RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8545
(547 letters)
>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 = 245 bits (628), Expect = 7e-79
Identities = 123/228 (53%), Positives = 175/228 (76%), Gaps = 18/228 (7%)
Query: 120 AIIQRMYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEF 179
A+ QRMYSRRSLY T+ +DLK+F+ ++++PK L QRM + FQT WS+++GIDV E LK+F
Sbjct: 2 AMDQRMYSRRSLYHTRTKDLKDFIRVHRLPKALAQRMLECFQTTWSVNNGIDVSELLKDF 61
Query: 180 PEELRGDVSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYY 239
P+ELR D++MHL++E+LQLP+FE+A++GCL+ LSL I+ +FCAPGE+LI +GD L +IY+
Sbjct: 62 PDELRADIAMHLNKELLQLPLFESASRGCLRSLSLIIKTSFCAPGEFLIRQGDALQAIYF 121
Query: 240 LCNGSMEVVQNGMVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVK 299
+C+GSMEV+++ V+AILGKGDL+G D + ++K++ +VK
Sbjct: 122 VCSGSMEVLKDNTVLAILGKGDLIGSDSLTK------------------EQVIKTNANVK 163
Query: 300 ALTYCDLKSVNVVGLVEVLRLYPEYQQEFAHDIQHDLTYNIREGYEAE 347
ALTYCDL+ +++ GL EVLRLYPEY Q+F +IQHDLTYN+REG A+
Sbjct: 164 ALTYCDLQYISLKGLREVLRLYPEYAQKFVSEIQHDLTYNLREGSGAD 211
>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 = 194 bits (494), Expect = 5e-59
Identities = 47/213 (22%), Positives = 93/213 (43%), Gaps = 22/213 (10%)
Query: 125 MYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELR 184
M S R YQ K++ ++++++ +++P + +Q++ DY++ + D L E LR
Sbjct: 4 MDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQ-GKMFDEDSILGELNGPLR 62
Query: 185 GDVSMHLHREIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNG 243
+ R+++ +P+F A + + ++ PG+Y+I +G +Y++ +G
Sbjct: 63 EKIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHG 122
Query: 244 SMEVVQNGMVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTY 303
+ V+ G L G G +I + + + V+A TY
Sbjct: 123 VVSVLTKGNKEMKLSDGSYFG-EICLLTRG-------------------RRTASVRADTY 162
Query: 304 CDLKSVNVVGLVEVLRLYPEYQQEFAHDIQHDL 336
C L S++V EVL YP ++ F L
Sbjct: 163 CRLYSLSVDNFNEVLEEYPMMRRAFETVAIDRL 195
>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 = 191 bits (487), Expect = 3e-58
Identities = 41/215 (19%), Positives = 88/215 (40%), Gaps = 23/215 (10%)
Query: 125 MYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELR 184
M S Y+ K + ++E++ ++P L+ ++ DY++ + D +E E +R
Sbjct: 3 MDSSSRQYREKLKQVEEYMQYRKLPSHLRNKILDYYEYRYR-GKMFDERHIFREVSESIR 61
Query: 185 GDVSMHLHREILQ-LPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNG 243
DV+ + R+++ +P F A + + + P +Y+I +G ++++ G
Sbjct: 62 QDVANYNCRDLVASVPFFVGADSNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQG 121
Query: 244 SMEVVQ-NGMVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALT 302
++++ +G++ L G G + + VK T
Sbjct: 122 IVDIIMSDGVIATSLSDGSYFGEICLLTRE--------------------RRVASVKCET 161
