMDKALLDYEVSIDADCKLLTVGKPFAIEGYGIGLPPNSPLTSNISELI 270
Query: 662 AKLR 665
++ +
Sbjct: 271 SQYK 274
Score = 48.1 bits (114), Expect = 5e-06
Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 7/64 (10%)
Query: 672 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQE 731
P K YGY +DL++ +A ++NF + + + YG + G W GL+G+L
Sbjct: 61 PIKFKK----CCYGYCIDLLEQLAEDMNFDFDLYIVGDGKYGAW--KNGHWTGLVGDLLS 114
Query: 732 -QVD 734
+
Sbjct: 115 GTAN 118
>2a5s_A N-methyl-D-aspartate receptor nmdar2A subunit, NMDA receptor
nmdar2A; protein-ligand complex, metal
transport,membrane protein; HET: GLU; 1.70A {Rattus
norvegicus} SCOP: c.94.1.1 PDB: 2a5t_B* 3oen_A* 3oel_A*
3oem_A* 3oek_A*
Length = 284
Score = 105 bits (262), Expect = 5e-25
Identities = 51/240 (21%), Positives = 90/240 (37%), Gaps = 32/240 (13%)
Query: 432 PETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQEQRADLA 491
G+ +D++K ++ + FTY L +G WNG+IGE+ QRA +A
Sbjct: 52 NVKKCCKGFCIDILKKLSRTVKFTYDLYLVTNGKHGKKVN--NVWNGMIGEVVYQRAVMA 109
Query: 492 ICDLTITSERRAAVDFTMPFMTLGISILYRKPAK-KQPDLFSFLEPLSFDVWVYMATAYL 550
+ LTI ER VDF++PF+ GIS++ + + F P + T
Sbjct: 110 VGSLTINEERSEVVDFSVPFVETGISVMVSRGTQVTGLSDKKFQRPHDYSPPFRFGT--- 166
Query: 551 GVSLLLFFLARISSGSRLRYSAKNSNVSLYQRMHSAMESSRPSVFVKSNKEGVERVVKEK 610
N + R + + F + E +K
Sbjct: 167 ---------------------VPNGSTERNIRNNYPYMHQYMTRFNQRGVEDALVSLKTG 205
Query: 611 GKYAFFMESTGIEYEVEKN--CDLMQVGG--LLDSKGYGIAMP-TSKFLAKFSFGFAKLR 665
AF ++ + Y+ ++ C L+ +G + + GYGIA+ S + + +
Sbjct: 206 KLDAFIYDAAVLNYKAGRDEGCKLVTIGSGYIFATTGYGIALQKGSPWKRQIDLALLQFV 265
Score = 51.2 bits (122), Expect = 5e-07
Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 678 PETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ 730
G+ +D++K ++ + FTY L +G WNG+IGE+
Sbjct: 52 NVKKCCKGFCIDILKKLSRTVKFTYDLYLVTNGKHGKKVN--NVWNGMIGEVV 102
>1jdp_A NPR-C, atrial natriuretic peptide clearance receptor;
hormone-receptor complex, natriuretic peptide receptor,
ALLO activation, signaling protein; HET: NDG NAG; 2.00A
{Homo sapiens} SCOP: c.93.1.1 PDB: 1jdn_A* 1yk0_A*
1yk1_A*
Length = 441
Score = 99.4 bits (247), Expect = 3e-22
Identities = 62/408 (15%), Positives = 135/408 (33%), Gaps = 48/408 (11%)
Query: 4 VGIFGPNEEE-------VATAFEIAVRRINKD---FKALPPDIILEPIVQHVENYDSLHT 53
V + P ++ V A E A+R + + + LPP + + + +
Sbjct: 12 VLVLLPQDDSYLFSLTRVRPAIEYALRSVEGNGTGRRLLPPGTRFQVAYEDSDCGNRALF 71
Query: 54 AKL--MCNATSEGIAAIFGPQSIENRNIIESMCQMFDIPHV------EAFWDPNKYFIPT 105
+ + + A I GP + + +D+P + F + +
Sbjct: 72 SLVDRVAAARGAKPDLILGPVCEYAAAPVARLASHWDLPMLSAGALAAGFQHKDSEY-SH 130
Query: 106 NGVHGVNVYPESHLISKGISVIINDMDWDTFTIIYETHDNLVYLQQVLENAHDDDKEIRP 165
V P + + + + W ++Y LE H+ +E
Sbjct: 131 L----TRVAPAYAKMGEMMLALFRHHHWSRAALVYSDDKLERNCYFTLEGVHEVFQEE-- 184
Query: 166 GRPSVTIRQLPPDTDDYRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLM-GDYQN 224
G + D +++ I+ S I+ S D +I+ A + GDY
Sbjct: 185 GLHTSIYSFDETKDLDLEDIVRNIQASERVVIMC-ASSDTIRSIMLVAHRHGMTSGDYAF 243
Query: 225 YILSLTSY------WINAHTVDFQDFQPGYANITTVRMINPTNPHIRSIMNGWIYEENER 278
+ + L + + + Y+++ TV ++ P ++
Sbjct: 244 FNIELFNSSSYGDGSWKRGDKHDFEAKQAYSSLQTVTLLRTVKPEFEKFSMEVKSSVEKQ 303
Query: 279 GRSLNVRAETVKIEAALMYDAVYLFAAALQSLGERKPLPTPLSCENPSSWQHGLGIGNLM 338
G ++ + V + +DA+ L+ AL + S + G I
Sbjct: 304 GLNME---DYVNMFVEGFHDAILLYVLALHEVLRAGY-----------SKKDGGKIIQQT 349
Query: 339 KSITIDGMTGRINLDSQTGRRNSFS-LEFVEYVSDQWKVLGTWNTAFG 385
+ T +G+ G++++D+ R FS + + + +V+G + G
Sbjct: 350 WNRTFEGIAGQVSIDANGDRYGDFSVIAMTDVEAGTQEVIGDYFGKEG 397
>1dp4_A Atrial natriuretic peptide receptor A; periplasmic binding protein
fold, dimer, hormone/growth FACT receptor, lyase
complex; HET: NAG; 2.00A {Rattus norvegicus} SCOP:
c.93.1.1 PDB: 1t34_A* 3a3k_A*
Length = 435
Score = 96.4 bits (239), Expect = 4e-21
Identities = 50/397 (12%), Positives = 110/397 (27%), Gaps = 45/397 (11%)
Query: 14 VATAFEIAVRRINKDFKALPPDIILEPIVQHVENY-----DSLHTAKLMCNATSEGIAAI 68
V A E+A+ R+ L P + ++ EN D+ + A
Sbjct: 23 VGPAVELALARVKAR-PDLLPGWTVRMVLGSSENAAGVCSDTAAPLAAVDLKWEHSPAVF 81
Query: 69 FGPQSIENRNIIESMCQMFDIPHV------EAFWDPNKYFIPTNGVHGVNVYPESHLISK 122
GP + + + + +P + ++Y P +
Sbjct: 82 LGPGCVYSAAPVGRFTAHWRVPLLTAGAPALGIGVKDEY--ALT----TRTGPSHVKLGD 135
Query: 123 GISVIINDMDWDTFTIIYETHDNLVYLQQVLE-NAHDDDKEIRPGRPSVTIRQLPPDTDD 181
++ + + W+ ++ R + D D
Sbjct: 136 FVTALHRRLGWEHQALVLYADRLGDDRPCFFIVEGLYMRVRERLNITVNHQEFVEGDPDH 195
Query: 182 YRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLMGDYQNYILS------------- 228
Y LL+ ++ + S D ++ A L G+ +
Sbjct: 196 YPKLLRAVRRKGRVIYIC-SSPDAFRNLMLLALNAGLTGEDYVFFHLDVFGQSLKSAQGL 254
Query: 229 LTSYWINAHTVDFQDFQPGYANITTVRMINPTNPHIRSIMNGWIYEENERGRSLNVRAET 288
+ + + + + P NP + +++ + V
Sbjct: 255 VPQKPWERGDGQDRSARQAFQAAKIITYKEPDNPEYLEFLKQLKLLADKK-FNFTVEDGL 313
Query: 289 VKIEAALMYDAVYLFAAALQSLGERKPLPTPLSCENPSSWQHGLGIGNLMKSITIDGMTG 348
I A +D + L+ A+ + G I M + + G+TG
Sbjct: 314 KNIIPASFHDGLLLYVQAVTET-----------LAQGGTVTDGENITQRMWNRSFQGVTG 362
Query: 349 RINLDSQTGRRNSFSLEFVEYVSDQWKVLGTWNTAFG 385
+ +D R FSL ++ + ++V+ +N
Sbjct: 363 YLKIDRNGDRDTDFSLWDMDPETGAFRVVLNYNGTSQ 399
>2pyy_A Ionotropic glutamate receptor bacterial homologue; GLUR0 ligand
binding domain, transport protein; HET: GLU; 2.10A
{Nostoc punctiforme}
Length = 228
Score = 82.7 bits (205), Expect = 7e-18
Identities = 29/127 (22%), Positives = 54/127 (42%), Gaps = 23/127 (18%)
Query: 407 TLTVTSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTY 466
L V ++ P+++ GEL G+S+DL + IA ++ K +
Sbjct: 4 PLLVATRVIP---------PFVLS--NKGELSGFSIDLWRSIATQIGIESKLI------- 45
Query: 467 GTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRKPAKK 526
+ LI +++ + +L I ++IT+ER DF++P G+ I+ R
Sbjct: 46 -----EYSSVPELISAIKDNKVNLGIAAISITAEREQNFDFSLPIFASGLQIMVRNLESG 100
Query: 527 QPDLFSF 533
D+ S
Sbjct: 101 TGDIRSI 107
Score = 42.6 bits (101), Expect = 2e-04
Identities = 14/60 (23%), Positives = 26/60 (43%), Gaps = 13/60 (21%)
Query: 679 ETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQE-QVDTFI 737
GEL G+S+DL + IA ++ K + + LI +++ +V+ I
Sbjct: 19 NKGELSGFSIDLWRSIATQIGIESKLI------------EYSSVPELISAIKDNKVNLGI 66
>3kbr_A Cyclohexadienyl dehydratase; pseudomonas aeruginos structural
genomics, PSI-2, protein structure initiative; HET: EPE;
1.66A {Pseudomonas aeruginosa}
Length = 239
Score = 78.5 bits (194), Expect = 2e-16
Identities = 24/125 (19%), Positives = 48/125 (38%), Gaps = 25/125 (20%)
