RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1512
(679 letters)
>3bpz_A Potassium/sodium hyperpolarization-activated cyclic
nucleotide-gated channel 2; CNBD, C-linker, pacemaker,
HCN, HCN2, CAP, PKA, CAMP, ION channel; HET: CMP; 1.65A
{Mus musculus} PDB: 3ffq_A 1q3e_A* 1q43_A* 1q5o_A*
3u10_A* 2q0a_A* 3etq_A* 3u11_A* 3otf_A* 3u0z_A*
Length = 202
Score = 161 bits (409), Expect = 5e-46
Identities = 47/250 (18%), Positives = 90/250 (36%), Gaps = 91/250 (36%)
Query: 330 TSVSAARKEFQAKLDGVKTYMRMRRVPNALQVKVIKWFDYLWLTQKCSDEEKAVSCLPGP 389
+++ ++R+++Q K V+ YM ++P + K+ ++++ + K DE+ + L
Sbjct: 2 SAMDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRY-QGKMFDEDSILGELN-- 58
Query: 390 GSSSTKLVHGGQYELEEIAIVSNQATPNQVKYGSGPLYMSANGPKVVPDKLKAEIAINVH 449
L+ +I
Sbjct: 59 ------------------------------------------------GPLREKIVNFNC 70
Query: 450 LDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKG-------------------- 489
+ + +F N + F+ ++ +L+ +F PGDYI R+G
Sbjct: 71 RKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKG 130
Query: 490 --------------------NRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESI 529
RRTASVR+ Y L+ LS + +VL+EYP R E++
Sbjct: 131 NKEMKLSDGSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRAFETV 190
Query: 530 AVKRLQKYKR 539
A+ RL + +
Sbjct: 191 AIDRLDRIGK 200
Score = 63.1 bits (154), Expect = 2e-11
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 606 LEKGEVGKEMYIVNRGRLQVVADNGKTVLATLRAGSYFGEISILNMG 652
+ +G +GK+MY + G + V+ L GSYFGEI +L G
Sbjct: 107 IREGTIGKKMYFIQHGVVSVLTKGN--KEMKLSDGSYFGEICLLTRG 151
>2ptm_A Hyperpolarization-activated (IH) channel; ION channel, cyclic
nucleotide binding domain, C-linker, CAM SPHCN1, HCN;
HET: CMP; 1.93A {Strongylocentrotus purpuratus}
Length = 198
Score = 159 bits (405), Expect = 2e-45
Identities = 52/273 (19%), Positives = 96/273 (35%), Gaps = 80/273 (29%)
Query: 331 SVSAARKEFQAKLDGVKTYMRMRRVPNALQVKVIKWFDYLWLTQKCSDEEKAVSCLPGPG 390
++ ++ ++++ KL V+ YM+ R++P+ L+ K++ +++Y + K DE +
Sbjct: 2 AMDSSSRQYREKLKQVEEYMQYRKLPSHLRNKILDYYEYRY-RGKMFDERHIFREVS--- 57
Query: 391 SSSTKLVHGGQYELEEIAIVSNQATPNQVKYGSGPLYMSANGPKVVPDKLKAEIAINVHL 450
+ ++ ++A
Sbjct: 58 -----------------------------------------------ESIRQDVANYNCR 70
Query: 451 DTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVLSKT 510
D + V F ++ F+ +V L +F P DY+ ++G + G F+
Sbjct: 71 DLVASVPFFVGADSNFVTRVVTLLEFEVFQPADYVIQEG--------TFGDRMFFIQQG- 121
Query: 511 DMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKGIS---PSPFPGNRRTASVRSVGYSD 567
+ + T L G RR ASV+ Y
Sbjct: 122 -----------------IVDIIMSDGVIATSLSDGSYFGEICLLTRERRVASVKCETYCT 164
Query: 568 LFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
LF LS VL E+PA R +E IAV+RL +
Sbjct: 165 LFSLSVQHFNQVLDEFPAMRKTMEEIAVRRLTR 197
Score = 65.8 bits (161), Expect = 2e-12
Identities = 14/45 (31%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 606 LEKGEVGKEMYIVNRGRLQVVADNGKTVLATLRAGSYFGEISILN 650
+++G G M+ + +G + ++ +G + +L GSYFGEI +L
Sbjct: 106 IQEGTFGDRMFFIQQGIVDIIMSDGV-IATSLSDGSYFGEICLLT 149
>3ukn_A Novel protein similar to vertebrate potassium VOL channel,
subfamily H (EAG-related)...; KCNH, ELK, ERG, CNBD,
CNBHD, C-linker, ION channel; 2.20A {Danio rerio} PDB:
3ukt_B 3ukv_B
Length = 212
Score = 154 bits (392), Expect = 1e-43
Identities = 47/283 (16%), Positives = 99/283 (34%), Gaps = 83/283 (29%)
Query: 326 ANIVTSVSAARKEFQAKLDGVKTYMRMRRVPNALQVKVIKWFDYLWLTQKCSDEEKAVSC 385
+ + + R + + +K ++R+ R+P AL ++++ F W D + +
Sbjct: 1 GAMDQRMYSRRSLYHTRTKDLKDFIRVHRLPKALAQRMLECFQTTWSVNNGIDVSELLKD 60
Query: 386 LPGPGSSSTKLVHGGQYELEEIAIVSNQATPNQVKYGSGPLYMSANGPKVVPDKLKAEIA 445
PD+L+A+IA
Sbjct: 61 F--------------------------------------------------PDELRADIA 70
Query: 446 INVHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLF 505
++++ + L+ + +F++ G L L L ++ +PG+++ R+G+ + F
Sbjct: 71 MHLNKELLQ-LPLFESASRGCLRSLSLIIKTSFCAPGEFLIRQGD--------ALQAIYF 121
Query: 506 VLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKG-----ISPSPFPGNRRTASV 560
V S + +E + L KG S + + A+V
Sbjct: 122 VCSGS---------------MEVLKDNT----VLAILGKGDLIGSDSLTKEQVIKTNANV 162
Query: 561 RSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKR 603
+++ Y DL +S + +VL+ YP + S L R
Sbjct: 163 KALTYCDLQYISLKGLREVLRLYPEYAQKFVSEIQHDLTYNLR 205
Score = 60.1 bits (146), Expect = 2e-10
Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 2/49 (4%)
Query: 606 LEKGEVGKEMYIVNRGRLQVVADNGKTVLATLRAGSYFGEISILNMGTA 654
+ +G+ + +Y V G ++V+ DN VLA L G G S+
Sbjct: 110 IRQGDALQAIYFVCSGSMEVLKDNT--VLAILGKGDLIGSDSLTKEQVI 156
>4f8a_A Potassium voltage-gated channel subfamily H membe; probable
regulatory domain of potassium channel, membrane PR
transport protein; 2.20A {Mus musculus}
Length = 160
Score = 110 bits (276), Expect = 2e-28
Identities = 34/161 (21%), Positives = 54/161 (33%), Gaps = 32/161 (19%)
Query: 437 PDKLKAEIAINVHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASV 496
P ++A+I ++++ K F+ G L L + + V +PGD I G
Sbjct: 13 PKDMRADICVHLNRKVFKEHPAFRLASDGCLRALAMEFQTVHCAPGDLIYHAGE------ 66
Query: 497 RSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKG-----ISPSPF 551
S FV LE I L KG +
Sbjct: 67 --SVDSLCFV---------------VSGSLEVIQ----DDEVVAILGKGDVFGDVFWKEA 105
Query: 552 PGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLES 592
+ A+VR++ Y DL V+ + + VL+ Y A
Sbjct: 106 TLAQSCANVRALTYCDLHVIKRDALQKVLEFYTAFSHSFSR 146
Score = 63.1 bits (154), Expect = 7e-12
Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 2/45 (4%)
Query: 606 LEKGEVGKEMYIVNRGRLQVVADNGKTVLATLRAGSYFGEISILN 650
GE + V G L+V+ D+ V+A L G FG++
Sbjct: 62 YHAGESVDSLCFVVSGSLEVIQDDE--VVAILGKGDVFGDVFWKE 104
>1wgp_A Probable cyclic nucleotide-gated ION channel 6; cyclic nucleotide
monophosphate, CNMP, CNMP-binding, structural genomics;
NMR {Arabidopsis thaliana} SCOP: b.82.3.2
Length = 137
Score = 89.9 bits (223), Expect = 2e-21
Identities = 27/146 (18%), Positives = 53/146 (36%), Gaps = 33/146 (22%)
Query: 451 DTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVLSKT 510
++RV +F+N + L + RL+P LF+ Y+ R+G LF++
Sbjct: 6 SGVRRVPLFENMDERLLDAICERLKPCLFTEKSYLVREG--------DPVNEMLFIIR-- 55
Query: 511 DMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKG------------ISPSPFPGNRRTA 558
R+ + R Y R+ L++G S T
Sbjct: 56 -----------GRLESVTTDGGRSGFYNRSLLKEGDFCGDELLTWALDPKSGSNLPSSTR 104
Query: 559 SVRSVGYSDLFVLSKTDMWDVLKEYP 584
+V+++ + F L ++ V ++
Sbjct: 105 TVKALTEVEAFALIADELKFVASQFR 130
Score = 57.9 bits (140), Expect = 2e-10
Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 606 LEKGEVGKEMYIVNRGRLQVVADNGK----TVLATLRAGSYFGEISILN 650
+ +G+ EM + RGRL+ V +G + L+ G + G+ +
Sbjct: 41 VREGDPVNEMLFIIRGRLESVTTDGGRSGFYNRSLLKEGDFCGDELLTW 89
>1vp6_A CNBD, cyclic-nucleotide binding domain of mesorhizobium LOTI CNG
potassium channel; dimer helical bundle beta barrel core
with cyclic AMP bound; HET: CMP; 1.70A {Mesorhizobium
loti} SCOP: b.82.3.2 PDB: 3cl1_A* 2k0g_A* 2kxl_A 3clp_A*
1u12_A 3co2_A
Length = 138
Score = 84.3 bits (209), Expect = 2e-19
Identities = 22/127 (17%), Positives = 32/127 (25%), Gaps = 38/127 (29%)
Query: 448 VHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKG------------------ 489
+ + V +FQ L E+V LR G ICR G
Sbjct: 8 RNWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVAT 67
Query: 490 --------------------NRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESI 529
R+A+V + L L D + P
Sbjct: 68 PNPVELGPGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQMLCSSSPEIAEIFRKT 127
Query: 530 AVKRLQK 536
A++R
Sbjct: 128 ALERRGA 134
Score = 52.7 bits (127), Expect = 2e-08
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 606 LEKGEVGKEMYIVNRGRLQVVADNGKTVLATLRAGSYFGEISILN 650
GE G M+ V G + V N L G++FGE+++++
Sbjct: 46 CRIGEPGDRMFFVVEGSVSVATPNP----VELGPGAFFGEMALIS 86
>3shr_A CGMP-dependent protein kinase 1; cyclic nucleotide binding domains,
cyclic nucleotide protein transferase, PKG; HET: CMP;
2.50A {Bos taurus}
Length = 299
Score = 71.1 bits (174), Expect = 1e-13
Identities = 38/257 (14%), Positives = 86/257 (33%), Gaps = 59/257 (22%)
Query: 423 SGPLYMSANGPKVVPDKLKAEIAINVHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPG 482
S S + K+E + ++ + + + +N E + E+V + PV +
Sbjct: 14 SIEGRGSMQAFRKFT---KSERSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKD 70
Query: 483 DYICRKGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQKYK---R 539
I ++G+ S ++V+ V E + + + K
Sbjct: 71 SCIIKEGDVG---------SLVYVMEDGK----------VEVTKEGVKLCTMGPGKVFGE 111
Query: 540 TPLEKGISPSPFPGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAA-----RVRLESIA 594
+ RTA+V+++ L+ + + ++ L+S+
Sbjct: 112 LAI--------LYNCTRTATVKTLVNVKLWAIDRQCFQTIMMRTGLIKHTEYMEFLKSVP 163
Query: 595 V-KRLQKYKRTPL----------------EKGEVGKEMYIVNRGRLQVV----ADNGKTV 633
+ L + + L +G G +I+++G++ V +
Sbjct: 164 TFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFFIISKGKVNVTREDSPNEDPVF 223
Query: 634 LATLRAGSYFGEISILN 650
L TL G +FGE ++
Sbjct: 224 LRTLGKGDWFGEKALQG 240
Score = 44.1 bits (104), Expect = 8e-05
Identities = 26/160 (16%), Positives = 50/160 (31%), Gaps = 36/160 (22%)
Query: 449 HLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVLS 508
+++ LK V FQ+ L +L L + G+YI R+G R D F +
Sbjct: 155 YMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGAR----------GDTFFII 204
Query: 509 KTDMWDVLKEYPAARVRLESIAVKRLQK---------YKRTPLEKGISPSPFPGNRRTAS 559
+V +E + + ++ L K RTA+
Sbjct: 205 SKGKVNVTREDSPNE---DPVFLRTLGKGDWFGEKALQGEDV--------------RTAN 247
Query: 560 VRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQ 599
V + V+ + ++ + A + +
Sbjct: 248 VIAAEAVTCLVIDRDSFKHLIGGLDDVSNKAYEDAEAKAK 287
>3of1_A CAMP-dependent protein kinase regulatory subunit; cyclic nucleotide
binding domain, evolution, PKA signaling, transfer; HET:
CMP; 2.21A {Saccharomyces cerevisiae}
Length = 246
Score = 69.8 bits (171), Expect = 2e-13
Identities = 38/229 (16%), Positives = 73/229 (31%), Gaps = 59/229 (25%)
Query: 450 LDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVLSK 509
+++ +F ++ ++ L G I ++G++ +V+ K
Sbjct: 6 EKSIRNNFLFNKLDSDSKRLVINCLEEKSVPKGATIIKQGDQ---------GDYFYVVEK 56
Query: 510 TDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKGISPSPF------PGNRRTASVRSV 563
+ V S F + R A+V +