Query: 303 YCDLKSVNVVGLVEVLRLYPEYQQEFAHDIQHDLT 337
YC L S++V +VL +P ++ LT
Sbjct: 162 YCTLFSLSVQHFNQVLDEFPAMRKTMEEIAVRRLT 196
>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 = 158 bits (402), Expect = 3e-46
Identities = 54/173 (31%), Positives = 94/173 (54%), Gaps = 21/173 (12%)
Query: 171 DVHETLKEFPEELRGDVSMHLHREILQ-LPIFEAATQGCLKLLSLHIRNNFCAPGEYLIH 229
+ L+ P+++R D+ +HL+R++ + P F A+ GCL+ L++ + CAPG+ + H
Sbjct: 4 MTEKVLQICPKDMRADICVHLNRKVFKEHPAFRLASDGCLRALAMEFQTVHCAPGDLIYH 63
Query: 230 KGDHLSSIYYLCNGSMEVVQNGMVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVD 289
G+ + S+ ++ +GS+EV+Q+ VVAILGKGD+ G
Sbjct: 64 AGESVDSLCFVVSGSLEVIQDDEVVAILGKGDVFGDVFWKE------------------A 105
Query: 290 PIVKSSCDVKALTYCDLKSVNVVGLVEVLRLYPEYQQEFAHDIQHDLTYNIRE 342
+ +S +V+ALTYCDL + L +VL Y + F+ ++ TYN+R+
Sbjct: 106 TLAQSCANVRALTYCDLHVIKRDALQKVLEFYTAFSHSFSRNLIL--TYNLRK 156
>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 = 82.2 bits (203), Expect = 7e-19
Identities = 26/133 (19%), Positives = 53/133 (39%), Gaps = 17/133 (12%)
Query: 197 QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVV------QN 250
++P+FE + L + ++ YL+ +GD ++ + ++ G +E V
Sbjct: 10 RVPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGGRSG 69
Query: 251 GMVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCDLKSVN 310
++L +GD G ++ W + GS + S+ VKALT + ++
Sbjct: 70 FYNRSLLKEGDFCGDELLTWALDPKSGSNLPS-----------STRTVKALTEVEAFALI 118
Query: 311 VVGLVEVLRLYPE 323
L V +
Sbjct: 119 ADELKFVASQFRR 131
>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 = 83.6 bits (206), Expect = 7e-17
Identities = 71/437 (16%), Positives = 123/437 (28%), Gaps = 167/437 (38%)
Query: 8 SALILTLLMLSFTL-------VAHWLACLWFVIADYERNRYRQDWDLGWIHTLAERLKVN 60
+ L L + V + L + ++E Y + D IH LA +L
Sbjct: 56 TPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENC-YLEGND---IHALAAKLLQE 111
Query: 61 V-SEISHRESYITALYFTCSSLTSVGFGNV-------SANTSAEKIFSICTMLIGALMHA 112
+ + + I Y T + F + ++ +I
Sbjct: 112 NDTTLVKTKELIKN-YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI----------- 159
Query: 113 VVF---GNVTAIIQRMYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHG 169
F GN + + R LYQT + L L + + L + ++ + G
Sbjct: 160 --FGGQGNTDDYFEEL---RDLYQT-YHVLVGDL-IKFSAETLSELIRTTLDAEKVFTQG 212
Query: 170 IDVHETLKEFPEELRGD-------VSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCA 222
+++ E L+ P +S L ++QL + KLL
Sbjct: 213 LNILEWLEN-PSNTPDKDYLLSIPISCPLI-GVIQLAHYVVT----AKLLGFT------- 259
Query: 223 PGEYLIHKGDHLSSIYYLCNGSMEVVQNGMVVAILGKGDLVGCDISM---WLS-EKNGGS 278
PGE +L G+ Q G+V A+ I+ W S +
Sbjct: 260 PGELR----SYLK-------GATGHSQ-GLVTAVA---------IAETDSWESFFVSVRK 298