Query: 401 EKIENR-TLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANELNFTYKF 458
++I L V T+ + P+ + E G G+ VD+ + +A L
Sbjct: 9 DRILESGVLRVATTGDYK---------PFSYRT-EEGGYAGFDVDMAQRLAESLGAKLVV 58
Query: 459 VLERENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISI 518
V W L+ + + R D+A+ ++I ER+ F++P++ G +
Sbjct: 59 V-------------PTSWPNLMRDFADDRFDIAMSGISINLERQRQAYFSIPYLRDGKTP 105
Query: 519 LYRKP 523
+
Sbjct: 106 ITLCS 110
Score = 41.1 bits (97), Expect = 6e-04
Identities = 25/164 (15%), Positives = 47/164 (28%), Gaps = 55/164 (33%)
Query: 663 KLRVLFQGE--PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTG 720
LRV G+ P+ + E G G+ VD+ + +A L V
Sbjct: 16 VLRVATTGDYKPFSYRT-EEGGYAGFDVDMAQRLAESLGAKLVVV-------------PT 61
Query: 721 KWNGLIGELQ-EQVDTFILFFIYSILFFIYTFVNEAVSTRLVAGMW--------WFFTLI 771
W L+ + ++ D ++G+ +F+
Sbjct: 62 SWPNLMRDFADDRFDI------------------------AMSGISINLERQRQAYFS-- 95
Query: 772 MISSYTANLAAFLTNTRMNPPIKNVEDLAKAGRIKYGCVEMGST 815
Y + +T + +E + + G V G T
Sbjct: 96 --IPYLRDGKTPITLCSEEARFQTLEQIDQPGV-TAI-VNPGGT 135
>1ii5_A SLR1257 protein; membrane protein; HET: GLU; 1.60A {Synechocystis
SP} SCOP: c.94.1.1 PDB: 1iit_A 1iiw_A
Length = 233
Score = 78.1 bits (193), Expect = 3e-16
Identities = 22/119 (18%), Positives = 42/119 (35%), Gaps = 24/119 (20%)
Query: 407 TLTVTSKTFAKLRVLFQGEPY-MMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENT 465
L V P+ + G S+D+ + +A + ++V
Sbjct: 5 ALKVGVVGNP---------PFVFYGEGKNAAFTGISLDVWRAVAESQKWNSEYV------ 49
Query: 466 YGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRA--AVDFTMPFMTLGISILYRK 522
+ + I + E D+ I +++T ER A + FT P+ + GI +L
Sbjct: 50 ------RQNSISAGITAVAEGELDILIGPISVTPERAAIEGITFTQPYFSSGIGLLIPG 102
Score = 45.7 bits (109), Expect = 2e-05
Identities = 8/65 (12%), Positives = 21/65 (32%), Gaps = 13/65 (20%)
Query: 674 MMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ-EQ 732
+ G S+D+ + +A + ++V + + I + +
Sbjct: 18 FYGEGKNAAFTGISLDVWRAVAESQKWNSEYV------------RQNSISAGITAVAEGE 65
Query: 733 VDTFI 737
+D I
Sbjct: 66 LDILI 70
>2pvu_A ARTJ; basic amino acid binding protein, ABC transport system, THER
bacterium, transport protein; HET: LYS; 1.79A
{Geobacillus stearothermophilus} PDB: 2q2a_A* 2q2c_A*
Length = 272
Score = 78.5 bits (194), Expect = 4e-16
Identities = 31/130 (23%), Positives = 52/130 (40%), Gaps = 27/130 (20%)
Query: 404 ENRTLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLER 462
+ + V T FA P+ + G++ G+ VDL+ + Y+
Sbjct: 40 TKKKVVVGTDAAFA---------PFEYM--QKGKIVGFDVDLLDAVMKAAGLDYEL---- 84
Query: 463 ENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK 522
+ W+ L LQ + D+ I +TIT ER+ + DF+ P+ IL ++
Sbjct: 85 ---------KNIGWDPLFASLQSKEVDMGISGITITDERKQSYDFSDPYFEATQVILVKQ 135
Query: 523 --PAKKQPDL 530
P K DL
Sbjct: 136 GSPVKNALDL 145
Score = 41.9 bits (99), Expect = 5e-04
Identities = 13/60 (21%), Positives = 24/60 (40%), Gaps = 14/60 (23%)
Query: 679 ETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ-EQVDTFI 737
+ G++ G+ VDL+ + Y+ + W+ L LQ ++VD I
Sbjct: 59 QKGKIVGFDVDLLDAVMKAAGLDYEL-------------KNIGWDPLFASLQSKEVDMGI 105
>4f3p_A Glutamine-binding periplasmic protein; ssgcid, structural genomics,
GLUT seattle structural genomics center for infectious
disease; 2.40A {Burkholderia pseudomallei}
Length = 249
Score = 77.7 bits (192), Expect = 5e-16
Identities = 33/128 (25%), Positives = 54/128 (42%), Gaps = 25/128 (19%)
Query: 396 DKEKKEKIENRTLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANELNF 454
+ + + L V T +F P+ K + + G+ +DL IA +
Sbjct: 14 AQTQGPGSMAKELVVGTDTSFM---------PFEFK--QGDKYVGFDLDLWAEIAKGAGW 62
Query: 455 TYKFVLERENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTL 514
TYK Q + GLI LQ Q D+A+ +TI ERR A+DF+ P+
Sbjct: 63 TYKI-------------QPMDFAGLIPALQTQNIDVALSGMTIKEERRKAIDFSDPYYDS 109
Query: 515 GISILYRK 522
G++ + +
Sbjct: 110 GLAAMVQA 117
Score = 41.9 bits (99), Expect = 4e-04
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 14/60 (23%)
Query: 679 ETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ-EQVDTFI 737
+ + G+ +DL IA +TYK Q + GLI LQ + +D +
Sbjct: 41 QGDKYVGFDLDLWAEIAKGAGWTYKI-------------QPMDFAGLIPALQTQNIDVAL 87
>2iee_A ORF2, probable ABC transporter extracellular-binding protein YCKB;
SR574, NESG, X-RAY, structural genomics, PSI-2; 2.20A
{Bacillus subtilis}
Length = 271
Score = 78.1 bits (193), Expect = 5e-16
Identities = 25/126 (19%), Positives = 51/126 (40%), Gaps = 26/126 (20%)
Query: 401 EKIENR-TLTV-TSKTFAKLRVLFQGEP--YMMKNPETGELYGYSVDLIKMIANELNFTY 456
E+I+++ + V TS T P Y + + +L GY V++++ A L
Sbjct: 15 EQIKDKGKIVVATSGTLY---------PTSYHDTDSGSDKLTGYEVEVVREAAKRLGLKV 65
Query: 457 KFVLERENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGI 516
+F + +G++ + + D A D+ +T +R F+ P+
Sbjct: 66 EF-------------KEMGIDGMLTAVNSGQVDAAANDIDVTKDREEKFAFSTPYKYSYG 112
Query: 517 SILYRK 522
+ + RK
Sbjct: 113 TAIVRK 118
Score = 41.9 bits (99), Expect = 5e-04
Identities = 12/66 (18%), Positives = 25/66 (37%), Gaps = 14/66 (21%)
Query: 673 YMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ-E 731
Y + + +L GY V++++ A L +F + +G++ +
Sbjct: 36 YHDTDSGSDKLTGYEVEVVREAAKRLGLKVEF-------------KEMGIDGMLTAVNSG 82
Query: 732 QVDTFI 737
QVD
Sbjct: 83 QVDAAA 88
>3k4u_A Binding component of ABC transporter; structural genomics, protein
structure INI NEW YORK structural genomix research
consortium, nysgxrc; HET: LYS; 2.62A {Wolinella
succinogenes}
Length = 245
Score = 76.9 bits (190), Expect = 9e-16
Identities = 31/117 (26%), Positives = 52/117 (44%), Gaps = 24/117 (20%)
Query: 407 TLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENT 465
L V + P+ MK+ + G + G+ VDL + +A + K V
Sbjct: 6 ELRVGLEPGYL---------PFEMKD-KKGNVIGFDVDLAREMAKAMGVKLKLV------ 49
Query: 466 YGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK 522
W+GLI L ++ D+ I +TI+ ER V+F P++ +G S+L +K
Sbjct: 50 -------PTSWDGLIPGLVTEKFDIIISGMTISQERNLRVNFVEPYIVVGQSLLVKK 99
Score = 41.1 bits (97), Expect = 6e-04
Identities = 19/70 (27%), Positives = 30/70 (42%), Gaps = 16/70 (22%)
Query: 663 KLRVLFQGE--PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTG 720
+LRV + P+ MK+ + G + G+ VDL + +A + K V
Sbjct: 6 ELRVGLEPGYLPFEMKD-KKGNVIGFDVDLAREMAKAMGVKLKLV-------------PT 51
Query: 721 KWNGLIGELQ 730
W+GLI L
Sbjct: 52 SWDGLIPGLV 61
>3kzg_A Arginine 3RD transport system periplasmic binding protein; arginine
transport system, protein structure initiative II(PSI
II); 2.06A {Legionella pneumophila subsp}