Sbjct: 57 GT----------VDFYVNDNKVNSSGPG-----------SSFGELALMYNSPRAATVVAT 95
Query: 564 GYSDLFVLSKTDMWDVLKEYPAA-----RVRLESIAV-KRLQKYKRTPL----------- 606
L+ L + +L L+S+ V K L Y R L
Sbjct: 96 SDCLLWALDRLTFRKILLGSSFKKRLMYDDLLKSMPVLKSLTTYDRAKLADALDTKIYQP 155
Query: 607 -----EKGEVGKEMYIVNRGRLQVVADNGKTVLATLRAGSYFGEISILN 650
+G+ G+ Y++ G + V G+ V+ L+ YFGE+++LN
Sbjct: 156 GETIIREGDQGENFYLIEYGAVDVS-KKGQGVINKLKDHDYFGEVALLN 203
Score = 40.6 bits (95), Expect = 0.001
Identities = 16/113 (14%), Positives = 34/113 (30%), Gaps = 41/113 (36%)
Query: 449 HLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNR----------------- 491
+ D LK + + ++ +L L ++ PG+ I R+G++
Sbjct: 123 YDDLLKSMPVLKSLTTYDRAKLADALDTKIYQPGETIIREGDQGENFYLIEYGAVDVSKK 182
Query: 492 ------------------------RTASVRSVGYSDLFVLSKTDMWDVLKEYP 520
R A+V + + + L K+ +L
Sbjct: 183 GQGVINKLKDHDYFGEVALLNDLPRQATVTATKRTKVATLGKSGFQRLLGPAV 235
>3tnp_B CAMP-dependent protein kinase type II-beta regula subunit; PKA RIIB
tetrameric holoenzyme, transferase; HET: SEP TPO; 2.30A
{Mus musculus} PDB: 3tnq_A* 1cx4_A* 2qvs_B*
Length = 416
Score = 69.4 bits (169), Expect = 1e-12
Identities = 28/253 (11%), Positives = 87/253 (34%), Gaps = 53/253 (20%)
Query: 429 SANGPKVVPDKLKAEIAINVHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRK 488
+++ K + + K + +F+N + + +++ + L G+++ +
Sbjct: 125 DDAESRIIHPKTDDQRNRL--QEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQ 182
Query: 489 GNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKGISP 548
G+ + +V+ + D+ + + + + + L
Sbjct: 183 GDD---------GDNFYVIDRGTF-DIYVKCDGVGRCVGNYDNRGS--FGELAL------ 224
Query: 549 SPFPGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKR------LQKYK 602
+ A++ + L+ L + ++ + A + ++ ++ L+ +
Sbjct: 225 --MYNTPKAATITATSPGALWGLDRVTFRRIIVKNNAKKRKMYESFIESLPFLKSLEVSE 282
Query: 603 RTPL----------------EKGEVGKEMYIVNRGRLQVV---------ADNGKTVLATL 637
R + +G++ +IV G +++ +NG +A
Sbjct: 283 RLKVVDVIGTKVYNDGEQIIAQGDLADSFFIVESGEVKITMKRKGKSEVEENGAVEIARC 342
Query: 638 RAGSYFGEISILN 650
G YFGE++++
Sbjct: 343 FRGQYFGELALVT 355
Score = 45.5 bits (107), Expect = 4e-05
Identities = 17/161 (10%), Positives = 50/161 (31%), Gaps = 25/161 (15%)
Query: 453 LKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVLSKTDM 512
++ + ++ E ++V + +++ G+ I +G+ + S V S
Sbjct: 269 IESLPFLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGD--------LADSFFIVESGE-- 318
Query: 513 WDVLKEYPAARVRLESIAVKRLQKYKRTPLEKGISPSPF------PGNRRTASVRSVGYS 566
++ ++ +++ + + F R AS ++G
Sbjct: 319 ---------VKITMKRKGKSEVEENGAVEIARCFRGQYFGELALVTNKPRAASAHAIGTV 369
Query: 567 DLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLE 607
+ +L R + ++L T ++
Sbjct: 370 KCLAMDVQAFERLLGPCMEIMKRNIATYEEQLVALFGTNMD 410
>4din_B CAMP-dependent protein kinase type I-beta regulat subunit,
CAMP-dependent protein kinase catalytic subunit A;
isoform diversity; HET: TPO SEP ATP; 3.70A {Homo
sapiens}
Length = 381
Score = 63.2 bits (153), Expect = 8e-11
Identities = 37/251 (14%), Positives = 85/251 (33%), Gaps = 58/251 (23%)
Query: 429 SANGPKVVPDKLKAEIAINVHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRK 488
+ + + V K + + + +F + + ++ + PV G+ + ++
Sbjct: 110 AVSYVRKVIPKDYKTMTAL--AKAISKNVLFAHLDDNERSDIFDAMFPVTHIAGETVIQQ 167
Query: 489 GNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK---YKRTPLEKG 545
GN + +V+ + V + V + + + L
Sbjct: 168 GNEG---------DNFYVV----------DQGEVDVYVNGEWVTNISEGGSFGELAL--- 205
Query: 546 ISPSPFPGNRRTASVRSVGYSDLFVLSKTD-----MWDVLKEYPAARVRLESIAV-KRLQ 599
G R A+V++ L+ + + M L++ L +++ + L+
Sbjct: 206 -----IYGTPRAATVKAKTDLKLWGIDRDSYRRILMGSTLRKRKMYEEFLSKVSILESLE 260
Query: 600 KYKRTPL----------------EKGEVGKEMYIVNRGRLQVV----ADNGKTVLATLRA 639
K++R + +GE G + YI+ G V+ + + L
Sbjct: 261 KWERLTVADALEPVQFEDGEKIVVQGEPGDDFYIITEGTASVLQRRSPNEEYVEVGRLGP 320
Query: 640 GSYFGEISILN 650
YFGEI++L
Sbjct: 321 SDYFGEIALLL 331
Score = 37.4 bits (86), Expect = 0.013
Identities = 30/166 (18%), Positives = 48/166 (28%), Gaps = 43/166 (25%)
Query: 447 NVHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFV 506
++ + L +V I ++ E + L PV F G+ I +G D F
Sbjct: 244 KMYEEFLSKVSILESLEKWERLTVADALEPVQFEDGEKIVVQGEP----------GDDFY 293
Query: 507 LSKTDMWDVLKEYPAARVRLESIAVKRLQK---------YKRTPLEKGISPSPFPGNRRT 557
+ VL+ E + V RL P R
Sbjct: 294 IITEGTASVLQRRSPNE---EYVEVGRLGPSDYFGEIALLLNRP--------------RA 336
Query: 558 ASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKR 603
A+V + G L + VL I + +Q+Y
Sbjct: 337 ATVVARGPLKCVKLDRPRFERVLGPCS-------EILKRNIQRYNS 375
>2qcs_B CAMP-dependent protein kinase type I-alpha regula subunit,
CAMP-dependent protein kinase, alpha-catalytic SU;
cyclic adenosine monophosphate; HET: SEP TPO ANP TAM;
2.20A {Bos taurus} PDB: 1rl3_A* 1rgs_A* 1ne6_A* 1ne4_A*
Length = 291
Score = 59.3 bits (143), Expect = 9e-10
Identities = 38/249 (15%), Positives = 84/249 (33%), Gaps = 54/249 (21%)
Query: 429 SANGPKVVPDKLKAEIAINVHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRK 488
+A+ + V K +A +++ +F + + ++ + PV F G+ + ++
Sbjct: 19 AASYVRKVIPKDYKTMAALAKA--IEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQ 76
Query: 489 GNR-RTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKGIS 547
G+ V G D++V ++ + L
Sbjct: 77 GDEGDNFYVIDQGEMDVYVNNE-----WATSVGEGGS------------FGELAL----- 114
Query: 548 PSPFPGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAV------KRLQKY 601
G R A+V++ L+ + + +L + ++ + + L K+
Sbjct: 115 ---IYGTPRAATVKAKTNVKLWGIDRDSYRRILMGSTLRKRKMYEEFLSKVSILESLDKW 171
Query: 602 KRTPL----------------EKGEVGKEMYIVNRGRLQVV----ADNGKTVLATLRAGS 641
+R + +GE G E +I+ G V+ + + L
Sbjct: 172 ERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAAVLQRRSENEEFVEVGRLGPSD 231
Query: 642 YFGEISILN 650
YFGEI++L
Sbjct: 232 YFGEIALLM 240
Score = 38.1 bits (88), Expect = 0.007
Identities = 28/165 (16%), Positives = 47/165 (28%), Gaps = 43/165 (26%)
Query: 448 VHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVL 507
++ + L +V I ++ + + L PV F G I +G D F +
Sbjct: 154 MYEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEP----------GDEFFI 203
Query: 508 SKTDMWDVLKEYPAARVRLESIAVKRLQK---------YKRTPLEKGISPSPFPGNRRTA 558
VL+ E + V RL P + A
Sbjct: 204 ILEGSAAVLQRRSENE---EFVEVGRLGPSDYFGEIALLMNRP--------------KAA 246
Query: 559 SVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKR 603
+V + G L + VL I + +Q+Y
Sbjct: 247 TVVARGPLKCVKLDRPRFERVLGPCS-------DILKRNIQQYNS 284
>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 = 59.5 bits (143), Expect = 3e-09
Identities = 81/590 (13%), Positives = 169/590 (28%), Gaps = 210/590 (35%)
Query: 147 DILIHFRTGYLEDGVLQTDSTKLRDHYMNS--TTFYIDCLCLLPLDFLYLSIGFNSILRL 204
DIL F ++++ D ++D S + ID + + +++
Sbjct: 20 DILSVFEDAFVDN----FDCKDVQD-MPKSILSKEEIDHIIMSK----------DAVSGT 64
Query: 205 FRLVKIYRFWAFMDRTER----------HTNYPNLF-------RSSSLIHYLLVIFH--- 244
RL FW + + E NY L R S++ + +
Sbjct: 65 LRL-----FWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119
Query: 245 WNGCL----YHIIYKNDGFGSRNWVYGDSDTTDVV--------KQYL-----QSY----- 282
+N Y++ R + +V+ K ++ SY
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK 179
Query: 283 -----YWCTLALTTIGDLPRPRSKGEYFFVIVQLLFGLLL-----FATVLGHVANIVTSV 332
+W + + P + ++++L LL + + H +NI +
Sbjct: 180 MDFKIFW-----LNLKNCNSPET-------VLEMLQKLLYQIDPNWTSRSDHSSNIKLRI 227
Query: 333 SAARKEFQAKLDGVKTYMRMRRVPNALQV-------KVIKWFDY----LWLTQKCSDEEK 381
+ + E + ++ + N L V K F+ L T+ K
Sbjct: 228 HSIQAEL-------RRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR-----FK 275
Query: 382 AVS-CLPGPGSSSTKLVH--GGQYELEEIAIVSN------QATPNQVKYGSGPLYMSANG 432
V+ L ++ L H E +++ Q P +V + P +S
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN-PRRLS--- 331
Query: 433 PKVVPDKLKAEIAINVHLDTLKRVEI--FQNTEAGFLCELVLRLRPVLFSPGDYICRKGN 490
++ + ++ +A D K V L L P +Y
Sbjct: 332 --IIAESIRDGLA---TWDNWKHVNCDKLTTIIESSLNVL---------EPAEY------ 371
Query: 491 RRTASVRSVGYSDLFVLSKTD----------MWD-------------------VLKEYPA 521
R+ + L V +W V K+
Sbjct: 372 RKM-------FDRLSVFPP-SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 522 ARVRLESIAVK-RLQKYKRTPLEKGI-----SPSPFPGNRRTASVRSVGYSDLFV---LS 572
+ + + SI ++ +++ L + I P F + Y + L
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD-QYFYSHIGHHLK 482
Query: 573 KTDMWDVLKEYPA---------ARVRLESIA----------VKRLQKYKR 603
+ + + + ++R +S A +++L+ YK
Sbjct: 483 NIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP 532
Score = 48.7 bits (115), Expect = 7e-06
Identities = 46/261 (17%), Positives = 91/261 (34%), Gaps = 65/261 (24%)
Query: 42 SHVRQAKLAPLTSNLTQDKCFHGNTGADCAVHRVAERYPRSSGPNLTFVFDPAGRFSYYW 101
+ + ++ L L + K F +V +P S+ ++ P S W
Sbjct: 356 TTIIESSLNVLEPAEYR-KMFD-----RLSV------FPPSA--HI-----PTILLSLIW 396
Query: 102 SMIVSLAFLYNFWVIIYRFAFQEINRESLVIWFCLDYMADLMYVIDILIHFRTGYLEDGV 161
++ + V++ ++++ SLV + + I + + +
Sbjct: 397 FDVIK----SDVMVVV-----NKLHKYSLVE---KQPKESTISIPSIYLELKVKLENEYA 444
Query: 162 LQTDSTKLRDHYMNSTTFYIDCLCLLPLD-FLYLSIGF-------NSILRLFRLVKIYRF 213
L + DHY TF D L LD + Y IG + LFR ++
Sbjct: 445 LHR---SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFR--MVFLD 499
Query: 214 WAFMDRTERHTNYPNLFRSSSLIHYLLVIFHWNGCLY--HIIYKNDGFGSR------NWV 265
+ F+++ RH + S S+++ L + Y +I ND R +++
Sbjct: 500 FRFLEQKIRHDSTA-WNASGSILNTLQQLK-----FYKPYIC-DNDPKYERLVNAILDFL 552
Query: 266 YG------DSDTTDVVKQYLQ 280
S TD+++ L
Sbjct: 553 PKIEENLICSKYTDLLRIALM 573
Score = 44.5 bits (104), Expect = 1e-04
Identities = 29/205 (14%), Positives = 70/205 (34%), Gaps = 50/205 (24%)
Query: 506 VLSKTDMWDVLKE-YPAARVR--LESIAVKRLQKYKRTPLEKGISPS-PFPGNR-RTASV 560
+LSK ++ ++ + ++ K+ + ++ +E+ + + F + +T
Sbjct: 45 ILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKF-VEEVLRINYKFLMSPIKTEQR 103
Query: 561 RSVGYSDLFVLSKTDMW---DVLKEYPAARVRLESIAVKRLQKYK--RTPLEKGEVGKEM 615
+ + +++ + ++ V +Y V RLQ Y R L E+
Sbjct: 104 QPSMMTRMYIEQRDRLYNDNQVFAKYN----------VSRLQPYLKLRQALL--ELRPAK 151
Query: 616 YIVNRGRLQVVADNGKTVLA--TLRAGS----YFGEISILNMGTAGT------------- 656
++ G V +GKT +A + +I LN+ +
Sbjct: 152 NVLIDG----VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207
Query: 657 ----NLIQECEDHISIRFRFCKAKS 677
N + +I+ R ++
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQA 232
Score = 37.9 bits (87), Expect = 0.011
Identities = 60/459 (13%), Positives = 135/459 (29%), Gaps = 133/459 (28%)
Query: 268 DSDTT-------DVVKQYLQSYYWCTLALTTIGDLPRP-RSKGEYFFVIVQ---LLFGLL 316