Query: 279 AVGPGAGTGVDPIVKSSCDVKALTYCDLKSVNVVGLVEVLRLYPEYQQEFAHDIQHDLTY 338
A + L + +G+ + +
Sbjct: 299 A------------------ITVLFF--------IGV--------RCYEAY---------- 314
Query: 339 NIREGYEAEESDIGLPSLTL-PSINEDD-EAGEGETSP-LS------------------- 376
P+ +L PSI ED E EG SP LS
Sbjct: 315 ---------------PNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSH 359
Query: 377 PPSRSPLHIPMSNSPRH 393
P+ + I + N ++
Sbjct: 360 LPAGKQVEISLVNGAKN 376
Score = 50.4 bits (120), Expect = 1e-06
Identities = 42/276 (15%), Positives = 79/276 (28%), Gaps = 90/276 (32%)
Query: 122 IQR--M----YSRRSLYQTKWRDLKEFL------TLNQI----PKELK--------QRMQ 157
Q M Y Q W ++ I P L +R++
Sbjct: 1626 SQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIR 1685
Query: 158 DYFQTMWSLSHGIDVHETLKEFPEELRGDVSMHLHR---EILQLPIFEAATQGCLKLLSL 214
+ + M +D ++ +E+ + + R +L F TQ L L+
Sbjct: 1686 ENYSAM-IFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF---TQPALTLMEK 1741
Query: 215 ----HIRNNFCAP----------GEY--LIHKGDHLS-------------SIYYLC---- 241
+++ P GEY L D +S ++
Sbjct: 1742 AAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDE 1801
Query: 242 ----NGSMEVVQNGMVVAILGKGDL-VGCDISMWLSEKNGG--SAV---GPG-----AGT 286
N M + G V A + L + + ++ G V AG
Sbjct: 1802 LGRSNYGMIAINPGRVAASFSQEALQYVVER---VGKRTGWLVEIVNYNVENQQYVAAGD 1858
Query: 287 --GVDPIVKSSCDVKALTYCDLKSVNVVGLVEVLRL 320
+D + L + L+ ++++ L + L L
Sbjct: 1859 LRALDTVTN------VLNFIKLQKIDIIELQKSLSL 1888
Score = 46.2 bits (109), Expect = 3e-05
Identities = 46/267 (17%), Positives = 82/267 (30%), Gaps = 71/267 (26%)
Query: 316 EVLRL-YPEYQQEFAH--DIQHDLTYNIREGYEAEESDIGLPSLTLPSINEDDEAGEGET 372
+VL L E++ + DI H L + +E+D L I A
Sbjct: 82 QVLNLCLTEFENCYLEGNDI-HALAAKL-----LQENDTTLVKTKEL-IKNYITARIMAK 134
Query: 373 SPLSPPSRSPLHIPMSNSPRHTKI--------NMRGAERFRRGELEKKSSVDRLDTQVTS 424
P S S L + + ++ N + F EL D T
Sbjct: 135 RPFDKKSNSALF--RAVGEGNAQLVAIFGGQGNTD--DYFE--ELR--------DLYQTY 180
Query: 425 LHHHVATLSQEVRNAIQALQELATTSSNVASNRYPYPLPAHS---NPNLPHN-------- 473
H V L ++ + + L EL T+ + A + L NP+ +
Sbjct: 181 -HVLVGDL---IKFSAETLSELIRTTLD-AEKVFTQGLNILEWLENPSNTPDKDYLLSIP 235
Query: 474 --------TQCPQQRALLQRSSSHPPEM---FCWESMDQERY--AHCVSQSTQTDYPIDM 520
Q + P E+ + + A ++++ D
Sbjct: 236 ISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAET-------DS 288
Query: 521 FESFVK--ENKLRVLEWLGLK-HNVYS 544
+ESF + VL ++G++ + Y
Sbjct: 289 WESFFVSVRKAITVLFFIGVRCYEAYP 315
Score = 45.0 bits (106), Expect = 7e-05
Identities = 71/395 (17%), Positives = 120/395 (30%), Gaps = 130/395 (32%)
Query: 2 DRYSQYSALILTLLMLSFTLVAHWLACLWFVIADYERNRYRQDWDL-GWIHTLAER---- 56
D Y Y L+ L+ S L+ L D E+ + Q ++ W+ +