Length = 237
Score = 76.2 bits (188), Expect = 1e-15
Identities = 29/127 (22%), Positives = 48/127 (37%), Gaps = 25/127 (19%)
Query: 407 TLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENT 465
LT+ TSK P+ + + LYG+ +DL++ I L+ T F
Sbjct: 4 NLTIGTSKFNP---------PFEVWSGNNSSLYGFDIDLMQEICRRLHATCTFE------ 48
Query: 466 YGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK--P 523
++ L L+ + DL I + IT ER+ F++P+M +
Sbjct: 49 -------AYIFDDLFPALKNREVDLVIASMIITDERKKHFIFSLPYMESNSQYITTVDSK 101
Query: 524 AKKQPDL 530
DL
Sbjct: 102 ISTFDDL 108
Score = 42.3 bits (100), Expect = 3e-04
Identities = 12/59 (20%), Positives = 23/59 (38%), Gaps = 13/59 (22%)
Query: 672 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ 730
P+ + + LYG+ +DL++ I L+ T F ++ L L+
Sbjct: 15 PFEVWSGNNSSLYGFDIDLMQEICRRLHATCTFE-------------AYIFDDLFPALK 60
>3h7m_A Sensor protein; histidine kinase sensor domain, kinase,
phosphoprotein, transferase; 2.40A {Geobacter
sulfurreducens}
Length = 234
Score = 76.1 bits (188), Expect = 1e-15
Identities = 26/120 (21%), Positives = 51/120 (42%), Gaps = 25/120 (20%)
Query: 404 ENRTLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLER 462
+RT+ V + + PY + + G+ GY+V+L + IA + T +F
Sbjct: 9 RHRTIVVGGDRDYP---------PYEFID-QNGKPAGYNVELTRAIAEVMGMTVEF---- 54
Query: 463 ENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK 522
+ G W+ + L+ R D + ++ + +R +DFT P + +I R+
Sbjct: 55 ---------RLGAWSEMFSALKSGRVD-VLQGISWSEKRARQIDFTPPHTIVYHAIFARR 104
Score = 43.4 bits (103), Expect = 1e-04
Identities = 14/59 (23%), Positives = 26/59 (44%), Gaps = 14/59 (23%)
Query: 672 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ 730
PY + + G+ GY+V+L + IA + T +F + G W+ + L+
Sbjct: 23 PYEFID-QNGKPAGYNVELTRAIAEVMGMTVEF-------------RLGAWSEMFSALK 67
>1wdn_A GLNBP, glutamine binding protein; closed form, complex, peptide,
complex (binding protein/peptide); 1.94A {Escherichia
coli} SCOP: c.94.1.1 PDB: 1ggg_A
Length = 226
Score = 73.8 bits (182), Expect = 6e-15
Identities = 31/117 (26%), Positives = 50/117 (42%), Gaps = 25/117 (21%)
Query: 407 TLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENT 465
L V T F P+ K + G+ VDL IA EL Y+
Sbjct: 4 KLVVATDTAFV---------PFEFK--QGDLYVGFDVDLWAAIAKELKLDYEL------- 45
Query: 466 YGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK 522
+ ++G+I LQ + DLA+ +TIT ER+ A+DF+ + G+ ++ +
Sbjct: 46 ------KPMDFSGIIPALQTKNVDLALAGITITDERKKAIDFSDGYYKSGLLVMVKA 96
Score = 39.5 bits (93), Expect = 0.002
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 14/60 (23%)
Query: 679 ETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ-EQVDTFI 737
+ G+ VDL IA EL Y+ + ++G+I LQ + VD +
Sbjct: 20 QGDLYVGFDVDLWAAIAKELKLDYEL-------------KPMDFSGIIPALQTKNVDLAL 66
>4dz1_A DALS D-alanine transporter; D-alanine binding, periplasmic,
transport protein; 1.90A {Salmonella enterica} PDB:
3r39_A 4f3s_A
Length = 259
Score = 73.9 bits (182), Expect = 1e-14
Identities = 24/120 (20%), Positives = 45/120 (37%), Gaps = 24/120 (20%)
Query: 404 ENRTLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLER 462
E RTL V S P + K+ G+L G ++L +
Sbjct: 27 EGRTLNVAVSPASP---------PMLFKS-ADGKLQGIDLELFSSYCQSRHCKLNIT--- 73
Query: 463 ENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK 522
W+G++G + +AD+A ++IT +R+ +DF+ P+ ++
Sbjct: 74 ----------EYAWDGMLGAVASGQADVAFSGISITDKRKKVIDFSEPYYINSFYLVSMA 123
Score = 39.6 bits (93), Expect = 0.002
Identities = 9/59 (15%), Positives = 19/59 (32%), Gaps = 14/59 (23%)
Query: 672 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ 730
P + K+ G+L G ++L + W+G++G +
Sbjct: 41 PMLFKS-ADGKLQGIDLELFSSYCQSRHCKLNIT-------------EYAWDGMLGAVA 85
>3hv1_A Polar amino acid ABC uptake transporter substrate binding protein;
protein structure initiative II(PSI II), nysgxrc; 1.90A
{Streptococcus thermophilus lmg 18311}
Length = 268
Score = 73.5 bits (181), Expect = 2e-14
Identities = 26/151 (17%), Positives = 50/151 (33%), Gaps = 30/151 (19%)
Query: 383 AFGLNHSRTVEQMDKEKKEKIENRTLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYS 441
+ + + +Q KEK + + TF P + + G G+
Sbjct: 2 SLRSHFATQKDQWQTYTKEK----KIKIGFDATFV---------PMGYEE-KDGSYIGFD 47
Query: 442 VDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSER 501
+DL + ++ Q W+ EL+ DL ++T ER
Sbjct: 48 IDLANAVFKLYGIDVEW-------------QAIDWDMKETELKNGTIDLIWNGYSVTDER 94
Query: 502 RAAVDFTMPFMTLGISILYRK--PAKKQPDL 530
+ + DFT P+M ++ +K +
Sbjct: 95 KQSADFTEPYMVNEQVLVTKKSSGIDSVAGM 125
Score = 40.4 bits (95), Expect = 0.001
Identities = 9/59 (15%), Positives = 18/59 (30%), Gaps = 14/59 (23%)
Query: 672 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ 730
P + + G G+ +DL + ++ Q W+ EL+
Sbjct: 33 PMGYEE-KDGSYIGFDIDLANAVFKLYGIDVEW-------------QAIDWDMKETELK 77
>3del_B Arginine binding protein; alpha and beta protein (A/B), periplasmic
protein, arginine protein binding, transport protein;
1.92A {Chlamydia trachomatis}
Length = 242
Score = 72.7 bits (179), Expect = 2e-14
Identities = 23/128 (17%), Positives = 47/128 (36%), Gaps = 24/128 (18%)
Query: 404 ENRTLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLER 462
+ V T+ T+ P+ + + GE+ G+ +DL + I+N+L T
Sbjct: 9 NSEKFIVGTNATYP---------PFEFVD-KRGEVVGFDIDLAREISNKLGKTLDVR--- 55
Query: 463 ENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK 522
++ LI L++ R D I ++IT R + + ++
Sbjct: 56 ----------EFSFDALILNLKQHRIDAVITGMSITPSRLKEILMIPYYGEEIKHLVLVF 105
Query: 523 PAKKQPDL 530
+ + L
Sbjct: 106 KGENKHPL 113
Score = 39.6 bits (93), Expect = 0.002
Identities = 13/59 (22%), Positives = 25/59 (42%), Gaps = 14/59 (23%)
Query: 672 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ 730
P+ + + GE+ G+ +DL + I+N+L T ++ LI L+
Sbjct: 23 PFEFVD-KRGEVVGFDIDLAREISNKLGKTLDVR-------------EFSFDALILNLK 67
>3mpk_A Virulence sensor protein BVGS; venus flytrap, sensor domain,
signaling protein; 2.04A {Bordetella pertussis} PDB:
3mpl_A
Length = 267
Score = 73.2 bits (180), Expect = 2e-14
Identities = 19/120 (15%), Positives = 45/120 (37%), Gaps = 24/120 (20%)
Query: 404 ENRTLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLER 462
++ + V FA P+ + + G S +++++ ++ +
Sbjct: 30 DHPVVKVAVLNLFA---------PFTLFR-TDEQFGGISAAVLQLLQLRTGLDFEII--- 76
Query: 463 ENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK 522
LI +L+ AD+ L + S R + + F+ P++ G+ I+ R+
Sbjct: 77 ---------GVDTVEELIAKLRSGEADM-AGALFVNSARESFLSFSRPYVRNGMVIVTRQ 126