D +T D++ + ++ + D+P+ SK E +I+ + L
Sbjct: 8 DFETGEHQYQYKDILSVFEDAFV-DNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66
Query: 317 LFATVLGHVANIVTSVSAARKEFQAKLDGVKTYMRMRRVPNALQVKVIKWFDYLWLTQKC 376
LF T+L +V ++F V L++ +Y +L
Sbjct: 67 LFWTLLSKQEEMV-------QKF---------------VEEVLRI------NYKFLMSPI 98
Query: 377 SDEEKAVSCLPGPGSSST--KLVHGGQ-------------YELEEIAIVSNQATPNQVKY 421
E++ S + +L + Q +L + A++ + N +
Sbjct: 99 KTEQRQPS-MMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQ-ALLELRPAKNVLID 156
Query: 422 GSGPLYMSANGPKVVPDKLKAEIAINVHLDTLKRVEIF-----QNTEAGFLCE----LVL 472
G + +G K + ++ ++ + +IF + E L+
Sbjct: 157 G-----VLGSG-KTW---VALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207
Query: 473 RLRPVLFSPGDYICR--------KGNRRTASVRSVGYSDLFVLSKTDMWD--VLKEY-PA 521
++ P S D+ + R + L VL ++ + + +
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL--NVQNAKAWNAFNLS 265
Query: 522 ARV----RLESIA-VKRLQKYKRTPLEKGISPSPF-PGNRRT--ASVRSVGYSDL----- 568
++ R + + L+ P ++ DL
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDH--HSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323
Query: 569 ----FVLS--------KTDMWDVLKEYPAARV-RLESIAVKRLQKYKRTPLEKGEVGKEM 615
LS WD K ++ + ++ L+ P E ++M
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE-----PAEY----RKM 374
Query: 616 YIVNRGRLQVVADNGK---TVLATL-RAGSYFGEISILN 650
+ RL V + +L+ + + ++N
Sbjct: 375 FD----RLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409
>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 = 58.9 bits (142), Expect = 5e-09
Identities = 75/438 (17%), Positives = 120/438 (27%), Gaps = 169/438 (38%)
Query: 129 SLVIWFCLDYMADLM---------YVID-ILIHFRTGYLED--------GVLQTDSTKLR 170
LV F L Y++ L+ V++ L F YLE +LQ + T L
Sbjct: 59 ELVGKF-LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLV 117
Query: 171 DHYMNSTTFYIDCLCLL-PLDFLYLSIGFNSILRLFRLV-----KIYR-F------WAFM 217
+ + P D S LFR V ++ F +
Sbjct: 118 KTKELIKNYITARIMAKRPFDKKSNS-------ALFRAVGEGNAQLVAIFGGQGNTDDYF 170
Query: 218 D--RTERHTNYPNL-----FRSSSLIHYLLVIFHWNGCLYHIIYKNDGFGSRNWVYGDSD 270
+ R + + Y L S+ + L+ ++ G W+ S+
Sbjct: 171 EELR-DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT-----QGLNILEWLENPSN 224
Query: 271 TTDVVKQYLQSYYWCTLALTTIGDLPRPRSKGEYFFVIVQL--------LFGLL------ 316
T D YL S ++ IG ++QL L G
Sbjct: 225 TPDK--DYLLS---IPISCPLIG--------------VIQLAHYVVTAKLLGFTPGELRS 265
Query: 317 LFATVLGHVANIVTS--VSAAR--KEFQAKLDGVKTYMRMRRVPNALQVKVIKW-FDYLW 371
GH +VT+ ++ + F + K I F +
Sbjct: 266 YLKGATGHSQGLVTAVAIAETDSWESFFV---------------SV--RKAITVLF---F 305
Query: 372 LTQKCSDEEKAVSCLPGPGSSSTKLVHGGQYELEEIAIVSNQATPNQ----------VKY 421
I + +A PN ++
Sbjct: 306 -----------------------------------IGVRCYEAYPNTSLPPSILEDSLEN 330
Query: 422 GSG-PLYM-SANGPKVVPDKLKAEI-AINVHLDTLKRVEI-FQNTE-----AGF---LCE 469
G P M S + ++++ + N HL K+VEI N +G L
Sbjct: 331 NEGVPSPMLSISNLT--QEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYG 388
Query: 470 LVLRLRPVLFSPGDYICR 487
L L LR G R
Sbjct: 389 LNLTLRKAKAPSGLDQSR 406
Score = 44.3 bits (104), Expect = 1e-04
Identities = 72/408 (17%), Positives = 118/408 (28%), Gaps = 154/408 (37%)
Query: 317 LFATVLGHVANIVTSVSAAR---------KEFQAK-LDG------VKTYMRMRRVPNALQ 360
L LG+V+++V + EF+ L+G ++
Sbjct: 60 LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKT 119
Query: 361 VKVIKWFDYLWLTQKCSDEEKAVSCL--PGPGSSSTKLVH-------------GGQ---- 401
++IK +Y+ A P S++ L GGQ
Sbjct: 120 KELIK--NYI----------TARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD 167
Query: 402 -Y--ELEEIAIVSNQATPNQVKYGSGPLYMSANGPKVVPDKLKAEIAINVHLDTLKRVEI 458
Y EL ++ Y + V I +TL I
Sbjct: 168 DYFEELRDL-------------YQTYH-------VLVGD-------LIKFSAETLSE-LI 199
Query: 459 FQNTEAGFLCELVLRLRPVLFSPG-----DYICRKGNRRTASVRSVGYSDLFVLSKTDMW 513
+A + L + L +P DY+ S+ S
Sbjct: 200 RTTLDAEKVFTQGLNILEWLENPSNTPDKDYLL-----------SIPIS----------- 237
Query: 514 DVLKEYPAARVRLESIAVKRLQKYKRTPLEKGISPSPFPGNRRTASVRSVGYSDL---FV 570
P I V +L Y T G +P + A+ S L
Sbjct: 238 -----CPL-------IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHS---QGLVTAVA 282
Query: 571 LSKTDMWDVLKEYPAARVRLE---SIAVKRLQKYKRTPL---------EKGEVGKE--MY 616
+++TD W+ + + R + I V+ + Y T L E E G M
Sbjct: 283 IAETDSWESF--FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNE-GVPSPML 339
Query: 617 IV---NRGRLQ--VVADNGKTVLATLRAGSYFGEISILNMGTAGTNLI 659
+ + ++Q V N + L AG EIS++N NL+
Sbjct: 340 SISNLTQEQVQDYVNKTN-----SHLPAGKQV-EISLVN---GAKNLV 378
Score = 30.8 bits (69), Expect = 1.8
Identities = 36/198 (18%), Positives = 59/198 (29%), Gaps = 77/198 (38%)
Query: 2 LFSSSQTSVAGYVN--RGVNISSTPSEFDLPKAGGICRSRRDSHVRQAKLAPLTSNLTQD 59
L + Q ++ VN + + +S P L G+ +R+AK AP S L Q
Sbjct: 360 LPAGKQVEIS-LVNGAKNLVVSGPPQ--SLY---GLNL-----TLRKAK-AP--SGLDQS 405
Query: 60 KCFHGNTGADCAVHRVAERYPRSSGPNLTFVFDPAGRFSYYWSMIVSLAF----LYNFWV 115
+ ER + + F P V+ F L
Sbjct: 406 R----------IPFS--ERKLK-----FSNRFLP-----------VASPFHSHLLVP--- 434
Query: 116 IIYRFAFQEINRESLVIWFCLDYMADLM---YVIDILIHFRTGYLEDGVLQTDSTKLRDH 172
A IN++ + + D+ Y G D LR
Sbjct: 435 -----ASDLINKDLVKNNVSFN-AKDIQIPVY------DTFDG--SD---------LRVL 471
Query: 173 YMNSTTFYIDCLCLLPLD 190
+ + +DC+ LP+
Sbjct: 472 SGSISERIVDCIIRLPVK 489
Score = 30.0 bits (67), Expect = 3.0
Identities = 31/159 (19%), Positives = 47/159 (29%), Gaps = 48/159 (30%)
Query: 396 LVH-GGQYELEE-IAIVS------NQATPNQVKYGSGPLYMSANGPKVVPDKLKAEIAIN 447
L +E + +V A P + + G M A P V E
Sbjct: 1770 LASLADVMSIESLVEVVFYRGMTMQVAVP-RDELGRSNYGMIAINPGRVAASFSQEALQY 1828
Query: 448 VHLDTLKRVEIFQNTEAGFLCELVLRLRPVLF-SPGD-YICRKGNRRTASVRSVGYSDLF 505
V VE G+L E V + Y+ G+ R L
Sbjct: 1829 V-------VERVGK-RTGWLVE------IVNYNVENQQYVA-AGDLR----------ALD 1863
Query: 506 VLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEK 544
++ VL ++L+ I + LQ K LE+
Sbjct: 1864 TVTN-----VLNF-----IKLQKIDIIELQ--KSLSLEE 1890
>3gyd_A CNMP-BD protein, cyclic nucleotide-binding domain; nucleotide
binding protein, structural genomics; HET: MSE CMP;
1.79A {Methylobacillus flagellatus KT}
Length = 187
Score = 54.0 bits (130), Expect = 2e-08
Identities = 20/102 (19%), Positives = 38/102 (37%), Gaps = 19/102 (18%)
Query: 565 YSDLFVLSKTDM-----WDVLKEYP-------AARVRLESIAVKRLQKYKR--TPLEKGE 610
Y DL L D +++ + L S R L +G+
Sbjct: 21 YPDLVHLGGADKYFEEILEIVNKIKLFGDFSNEEVRYLCSYMQCY--AAPRDCQLLTEGD 78
Query: 611 VGKEMYIVNRGRLQVV---ADNGKTVLATLRAGSYFGEISIL 649
G + ++ G + V+ + G +A + AG+ GE+S++
Sbjct: 79 PGDYLLLILTGEVNVIKDIPNKGIQTIAKVGAGAIIGEMSMI 120
Score = 49.7 bits (119), Expect = 5e-07
Identities = 24/166 (14%), Positives = 59/166 (35%), Gaps = 35/166 (21%)
Query: 441 KAEIAINVHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVG 500
A+ L+ + ++++F + + L ++ + +G+
Sbjct: 29 GADKYFEEILEIVNKIKLFGDFSNEEVRYLCSYMQCYAAPRDCQLLTEGDPGDY------ 82
Query: 501 YSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKG--------ISPSPFP 552
L ++ ++ +V+K+ P ++ IA + G I P
Sbjct: 83 ---LLLILTGEV-NVIKDIPNKGIQT--IAK----------VGAGAIIGEMSMIDGMP-- 124
Query: 553 GNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRL 598
R+AS + +D VLS+ ++ +L P ++ ++ L
Sbjct: 125 ---RSASCVASLPTDFAVLSRDALYQLLANMPKLGNKVLIRLLQLL 167
>3ocp_A PRKG1 protein; serine/threonine kinase, TF2I and IRAG, transferase;
HET: CMP; 2.49A {Homo sapiens} PDB: 3od0_A* 3ogj_A*
Length = 139
Score = 51.2 bits (123), Expect = 6e-08
Identities = 15/129 (11%), Positives = 41/129 (31%), Gaps = 40/129 (31%)
Query: 435 VVPDKLKAEIAINVHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGN---- 490
+P K+ + ++ + + + +N E + E+V + PV + I ++G+
Sbjct: 7 TLPFYPKSPQSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSL 66
Query: 491 ------------------------------------RRTASVRSVGYSDLFVLSKTDMWD 514
RTA+V+++ L+ + +
Sbjct: 67 VYVMEDGKVEVTKEGVKLCTMGPGKVFGELAILYNCTRTATVKTLVNVKLWAIDRQCFQT 126
Query: 515 VLKEYPAAR 523
++ +
Sbjct: 127 IMMRTGLIK 135
Score = 46.2 bits (110), Expect = 3e-06
Identities = 14/44 (31%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Query: 607 EKGEVGKEMYIVNRGRLQVVADNGKTVLATLRAGSYFGEISILN 650
++G+VG +Y++ G+++V + L T+ G FGE++IL
Sbjct: 59 KEGDVGSLVYVMEDGKVEVTKEG--VKLCTMGPGKVFGELAILY 100
>2d93_A RAP guanine nucleotide exchange factor 6; CNMP_binding domain, PDZ
domain containing guanine nucleotide exchange factor 2,
PDZ-GEF2, RA-GEF-2; NMR {Homo sapiens}
Length = 134
Score = 49.7 bits (119), Expect = 2e-07
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 606 LEKGEVGKEMYIVNRGRLQVVADNGKTVLATLRAGSYFGEISILN 650
LE G+ Y++ G +++ +GK + L G+ FG L+
Sbjct: 52 LEDGQELDSWYVILNGTVEISHPDGK--VENLFMGNSFGITPTLD 94
>3idb_B CAMP-dependent protein kinase type II-beta regulatory subunit,
CAMP-dependent protein kinase catalytic subunit alpha;
PKA, SPR, affinity; HET: TPO SEP ANP; 1.62A {Rattus
norvegicus} PDB: 3idc_B*
Length = 161
Score = 50.1 bits (120), Expect = 2e-07
Identities = 9/46 (19%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 607 EKGEVGKEMYIVNRGRLQVV--ADNGKTVLATLRAGSYFGEISILN 650
++G+ G Y+++RG + D + FGE++++
Sbjct: 74 DQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGELALMY 119
Score = 48.5 bits (116), Expect = 8e-07
Identities = 16/166 (9%), Positives = 57/166 (34%), Gaps = 38/166 (22%)
Query: 433 PKVVPDKLKAEIAINVHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRR 492
+++ K + + K + +F+N + + +++ + L G+++ +G+
Sbjct: 22 SRIIHPKTDDQRNR--LQEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGD-- 77
Query: 493 TASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKG------- 545
G + +V+ + D+ + + + +
Sbjct: 78 ------DG-DNFYVIDRGTF-DIYVKCDGVGRCVGN-------------YDNRGSFGELA 116
Query: 546 -ISPSPFPGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRL 590
+ +P R A++ + L+ L + ++ + A + ++
Sbjct: 117 LMYNTP-----RAATITATSPGALWGLDRVTFRRIIVKNNAKKRKM 157
>3mdp_A Cyclic nucleotide-binding domain (CNMP-BD) protei; structural
genomics, joint center for structural genomics; HET:
MSE; 1.90A {Geobacter metallireducens}
Length = 142
Score = 49.6 bits (119), Expect = 2e-07
Identities = 19/159 (11%), Positives = 48/159 (30%), Gaps = 26/159 (16%)
Query: 448 VHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVL 507
+ + L+ F + L ++ L F G I ++ ++ L +L
Sbjct: 3 ISPERLRVYRFFASLTDEQLKDIALISEEKSFPTGSVIFKENSKADN---------LMLL 53
Query: 508 SKTDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKGIS---PSPFPGNRRTASVRSVG 564