Sbjct: 175 DLYQTYHVLVGDLIKFSAET----LSELIRTTLDAEK-VFTQGLNILEWLENPSNTPDKD 229
Query: 57 --LKVNVS-------EISHRESYITA----------LYFTCSSLTSVGFGNVSA-----N 92
L + +S +++H Y+ L T G V+A
Sbjct: 230 YLLSIPISCPLIGVIQLAH---YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAET 286
Query: 93 TSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYSRRSLYQTKWRDLKEF--------LT 144
S E F I L V Y SL + D E L+
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRC------YEAYPNTSLPPSILEDSLENNEGVPSPMLS 340
Query: 145 LNQIPKELKQRMQDYFQTMWSLSHGIDVHETL----KEF-----PEELRGDVSMHLHR-- 193
++ + +E Q + + L G V +L K P+ L G +++ L +
Sbjct: 341 ISNLTQEQVQDYVNKTNS--HLPAGKQVEISLVNGAKNLVVSGPPQSLYG-LNLTLRKAK 397
Query: 194 ---EILQ----------------LPIF--------EAATQGCLKLLSLHIRNNFCAPGEY 226
+ Q LP+ A+ K L +NN +
Sbjct: 398 APSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLV---KNNVSFNAKD 454
Query: 227 L-IHKGDHLSSIYYLCNGS-MEVVQNGMVVAILGKGDLVGCDISM---W-LSEKNGGSAV 280
+ I +Y +GS + V+ + +V C I + W + + + +
Sbjct: 455 IQIP-------VYDTFDGSDLRVLSGSIS------ERIVDCIIRLPVKWETTTQFKATHI 501
Query: 281 ---GPGA-------------GTGVDPIVKSSCDVK 299
GPG GTGV IV + D+
Sbjct: 502 LDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDIN 536
Score = 36.6 bits (84), Expect = 0.023
Identities = 34/220 (15%), Positives = 66/220 (30%), Gaps = 77/220 (35%)
Query: 353 LPSLTLPSINEDDEAGEGETSPLSPPSRSPL------HIPMSNSPRHTKINMRGAERFRR 406
LP T DDE P +P L ++ E +
Sbjct: 41 LPEPT-EGFAADDE-------PTTPAE---LVGKFLGYV------------SSLVEPSKV 77
Query: 407 GELEK--KSSVDRLDTQV---TSLHHHVATLSQEVRNAIQALQELATT--SSNVASNRYP 459
G+ ++ + + +H A L QE + +EL ++ + + R P
Sbjct: 78 GQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKR-P 136
Query: 460 YPLPAHSNPNLPHNTQCPQQRALLQRSSSHPPEMF-----------CWESMDQERYAH-- 506
+ ++S AL + ++ +E + ++ Y
Sbjct: 137 FDKKSNS--------------ALFRAVGEGNAQLVAIFGGQGNTDDYFEEL-RDLYQTYH 181
Query: 507 -----CVSQSTQT-----DYPIDMFESFVKENKLRVLEWL 536
+ S +T +D + F + L +LEWL
Sbjct: 182 VLVGDLIKFSAETLSELIRTTLDAEKVFTQ--GLNILEWL 219
>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 = 56.9 bits (137), Expect = 5e-10
Identities = 24/91 (26%), Positives = 39/91 (42%), Gaps = 1/91 (1%)
Query: 69 SYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIG-ALMHAVVFGNVTAIIQRMYS 127
+ ALYF+ +LT+VG GN S T K+F+I + IG L+ + +
Sbjct: 52 RPLDALYFSVVTLTTVGDGNFSPQTDFGKVFTILYIFIGIGLVFGFIHKLAVNVQLPSIL 111
Query: 128 RRSLYQTKWRDLKEFLTLNQIPKELKQRMQD 158
+T L+ L I K+L + +
Sbjct: 112 SNRKKETDAYRLEVMEKLEAIEKKLAEHSRQ 142
>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 = 54.3 bits (131), Expect = 8e-10
Identities = 14/55 (25%), Positives = 29/55 (52%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAII 122