Score = 42.0 bits (99), Expect = 4e-04
Identities = 8/75 (10%), Positives = 24/75 (32%), Gaps = 16/75 (21%)
Query: 663 KLRVLFQGE--PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTG 720
++V P+ + + G S +++++ ++ +
Sbjct: 33 VVKVAVLNLFAPFTLFR-TDEQFGGISAAVLQLLQLRTGLDFEII------------GVD 79
Query: 721 KWNGLIGELQE-QVD 734
LI +L+ + D
Sbjct: 80 TVEELIAKLRSGEAD 94
>2yln_A Putative ABC transporter, periplasmic binding Pro amino acid;
transport protein, solute-BIND protein; HET: CYS GOL;
1.12A {Neisseria gonorrhoeae} PDB: 3zsf_A
Length = 283
Score = 73.2 bits (180), Expect = 3e-14
Identities = 27/132 (20%), Positives = 57/132 (43%), Gaps = 29/132 (21%)
Query: 393 EQMDKEKKEKIENRTLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANE 451
+++ + T+TV T T+A P+ + + G+L GY V++ + +A +
Sbjct: 48 SLIERINNKG----TVTVGTEGTYA---------PFTYHD-KDGKLTGYDVEVTRAVAEK 93
Query: 452 LNFTYKFVLERENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITS-ERRAAVDFTMP 510
L +F + +W+ ++ L+ R D+ + +TS ER+A D + P
Sbjct: 94 LGVKVEF-------------KETQWDSMMAGLKAGRFDVVANQVGLTSPERQATFDKSEP 140
Query: 511 FMTLGISILYRK 522
+ G ++
Sbjct: 141 YSWSGAVLVAHN 152
Score = 40.8 bits (96), Expect = 0.001
Identities = 11/59 (18%), Positives = 27/59 (45%), Gaps = 14/59 (23%)
Query: 672 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ 730
P+ + + G+L GY V++ + +A +L +F + +W+ ++ L+
Sbjct: 69 PFTYHD-KDGKLTGYDVEVTRAVAEKLGVKVEF-------------KETQWDSMMAGLK 113
>2y7i_A STM4351; arginine-binding protein; HET: ARG; 1.90A {Salmonella
enterica subsp}
Length = 229
Score = 71.9 bits (177), Expect = 3e-14
Identities = 16/97 (16%), Positives = 39/97 (40%), Gaps = 14/97 (14%)
Query: 426 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQE 485
PY + + ++ G+ +D+ + E+ F ++ LI L+
Sbjct: 18 PYEFVDAD-NKIVGFDIDVANAVCKEMQAECSFT-------------NQSFDSLIPSLRF 63
Query: 486 QRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK 522
++ D I + +T +R V F+ P+ +++ +
Sbjct: 64 KKFDAVIAGMDMTPKREQQVSFSQPYYEGLSAVVVTR 100
Score = 38.4 bits (90), Expect = 0.005
Identities = 9/59 (15%), Positives = 21/59 (35%), Gaps = 14/59 (23%)
Query: 672 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ 730
PY + + ++ G+ +D+ + E+ F ++ LI L+
Sbjct: 18 PYEFVDAD-NKIVGFDIDVANAVCKEMQAECSFT-------------NQSFDSLIPSLR 62
>2q88_A EHUB, putative ABC transporter amino acid-binding prote;
substrate-binding protein, compatible solues,
ABC-transporte osmoprotection; HET: 4CS; 1.90A
{Sinorhizobium meliloti} PDB: 2q89_A*
Length = 257
Score = 71.6 bits (176), Expect = 6e-14
Identities = 21/107 (19%), Positives = 37/107 (34%), Gaps = 14/107 (13%)
Query: 417 KLRVLFQGE-PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGK 475
R+ E P+ G++ G + D+ + I L +
Sbjct: 14 FARIAIANEPPFTAVGA-DGKVSGAAPDVAREIFKRLGVADVVA------------SISE 60
Query: 476 WNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK 522
+ +I LQ R D L + ER AAV ++ P + + +K
Sbjct: 61 YGAMIPGLQAGRHDAITAGLFMKPERCAAVAYSQPILCDAEAFALKK 107
Score = 38.1 bits (89), Expect = 0.008
Identities = 11/69 (15%), Positives = 21/69 (30%), Gaps = 14/69 (20%)
Query: 663 KLRVLFQGE-PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGK 721
R+ E P+ G++ G + D+ + I L +
Sbjct: 14 FARIAIANEPPFTAVGA-DGKVSGAAPDVAREIFKRLGVADVVA------------SISE 60
Query: 722 WNGLIGELQ 730
+ +I LQ
Sbjct: 61 YGAMIPGLQ 69
>3qax_A Probable ABC transporter arginine-binding protein; periplasmic,
transport PR; HET: ARG; 2.00A {Chlamydophila pneumoniae}
PDB: 3g41_A* 3n26_A*
Length = 268
Score = 72.0 bits (177), Expect = 6e-14
Identities = 22/120 (18%), Positives = 44/120 (36%), Gaps = 24/120 (20%)
Query: 404 ENRTLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLER 462
NR V T+ T+ P+ + GE+ G+ +DL K I+ +L +
Sbjct: 29 RNRIWIVGTNATYP---------PFEYVD-AQGEVVGFDIDLAKAISEKLGKQLEVR--- 75
Query: 463 ENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK 522
++ LI L++ R D + ++IT R+ + + ++
Sbjct: 76 ----------EFAFDALILNLKKHRIDAILAGMSITPSRQKEIALLPYYGDEVQELMVVS 125
Score = 38.5 bits (90), Expect = 0.005
Identities = 12/59 (20%), Positives = 23/59 (38%), Gaps = 14/59 (23%)
Query: 672 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ 730
P+ + GE+ G+ +DL K I+ +L + ++ LI L+
Sbjct: 43 PFEYVD-AQGEVVGFDIDLAKAISEKLGKQLEVR-------------EFAFDALILNLK 87
>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 = 74.5 bits (182), Expect = 9e-14
Identities = 95/672 (14%), Positives = 193/672 (28%), Gaps = 235/672 (34%)
Query: 131 MDWDTFTIIYETHDNL-VYLQQVLENAHDDDKEIRPG-RPSVTIRQLPPDTDDYRPLLKE 188
MD++T Y+ D L V+ ++N D K+++ + ++ ++ ++
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNF--DCKDVQDMPKSILS-------KEEIDHIIMS 57
Query: 189 IKNSSESHILLDCSMDKTVTILKQAKEVHLMGDYQNYILSLTSYWINAHTVDFQDFQPGY 248
S + L + K ++++ E L +Y+ ++ + + QP
Sbjct: 58 KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK---------FL-MSPIKTEQRQP-- 105
Query: 249 ANITTVRMINPTNPHIRSIMNGWIYEENERGRSLNV-RAETV-KIEAALM------YDAV 300
++ T I + +Y +N+ NV R + K+ AL+ +
Sbjct: 106 -SMMTRMYIEQRDR---------LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI 155
Query: 301 Y---------LFAAALQSLGERKPLPTPLSCENPSSWQHGLGIGN------LMKSI---- 341
+ S + + W L + N +++ +
Sbjct: 156 DGVLGSGKTWVALDVCLSYKVQCKMD------FKIFW---LNLKNCNSPETVLEMLQKLL 206
Query: 342 -TIDGM---------TGRINLDSQTGRRNSF--------SLEFVEYVSDQWKVLGTWNTA 383
ID ++ + S L + V + WN A
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAK----AWN-A 261
Query: 384 FGLN-----HSRTVEQMD-----KEKKEKIENRTLTVT---SKT-FAK-LRVLFQGEPYM 428
F L+ +R + D +++ ++T+T K+ K L Q P
Sbjct: 262 FNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321
Query: 429 MK--NPETGELYGYSVDLIKMIANEL--------NFTY----KFVLERENTYGTLNPQTG 474
+ NP + +IA + N+ + K E++ L P
Sbjct: 322 VLTTNP----R------RLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEY 371
Query: 475 K-----------------------WNGLIGE--------------LQEQRADLAI----- 492
+ W +I +++Q + I
Sbjct: 372 RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431
Query: 493 -CDLTITSERRAAVDFTMPFMTLGISIL--YRKPAKKQPDLFSFLEPLSFDVWVY----- 544
+L + E A L SI+ Y P D P D + Y
Sbjct: 432 YLELKVKLENEYA---------LHRSIVDHYNIPKTFDSDDLI---PPYLDQYFYSHIGH 479
Query: 545 -MATAYLGVSLLLF--------FLARISSGSRLRYSAKNSNVS-----------LYQRMH 584
+ + LF FL + ++R+ + N S Y+
Sbjct: 480 HLKNIEHPERMTLFRMVFLDFRFLEQ-----KIRHDSTAWNASGSILNTLQQLKFYKP-- 532
Query: 585 SAMESSRPSVFVKSNKEGVERVVKEKGKYAFFMESTGIEYEVEKNCDLMQVGGLLDSKGY 644
++ N ER+V F+ K DL+++ L ++