+ + + + G S T+S R+
Sbjct: 54 LEG----------GVELFYSNGGAGSAANSTVCSVVPGAIFGVSSLIKPYHYTSSARATK 103
Query: 565 YSDLFVLSKTDMWDVLKEYPA-ARVRLESIA---VKRLQ 599
+ ++ + ++ + A +V + ++A + RL
Sbjct: 104 PVRVVDINGARLREMSENNQALGQVLMNNVAAAVLARLH 142
Score = 45.0 bits (107), Expect = 8e-06
Identities = 6/74 (8%), Positives = 25/74 (33%), Gaps = 10/74 (13%)
Query: 584 PAARVRLESIAVKRLQKYKR--TPLEKGEVGKEMYIVNRGRLQVV------ADNGKTVLA 635
+ I+ + + ++ + ++ G +++ + +
Sbjct: 19 DEQLKDIALIS--EEKSFPTGSVIFKENSKADNLMLLLEGGVELFYSNGGAGSAANSTVC 76
Query: 636 TLRAGSYFGEISIL 649
++ G+ FG S++
Sbjct: 77 SVVPGAIFGVSSLI 90
>1o7f_A CAMP-dependent RAP1 guanine-nucleotide exchange factor; EPAC2,
CAMP-GEF2, campb binding doamin, regulation; 2.5A {Mus
musculus} SCOP: a.4.5.31 b.82.3.2 b.82.3.2
Length = 469
Score = 52.2 bits (124), Expect = 3e-07
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 606 LEKGEVGKEMYIVNRGRLQVVADNGKTVLATLRAGSYFGEISILN 650
+GE G YI+ +G + VV GK V+ TL G FG+++++N
Sbjct: 373 FNQGEEGTSWYIILKGSVNVV-IYGKGVVCTLHEGDDFGKLALVN 416
Score = 43.0 bits (100), Expect = 3e-04
Identities = 21/180 (11%), Positives = 55/180 (30%), Gaps = 18/180 (10%)
Query: 441 KAEIAINVHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVG 500
++ +++ LK V+ F+ L ++ L G + R+G+ T
Sbjct: 32 RSSEDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTN------ 85
Query: 501 YSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKGISPSPFPGNRRTASV 560
+ + + DV ++ +I + + R A++
Sbjct: 86 ---WYAVLAGSL-DVKVSETSSHQDAVTICTLGIGTAFGESI--------LDNTPRHATI 133
Query: 561 RSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKGEVGKEMYIVNR 620
+ S+L + + D + ++Y L + ++ + + R
Sbjct: 134 VTRESSELLRIEQEDFKALWEKYRQYMAGLLAPPYGVMETGSNNDRIPDKENVPSEKILR 193
Score = 37.2 bits (85), Expect = 0.017
Identities = 13/44 (29%), Positives = 18/44 (40%), Gaps = 5/44 (11%)
Query: 607 EKGEVGKEMYIVNRGRLQVVADNG-----KTVLATLRAGSYFGE 645
+G++G Y V G L V + TL G+ FGE
Sbjct: 78 RQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTLGIGTAFGE 121
>2pqq_A Putative transcriptional regulator; APC7345, streptomyces
coelicolor structural genomics, PSI-2, protein structure
initiative; 2.00A {Streptomyces coelicolor A3}
Length = 149
Score = 48.8 bits (117), Expect = 5e-07
Identities = 14/71 (19%), Positives = 31/71 (43%), Gaps = 7/71 (9%)
Query: 584 PAARVRLESIAVKRLQKYKR--TPLEKGEVGKEMYIVNRGRLQV--VADNGK-TVLATLR 638
L + + R T +G+ G +Y+V G++++ + +G+ +LA +
Sbjct: 18 DEQSAELRASMSEV--TLARGDTLFHEGDPGDRLYVVTEGKVKLHRTSPDGRENMLAVVG 75
Query: 639 AGSYFGEISIL 649
GE+S+
Sbjct: 76 PSELIGELSLF 86
Score = 44.9 bits (107), Expect = 9e-06
Identities = 29/162 (17%), Positives = 53/162 (32%), Gaps = 43/162 (26%)
Query: 451 DTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVLSKT 510
D L+R +F + EL + V + GD + +G+ L+V+++
Sbjct: 5 DVLRRNPLFAALDDEQSAELRASMSEVTLARGDTLFHEGDPGDR---------LYVVTE- 54
Query: 511 DMWDVLKEYPAARVRLESIAVKRLQKYKRTP---------LEKGIS---PSPFPGNRRTA 558
+V+L ++ +P + S F RTA
Sbjct: 55 -----------GKVKL----------HRTSPDGRENMLAVVGPSELIGELSLFDPGPRTA 93
Query: 559 SVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
+ ++ L L D+ L P L +RL+K
Sbjct: 94 TGTALTEVKLLALGHGDLQPWLNVRPEVATALLRAVARRLRK 135
>3pna_A CAMP-dependent protein kinase type I-alpha regula subunit;
beta-barrel, CAMP-binding, catalytic subunit,
transferase; HET: CMP; 1.50A {Bos taurus} PDB: 3fhi_B*
3iia_A 3plq_A* 1u7e_B* 3pvb_B*
Length = 154
Score = 47.0 bits (112), Expect = 2e-06
Identities = 10/44 (22%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 607 EKGEVGKEMYIVNRGRLQVVADNGKTVLATLRAGSYFGEISILN 650
++G+ G Y++++G + V +N ++ G FGE++++
Sbjct: 74 QQGDEGDNFYVIDQGEMDVYVNN--EWATSVGEGGSFGELALIY 115
Score = 45.4 bits (108), Expect = 8e-06
Identities = 15/134 (11%), Positives = 41/134 (30%), Gaps = 43/134 (32%)
Query: 433 PKVVPDKLKAEIAINVHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGN-- 490
KV+P K + +++ +F + + ++ + PV F G+ + ++G+
Sbjct: 23 RKVIP---KDYKTMAALAKAIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEG 79
Query: 491 --------------------------------------RRTASVRSVGYSDLFVLSKTDM 512
R A+V++ L+ + +
Sbjct: 80 DNFYVIDQGEMDVYVNNEWATSVGEGGSFGELALIYGTPRAATVKAKTNVKLWGIDRDSY 139
Query: 513 WDVLKEYPAARVRL 526
+L + ++
Sbjct: 140 RRILMGSTLRKRKM 153
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 45.8 bits (109), Expect = 5e-06
Identities = 10/71 (14%), Positives = 22/71 (30%), Gaps = 7/71 (9%)
Query: 584 PAARVRLESIAVKRLQKYKR--TPLEKGEVGKEMYIVNRGRLQVV--ADNGK-TVLATLR 638
P L + + + +GE Y + G +++ G+ +L
Sbjct: 25 PVQLQELLASSDLV--NLDKGAYVFRQGEPAHAFYYLISGCVKIYRLTPEGQEKILEVTN 82
Query: 639 AGSYFGEISIL 649
+ F E +
Sbjct: 83 ERNTFAEAMMF 93
Score = 45.4 bits (108), Expect = 8e-06
Identities = 16/87 (18%), Positives = 31/87 (35%), Gaps = 11/87 (12%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYIC-----RKGNRRTASVRSVGYSDLFVLSK 509
V+I++ T G E +L + + + A+ ++V S LF S
Sbjct: 63 CVKIYRLTPEG--QEKILEV----TNERNTFAEAMMFMDTPNYVATAQAVVPSQLFRFSN 116
Query: 510 TDMWDVLKEYPAARVRLESIAVKRLQK 536
L++ + L + RL +
Sbjct: 117 KAYLRQLQDNTPLALALLAKLSTRLHQ 143
Score = 40.0 bits (94), Expect = 6e-04
Identities = 29/169 (17%), Positives = 49/169 (28%), Gaps = 50/169 (29%)
Query: 448 VHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVL 507
VH L+ +F+ L EL+ V G Y+ R+G A + L
Sbjct: 9 VHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHA---------FYYL 59
Query: 508 SKTDMWDVLKEYPAARVRLESIAVKRLQKYKRTP---------LEKGISPSPF------- 551
V++ Y+ TP + + F
Sbjct: 60 IS------------GCVKI----------YRLTPEGQEKILEVTNER---NTFAEAMMFM 94
Query: 552 PGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
A+ ++V S LF S L++ + L + RL +
Sbjct: 95 DTPNYVATAQAVVPSQLFRFSNKAYLRQLQDNTPLALALLAKLSTRLHQ 143
>1zyb_A Transcription regulator, CRP family; NP_813211.1, structural
genomics, joint center for structura genomics, JCSG;
2.15A {Bacteroides thetaiotaomicron} SCOP: a.4.5.4
b.82.3.2
Length = 232
Score = 46.9 bits (112), Expect = 6e-06
Identities = 16/91 (17%), Positives = 31/91 (34%), Gaps = 12/91 (13%)
Query: 575 DMWDVLKEYP-------AARVRLESIAVKRLQKYKR--TPLEKGEVGKEMYIVNRGRLQV 625
M+D L + P + K+K T ++ G ++ + +G + +
Sbjct: 15 TMFDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLLKGEISI 74
Query: 626 --VADNGK-TVLATLRAGSYFGEISILNMGT 653
A TV+ + A S+ M T
Sbjct: 75 VTNAKENIYTVIEQIEAPYLIEPQSLFGMNT 105
Score = 38.4 bits (90), Expect = 0.004
Identities = 13/87 (14%), Positives = 22/87 (25%), Gaps = 11/87 (12%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYI-----CRKGNRRTASVRSVGYSDLFVLSK 509
+ I N + V+ I +S + +SK
Sbjct: 71 EISIVTNAKENI--YTVIEQ----IEAPYLIEPQSLFGMNTNYASSYVAHTEVHTVCISK 124
Query: 510 TDMWDVLKEYPAARVRLESIAVKRLQK 536
+ L Y R+ +I R Q
Sbjct: 125 AFVLSDLFRYDIFRLNYMNIVSNRAQN 151
Score = 32.2 bits (74), Expect = 0.42
Identities = 25/161 (15%), Positives = 50/161 (31%), Gaps = 34/161 (21%)
Query: 449 HLDTLKRVEIFQNTEAGFLCELV--LRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFV 506
DTL ++ +FQ ++ ++L + G+ I + GN + F+
Sbjct: 16 MFDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNP----CTQLC----FL 67
Query: 507 LSKTDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKGISPSPF-------PGNRRTAS 559
L + + + A + T +E+ +P +S
Sbjct: 68 LK-------------GEISIVTNAKE----NIYTVIEQIEAPYLIEPQSLFGMNTNYASS 110
Query: 560 VRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
+ +SK + L Y R+ +I R Q
Sbjct: 111 YVAHTEVHTVCISKAFVLSDLFRYDIFRLNYMNIVSNRAQN 151
>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling;
HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB:
4avb_A* 4avc_A*
Length = 333
Score = 47.7 bits (113), Expect = 7e-06
Identities = 17/90 (18%), Positives = 31/90 (34%), Gaps = 10/90 (11%)
Query: 570 VLSKTDMW-DVLKEYP-------AARVRLESIAVKRLQKYKRTPLEKGEVGKEMYIVNRG 621
+ T + L V L + + L +GE +++ G
Sbjct: 4 IAELTGARVEDLAGMDVFQGCPAEGLVSLAASVQPLRAAAGQVLLRQGEPAVSFLLISSG 63
Query: 622 RLQVV--ADNGKTVLATLRAGSYFGEISIL 649
+V D+G ++A G GEI++L
Sbjct: 64 SAEVSHVGDDGVAIIARALPGMIVGEIALL 93
Score = 43.1 bits (101), Expect = 2e-04
Identities = 10/43 (23%), Positives = 21/43 (48%)
Query: 447 NVHLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKG 489
++ L +++FQ A L L ++P+ + G + R+G
Sbjct: 9 GARVEDLAGMDVFQGCPAEGLVSLAASVQPLRAAAGQVLLRQG 51
>3d0s_A Transcriptional regulatory protein; CAMP receptor protein (CRP),
dimer, inactive(APO, unliganded allostery, DNA binding,
cyclic AMP; 2.00A {Mycobacterium tuberculosis} PDB:
3i54_A* 3i59_A* 3mzh_A* 3h3u_A* 3r6s_A*
Length = 227
Score = 46.1 bits (110), Expect = 1e-05
Identities = 20/85 (23%), Positives = 41/85 (48%), Gaps = 9/85 (10%)
Query: 570 VLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKR--TPLEKGEVGKEMYIVNRGRLQV-- 625
+L++ ++ ++ P+A L + R T +GE G +YI+ G++++
Sbjct: 7 ILARAGIFQGVE--PSAIAALTKQLQPV--DFPRGHTVFAEGEPGDRLYIIISGKVKIGR 62
Query: 626 VADNGK-TVLATLRAGSYFGEISIL 649
A +G+ +L + FGE+SI
Sbjct: 63 RAPDGRENLLTIMGPSDMFGELSIF 87
Score = 38.4 bits (90), Expect = 0.004
Identities = 14/86 (16%), Positives = 32/86 (37%), Gaps = 10/86 (11%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYICR----KGNRRTASVRSVGYSDLFVLSKT 510
+V+I + G E +L + P D RT+S ++ + +
Sbjct: 57 KVKIGRRAPDGR--ENLLTI----MGPSDMFGELSIFDPGPRTSSATTITEVRAVSMDRD 110
Query: 511 DMWDVLKEYPAARVRLESIAVKRLQK 536
+ + + P +L + +RL++
Sbjct: 111 ALRSWIADRPEISEQLLRVLARRLRR 136
Score = 36.4 bits (85), Expect = 0.015
Identities = 26/162 (16%), Positives = 53/162 (32%), Gaps = 43/162 (26%)
Query: 451 DTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVLSKT 510
+ L R IFQ E + L +L+PV F G + +G L+++
Sbjct: 6 EILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDR---------LYIIIS- 55
Query: 511 DMWDVLKEYPAARVRLESIAVKRLQKYKRTP---------LEKGIS---PSPFPGNRRTA 558
+V++ +R P + S F RT+
Sbjct: 56 -----------GKVKI----------GRRAPDGRENLLTIMGPSDMFGELSIFDPGPRTS 94
Query: 559 SVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
S ++ + + + + + P +L + +RL++
Sbjct: 95 SATTITEVRAVSMDRDALRSWIADRPEISEQLLRVLARRLRR 136
>3ryp_A Catabolite gene activator; CAMP receptor protein (CRP), allostery,
DNA binding cyclic A transcription regulator; HET: CMP;
1.60A {Escherichia coli} PDB: 2cgp_A* 3hif_A 1g6n_A*
3ryr_A* 1i5z_A* 1j59_A* 1lb2_A* 1run_A* 1zrc_A* 1zrd_A*
1zre_A* 1zrf_A* 2gzw_A* 2wc2_A 3iyd_G* 3n4m_A* 3qop_A*
3rdi_A* 3rou_A* 3rpq_A* ...