ES+ +LY+T ++ +VG+G+ S +T F+ +++G AV + +
Sbjct: 27 ESWTVSLYWTFVTIATVGYGDYSPHTPLGMYFTCTLIVLGIGTFAVAVERLLEFL 81
>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 = 55.0 bits (133), Expect = 2e-09
Identities = 22/133 (16%), Positives = 47/133 (35%), Gaps = 23/133 (17%)
Query: 192 HREIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQN 250
+ +++ +P+F+ L + +R G + G+ ++++ GS+ V
Sbjct: 9 NWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATP 68
Query: 251 GMVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCDLKSVN 310
LG G G ++++ +S + S V A T L S++
Sbjct: 69 N--PVELGPGAFFG-EMAL-ISGE------------------PRSATVSAATTVSLLSLH 106
Query: 311 VVGLVEVLRLYPE 323
+ PE
Sbjct: 107 SADFQMLCSSSPE 119
>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 = 51.8 bits (124), Expect = 1e-08
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 1/64 (1%)
Query: 69 SYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIG-ALMHAVVFGNVTAIIQRMYS 127
I ALYF+ +LT+VG+G+ S T KIF+I + IG L+ + +
Sbjct: 32 RPIDALYFSVVTLTTVGYGDFSPQTDFGKIFTILYIFIGIGLVFGFIHKLAVNVQLPSIL 91
Query: 128 RRSL 131
+
Sbjct: 92 SNLV 95
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 53.1 bits (128), Expect = 1e-08
Identities = 20/159 (12%), Positives = 51/159 (32%), Gaps = 29/159 (18%)
Query: 190 HLHREIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVV 248
+H+++L +FE + L+ L G Y+ +G+ + YYL +G +++
Sbjct: 8 RVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKIY 67
Query: 249 Q---NG--MVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTY 303
+ G ++ + + + + M +A+
Sbjct: 68 RLTPEGQEKILEVTNERNTFA-EAMM------------------FMDTPNYVATAQAVVP 108
Query: 304 CDLKSVNVVGLVEVLRLYPEYQQEFAHDIQHDLTYNIRE 342
L + + L+ A + L+ + +
Sbjct: 109 SQLFRFSNKAYLRQLQDNT----PLALALLAKLSTRLHQ 143
>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 = 51.8 bits (124), Expect = 2e-08
Identities = 20/56 (35%), Positives = 28/56 (50%)
Query: 69 SYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQR 124
I ALYF+ +LT+VG GN S T KIF+I + IG + + +Q
Sbjct: 49 RPIDALYFSVVTLTTVGAGNFSPQTDFGKIFTILYIFIGIGLVFGFIHKLAVNVQL 104
>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 = 53.6 bits (129), Expect = 2e-08
Identities = 33/206 (16%), Positives = 74/206 (35%), Gaps = 39/206 (18%)
Query: 143 LTLNQIPKELKQRMQDYFQTMWS-LSHGIDVHETLKEFPEELRGDVSMHLHREILQLPIF 201
+ ++I YFQ M+ L H + +E E + ++ +F
Sbjct: 1 MGSDKIH-HHHHHENLYFQGMYPDLVHLGGADKYFEEILEIVN------------KIKLF 47
Query: 202 EAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQNG-----MVVAI 256
+ ++ L +++ L+ +GD + + G + V+++ +A
Sbjct: 48 GDFSNEEVRYLCSYMQCYAAPRDCQLLTEGDPGDYLLLILTGEVNVIKDIPNKGIQTIAK 107