Sbjct: 533 ----------YICDNDPKYERLVNA---ILDFLPKIEENLICSKYTDLLRIA--LMAEDE 577
Query: 645 GIAMPTSKFLAK 656
I K + +
Sbjct: 578 AIFEEAHKQVQR 589
Score = 36.4 bits (83), Expect = 0.045
Identities = 67/411 (16%), Positives = 129/411 (31%), Gaps = 84/411 (20%)
Query: 433 ETGEL-YGYSVDLIKMIANEL--NFTYKFVLERENTYGTLNPQTGKWNGLIGELQEQRAD 489
ETGE Y Y D++ + + NF K V + + + + + +I
Sbjct: 10 ETGEHQYQYK-DILSVFEDAFVDNFDCKDVQDMPKSILS----KEEIDHIIMSKDAVSGT 64
Query: 490 LAICDLTITSERRAAVDFT-------MPFMTLGISILYRKPAKKQPDLFSFLEPLSFDVW 542
L + ++ + F F+ I R+P+ + L D
Sbjct: 65 LRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 543 VYMATAYLGVSLLLFFLARISSGSRLR---YSAK-NSNVSLYQRMHSAMESSRPSVFVKS 598
V+ Y ++R+ +LR + NV + + S +
Sbjct: 125 VF--AKY--------NVSRLQPYLKLRQALLELRPAKNVLID-----GVLGSGKTWVALD 169
Query: 599 NKEGVERVVKEKGKYAFFMESTGIEYEVEKNCD-----LMQVGGL---LDSKGYGIAMPT 650
V K + K F I + KNC+ L + L +D + +
Sbjct: 170 ----VCLSYKVQCKMDF-----KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220
Query: 651 SKFLAKFSFGFAKLRVLFQGEPYM--------MKNPETGELYGYSVDLI-----KMIANE 697
S + A+LR L + +PY ++N + + S ++ K + +
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDF 280
Query: 698 LNFTYKFVLERENTYGTLNP-QT----GKWNGL-IGELQEQVDTFILFFIYSILFFIYTF 751
L+ + ++ TL P + K+ +L +V T + I
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSII------- 333
Query: 752 VNEAVSTRLVAGMWWFFTLIMISSYTANLAAFLTNTRMNPPI--KNVEDLA 800
A S R W + + T + + L + P K + L+
Sbjct: 334 ---AESIRDGLATWDNWKHVNCDKLTTIIESSLNV--LEPAEYRKMFDRLS 379
>4eq9_A ABC transporter substrate-binding protein-amino A transport;
structural genomics, niaid; HET: GSH; 1.40A
{Streptococcus pneumoniae}
Length = 246
Score = 70.8 bits (174), Expect = 1e-13
Identities = 24/129 (18%), Positives = 53/129 (41%), Gaps = 30/129 (23%)
Query: 396 DKEKKEKIENRTLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANELN- 453
+ +K + V T+ + P++ + E GEL GY +++++ I + +
Sbjct: 2 NAAASKK----EIIVATNGSPR---------PFIYE--ENGELTGYEIEVVRAIFKDSDK 46
Query: 454 FTYKFVLERENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMT 513
+ KF + +W+G+ L R ++A+ +L+ T ER + P
Sbjct: 47 YDVKF-------------EKTEWSGVFAGLDADRYNMAVNNLSYTKERAEKYLYAAPIAQ 93
Query: 514 LGISILYRK 522
++ +K
Sbjct: 94 NPNVLVVKK 102
Score = 37.3 bits (87), Expect = 0.013
Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 14/53 (26%)
Query: 679 ETGELYGYSVDLIKMIANELN-FTYKFVLERENTYGTLNPQTGKWNGLIGELQ 730
E GEL GY +++++ I + + + KF + +W+G+ L
Sbjct: 25 ENGELTGYEIEVVRAIFKDSDKYDVKF-------------EKTEWSGVFAGLD 64
>3tql_A Arginine-binding protein; transport and binding proteins, transport
protein; HET: MSE ARG; 1.59A {Coxiella burnetii}
Length = 227
Score = 70.0 bits (172), Expect = 1e-13
Identities = 23/116 (19%), Positives = 45/116 (38%), Gaps = 16/116 (13%)
Query: 417 KLRVLFQGE--PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTG 474
++ + PY+ P +G++ G+ D++K + ++
Sbjct: 3 TIKFATEATYPPYVYMGP-SGQVEGFGADIVKAVCKQMQAVCTIS-------------NQ 48
Query: 475 KWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRKPAKKQPDL 530
W+ LI L+ + D + IT+ R+ VDFT P+ T +S + K
Sbjct: 49 PWDSLIPSLKLGKFDALFGGMNITTARQKEVDFTDPYYTNSVSFIADKNTPLTLSK 104
Score = 37.2 bits (87), Expect = 0.011
Identities = 11/70 (15%), Positives = 26/70 (37%), Gaps = 16/70 (22%)
Query: 663 KLRVLFQGE--PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTG 720
++ + PY+ P +G++ G+ D++K + ++
Sbjct: 3 TIKFATEATYPPYVYMGP-SGQVEGFGADIVKAVCKQMQAVCTIS-------------NQ 48
Query: 721 KWNGLIGELQ 730
W+ LI L+
Sbjct: 49 PWDSLIPSLK 58
>4f11_A Gamma-aminobutyric acid type B receptor subunit 2; venus flytrap
module, G-protein coupled receptor, signaling; 2.38A
{Homo sapiens} PDB: 4f12_A*
Length = 433
Score = 72.2 bits (177), Expect = 2e-13
Identities = 65/413 (15%), Positives = 132/413 (31%), Gaps = 57/413 (13%)
Query: 2 KIVGIF--------GPNEEEVATAFEIAVRRINKDFKALPPDIILEPIVQHVENYDSLHT 53
I+G+ G V A E+A+ +I + +L L+ + D+
Sbjct: 16 SIMGLMPLTKEVAKGSIGRGVLPAVELAIEQIRNE--SLLRPYFLDLRLYDT-ECDNAKG 72
Query: 54 AKLMCNATSEG--IAAIFGPQSIENRNIIESMCQMFDIPHV------EAFWDPNKY--FI 103
K +A G +FG +II Q +++ + D KY F
Sbjct: 73 LKAFYDAIKYGPNHLMVFGGVCPSVTSIIAESLQGWNLVQLSFAATTPVLADKKKYPYFF 132
Query: 104 PTNGVHGVNVYPESHLISKGISVIINDMDWDTFTIIYETHDNLVYLQQVLENAHDDDKEI 163
T P + ++ I ++ W + + ++ L +
Sbjct: 133 RT--------VPSDNAVNPAILKLLKHYQWKRVGTLTQDVQRFSEVRNDLTGVLYGED-- 182
Query: 164 RPGRPSVTIRQLPPDTDDYRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLMGDYQ 223
+ I ++D +K++K + IL + + A E ++ G
Sbjct: 183 ------IEISDTESFSNDPCTSVKKLKGNDVRIILGQFDQNMAAKVFCCAYEENMYGSKY 236
Query: 224 NYILS--LTSYWINAHTVDFQDFQPGYANIT-------TVRMINPTNPHIRSIMNGWIYE 274
+I+ W + + N+ V ++ I++I
Sbjct: 237 QWIIPGWYEPSWWEQVHTEANSSRCLRKNLLAAMEGYIGVDFEPLSSKQIKTISGKT--- 293
Query: 275 ENERGRSLNVRAETVKIE--AALMYDAVYLFAAALQSLGERKPLPTP---LSCENPSSWQ 329
+ R N + V YD +++ A LQ E + + N +
Sbjct: 294 PQQYEREYNNKRSGVGPSKFHGYAYDGIWVIAKTLQRAMETLHASSRHQRIQDFNYTDHT 353
Query: 330 HGLGIGNLMKSITIDGMTGRINLDSQTGRRNSFSLEFVEYVSDQWKVLGTWNT 382
G I N M G+TG++ + G R +++F ++ + +G +N
Sbjct: 354 LGRIILNAMNETNFFGVTGQVVFRN--GERMG-TIKFTQFQDSREVKVGEYNA 403
>2o1m_A Probable amino-acid ABC transporter extracellular-binding protein
YTMK; NESG X-RAY O34852 YTMK_bacsu, structural genomics,
PSI-2; 2.00A {Bacillus subtilis}
Length = 258
Score = 70.0 bits (172), Expect = 2e-13
Identities = 23/130 (17%), Positives = 45/130 (34%), Gaps = 25/130 (19%)
Query: 396 DKEKKEKIENRTLTV-TSKTFAKLRVLFQGEPYMMKNPETGELYGYSVDLIKMIANEL-N 453
+ + +T+TV T F + E G+L GY V+LIK + L +
Sbjct: 6 QTTGAGQKKVQTITVGTGTQFP---------NICFID-EKGDLTGYDVELIKELDKRLPH 55
Query: 454 FTYKFVLERENTYGTLNPQTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMT 513
+ + F +T +++ L+ L + + D+ + + ER F
Sbjct: 56 YKFTF-------------KTMEFSNLLVSLGQHKVDIVAHQMEKSKEREKKFLFNKVAYN 102
Query: 514 LGISILYRKP 523
+
Sbjct: 103 HFPLKITVLQ 112
Score = 37.3 bits (87), Expect = 0.013
Identities = 14/60 (23%), Positives = 26/60 (43%), Gaps = 15/60 (25%)
Query: 672 PYMMKNPETGELYGYSVDLIKMIANEL-NFTYKFVLERENTYGTLNPQTGKWNGLIGELQ 730
+ E G+L GY V+LIK + L ++ + F +T +++ L+ L
Sbjct: 28 NICFID-EKGDLTGYDVELIKELDKRLPHYKFTF-------------KTMEFSNLLVSLG 73
>1lst_A Lysine, arginine, ornithine-binding protein; amino-acid binding
protein; HET: LYS; 1.80A {Salmonella typhimurium} SCOP:
c.94.1.1 PDB: 2lao_A 1lag_E* 1lah_E 1laf_E 1hsl_A*
1hpb_P*
Length = 239
Score = 69.2 bits (170), Expect = 3e-13