Length = 210
Score = 44.9 bits (107), Expect = 2e-05
Identities = 17/75 (22%), Positives = 30/75 (40%), Gaps = 7/75 (9%)
Query: 584 PAARVRLESIAVKRLQKYKR--TPLEKGEVGKEMYIVNRGRLQV--VADNGK-TVLATLR 638
S KY T + +GE + +Y + +G + V + GK +L+ L
Sbjct: 9 DPTLEWFLSHCHIH--KYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLN 66
Query: 639 AGSYFGEISILNMGT 653
G + GE+ + G
Sbjct: 67 QGDFIGELGLFEEGQ 81
Score = 41.8 bits (99), Expect = 3e-04
Identities = 20/87 (22%), Positives = 37/87 (42%), Gaps = 11/87 (12%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYIC-----RKGNRRTASVRSVGYSDLFVLSK 509
V + E G E++L + GD+I +G R+A VR+ ++ +S
Sbjct: 47 SVAVLIKDEEGK--EMILSY----LNQGDFIGELGLFEEGQERSAWVRAKTACEVAEISY 100
Query: 510 TDMWDVLKEYPAARVRLESIAVKRLQK 536
+++ P +RL + +RLQ
Sbjct: 101 KKFRQLIQVNPDILMRLSAQMARRLQV 127
Score = 33.4 bits (77), Expect = 0.14
Identities = 12/49 (24%), Positives = 23/49 (46%)
Query: 552 PGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
G R+A VR+ ++ +S +++ P +RL + +RLQ
Sbjct: 79 EGQERSAWVRAKTACEVAEISYKKFRQLIQVNPDILMRLSAQMARRLQV 127
>3kcc_A Catabolite gene activator; helix-turn-helix, CAMP, CAMP-binding,
DNA-binding nucleotide-binding, transcription,
transcription regulation; HET: CMP; 1.66A {Escherichia
coli}
Length = 260
Score = 45.4 bits (108), Expect = 2e-05
Identities = 17/75 (22%), Positives = 30/75 (40%), Gaps = 7/75 (9%)
Query: 584 PAARVRLESIAVKRLQKYKR--TPLEKGEVGKEMYIVNRGRLQV--VADNGK-TVLATLR 638
S KY T + +GE + +Y + +G + V + GK +L+ L
Sbjct: 59 DPTLEWFLSHCHIH--KYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLN 116
Query: 639 AGSYFGEISILNMGT 653
G + GE+ + G
Sbjct: 117 QGDFIGELGLFEEGQ 131
Score = 42.4 bits (100), Expect = 2e-04
Identities = 20/87 (22%), Positives = 37/87 (42%), Gaps = 11/87 (12%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYIC-----RKGNRRTASVRSVGYSDLFVLSK 509
V + E G E++L + GD+I +G R+A VR+ ++ +S
Sbjct: 97 SVAVLIKDEEGK--EMILSY----LNQGDFIGELGLFEEGQERSAWVRAKTACEVAEISY 150
Query: 510 TDMWDVLKEYPAARVRLESIAVKRLQK 536
+++ P +RL + +RLQ
Sbjct: 151 KKFRQLIQVNPDILMRLSAQMARRLQV 177
Score = 33.9 bits (78), Expect = 0.12
Identities = 12/49 (24%), Positives = 23/49 (46%)
Query: 552 PGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
G R+A VR+ ++ +S +++ P +RL + +RLQ
Sbjct: 129 EGQERSAWVRAKTACEVAEISYKKFRQLIQVNPDILMRLSAQMARRLQV 177
>3e97_A Transcriptional regulator, CRP/FNR family; YP_604437.1, structural
genomics, joint center for structural genomics, JCSG;
HET: MSE; 1.86A {Deinococcus geothermalis dsm 11300}
Length = 231
Score = 44.9 bits (107), Expect = 3e-05
Identities = 15/71 (21%), Positives = 32/71 (45%), Gaps = 7/71 (9%)
Query: 584 PAARVRLESIAVKRLQKYKR--TPLEKGEVGKEMYIVNRGRLQV--VADNGK-TVLATLR 638
A + +R ++ +E+ G+ +++V G ++V V+ G+ VL +
Sbjct: 19 EDAMREALKVVTER--NFQPDELVVEQDAEGEALHLVTTGVVRVSRVSLGGRERVLGDIY 76
Query: 639 AGSYFGEISIL 649
A GE ++L
Sbjct: 77 APGVVGETAVL 87
Score = 40.7 bits (96), Expect = 7e-04
Identities = 25/163 (15%), Positives = 51/163 (31%), Gaps = 43/163 (26%)
Query: 449 HLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVLS 508
LD LKR +FQN + E + + F P + + + A L +++
Sbjct: 4 RLDDLKRSPLFQNVPEDAMREALKVVTERNFQPDELVVEQDAEGEA---------LHLVT 54
Query: 509 KTDMWDVLKEYPAARVRLESIAVKRLQKYKRTP---------LEKGIS---PSPFPGNRR 556
VR+ + + + + R
Sbjct: 55 T------------GVVRV----------SRVSLGGRERVLGDIYAPGVVGETAVLAHQER 92
Query: 557 TASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQ 599
+ASVR++ +L + +L+ +P L + +R+
Sbjct: 93 SASVRALTPVRTLMLHREHFELILRRHPRVLWNLAEMLARRVT 135
>4ev0_A Transcription regulator, CRP family; CAMP binding, winged
helix-turn-helix motif, DNA binding, transcription
activator; HET: CMP; 2.40A {Thermus thermophilus}
Length = 216
Score = 44.5 bits (106), Expect = 3e-05
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 7/71 (9%)
Query: 584 PAARVRLESIAVKRLQKYKR--TPLEKGEVGKEMYIVNRGRLQV--VADNGK-TVLATLR 638
P S +R Y + +G++G+ +Y+V G++++ G+ LA L
Sbjct: 12 PEEVDLALSYFQRR--LYPQGKPIFYQGDLGQALYLVASGKVRLFRTHLGGQERTLALLG 69
Query: 639 AGSYFGEISIL 649
G FGE+S+L
Sbjct: 70 PGELFGEMSLL 80
Score = 39.5 bits (93), Expect = 0.002
Identities = 19/86 (22%), Positives = 36/86 (41%), Gaps = 10/86 (11%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYICR----KGNRRTASVRSVGYSDLFVLSKT 510
+V +F+ G E L L PG+ R+AS +V ++L L +
Sbjct: 50 KVRLFRTHLGGQ--ERTLAL----LGPGELFGEMSLLDEGERSASAVAVEDTELLALFRE 103
Query: 511 DMWDVLKEYPAARVRLESIAVKRLQK 536
D +++ P L ++ +RL++
Sbjct: 104 DYLALIRRLPLVAHNLAALLARRLRE 129
Score = 35.3 bits (82), Expect = 0.042
Identities = 25/160 (15%), Positives = 53/160 (33%), Gaps = 43/160 (26%)
Query: 453 LKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVLSKTDM 512
+K +F + + + L+ G I +G+ A L++++
Sbjct: 1 MKGSPLFHGLAPEEVDLALSYFQRRLYPQGKPIFYQGDLGQA---------LYLVAS--- 48
Query: 513 WDVLKEYPAARVRLESIAVKRLQKYKRTP---------LEKGIS---PSPFPGNRRTASV 560
+VRL ++ L G S R+AS
Sbjct: 49 ---------GKVRL----------FRTHLGGQERTLALLGPGELFGEMSLLDEGERSASA 89
Query: 561 RSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
+V ++L L + D +++ P L ++ +RL++
Sbjct: 90 VAVEDTELLALFREDYLALIRRLPLVAHNLAALLARRLRE 129
>3iwz_A CAP-like, catabolite activation-like protein; XCC, pathogenicity,
CRP, CLP, C-DI-GMP receptor, quorum SENS binding,
transcription; 2.30A {Xanthomonas campestris PV}
Length = 230
Score = 44.2 bits (105), Expect = 6e-05
Identities = 14/74 (18%), Positives = 30/74 (40%), Gaps = 7/74 (9%)
Query: 584 PAARVRLESIAVKRLQKYKR-TPL-EKGEVGKEMYIVNRGRLQVV--ADNGK-TVLATLR 638
R + + +R +Y T + G+ +Y V G + ++ D+ + VL
Sbjct: 24 AGTIERFLAHSHRR--RYPTRTDVFRPGDPAGTLYYVISGSVSIIAEEDDDRELVLGYFG 81
Query: 639 AGSYFGEISILNMG 652
+G + GE+ +
Sbjct: 82 SGEFVGEMGLFIES 95
>3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix,
homodimer, transcription regulator; 3.60A {Pseudomonas
aeruginosa}
Length = 227
Score = 43.8 bits (104), Expect = 7e-05
Identities = 12/86 (13%), Positives = 30/86 (34%), Gaps = 9/86 (10%)
Query: 570 VLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKR-TPL-EKGEVGKEMYIVNRGRLQV-- 625
+L +++ L P L + + + + +GE Y + G +++
Sbjct: 10 LLQSHHLFEPLS--PVQLQELLASSDLV--NLDKGAYVFRQGEPAHAFYYLISGCVKIYR 65
Query: 626 VADNGK-TVLATLRAGSYFGEISILN 650
+ G+ +L + F E +
Sbjct: 66 LTPEGQEKILEVTNERNTFAEAMMFM 91
Score = 39.2 bits (92), Expect = 0.002
Identities = 16/87 (18%), Positives = 31/87 (35%), Gaps = 11/87 (12%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYIC-----RKGNRRTASVRSVGYSDLFVLSK 509
V+I++ T G E +L + + + A+ ++V S LF S
Sbjct: 60 CVKIYRLTPEGQ--EKILEV----TNERNTFAEAMMFMDTPNYVATAQAVVPSQLFRFSN 113
Query: 510 TDMWDVLKEYPAARVRLESIAVKRLQK 536
L++ + L + RL +
Sbjct: 114 KAYLRQLQDNTPLALALLAKLSTRLHQ 140
>2oz6_A Virulence factor regulator; winged helix, helix-turn-helix,
transcription factor, CAMP-B proteins, CAMP receptor
protein; HET: CMP; 2.80A {Pseudomonas aeruginosa} SCOP:
a.4.5.4 b.82.3.2
Length = 207
Score = 43.0 bits (102), Expect = 9e-05
Identities = 13/72 (18%), Positives = 34/72 (47%), Gaps = 7/72 (9%)
Query: 584 PAARVRLESIAVKRLQKYKR--TPLEKGEVGKEMYIVNRGRLQV--VADNGK-TVLATLR 638
+L + +R +Y T + G+ + ++ + +G + + D+G+ ++ L
Sbjct: 3 LKHLDKLLAHCHRR--RYTAKSTIIYAGDRCETLFFIIKGSVTILIEDDDGREMIIGYLN 60
Query: 639 AGSYFGEISILN 650
+G +FGE+ +
Sbjct: 61 SGDFFGELGLFE 72
Score = 38.4 bits (90), Expect = 0.003
Identities = 16/90 (17%), Positives = 32/90 (35%), Gaps = 14/90 (15%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYIC--------RKGNRRTASVRSVGYSDLFV 506
V I + G E+++ + GD+ R+A VR+ ++
Sbjct: 41 SVTILIEDDDGR--EMIIGY----LNSGDFFGELGLFEKEGSEQERSAWVRAKVECEVAE 94
Query: 507 LSKTDMWDVLKEYPAARVRLESIAVKRLQK 536
+S ++ ++ L S RL+K
Sbjct: 95 ISYAKFRELSQQDSEILYTLGSQMADRLRK 124
Score = 31.0 bits (71), Expect = 0.77
Identities = 12/58 (20%), Positives = 23/58 (39%)
Query: 543 EKGISPSPFPGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
E G+ R+A VR+ ++ +S ++ ++ L S RL+K
Sbjct: 67 ELGLFEKEGSEQERSAWVRAKVECEVAEISYAKFRELSQQDSEILYTLGSQMADRLRK 124
>2fmy_A COOA, carbon monoxide oxidation system transcription RE COOA-1; DNA
transcription regulator, DNA binding protein; HET: HEM;
2.20A {Carboxydothermus hydrogenoformans} PDB: 2hkx_A*
Length = 220
Score = 43.0 bits (102), Expect = 1e-04
Identities = 17/86 (19%), Positives = 33/86 (38%), Gaps = 8/86 (9%)
Query: 566 SDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKR--TPLEKGEVGKEMYIVNRGRL 623
+ L+ T++ +VL + ++ +Y + +++V GR+
Sbjct: 1 ATQMRLTDTNLLEVLN--SEEYSGVLKEFREQ--RYSKKAILYTPNTERNLVFLVKSGRV 56
Query: 624 QVV-ADNGK-TVLATLRAGSYFGEIS 647
+V A K LA L AG F +
Sbjct: 57 RVYLAYEDKEFTLAILEAGDIFCTHT 82
Score = 36.1 bits (84), Expect = 0.022
Identities = 12/82 (14%), Positives = 30/82 (36%), Gaps = 10/82 (12%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVLSKTDMWD 514
RV ++ E E L + GD A ++++ + + + +
Sbjct: 55 RVRVYLAYEDK---EFTLAI----LEAGDIF---CTHTRAFIQAMEDTTILYTDIRNFQN 104
Query: 515 VLKEYPAARVRLESIAVKRLQK 536
++ E+PA + + + L+
Sbjct: 105 IVVEFPAFSLNMVKVLGDLLKN 126
Score = 28.8 bits (65), Expect = 5.5
Identities = 5/48 (10%), Positives = 20/48 (41%)
Query: 553 GNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
A ++++ + + + +++ E+PA + + + L+
Sbjct: 79 CTHTRAFIQAMEDTTILYTDIRNFQNIVVEFPAFSLNMVKVLGDLLKN 126
>3fx3_A Cyclic nucleotide-binding protein; helix_TURN_helix, CAMP
regulatory protein, structural genomi 2, protein
structure initiative; 2.20A {Ruegeria pomeroyi} PDB:
3h3z_A*
Length = 237
Score = 43.4 bits (103), Expect = 1e-04
Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 7/72 (9%)
Query: 584 PAARVRLESIAVKRLQKYKR-TPL-EKGEVGKEMYIVNRGRLQV--VADNGK-TVLATLR 638
L S AV R Y R L + E + +++V G +++ + G V++
Sbjct: 24 EQHVDALLSQAVWR--SYDRGETLFLQEEKAQAIHVVIDGWVKLFRMTPTGSEAVVSVFT 81
Query: 639 AGSYFGEISILN 650
G FGE L
Sbjct: 82 RGESFGEAVALR 93
Score = 39.6 bits (93), Expect = 0.002
Identities = 12/86 (13%), Positives = 30/86 (34%), Gaps = 10/86 (11%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYICR----KGNRRTASVRSVGYSDLFVLSKT 510
V++F+ T G E V+ + F+ G+ + S +V ++ +
Sbjct: 62 WVKLFRMTPTGS--EAVVSV----FTRGESFGEAVALRNTPYPVSAEAVTPCEVMHIPSP 115
Query: 511 DMWDVLKEYPAARVRLESIAVKRLQK 536
+++ P + + + L
Sbjct: 116 VFVSLMRRDPEICISILATTFGHLHS 141
Score = 34.2 bits (79), Expect = 0.086
Identities = 4/50 (8%), Positives = 14/50 (28%)
Query: 551 FPGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
S +V ++ + +++ P + + + L
Sbjct: 92 LRNTPYPVSAEAVTPCEVMHIPSPVFVSLMRRDPEICISILATTFGHLHS 141
>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA;
3.10A {Mesorhizobium loti} PDB: 2zd9_A*
Length = 355
Score = 42.5 bits (100), Expect = 3e-04
Identities = 39/253 (15%), Positives = 73/253 (28%), Gaps = 63/253 (24%)
Query: 93 PAGRFSYYWSMIVSLAFLYNF-------WVIIYRFAFQEINRESL-VIWFCLDYMADLMY 144
P R + +++ L R A + ++ + L A L+
Sbjct: 5 PFLRIYAPLNAVLAAPGLLAVAALTIPDMSGRSRLALAAL--LAVIWGAYLLQLAATLL- 61
Query: 145 VIDILIHFRTGYLEDGVLQTDSTKLRDHYMNSTTFYIDCLCLLP--LDFLYLSIGFNSIL 202
+ + ID L +L FL S+
Sbjct: 62 ---------------------KRRAGVVRDRTPKIAIDVLAVLVPLAAFLLDGSPDWSLY 100
Query: 203 RLFRLVKIYRF---WAFMDRTERHTNYPNLFRSSSLIHYLLVIFHWNGCLYHII---YKN 256
L+K R + + R + NL ++L +L ++I +
Sbjct: 101 CAVWLLKPLRDSTFFPVLGRVLANE-ARNLIGVTTLFGVVLFAV---ALAAYVIERDIQP 156
Query: 257 DGFGSRNWVYGDSDTTDVVKQYLQSYYWCTLALTTIG--DLPRPRSKGEYFFVIVQLLFG 314
+ FGS Q+ +W + L+T G D P+S ++ G
Sbjct: 157 EKFGS----------------IPQAMWWAVVTLSTTGYGDT-IPQSFAGRVLAGAVMMSG 199
Query: 315 LLLFATVLGHVAN 327
+ +F G +A
Sbjct: 200 IGIFGLWAGILAT 212
Score = 39.1 bits (91), Expect = 0.004
Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 4/67 (5%)
Query: 584 PAARVRLESIAVKRLQKYKRTPLEKGEVGKEMYIVNRGRLQVVADNGKTVLATLRAGSYF 643
PA V + R GE G M+ V G + V N L G++F
Sbjct: 241 PAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATPNP----VELGPGAFF 296
Query: 644 GEISILN 650
GE+++++
Sbjct: 297 GEMALIS 303
Score = 35.2 bits (81), Expect = 0.057
Identities = 14/67 (20%), Positives = 21/67 (31%), Gaps = 4/67 (5%)
Query: 471 VLRLRPVLFSPGDYICRKG----NRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRL 526
V PV PG + R+A+V + L L D + P
Sbjct: 282 VATPNPVELGPGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQMLCSSSPEIAEIF 341
Query: 527 ESIAVKR 533
A++R
Sbjct: 342 RKTALER 348
Score = 33.3 bits (76), Expect = 0.24
Identities = 30/149 (20%), Positives = 43/149 (28%), Gaps = 26/149 (17%)
Query: 449 HLDTLKRVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVLS 508
+ + V +FQ L E+V LR G ICR G G FV+
Sbjct: 226 NWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEP--------GDRMFFVVE 277
Query: 509 KTDMWDVLKEYPAARVRLESIAVKRLQKYKRTPLEKGISPSPFPGNRRTASVRSVGYSDL 568
+ V L A E + G R+A+V + L
Sbjct: 278 -----GSVSVATPNPVELGPGAFFG---------EMAL----ISGEPRSATVSAATTVSL 319
Query: 569 FVLSKTDMWDVLKEYPAARVRLESIAVKR 597
L D + P A++R
Sbjct: 320 LSLHSADFQMLCSSSPEIAEIFRKTALER 348
>3e6c_C CPRK, cyclic nucleotide-binding protein; CPRK, halorespiration;
HET: DNA 3C4; 1.80A {Desulfitobacterium hafniense} SCOP:
a.4.5.4 b.82.3.2 PDB: 3e6b_A* 3e5u_C* 3e6d_A 3e5x_A*
3e5q_A 2h6b_A* 2h6c_A
Length = 250
Score = 41.9 bits (99), Expect = 4e-04
Identities = 9/72 (12%), Positives = 25/72 (34%), Gaps = 7/72 (9%)
Query: 584 PAARVRLESIAVKRLQKYKR--TPLEKGEVGKEMYIVNRGRLQV--VADNGK-TVLATLR 638
+ + R + + + GE M + G++++ + ++G +L
Sbjct: 22 IEKLRNYTQMGLIR--DFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAG 79
Query: 639 AGSYFGEISILN 650
S G++
Sbjct: 80 GNSLIGKLYPTG 91
Score = 35.0 bits (81), Expect = 0.061
Identities = 7/83 (8%), Positives = 23/83 (27%), Gaps = 7/83 (8%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKG-NRRTASVRSVGYSDLFVLSKTDMW 513
++++ E G E +L I + ++ + S+ +
Sbjct: 60 KIKLDIIFEDGS--EKLLYY----AGGNSLIGKLYPTGNNIYATAMEPTRTCWFSEKSLR 113
Query: 514 DVLKEYPAARVRLESIAVKRLQK 536
V + + + ++
Sbjct: 114 TVFRTDEDMIFEIFKNYLTKVAY 136
Score = 28.4 bits (64), Expect = 7.0
Identities = 2/45 (4%), Positives = 12/45 (26%)
Query: 556 RTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
++ + S+ + V + + + ++
Sbjct: 92 NNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAY 136
>1ft9_A Carbon monoxide oxidation system transcription regulator; heme
sensor, catabolite gene activator protein; HET: HEM;
2.60A {Rhodospirillum rubrum} SCOP: a.4.5.4 b.82.3.1
Length = 222
Score = 41.1 bits (97), Expect = 5e-04
Identities = 13/82 (15%), Positives = 28/82 (34%), Gaps = 8/82 (9%)
Query: 570 VLSKTDMWDVLKEYPAARVRLESIAVKRLQKYKR--TPLEKGEVGKEMYIVNRGRLQV-- 625
+ + ++ +VL + + + +++V GRL+V
Sbjct: 1 MPPRFNIANVLL--SPDGETFFRGFRSK--IHAKGSLVCTGEGDENGVFVVVDGRLRVYL 56
Query: 626 VADNGKTVLATLRAGSYFGEIS 647
V + + L L +G F S
Sbjct: 57 VGEEREISLFYLTSGDMFCMHS 78
Score = 36.5 bits (85), Expect = 0.016
Identities = 12/82 (14%), Positives = 25/82 (30%), Gaps = 10/82 (12%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYICRKGNRRTASVRSVGYSDLFVLSKTDMWD 514
R+ ++ E E+ L + GD V + +++
Sbjct: 51 RLRVYLVGEER---EISLFY----LTSGDMF---CMHSGCLVEATERTEVRFADIRTFEQ 100
Query: 515 VLKEYPAARVRLESIAVKRLQK 536
L+ P+ L +I + L
Sbjct: 101 KLQTCPSMAWGLIAILGRALTS 122
Score = 28.0 bits (63), Expect = 9.0
Identities = 6/45 (13%), Positives = 14/45 (31%)
Query: 556 RTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
V + +++ L+ P+ L +I + L
Sbjct: 78 SGCLVEATERTEVRFADIRTFEQKLQTCPSMAWGLIAILGRALTS 122
>3la7_A Global nitrogen regulator; activator, DNA-binding, transcription,
transcription regulation; HET: BOG; 1.90A {Anabaena}
PDB: 3la2_A* 3la3_A* 2xko_A* 2xgx_A* 2xhk_A* 2xkp_A*
Length = 243
Score = 40.8 bits (96), Expect = 7e-04
Identities = 13/48 (27%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 609 GEVGKEMYIVNRGRLQV--VADNGK-TVLATLRAGSYFGEISILNMGT 653
G+ + +Y + +G +++ V + G+ +A LR S FG +S+L
Sbjct: 58 GDPAERVYFLLKGAVKLSRVYEAGEEITVALLRENSVFGVLSLLTGNK 105
Score = 35.8 bits (83), Expect = 0.028
Identities = 13/88 (14%), Positives = 26/88 (29%), Gaps = 12/88 (13%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYIC------RKGNRRTASVRSVGYSDLFVLS 508
V++ + EAG E+ + L + R + +L
Sbjct: 71 AVKLSRVYEAGE--EITVAL----LRENSVFGVLSLLTGNKSDRFYHAVAFTPVELLSAP 124
Query: 509 KTDMWDVLKEYPAARVRLESIAVKRLQK 536
+ LKE P + + R+ +
Sbjct: 125 IEQVEQALKENPELSMLMLRGLSSRILQ 152
Score = 29.2 bits (66), Expect = 4.3
Identities = 7/45 (15%), Positives = 14/45 (31%)
Query: 556 RTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
R + +L + LKE P + + R+ +
Sbjct: 108 RFYHAVAFTPVELLSAPIEQVEQALKENPELSMLMLRGLSSRILQ 152
>1o5l_A Transcriptional regulator, CRP family; TM1171, structural GE JCSG,
PSI, protein structure initiative, joint center for S
genomics; 2.30A {Thermotoga maritima} SCOP: b.82.3.2
Length = 213
Score = 40.3 bits (95), Expect = 8e-04
Identities = 9/66 (13%), Positives = 28/66 (42%), Gaps = 6/66 (9%)
Query: 590 LESIA-VKRLQKYKR--TPLEKGEVGKEMYIVNRGRLQV--VADNGK-TVLATLRAGSYF 643
L+ + ++ +++ + + +++ I+ G L+ V++NGK + ++
Sbjct: 15 LKKLLPCGKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENGKTLEIDEIKPVQII 74
Query: 644 GEISIL 649
I
Sbjct: 75 ASGFIF 80
Score = 36.8 bits (86), Expect = 0.010
Identities = 11/87 (12%), Positives = 24/87 (27%), Gaps = 11/87 (12%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDY-----ICRKGNRRTASVRSVGYSDLFVLSK 509
++ +E G L + P I R +V + S + + K
Sbjct: 50 TLKTEHVSENGK--TLEIDE----IKPVQIIASGFIFSSEPRFPVNVVAGENSKILSIPK 103
Query: 510 TDMWDVLKEYPAARVRLESIAVKRLQK 536
D+L + + + +
Sbjct: 104 EVFLDLLMKDRELLLFFLKDVSEHFRV 130
Score = 28.3 bits (64), Expect = 7.4
Identities = 6/49 (12%), Positives = 15/49 (30%)
Query: 552 PGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
R +V + S + + K D+L + + + +
Sbjct: 82 SEPRFPVNVVAGENSKILSIPKEVFLDLLMKDRELLLFFLKDVSEHFRV 130
>2bgc_A PRFA; bacterial infection, human pathogen, transcriptional regulat
transcription; HET: PR3; 2.3A {Listeria monocytogenes}
SCOP: a.4.5.4 b.82.3.3 PDB: 2beo_A* 1omi_A
Length = 238
Score = 40.4 bits (95), Expect = 8e-04
Identities = 12/78 (15%), Positives = 29/78 (37%), Gaps = 10/78 (12%)
Query: 580 LKEYPAARVRLESIAVKRLQKYKRTPL-EKGEVGKEMYIVNRGRLQV--VADNGK-TVLA 635
K+Y LE+ +K Q +K+ + + + + + G ++ +++NG L
Sbjct: 9 FKKY------LETNGIKPKQFHKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQ 62
Query: 636 TLRAGSYFGEISILNMGT 653
+ I +
Sbjct: 63 YYKGAFVIMSGFIDTETS 80
Score = 29.6 bits (67), Expect = 2.5
Identities = 7/91 (7%), Positives = 29/91 (31%), Gaps = 12/91 (13%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYIC-----RKGNRRTASVRSVG-YSDLFVLS 508
++ +E G + L+ + I + + ++ + + +V+
Sbjct: 46 ITKLTSISENGT--IMNLQY----YKGAFVIMSGFIDTETSVGYYNLEVISEQATAYVIK 99
Query: 509 KTDMWDVLKEYPAARVRLESIAVKRLQKYKR 539
++ ++L + + K++
Sbjct: 100 INELKELLSKNLTHFFYVFQTLQKQVSYSLA 130
>2gau_A Transcriptional regulator, CRP/FNR family; structural genomics,
porphyromona gingivalis, PSI, protein structure
initiative; 1.90A {Porphyromonas gingivalis} SCOP:
a.4.5.4 b.82.3.2
Length = 232
Score = 40.3 bits (95), Expect = 0.001
Identities = 9/71 (12%), Positives = 28/71 (39%), Gaps = 7/71 (9%)
Query: 584 PAARVRLESIAVKRLQKYKR-TPL-EKGEVGKEMYIVNRGRLQV--VADNGK-TVLATLR 638
R L+ K+ + + +G++ ++ + G++++ G+ + ++
Sbjct: 23 EEERELLDKEIQPF--PCKKASTVFSEGDIPNNLFYLYEGKIKILREGVYGRFHISRIVK 80
Query: 639 AGSYFGEISIL 649
G +FG
Sbjct: 81 PGQFFGMRPYF 91
Score = 35.7 bits (83), Expect = 0.031
Identities = 11/86 (12%), Positives = 27/86 (31%), Gaps = 10/86 (11%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYIC----RKGNRRTASVRSVGYSDLFVLSKT 510
+++I + G + R+ PG + +++ +V S + +
Sbjct: 61 KIKILREGVYGR--FHISRI----VKPGQFFGMRPYFAEETCSSTAIAVENSKVLAIPVE 114