Identities = 22/105 (20%), Positives = 43/105 (40%), Gaps = 14/105 (13%)
Query: 426 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQE 485
P+ K+ + GE G+ +DL + + +V ++ LI L+
Sbjct: 16 PFSSKDAK-GEFIGFDIDLGNEMCKRMQVKCTWV-------------ASDFDALIPSLKA 61
Query: 486 QRADLAICDLTITSERRAAVDFTMPFMTLGISILYRKPAKKQPDL 530
++ D I L+IT +R+ + F+ ++ K + QP L
Sbjct: 62 KKIDAIISSLSITDKRQQEIAFSDKLYAADSRLIAAKGSPIQPTL 106
Score = 36.8 bits (86), Expect = 0.015
Identities = 11/59 (18%), Positives = 22/59 (37%), Gaps = 14/59 (23%)
Query: 672 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ 730
P+ K+ + GE G+ +DL + + +V ++ LI L+
Sbjct: 16 PFSSKDAK-GEFIGFDIDLGNEMCKRMQVKCTWV-------------ASDFDALIPSLK 60
>3i6v_A Periplasmic His/Glu/Gln/Arg/opine family-binding; structural
genomics, transporter, PSI-2, protein structure
initiative; HET: LYS; 2.00A {Silicibacter pomeroyi}
Length = 232
Score = 68.8 bits (169), Expect = 4e-13
Identities = 22/97 (22%), Positives = 36/97 (37%), Gaps = 14/97 (14%)
Query: 426 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQE 485
PY N + GE+ G+ +L + T ++V W+ +I L
Sbjct: 17 PYNFIN-DAGEVDGFERELGDELCKRAGLTCEWV-------------KNDWDSIIPNLVS 62
Query: 486 QRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK 522
D I ++IT ER +DFT ++ S
Sbjct: 63 GNYDTIIAGMSITDERDEVIDFTQNYIPPTASSYVAT 99
Score = 38.7 bits (91), Expect = 0.004
Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 14/59 (23%)
Query: 672 PYMMKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQ 730
PY N + GE+ G+ +L + T ++V W+ +I L
Sbjct: 17 PYNFIN-DAGEVDGFERELGDELCKRAGLTCEWV-------------KNDWDSIIPNLV 61
>2yjp_A Putative ABC transporter, periplasmic binding Pro amino acid;
transport protein, solute-binding protein; 2.26A
{Neisseria gonorrhoeae}
Length = 291
Score = 67.0 bits (164), Expect = 3e-12
Identities = 26/121 (21%), Positives = 50/121 (41%), Gaps = 21/121 (17%)
Query: 417 KLRV-LFQGEPYM-MKNPETGELYGYSVDLIKMIANELNFT---YKFVLERENTYGTLNP 471
+R+ +F +P + G+ G+ V++ K +A +L + +FV
Sbjct: 56 VIRIGVFGDKPPFGYVDA-NGKNQGFDVEIAKDLAKDLLGSPDKVEFV-----------L 103
Query: 472 QTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK--PAKKQPD 529
+ ++ + DL + + T T ER AVDF P+M + + ++ K P
Sbjct: 104 TE--AANRVEYVRSGKVDLILANFTQTPERAEAVDFADPYMKVALGVVSPKNKPITDMAQ 161
Query: 530 L 530
L
Sbjct: 162 L 162
Score = 31.2 bits (71), Expect = 1.1
Identities = 9/38 (23%), Positives = 20/38 (52%), Gaps = 3/38 (7%)
Query: 663 KLRV-LFQGEPYM-MKNPETGELYGYSVDLIKMIANEL 698
+R+ +F +P + G+ G+ V++ K +A +L
Sbjct: 56 VIRIGVFGDKPPFGYVDA-NGKNQGFDVEIAKDLAKDL 92
>1xt8_A Putative amino-acid transporter periplasmic solut protein; ABC
transport, cysteine uptake; 2.00A {Campylobacter jejuni}
SCOP: c.94.1.1
Length = 292
Score = 62.0 bits (151), Expect = 1e-10
Identities = 27/121 (22%), Positives = 45/121 (37%), Gaps = 21/121 (17%)
Query: 417 KLRV-LFQGEPYM-MKNPETGELYGYSVDLIKMIANELNFT---YKFVLERENTYGTLNP 471
+R+ +F +P + G GY + L K IA EL +FV
Sbjct: 45 VVRIGVFGDKPPFGYVDE-KGNNQGYDIALAKRIAKELFGDENKVQFV-----------L 92
Query: 472 QTGKWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK--PAKKQPD 529
+ L+ + D+ + + T T +R VDF P+M + + + K D
Sbjct: 93 VE--AANRVEFLKSNKVDIILANFTQTPQRAEQVDFCSPYMKVALGVAVPKDSNITSVED 150
Query: 530 L 530
L
Sbjct: 151 L 151
Score = 29.7 bits (67), Expect = 3.8
Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 663 KLRV-LFQGEPYM-MKNPETGELYGYSVDLIKMIANEL 698
+R+ +F +P + G GY + L K IA EL
Sbjct: 45 VVRIGVFGDKPPFGYVDE-KGNNQGYDIALAKRIAKEL 81
>2v25_A Major cell-binding factor; antigen, adhesin, aspartate, glutamate,
transport, ABC transport, virulence factor, receptor;
1.49A {Campylobacter jejuni}
Length = 259
Score = 60.1 bits (146), Expect = 4e-10
Identities = 28/118 (23%), Positives = 50/118 (42%), Gaps = 14/118 (11%)
Query: 417 KLRV-LFQGEPYM-MKNPETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTG 474
+L V + P+ + + TGE+ G+ VD+ K++A + +++ +N +T
Sbjct: 39 QLIVGVKNDVPHYALLDQATGEIKGFEVDVAKLLAKSI-----LGDDKKIKLVAVNAKT- 92
Query: 475 KWNGLIGELQEQRADLAICDLTITSERRAAVDFTMPFMTLGISILYRK--PAKKQPDL 530
L D I TIT ER+ +F+ P+ I +L K K D+
Sbjct: 93 ----RGPLLDNGSVDAVIATFTITPERKRIYNFSEPYYQDAIGLLVLKEKKYKSLADM 146
Score = 31.6 bits (72), Expect = 0.79
Identities = 11/39 (28%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 663 KLRV-LFQGEPYM-MKNPETGELYGYSVDLIKMIANELN 699
+L V + P+ + + TGE+ G+ VD+ K++A +
Sbjct: 39 QLIVGVKNDVPHYALLDQATGEIKGFEVDVAKLLAKSIL 77
>2vha_A Periplasmic binding transport protein; periplasmic binding protein,
ligand binding, ultrahigh resolution; HET: GLU; 1.00A
{Shigella flexneri} PDB: 2ia4_A*
Length = 287
Score = 60.5 bits (147), Expect = 5e-10
Identities = 24/100 (24%), Positives = 34/100 (34%), Gaps = 8/100 (8%)
Query: 433 ETGELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGELQEQRADLAI 492
++ GYS D I + K L + + L P T I LQ D
Sbjct: 35 NQQKVVGYSQDYSNAIVEAV----KKKLNKPDLQVKLIPIT--SQNRIPLLQNGTFDFEC 88
Query: 493 CDLTITSERRAAVDFTMPFMTLGISILYRK--PAKKQPDL 530
T ER+ F+ +G +L +K K DL
Sbjct: 89 GSTTNNVERQKQAAFSDTIFVVGTRLLTKKGGDIKDFADL 128
>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 = 57.0 bits (137), Expect = 2e-08
Identities = 70/410 (17%), Positives = 122/410 (29%), Gaps = 142/410 (34%)
Query: 180 DDYRPLLKEIKNSSESHI--LLDCSMDKTVTILKQAKEVHLMGDYQNYILSLTSYWIN-- 235
Y L+ ++ S + L+ ++D A++V G L++ W+
Sbjct: 178 QTYHVLVGDLIKFSAETLSELIRTTLD--------AEKVFTQG------LNILE-WLENP 222
Query: 236 --AHTVDFQDFQP------G------YANITTVRMINPTNPHIRSIMNGWIYEENERGRS 281
D+ P G Y + P +RS + G
Sbjct: 223 SNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGE--LRSYLKG----------- 269
Query: 282 LNVRAETVKIEAALM---------YDAVYLFAAALQSLGERKPLPTPLSCENPS----SW 328
++ + + A + + +V L +G R P + PS S
Sbjct: 270 ATGHSQGL-VTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSL 328
Query: 329 QHGLGIGNLMKSITIDGMT--------GRINLDSQTGRRNSFSL-----EFVEYVSDQWK 375
++ G+ + M SI+ +T + N G++ SL V VS +
Sbjct: 329 ENNEGVPSPMLSIS--NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLV--VSGPPQ 384
Query: 376 VLGTWNTAF-------GLNHSRTVEQMDKEKKEKIENRTLTVT----SKTFAKLRVLFQG 424
L N GL+ SR E+K K NR L V S
Sbjct: 385 SLYGLNLTLRKAKAPSGLDQSRIP---FSERKLKFSNRFLPVASPFHS------------ 429
Query: 425 EPYMMKNPET--GELYGYSVDLIKMIANELNFTYKFVLERENTYGTLNPQTGKWNGLIGE 482
++ + +L +V A ++ V Y T G +
Sbjct: 430 -HLLVPASDLINKDLVKNNVSF---NAKDIQIP---V------YDT---FDGS------D 467
Query: 483 LQEQRADLA--ICDLTITSER---------RA--AVDFTMPFMTLGISIL 519
L+ ++ I D I +A +DF P G+ +L
Sbjct: 468 LRVLSGSISERIVDC-IIRLPVKWETTTQFKATHILDFG-PGGASGLGVL 515
Score = 50.8 bits (121), Expect = 2e-06
Identities = 58/310 (18%), Positives = 104/310 (33%), Gaps = 88/310 (28%)
Query: 413 KTFAKLRVLF-QGEPYMMKNPETGELYGYSV-DLIKMIANELNFTYKFVLE-----REN- 464
KT + ++ + + + + YG+S+ D++ N +N T F E REN
Sbjct: 1637 KTSKAAQDVWNRADNHFK------DTYGFSILDIVI--NNPVNLTIHFGGEKGKRIRENY 1688
Query: 465 ---TYGTLNPQTGKWNGLIGELQEQ------RADLAICDLTITSERRAAVDFTMP-FMTL 514
+ T+ K + E+ E R++ + T FT P +
Sbjct: 1689 SAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSAT---------QFTQPALTLM 1739
Query: 515 GISI---LYRKPAKKQPDLF---SFL-EPLSFDVWVYMA-TAYLGV-SL-----LLFFLA 560
+ L K F S L E Y A + V S+ ++F+
Sbjct: 1740 EKAAFEDLKSKGLIPADATFAGHS-LGE--------YAALASLADVMSIESLVEVVFY-- 1788
Query: 561 RISSGSRLRYSAKNSNVSLYQRMHSAMESSRPSVFVKS-NKEGVERVVKEKGKYAFFMES 619
R G ++ + + R + M + P S ++E ++ VV+ GK
Sbjct: 1789 R---GMTMQVAVPRDELG---RSNYGMIAINPGRVAASFSQEALQYVVERVGK------R 1836
Query: 620 TGIEYEVE---KNCDLMQV--GGLLDSKGYGIAMPTSKFLAKFSFGFAKLRVLFQGEPYM 674
TG + VE N + Q G D + F+ +L+ E
Sbjct: 1837 TG--WLVEIVNYNVENQQYVAAG--DLRALDTVTNVLNFIKLQKIDIIELQKSLSLEE-- 1890
Query: 675 MKNPETGELY 684
++ G L+
Sbjct: 1891 VE----GHLF 1896
Score = 42.7 bits (100), Expect = 6e-04
Identities = 50/263 (19%), Positives = 88/263 (33%), Gaps = 76/263 (28%)
Query: 552 VSLLLFFLARISSGSRLR-------------YSAKN---SNVSLYQR--MHSAMESSRPS 593
V FF+A S+L+ ++A + + L + + +
Sbjct: 22 VPTASFFIA-----SQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSK 76
Query: 594 VFVKSNKEGVERVVKEKGKYAF---FMESTGI-----EYEVEKNCDLMQVGGLLDSKGYG 645
V + + + E F ++E I + E + L++ L+ K Y
Sbjct: 77 V--GQFDQVLNLCLTE-----FENCYLEGNDIHALAAKLLQENDTTLVKTKELI--KNYI 127
Query: 646 IAM----------PTSKFLAKFSFGFAKLRVLF--QG--EPYMMKNPETGELYG-YSV-- 688
A S G A+L +F QG + Y E +LY Y V
Sbjct: 128 TARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYF---EELRDLYQTYHVLV 184
Query: 689 -DLIKMIANELNFTYKFVLERENTYG-TLNPQTGKWNGLIGELQEQVDT----FILFFIY 742
DLIK A L+ + L+ E + LN +W L+ +T ++L
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGLNIL--EW------LENPSNTPDKDYLLSIPI 236
Query: 743 SI-LFFIYTFVNEAVSTRLVAGM 764
S L + + V+ + + G
Sbjct: 237 SCPLIGVIQLAHYVVTAK-LLGF 258
Score = 38.9 bits (90), Expect = 0.008
Identities = 52/332 (15%), Positives = 101/332 (30%), Gaps = 108/332 (32%)
Query: 110 GVNVYPESHLISKGISVIINDMDWDT-----FTIIYETHDNLVYLQQVLENAHDDDKEIR 164
G+++Y S + N D F+I+ +N V L + + K IR
Sbjct: 1632 GMDLYKTSKAAQD----VWNRADNHFKDTYGFSILDIVINNPVNL--TIHFGGEKGKRIR 1685
Query: 165 PGRPSVTIRQLPPDTDDYRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLMGDYQN 224
++ + + KEI S S+ +
Sbjct: 1686 ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTF----------------------RSEK 1723
Query: 225 YILSLTSYWINAHTVDFQDFQPGYANITTVRMINPTNPHIRSIMNGWIYEENERGRSLNV 284
+LS T + T QP A +T + +E+ +
Sbjct: 1724 GLLSATQF-----T------QP--A-LTLMEKA--------------AFED--------L 1747
Query: 285 RAETVKIEAALM-------YDA------VYLFAAALQSLGERKPLPTPLSCENPSSWQHG 331
+++ + A Y A V + ++ + R + P +
Sbjct: 1748 KSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMT---MQVAVP---RDE 1801
Query: 332 LGIGNL-MKSITIDGMTGRINLDS------QTGRRNSFSLEFVEY-VSDQWKVLGTWNTA 383
LG N M +I + + ++ + G+R + +E V Y V +Q V
Sbjct: 1802 LGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA----- 1856
Query: 384 FGLNHSRTVEQ----MDKEKKEKIENRTLTVT 411
G R ++ ++ K +KI+ L +
Sbjct: 1857 -G--DLRALDTVTNVLNFIKLQKIDIIELQKS 1885
Score = 35.4 bits (81), Expect = 0.090
Identities = 41/220 (18%), Positives = 65/220 (29%), Gaps = 77/220 (35%)
Query: 1 MKIVGIFGPNEEEVATAFEIAVRRINKDFKALPPDIILEPIVQHVENYDSLHTAKLMCNA 60
M + I +E+V + V + N LP + V SL N
Sbjct: 338 M--LSISNLTQEQV----QDYVNKTNSH---LPAG-------KQV--EISLV------NG 373
Query: 61 TSEGIAAIFG-PQSIEN-----RNI-IESMCQMFDIPHVEAFWDPNKYFIPTNG-VHGVN 112
+ + G PQS+ R S IP E + F+P H
Sbjct: 374 AKNLVVS--GPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFH--- 428
Query: 113 VYPESHLISKGISVIINDMDWDTFTI--------IYETHDNLVYLQQVLENAHDDDKEIR 164
SHL+ +I D+ + + +Y+T D D +R
Sbjct: 429 ----SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD-----------GSD----LR 469
Query: 165 PGRPSVT------IRQLPPDTDDYRPLLKEIKNSSESHIL 198
S++ I +LP + +HIL
Sbjct: 470 VLSGSISERIVDCIIRLPVK-------WETTTQFKATHIL 502
>3eaf_A ABC transporter, substrate binding protein; PSI2, NYSGXRC,
substrate binding P structural genomics, protein
structure initiative; 2.00A {Aeropyrum pernix}
Length = 391
Score = 35.2 bits (81), Expect = 0.076
Identities = 22/210 (10%), Positives = 64/210 (30%), Gaps = 28/210 (13%)
Query: 178 DTD-DYRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLMGDYQNYILSLTSYWINA 236
T+ D + +E+ + ++ ++ + + + + L ++ +
Sbjct: 183 ATEADAERIAREMLAADPDYVWCGNTISSCSLLGRAMAK-----------VGLDAFLLTN 231
Query: 237 HTVDFQDF--QPGYANITTVRMINPTNPHIRSIMNGWIYEENERGRSLNVRAETVKIEAA 294
+ G V I+P + I E R V + + +
Sbjct: 232 VWGFDERSPQLIGEGGYGKVFGISPFIYPMFGQDVEGIQTIFEAARMNGVSEDQINLRVV 291
Query: 295 LMYDAVYLFAAALQSLGERKPLPTPLSCENPSSWQHGLGIGNLMKSITID--GMTGRINL 352
+ V+L A++S+ + G + +++ T D G+T
Sbjct: 292 QGFVNVWLLIKAIESVTSQDLQERG-----------GEALKEALEANTFDLGGITADTID 340
Query: 353 DSQTGRRNSFSLEFVEYVSD-QWKVLGTWN 381
+ ++ + + +++G +
Sbjct: 341 YEPGFHLAYRKVFIIKLGENGELQLMGKFE 370
>3h5l_A Putative branched-chain amino acid ABC transporter; structural
genomics, PSI-2, protein structure initiative; 1.70A
{Ruegeria pomeroyi}
Length = 419
Score = 33.6 bits (77), Expect = 0.23
Identities = 8/63 (12%), Positives = 20/63 (31%), Gaps = 9/63 (14%)
Query: 293 AALMYDAVYLFAAALQSLGERKPLPTPLSCENPSSWQHGLGIGNLMKSITIDGMTGRINL 352
Y A+Y ++ A G + + + + ++S+ G G +
Sbjct: 305 GCQTYSALYAYSIAAALAGGPGAPYDDVQNK---------AVADRLRSLIFRGPVGTMRF 355
Query: 353 DSQ 355
+
Sbjct: 356 HAD 358
>3lop_A Substrate binding periplasmic protein; protein structure initiative
II(PSI II), NYSGXRC, structural genomics; 1.55A
{Ralstonia solanacearum}
Length = 364
Score = 31.9 bits (73), Expect = 0.74
Identities = 18/138 (13%), Positives = 45/138 (32%), Gaps = 14/138 (10%)
Query: 176 PPDTDDYRPLLKEIKNSSESHILLDCSMDKTVTILKQAKEVHLMGDYQNYILSLTSYWIN 235
P +T + P + ++ + I L + + ++Q + + +
Sbjct: 179 PRNTANVGPAVDKLLAADVQAIFLGATAEPAAQFVRQYRA-----------RGGEAQLLG 227
Query: 236 AHTVDFQDF--QPGYANITTVRMINPTNPHIRSIMNGWIYEENERGRSLNVRAETVKIEA 293
++D G + + P+ +N I E N ++ + + A
Sbjct: 228 LSSIDPGILQKVAGLDAVRGYSLALVM-PNPGKSVNPVIREFNRARAAVGAKDVDLSFRA 286