Query: 511 DMWDVLKEYPAARVRLESIAVKRLQK 536
+ +LK + K L
Sbjct: 115 AIEALLKGNTSFCRYFLKALAKELGY 140
Score = 30.7 bits (70), Expect = 1.1
Identities = 7/50 (14%), Positives = 16/50 (32%)
Query: 551 FPGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQK 600
F +++ +V S + + + +LK + K L
Sbjct: 91 FAEETCSSTAIAVENSKVLAIPVEAIEALLKGNTSFCRYFLKALAKELGY 140
>3um7_A Potassium channel subfamily K member 4; potassium ION channel,
metal transport; 3.31A {Homo sapiens}
Length = 309
Score = 40.2 bits (93), Expect = 0.002
Identities = 33/223 (14%), Positives = 66/223 (29%), Gaps = 11/223 (4%)
Query: 122 FQEINRESLVIWFCLDYMADLMYVIDILIHFRTGYLEDGVLQTDSTKLRDHYMNSTTFYI 181
E+ + L C+ + + ++ G + + S+ ++ F
Sbjct: 65 LGEVREKFLRAHPCVSDQELGLLIKEVADALGGGADPETQSTSQSSHSAWDLGSAFFFSG 124
Query: 182 DCLCLLPLDFLY-LSIGFNSILRLFRLVKIYRFWAFMDRTERHTNYPN---LFRSSSLIH 237
+ + + + + LV I F + + ++
Sbjct: 125 TIITTIGYGNVALRTDAGRLFCIFYALVGIPLFGILLAGVGDRLGSSLRHGIGHIEAIFL 184
Query: 238 YLLVIFHWNGCLYHIIYKNDGFGSRNWVYGDSDTTDVVKQYLQSYYWCTLALTTI----- 292
V L +++ G L++ Y+ + LTT+
Sbjct: 185 KWHVPPELVRVLSAMLFLLIGCLLFVLTPTFVFCYMEDWSKLEAIYFVIVTLTTVGFGDY 244
Query: 293 --GDLPRPRSKGEYFFVIVQLLFGLLLFATVLGHVANIVTSVS 333
G PR S V +L GL FA+VL + N + VS
Sbjct: 245 VAGADPRQDSPAYQPLVWFWILLGLAYFASVLTTIGNWLRVVS 287
>3b02_A Transcriptional regulator, CRP family; structural genomics, riken
structural genomics/proteomics in RSGI; 1.92A {Thermus
thermophilus} PDB: 2zdb_A
Length = 195
Score = 38.3 bits (90), Expect = 0.003
Identities = 16/59 (27%), Positives = 30/59 (50%), Gaps = 4/59 (6%)
Query: 595 VKRLQKYKRTPLEKGEVGKEMYIVNRGRLQV--VADNGKT-VLATLRAGSYFGEISILN 650
+KR + K T +GE + +Y + G ++V + +G+ L + G YFGE ++
Sbjct: 1 MKRFAR-KETIYLRGEEARTLYRLEEGLVRVVELLPDGRLITLRHVLPGDYFGEEALEG 58
>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary
phase, DNA-binding, transcription regulation; 1.50A
{Thermus thermophilus}
Length = 202
Score = 37.6 bits (88), Expect = 0.007
Identities = 16/64 (25%), Positives = 26/64 (40%), Gaps = 7/64 (10%)
Query: 594 AVKRLQKYKR--TPLEKGEVGK--EMYIVNRGRLQV--VADNGKT-VLATLRAGSYFGEI 646
V+ +K L G G Y V G +++ V + G L +R G +FGE
Sbjct: 3 QVRETVSFKAGDVILYPGVPGPRDRAYRVLEGLVRLEAVDEEGNALTLRLVRPGGFFGEE 62
Query: 647 SILN 650
++
Sbjct: 63 ALFG 66
>2kyh_A KVAP, voltage-gated potassium channel; ION channel, membrane
protein; NMR {Aeropyrum pernix}
Length = 147
Score = 36.8 bits (85), Expect = 0.007
Identities = 24/141 (17%), Positives = 49/141 (34%), Gaps = 27/141 (19%)
Query: 99 YYWSMIVSLAFLYNFWVIIYRFAFQEINRESLVIWFCLDYMADLMYVIDILIHF-----R 153
+ A L V++ +++ E LV + +D + ++ D
Sbjct: 23 VELGVSY-AALLSVIVVVVE--YTMQLSGEYLVRLYLVDLILVIILWADYAYRAYKSGDP 79
Query: 154 TGYLEDGVLQTDSTKLRDHYMNSTTFYIDCLCLLPLDFLYLSIGFNSILRLFRLVKIYRF 213
GY++ + + L+P L L G + L LFRLV++ RF
Sbjct: 80 AGYVKKTL-------------------YEIPALVPAGLLALIEGHLAGLGLFRLVRLLRF 120
Query: 214 WAFMDRTERHTNYPNLFRSSS 234
+ R + + + ++
Sbjct: 121 LRILLIISRGSKFLSAIADAA 141
>1ors_C Potassium channel; voltage-dependent, voltage sensor, KVAP, FAB
complex, membrane protein; 1.90A {Aeropyrum pernix}
SCOP: f.14.1.1
Length = 132
Score = 36.1 bits (83), Expect = 0.008
Identities = 21/136 (15%), Positives = 44/136 (32%), Gaps = 28/136 (20%)
Query: 102 SMIVSLAFLYNFWVII---YRFAFQEINRESLVIWFCLDYMADLMYVIDILIHFRTGYLE 158
+++ + + + + + Y ++ LVI DY D + +
Sbjct: 16 ALLSVIVVVVEYTMQLSGEYLVRLYLVDL-ILVIILWADYAYRAYKSGDPAGYVKKTL-- 72
Query: 159 DGVLQTDSTKLRDHYMNSTTFYIDCLCLLPLDFLYLSIGFNSILRLFRLVKIYRFWAFMD 218
+ L+P L L G + L LFRLV++ RF +
Sbjct: 73 ----------------------YEIPALVPAGLLALIEGHLAGLGLFRLVRLLRFLRILL 110
Query: 219 RTERHTNYPNLFRSSS 234
R + + + ++
Sbjct: 111 IISRGSKFLSAIADAA 126
>3ldc_A Calcium-gated potassium channel MTHK; transmembrane, ION channel,
open conformation, IO transport; 1.45A
{Methanothermobacter thermautotrophicusorganism_taxid}
PDB: 3lde_A 3r65_A 3ous_A 3ldd_A
Length = 82
Score = 34.2 bits (79), Expect = 0.013
Identities = 11/54 (20%), Positives = 23/54 (42%), Gaps = 3/54 (5%)
Query: 278 YLQSYYWCTLALTTIG--DLPRPRSKGEYFFVIVQLLFGLLLFATVLGHVANIV 329
+ S YW + + T+G D P + +F ++ G+ FA + + +
Sbjct: 29 WTVSLYWTFVTIATVGYGDY-SPHTPLGMYFTCTLIVLGIGTFAVAVERLLEFL 81
>2qks_A KIR3.1-prokaryotic KIR channel chimera; G-protein gated inward
rectifier, potassium channel selectivity filter, metal
transport; HET: BNG; 2.20A {Burkholderia xenovorans}
Length = 321
Score = 35.8 bits (82), Expect = 0.037
Identities = 23/189 (12%), Positives = 54/189 (28%), Gaps = 22/189 (11%)
Query: 198 FNSILRLFRLVKIYRFWAFMDRTERHTNYPNLFRSSSLIHYLLVIFHWNGCLYHIIYKND 257
N + + R+ + + T + F S +++ LL LY +
Sbjct: 15 CN-VQHGNLGSETSRYLSDLFTTLVDLKWRWFFVSLAVLFLLLNTA--FATLYMLGSAPI 71
Query: 258 GFGSRNWVYGDSDTTDVVKQYLQSYYWCTLALTTIGDLPR-PRSKGEYFFVIVQLLFGLL 316
+ ++++ L T+G P++ ++ +++ G+
Sbjct: 72 ANQFPAG-------------FGGAFFFSVETLATVGYGDMHPQTVYAHWIATLEIFVGMS 118
Query: 317 LFATVLGHVANIVTSVSAARKEFQAKLDGVKTYMR-----MRRVPNALQVKVIKWFDYLW 371
A G ++ + V + M RV N ++
Sbjct: 119 SIALATGCAFIKMSQPKKRAETLMFSEHAVISMRDGKLTLMFRVGNLRNSHMVSAQIRCK 178
Query: 372 LTQKCSDEE 380
L + E
Sbjct: 179 LLKSRQTPE 187
>3dv8_A Transcriptional regulator, CRP/FNR family; cyclic
nucleotide-binding domain, structural genomics, joint
for structural genomics; 2.55A {Eubacterium rectale atcc
33656}
Length = 220
Score = 35.3 bits (82), Expect = 0.040
Identities = 13/90 (14%), Positives = 29/90 (32%), Gaps = 11/90 (12%)
Query: 571 LSKTDMWDVLKEYPAARVRLESIAVKRLQKYKR-TPL-EKGEVGKEMYIVNRG--RLQVV 626
+ +W+ L A + + + + K+ T + + +V G R ++
Sbjct: 5 ENYFPLWNDLN--TAQKKLISDNLITQ--HVKKGTIIHNGNMDCTGLLLVKSGQLRTYIL 60
Query: 627 ADNGK-TVLATLRAGSY--FGEISILNMGT 653
+D G+ L L I+
Sbjct: 61 SDEGREITLYRLFDMDMCLLSASCIMRSIQ 90
Score = 33.4 bits (77), Expect = 0.18
Identities = 8/87 (9%), Positives = 27/87 (31%), Gaps = 12/87 (13%)
Query: 455 RVEIFQNTEAGFLCELVLRLRPVLFSPGDYIC------RKGNRRTASVRSVGYSDLFVLS 508
++ + ++ G E+ L D + + ++ + +DL+++
Sbjct: 54 QLRTYILSDEGR--EITLYR----LFDMDMCLLSASCIMRSIQFEVTIEAEKDTDLWIIP 107
Query: 509 KTDMWDVLKEYPAARVRLESIAVKRLQ 535
++K+ + R
Sbjct: 108 AEIYKGIMKDSAPVANYTNELMATRFS 134
Score = 31.1 bits (71), Expect = 0.87
Identities = 4/49 (8%), Positives = 16/49 (32%)
Query: 551 FPGNRRTASVRSVGYSDLFVLSKTDMWDVLKEYPAARVRLESIAVKRLQ 599
+ ++ + +DL+++ ++K+ + R
Sbjct: 86 MRSIQFEVTIEAEKDTDLWIIPAEIYKGIMKDSAPVANYTNELMATRFS 134
>3ukm_A Potassium channel subfamily K member 1; membrane protein,
eukaryotic, two-pore DO potassium channel, K2P channel,
membrane; HET: UND; 3.40A {Homo sapiens}
Length = 280
Score = 35.6 bits (81), Expect = 0.047
Identities = 28/162 (17%), Positives = 48/162 (29%), Gaps = 19/162 (11%)
Query: 191 FLYLSIGFNSILRLFRLVKIYRFWAFMDRTERHTNYPNLFRSSSLIHYLLVIFHWNGCLY 250
+Y IG L V R + + F + V+ +
Sbjct: 125 IIYSVIGIPFTLLFLTAVVQRITVHVTRRPVLYFHIRWGFSKQVVAIVHAVLLGFVTVSC 184
Query: 251 HIIYKNDGFGSRNWVYGDSDTTDVVKQYLQSYYWCTLALTTIG--------DLPRPRSKG 302
F + +L+S+Y+C ++L+TIG + +
Sbjct: 185 FFFIPAAVF--SVLEDDWN--------FLESFYFCFISLSTIGLGDYVPGEGYNQKFREL 234
Query: 303 EYFFVIVQLLFGLLLFATVLGHVANIVTSVSAARKEFQAKLD 344
+ LL GL+ VL + + RK F K D
Sbjct: 235 YKIGITCYLLLGLIAMLVVLETFCELHE-LKKFRKMFYVKKD 275
>1orq_C Potassium channel; voltage-dependent, KVAP, FAB complex, MEM
protein; 3.20A {Aeropyrum pernix} SCOP: f.14.1.1 PDB:
2a0l_A
Length = 223
Score = 34.9 bits (81), Expect = 0.054
Identities = 22/125 (17%), Positives = 40/125 (32%), Gaps = 30/125 (24%)
Query: 181 IDCLCLLPLDFLYLSIGFNSILRLFRLVKIYRF----------WAFMDRTERHTNYPNLF 230
+ L+P L L G + L LFRLV++ RF F+ + +
Sbjct: 75 YEIPALVPAGLLALIEGHLAGLGLFRLVRLLRFLRILLIISRGSKFLSAIADAADKIRFY 134
Query: 231 RSSSLIHYLLVIFHWNGCLYHI--IYKNDGFGSRNWVYGDSDTTDVVKQYLQSYYWCTLA 288
+ +L + + +Y + N S + +W +
Sbjct: 135 HLFGAV--MLTVLYGAFAIYIVEYPDPNSSIKS----------------VFDALWWAVVT 176
Query: 289 LTTIG 293
TT+G
Sbjct: 177 ATTVG 181
>3vou_A ION transport 2 domain protein, voltage-gated SOD channel;
4-helical bundle, ION channel, membrane, transport
protein; 3.20A {Bacillus weihenstephanensis}
Length = 148
Score = 33.4 bits (76), Expect = 0.086
Identities = 16/83 (19%), Positives = 38/83 (45%), Gaps = 7/83 (8%)
Query: 278 YLQSYYWCTLALTTIG--DLPRPRSKGEYFFVIVQLLFGLLLFATVLGHVAN--IVTSVS 333
L + Y+ + LTT+G + P++ F I+ + G+ L + +A + S+
Sbjct: 53 PLDALYFSVVTLTTVGDGNF-SPQTDFGKVFTILYIFIGIGLVFGFIHKLAVNVQLPSIL 111
Query: 334 AARKEFQ--AKLDGVKTYMRMRR 354
+ RK+ +L+ ++ + +
Sbjct: 112 SNRKKETDAYRLEVMEKLEAIEK 134
>3ouf_A Potassium channel protein; ION channel, membrane, membrane protein;
1.55A {Bacillus cereus} PDB: 3t4z_A 3tcu_A 3t1c_A 3tet_A
3t4d_A 3t2m_A 3e86_A 3e83_A 3e89_A 3e8b_A 3e8f_A 3e8g_A
3e8h_A 3k0d_A 3k0g_A 3k06_A 3k08_A 3k04_A 3k03_A
Length = 97
Score = 32.5 bits (74), Expect = 0.087
Identities = 12/51 (23%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 278 YLQSYYWCTLALTTIG--DLPRPRSKGEYFFVIVQLLFGLLLFATVLGHVA 326
+ + Y+ + LTT+G D P++ F I+ + G+ L + +A
Sbjct: 33 PIDALYFSVVTLTTVGYGDF-SPQTDFGKIFTILYIFIGIGLVFGFIHKLA 82
>2q67_A Potassium channel protein; inverted teepee, helix bundle, tetramer,
central cavity, ION metal transport, membrane protein;
2.30A {Bacillus cereus} PDB: 2q68_A 2q6a_A 2q69_A 2ahy_A
2ahz_A
Length = 114
Score = 32.5 bits (74), Expect = 0.10
Identities = 13/62 (20%), Positives = 26/62 (41%), Gaps = 3/62 (4%)
Query: 278 YLQSYYWCTLALTTIG--DLPRPRSKGEYFFVIVQLLFGLLLFATVLGHVANIVTSVSAA 335
+ + Y+ + LTT+G + P++ F I+ + G+ L + +A V S
Sbjct: 50 PIDALYFSVVTLTTVGAGNF-SPQTDFGKIFTILYIFIGIGLVFGFIHKLAVNVQLPSIL 108
Query: 336 RK 337
Sbjct: 109 SN 110
>3pjs_K KCSA, voltage-gated potassium channel; ION channel, conducts K+
IONS, cell membrane, transport PROT; 3.80A {Streptomyces
lividans} PDB: 1f6g_A
Length = 166
Score = 32.6 bits (74), Expect = 0.20