Query: 294 ALMYDAVYLFAAALQSLG 311
+ A + A A++ G
Sbjct: 287 VEGFVAAKVLAEAIRRAG 304
>3snr_A Extracellular ligand-binding receptor; structural genomics,
APC102214, PSI-biology, midwest center structural
genomics, MCSG; HET: MSE TYR PHE; 1.49A
{Rhodopseudomonas palustris} PDB: 3uk0_A* 3t23_A*
3ukj_A* 3tx6_A*
Length = 362
Score = 31.9 bits (73), Expect = 0.87
Identities = 10/87 (11%), Positives = 22/87 (25%), Gaps = 11/87 (12%)
Query: 293 AALMYDAVYLFAAALQSLGERKPLPTPLSCENPSSWQHGLGIGNLMKSIT-IDGMTGRIN 351
A YDA + + ++ T E + + I G N
Sbjct: 284 AGHSYDAFKVLERVVPVALKKAKPGTQEFRE---------ALREAFLTEKDIAASQGVYN 334
Query: 352 LDSQTGRRNSF-SLEFVEYVSDQWKVL 377
S + + ++ ++
Sbjct: 335 FTETDRYGLDDRSRILLTVKNGKYVIV 361
>3mq4_A Mglur7, metabotropic glutamate receptor 7; glutamate receptors,
dimerization, glutamic acid BIN structural genomics,
structural genomics consortium; HET: Z99; 2.80A {Homo
sapiens} PDB: 2e4z_A*
Length = 481
Score = 32.1 bits (73), Expect = 0.89
Identities = 51/401 (12%), Positives = 115/401 (28%), Gaps = 73/401 (18%)
Query: 17 AFEIAVRRINKDFKALP--------------PDIILEPIVQHVENYDSLHTAKLMCNATS 62
A A+ +IN D LP LE + V+ T+ + C
Sbjct: 49 AMLYALDQINSDPNLLPNVTLGARILDTCSRDTYALEQSLTFVQALIQKDTSDVRCTNGE 108
Query: 63 EG-------IAAIFGPQSIENRNIIESMCQMFDIPHV------EAFWDPNKY--FIPTNG 107
+ + G ++ ++ ++F IP + D +Y F
Sbjct: 109 PPVFVKPEKVVGVIGASGSSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRV-- 166
Query: 108 VHGVNVYPESHLISKGISVIINDMDWDTFTIIYETHDNLVYLQQVLENAHDDDKEIRPGR 167
V P+S ++ + I+ + W+ + + + + + +
Sbjct: 167 -----VPPDSFQ-AQAMVDIVKALGWNYVSTLASEGSYGEKGVESFTQISKEAGGLSIAQ 220
Query: 168 PSVTIRQLPPDTDDYRPLLKEIKNSSESH-ILLDCSMDKTVTILKQAKEVHLMGDYQNYI 226
++ T D+ ++K++ ++ S +++ + + IL AK +G +++
Sbjct: 221 SVRIPQERKDRTIDFDRIIKQLLDTPNSRAVVIFANDEDIKQILAAAKRADQVG---HFL 277
Query: 227 LSLTSYWINAHTVDFQD---------FQPGYANI-------TTVRMIN-PTNPHIRSI-- 267
+ W + Q QP A + T+ + N N
Sbjct: 278 WVGSDSWGSKINPLHQHEDIAEGAITIQPKRATVEGFDAYFTSRTLENNRRNVWFAEYWE 337
Query: 268 -----------MNGWIYEENERGRSLNVRAETVKIEAAL--MYDAVYLFAAALQSLGERK 314
+ G+ + + E + + DAVY A AL + +
Sbjct: 338 ENFNCKLTISGSKKEDTDRKCTGQERIGKDSNYEQEGKVQFVIDAVYAMAHALHHMNKDL 397
Query: 315 PLPTPLSCENPSSWQHGLGIGNLMKSITIDGMTGRINLDSQ 355
C + + + +
Sbjct: 398 CADYRGVCPEMEQAGGKKLLKYIRNVNFNGSAGTPVMFNKN 438
>4evq_A Putative ABC transporter subunit, substrate-bindi component;
structural genomics, PSI-biology, midwest center for
structu genomics; HET: MSE PHB; 1.40A {Rhodopseudomonas
palustris} PDB: 4evr_A
Length = 375
Score = 31.9 bits (73), Expect = 0.93
Identities = 13/93 (13%), Positives = 24/93 (25%), Gaps = 16/93 (17%)
Query: 293 AALMYDAVYLFAAALQSLGERKPLPTPLSCENPSSWQHGLGIGNLMKSITIDGMTGRINL 352
A +DA L A ++++G + M + + G L
Sbjct: 290 AVQGWDAGQLLDAGVKAVG--------------GDVAKRKELNAAMAAASFASPRGPFKL 335
Query: 353 DSQTGRRNSFSLEFVEYVSDQWKVLGTWNTAFG 385
+ + E + LG A
Sbjct: 336 SAA--HNPVQNFYLRELKGGKSVNLGLAAPAVA 366
>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 = 32.2 bits (73), Expect = 0.98
Identities = 15/85 (17%), Positives = 27/85 (31%), Gaps = 21/85 (24%)
Query: 551 GVSLLL----FFLARISSGSRLRYSAKNSNVSL--YQRMHSAMESSRPSVFVKSNK---E 601
G ++ + I+ Y AK S Y+ H+ M ++ K + +
Sbjct: 1451 GGQAIVVHPDYLYGAITEDRYNEYVAKVSAREKSAYKFFHNGMIYNKL-FVSKEHAPYTD 1509
Query: 602 GVERVV-----------KEKGKYAF 615
+E V K+ G F
Sbjct: 1510 ELEEDVYLDPLARVSKDKKSGSLTF 1534
>1usg_A Leucine-specific binding protein; leucine-binding protein, X-RAY
crystallography, protein structure, ABC transport
systems, transport protein; 1.53A {Escherichia coli}
SCOP: c.93.1.1 PDB: 1usi_A* 1usk_A 2lbp_A 1z15_A 1z16_A
1z17_A 1z18_A 2liv_A
Length = 346
Score = 31.1 bits (71), Expect = 1.3
Identities = 18/91 (19%), Positives = 32/91 (35%), Gaps = 22/91 (24%)
Query: 293 AALMYDAVYLFAAALQSLGERKPLPTPLSCENPSSWQHGLGIGNLMKSITIDGMTGRINL 352
+ Y AV A AL+ G +P L + +K+ + + G +N
Sbjct: 277 VWITYAAVQSLATALERTGSDEP----------------LALVKDLKANGANTVIGPLNW 320
Query: 353 DSQTGRRNSFSLEFVEYVSDQWKVLGTWNTA 383
D + + +F + QW G+ A
Sbjct: 321 DEKGDLKGF---DFGVF---QWHADGSSTKA 345
>3sg0_A Extracellular ligand-binding receptor; structural genomics,
PSI-biology; HET: 173; 1.20A {Rhodopseudomonas
palustris} PDB: 4dqd_A*
Length = 386
Score = 31.2 bits (71), Expect = 1.3
Identities = 10/87 (11%), Positives = 26/87 (29%), Gaps = 11/87 (12%)
Query: 293 AALMYDAVYLFAAALQSLGERKPLPTPLSCENPSSWQHGLGIGNLMKSIT-IDGMTGRIN 351
++D++ L A+ + + TP I + ++ + G N
Sbjct: 308 GVHLWDSMTLVENAIPAALKAAKPGTPEFRA---------AIRDQIEKSKDLALNNGLSN 358
Query: 352 LDSQTGRRNSF-SLEFVEYVSDQWKVL 377
+ S +E +++
Sbjct: 359 MTPDNHNGYDERSAFLIEIRDGAFRLK 385
>3ipc_A ABC transporter, substrate binding protein (amino; venus flytrap
domain, transport protein; 1.30A {Agrobacterium
tumefaciens} PDB: 3ip5_A 3ip6_A 3ip7_A 3ip9_A 3ipa_A
Length = 356
Score = 31.1 bits (71), Expect = 1.4
Identities = 10/63 (15%), Positives = 19/63 (30%), Gaps = 16/63 (25%)
Query: 293 AALMYDAVYLFAAALQSLGERKPLPTPLSCENPSSWQHGLGIGNLMKSITIDGMTGRINL 352
Y A+ A A ++ G +P + +K + G I+
Sbjct: 276 TLYSYAAMQAIAGAAKAAGSVEP----------------EKVAEALKKGSFPTALGEISF 319
Query: 353 DSQ 355
D +
Sbjct: 320 DEK 322
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.4 bits (62), Expect = 5.5
Identities = 8/35 (22%), Positives = 19/35 (54%), Gaps = 8/35 (22%)
Query: 569 RYSAK--NSNVSLYQRMHSAMESSRPSVFVKSNKE 601
+ + K +++ LY A +S+ P++ +K+ E
Sbjct: 19 KQALKKLQASLKLY-----ADDSA-PALAIKATME 47
>1tff_A Ubiquitin thiolesterase protein OTUB2; hydrolase; 2.10A {Homo
sapiens} SCOP: d.3.1.11
Length = 234
Score = 28.4 bits (63), Expect = 9.3
Identities = 12/57 (21%), Positives = 21/57 (36%), Gaps = 1/57 (1%)
Query: 196 HILLDCSMDKTVTILKQAKEVHLMGDYQNYIL-SLTSYWINAHTVDFQDFQPGYANI 251
++ D +V+ L + D+ L LTS +I F+ F +I
Sbjct: 104 SVVELVEKDGSVSSLLKVFNDQSASDHIVQFLRLLTSAFIRNRADFFRHFIDEEMDI 160
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 0.136 0.404
Gapped
Lambda K H
0.267 0.0750 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 12,745,900
Number of extensions: 784525
Number of successful extensions: 1927
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1800
Number of HSP's successfully gapped: 112
Length of query: 821
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 720
Effective length of database: 3,881,772
Effective search space: 2794875840
Effective search space used: 2794875840
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: 61 (27.2 bits)