Identities = 24/167 (14%), Positives = 49/167 (29%), Gaps = 28/167 (16%)
Query: 201 ILRLFRLVKIYRFWAFMDRTERHTNYPNLFRSSSLIHYLLVIFHWNGCLYHI--IYKNDG 258
L RLVK+ + R + ++ L+ +L+ +
Sbjct: 12 SGLLARLVKL-----LLGRHGSALQWRAAGAATVLLVIVLLAG--SYLAVLAERGAPGAQ 64
Query: 259 FGSRNWVYGDSDTTDVVKQYLQSYYWCTLALTTI--GDLPRPRSKGEYFFVIVQLLFGLL 316
+ Y ++ +W TT+ GDL P + +V ++ G+
Sbjct: 65 LIT----------------YPRALWWSVETATTVGYGDL-YPVTLWGRLVAVVVMVAGIT 107
Query: 317 LFATVLGHVANIVTSVSAARKEFQAKLDGVKTYMRMRRVPNALQVKV 363
F V +A +++ + R AL +
Sbjct: 108 SFGLVTAALATWFVGQEQQQQQQFVRHSEKAAEEAYTRTTRALHERF 154
>1p7b_A Integral membrane channel and cytosolic domains; transmembrane
helices, ION conduction, immunoglobulin fold, assembly;
3.65A {Burkholderia pseudomallei} SCOP: b.1.18.16
f.14.1.1 PDB: 2wll_B* 2wll_A*
Length = 333
Score = 32.9 bits (74), Expect = 0.34
Identities = 17/124 (13%), Positives = 43/124 (34%), Gaps = 10/124 (8%)
Query: 264 WVYGDSDTTDV-VKQYLQSYYWCTLALTTIG-DLPRPRSKGEYFFVIVQLLFGLLLFATV 321
+ GD+ + ++ ++++ L T+G P++ + +++ G+ A
Sbjct: 82 YQLGDAPIANQSPPGFVGAFFFSVETLATVGYGDMHPQTVYAHAIATLEIFVGMSGIALS 141
Query: 322 LGHVANIVTSVSAARKEFQAKLDGVKTYMR-----MRRVPNALQVKVIKWFDYLWLTQKC 376
G + + R + + M R NA Q + + + L ++
Sbjct: 142 TG---LVFARFARPRAKIMFARHAIVRPFNGRMTLMVRAANARQNVIAEARAKMRLMRRE 198
Query: 377 SDEE 380
E
Sbjct: 199 HSSE 202
>2k1e_A Water soluble analogue of potassium channel, KCSA; homotetramer,
ION transport, ionic channel, membrane, transmembrane,
transport; NMR {Escherichia coli} PDB: 2kb1_A
Length = 103
Score = 30.1 bits (68), Expect = 0.71
Identities = 12/61 (19%), Positives = 22/61 (36%), Gaps = 3/61 (4%)
Query: 280 QSYYWCTLALTTI--GDLPRPRSKGEYFFVIVQLLFGLLLFATVLGHVANIVTSVSAARK 337
+ +W TT+ GD P ++ + G+ +FA V +A R+
Sbjct: 43 DAIWWSVETATTVGYGDR-YPVTEEGRKVAEQVMKAGIEVFALVTAALATDFVRREEERR 101
Query: 338 E 338
Sbjct: 102 G 102
>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 = 30.7 bits (68), Expect = 0.81
Identities = 9/33 (27%), Positives = 18/33 (54%), Gaps = 6/33 (18%)
Query: 607 EKGEVGKEMYIVNRGRLQVVADNGKTVLATLRA 639
EK + K++ + L++ AD+ LA ++A
Sbjct: 18 EKQAL-KKL----QASLKLYADDSAPALA-IKA 44
>2a9h_A Voltage-gated potassium channel; potassium channel, KCSA,
structure, membrane protein, metal transport; HET: PCA;
NMR {Streptomyces lividans} SCOP: f.14.1.1
Length = 155
Score = 30.6 bits (69), Expect = 0.83
Identities = 19/144 (13%), Positives = 40/144 (27%), Gaps = 24/144 (16%)
Query: 200 SILRLFRLVKIYR-FWAFMDRTERHTNYPNLFRSSSLIHYLLVIFHWNGCLYHI--IYKN 256
+ + R + R ++ ++ L+ +L+ +
Sbjct: 22 KHMPPMLSGLLARLVKLLLGRHGSALHWRAAGAATVLLVIVLLAG--SYLAVLAERGAPG 79
Query: 257 DGFGSRNWVYGDSDTTDVVKQYLQSYYWCTLALTTIG--DLPRPRSKGEYFFVIVQLLFG 314
S Y + +W TT+G DL P + +V ++ G
Sbjct: 80 AALIS----------------YPDALWWSVETATTVGYGDL-YPVTLWGRCVAVVVMVAG 122
Query: 315 LLLFATVLGHVANIVTSVSAARKE 338
+ + V VA R+
Sbjct: 123 ITSYGLVFAAVATWFVGREQERRG 146
>1lnq_A MTHK channels, potassium channel related protein; rossman fold,
helix bundle, membrane protein; 3.30A
{Methanothermobacter thermautotrophicusorganism_taxid}
SCOP: c.2.1.9 d.286.1.1 f.14.1.1 PDB: 3rbz_A
Length = 336
Score = 31.7 bits (72), Expect = 0.84
Identities = 11/56 (19%), Positives = 25/56 (44%), Gaps = 3/56 (5%)
Query: 278 YLQSYYWCTLALTTIG--DLPRPRSKGEYFFVIVQLLFGLLLFATVLGHVANIVTS 331
+ S YW + + T+G D P + +F + ++ G+ FA + + + +
Sbjct: 46 WTVSLYWTFVTIATVGYGDY-SPSTPLGMYFTVTLIVLGIGTFAVAVERLLEFLIN 100
>1xl4_A Inward rectifier potassium channel; integral membrane protein, ION
channel, inwardly rectifying channel, metal transport;
2.60A {Magnetospirillum magnetotacticum} SCOP: b.1.18.16
f.14.1.1 PDB: 1xl6_A* 2wlh_A 2wli_B 2wlj_A* 2wlk_A*
2wlm_A 2wlo_A 2wln_A 3zrs_A 2wli_A 2x6c_A* 2x6b_A*
2x6a_A*
Length = 301
Score = 31.2 bits (70), Expect = 1.1
Identities = 11/63 (17%), Positives = 21/63 (33%), Gaps = 1/63 (1%)
Query: 264 WVYGDSDTTDVVKQYLQSYYWCTLALTTIGDLPR-PRSKGEYFFVIVQLLFGLLLFATVL 322
GD + ++++ + TIG P V ++ L G+L A
Sbjct: 69 LACGDVIENARPGSFTDAFFFSVQTMATIGYGKLIPIGPLANTLVTLEALCGMLGLAVAA 128
Query: 323 GHV 325
+
Sbjct: 129 SLI 131
>3eff_K Voltage-gated potassium channel; FULL length KCSA, bulge helix,
cell membrane, ION transport, ionic channel, membrane,
transmembrane; 3.80A {Streptomyces lividans}
Length = 139
Score = 29.5 bits (66), Expect = 1.7
Identities = 18/104 (17%), Positives = 34/104 (32%), Gaps = 9/104 (8%)
Query: 280 QSYYWCTLALTTI--GDLPRPRSKGEYFFVIVQLLFGLLLFATVLGHVANIVTSVSAARK 337
++ +W TT+ GDL P + +V ++ G+ F V +A R+
Sbjct: 43 RALWWSVETATTVGYGDL-YPVTLWGRLVAVVVMVAGITSFGLVTAALATWFVGREQERR 101
Query: 338 EFQAKLDGVKTYMRMRRVPNALQVKVIKWFDYLWLTQKCSDEEK 381
+ R AL + + L + D +
Sbjct: 102 GHFVRHSEKAAEEAYTRTTRALHERFDR------LERMLDDNRR 139
>1oqc_A ALR, augmenter of liver regeneration; sulfhydryl oxidase,
helix-turn-HELI oxidoreductase; HET: FAD; 1.80A {Rattus
norvegicus} SCOP: a.24.15.1 PDB: 3o55_A*
Length = 125
Score = 28.9 bits (64), Expect = 2.1
Identities = 13/63 (20%), Positives = 16/63 (25%), Gaps = 2/63 (3%)
Query: 73 HRVAERYPRSSGPNLTFVFDPAGRFSYYWSMIVSLAFLYNFWVIIYRFAFQEINRESLVI 132
H +A YP P D A + + I R R S
Sbjct: 31 HTLAAYYPDM--PTPEQQQDMAQFIHIFSKFYPCEECAEDIRKRIDRSQPDTSTRVSFSQ 88
Query: 133 WFC 135
W C
Sbjct: 89 WLC 91
>2ih3_C Voltage-gated potassium channel; ION channel D-amino acid
semi-synthetic, membrane protein; HET: 1EM; 1.72A
{Streptomyces lividans} PDB: 2ih1_C* 1r3j_C* 1k4d_C*
1r3i_C* 1k4c_C* 1r3k_C* 1r3l_C* 2bob_C* 2boc_C* 2hvj_C*
2hvk_C* 2itc_C 2itd_C 3gb7_C* 3iga_C* 1jvm_A 1s5h_C*
3ifx_A* 1j95_A 2jk5_C* ...
Length = 122
Score = 28.9 bits (65), Expect = 2.5
Identities = 22/144 (15%), Positives = 45/144 (31%), Gaps = 36/144 (25%)
Query: 202 LRLFRLVKIYRFWAFMDRTERHTNYPNLFRSSSLIHYLLVIFHWNGCLYHIIY------K 255
L RLVK+ + R ++ ++ L+ +L+ + +
Sbjct: 7 GLLARLVKL-----LLGRHGSALHWRAAGAATVLLVIVLLAGSY------LAVLAERGAP 55
Query: 256 NDGFGSRNWVYGDSDTTDVVKQYLQSYYWCTLALTTI--GDLPRPRSKGEYFFVIVQLLF 313
+ Y ++ +W TT+ GDL P + +V ++
Sbjct: 56 GAQLIT----------------YPRALWWACETATTVAYGDL-YPVTLWGRLVAVVVMVA 98
Query: 314 GLLLFATVLGHVANIVTSVSAARK 337
G+ F V +A R+
Sbjct: 99 GITSFGLVTAALATWFVGREQERR 122
>2uvk_A YJHT; unknown function, hypothetical protein, sialic acid
metabolism, kelch repeat, beta-propeller; HET: MSE;
1.50A {Escherichia coli}
Length = 357
Score = 29.9 bits (67), Expect = 3.0
Identities = 11/97 (11%), Positives = 22/97 (22%), Gaps = 5/97 (5%)
Query: 206 RLVKIYRFWAFMDRTERHTNYPNLFRSSSLIHYLLVIFHWNGCLYHIIYKNDGFGSRNWV 265
R ++ F + + + I N L N+
Sbjct: 215 RTDAVFELD-FTGNNLKWNKLAPVSSPDGVAGGFAGIS--NDSLIFAGGAGFKGSRENYQ 271
Query: 266 YGD--SDTTDVVKQYLQSYYWCTLALTTIGDLPRPRS 300
G + + W G+L + R+
Sbjct: 272 NGKNYAHEGLKKSYSTDIHLWHNGKWDKSGELSQGRA 308
>3fz3_A Prunin; TREE NUT allergen, allergy, amandin, almond, 11S SEED
storage protein, allergen; 2.40A {Prunus dulcis} PDB:
3ehk_A
Length = 531
Score = 29.9 bits (66), Expect = 3.1
Identities = 10/31 (32%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 615 MYIVN-RGRLQVVADNGKTVL-ATLRAGSYF 643
+Y++ R+QVV +NG +L ++ G F
Sbjct: 419 VYVIRGNARVQVVNENGDAILDQEVQQGQLF 449
>3da1_A Glycerol-3-phosphate dehydrogenase; NESG BHR167 Q9KDW6 X-RAY,
structural genomics, PSI-2, protein structure
initiative; HET: FAD; 2.70A {Bacillus halodurans}
Length = 561
Score = 30.0 bits (68), Expect = 3.1
Identities = 11/19 (57%), Positives = 13/19 (68%), Gaps = 5/19 (26%)
Query: 391 SSSTKLVHGG-----QYEL 404
S STKLVHGG Q+E+
Sbjct: 58 SRSTKLVHGGLRYLKQFEI 76
>2rgh_A Alpha-glycerophosphate oxidase; flavoprotein oxidase,
oxidoreductase; HET: FAD; 2.30A {Streptococcus SP} PDB:
2rgo_A*
Length = 571
Score = 30.0 bits (68), Expect = 3.2
Identities = 9/19 (47%), Positives = 12/19 (63%), Gaps = 5/19 (26%)
Query: 391 SSSTKLVHGG-----QYEL 404
S STKLVHGG +++
Sbjct: 72 SRSTKLVHGGIRYLKTFDV 90
>3mbg_A FAD-linked sulfhydryl oxidase ALR; flavin, flavoprotein, GFER; HET:
FAD; 1.85A {Homo sapiens} PDB: 3r7c_A*
Length = 139
Score = 28.9 bits (64), Expect = 3.2
Identities = 11/63 (17%), Positives = 16/63 (25%), Gaps = 2/63 (3%)
Query: 73 HRVAERYPRSSGPNLTFVFDPAGRFSYYWSMIVSLAFLYNFWVIIYRFAFQEINRESLVI 132
H +A YP P D A + + + R R +
Sbjct: 45 HTLAAYYPDL--PTPEQQQDMAQFIHLFSKFYPCEECAEDLRKRLARNHPDTRTRAAFTQ 102
Query: 133 WFC 135
W C
Sbjct: 103 WLC 105
>2qcu_A Aerobic glycerol-3-phosphate dehydrogenase; glycerol-3-phoshate
dehydrogenase, oxidoreductase; HET: BOG FAD TAM; 1.75A
{Escherichia coli} PDB: 2r45_A* 2r46_A* 2r4e_A* 2r4j_A*
Length = 501
Score = 29.9 bits (68), Expect = 3.5
Identities = 9/19 (47%), Positives = 12/19 (63%), Gaps = 5/19 (26%)
Query: 391 SSSTKLVHGG-----QYEL 404
S+S+KL+HGG YE
Sbjct: 43 SASSKLIHGGLRYLEHYEF 61
>3gwl_A P14, FAD-linked sulfhydryl oxidase; homodimer, five-helix bundle,
cytoplasm, disulfide bond, flavoprotein, late protein;
HET: FAD; 2.10A {African swine fever virus BA71V}
Length = 106
Score = 27.8 bits (61), Expect = 4.9
Identities = 6/63 (9%), Positives = 18/63 (28%), Gaps = 2/63 (3%)
Query: 73 HRVAERYPRSSGPNLTFVFDPAGRFSYYWSMIVSLAFLYNFWVIIYRFAFQEINRESLVI 132
H A + + P+ ++ + + ++ + + + N E
Sbjct: 16 HLYAIFFSDA--PSWKEKYEAIQWILNFIESLPCTRCQHHAFSYLTKNPLTLNNSEDFQY 73
Query: 133 WFC 135
W
Sbjct: 74 WTF 76
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.324 0.138 0.424
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 10,432,395
Number of extensions: 631818
Number of successful extensions: 1732
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1661
Number of HSP's successfully gapped: 193
Length of query: 679
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 579
Effective length of database: 3,909,693
Effective search space: 2263712247
Effective search space used: 2263712247
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 (21.5 bits)
S2: 61 (27.3 bits)