Query: 257 LGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCDLKSVNVVGLVE 316
+G G ++G ++SM +D + +S+ A D ++ L +
Sbjct: 108 VGAGAIIG-EMSM------------------IDGMPRSA-SCVASLPTDFAVLSRDALYQ 147
Query: 317 VLRLYPEYQQEFAHDIQHDLTYNIRE 342
+L P+ + + LT RE
Sbjct: 148 LLANMPKLGNKVLIRLLQLLTARFRE 173
>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 = 51.2 bits (123), Expect = 4e-08
Identities = 20/87 (22%), Positives = 31/87 (35%), Gaps = 3/87 (3%)
Query: 180 PEELRGDVSMHLHREILQ-LPIFEAATQGCLKLLSLHIRN-NFCAPGEYLIHKGDHLSSI 237
GD + E + LP F T + L + G ++ G L S
Sbjct: 3 SGS-SGDDDIEQLLEFMHQLPAFANMTMSVRRELCSVMIFEVVEQAGAIILEDGQELDSW 61
Query: 238 YYLCNGSMEVVQNGMVVAILGKGDLVG 264
Y + NG++E+ V L G+ G
Sbjct: 62 YVILNGTVEISHPDGKVENLFMGNSFG 88
>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 = 52.8 bits (127), Expect = 8e-08
Identities = 30/186 (16%), Positives = 69/186 (37%), Gaps = 35/186 (18%)
Query: 169 GIDVHETLKEFPEELRGDVSMHLHRE-------ILQLPIFEAATQGCLKLLSLHIRNNFC 221
G + ET E D + I + + + T L+ H +
Sbjct: 15 GSGMKETAAAKFERQHMDSPDLGTDDDDKAMADIGSMVLGKPQTDPTLEWFLSHCHIHKY 74
Query: 222 APGEYLIHKGDHLSSIYYLCNGSMEVVQ---NG--MVVAILGKGDLVGCDISMWLSEKNG 276
LIH+G+ ++YY+ GS+ V+ G M+++ L +GD +G ++ +
Sbjct: 75 PSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIG-ELGL------- 126
Query: 277 GSAVGPGAGTGVDPIVKSSCDVKALTYCDLKSVNVVGLVEVLRLYPEYQQEFAHDIQHDL 336
+ + S V+A T C++ ++ +++++ P + + +
Sbjct: 127 -----------FEEGQERSAWVRAKTACEVAEISYKKFRQLIQVNP----DILMRLSAQM 171
Query: 337 TYNIRE 342
++
Sbjct: 172 ARRLQV 177
>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 = 50.4 bits (121), Expect = 9e-08
Identities = 20/97 (20%), Positives = 40/97 (41%), Gaps = 4/97 (4%)
Query: 169 GIDVHETLKEFPEELRGDVSMHLHREIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYL 227
G H TL +P + S L +E + + ++ + + +
Sbjct: 1 GSGSHVTLPFYP---KSPQSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCI 57
Query: 228 IHKGDHLSSIYYLCNGSMEVVQNGMVVAILGKGDLVG 264
I +GD S +Y + +G +EV + G+ + +G G + G
Sbjct: 58 IKEGDVGSLVYVMEDGKVEVTKEGVKLCTMGPGKVFG 94
>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 = 51.5 bits (124), Expect = 1e-07
Identities = 24/150 (16%), Positives = 61/150 (40%), Gaps = 28/150 (18%)
Query: 198 LPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQ---NG--M 252
+ + + T L+ H + LIH+G+ ++YY+ GS+ V+ G M
Sbjct: 1 MVLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEM 60
Query: 253 VVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCDLKSVNVV 312
+++ L +GD +G ++ + + + S V+A T C++ ++
Sbjct: 61 ILSYLNQGDFIG-ELGL------------------FEEGQERSAWVRAKTACEVAEISYK 101
Query: 313 GLVEVLRLYPEYQQEFAHDIQHDLTYNIRE 342
+++++ P + + + ++
Sbjct: 102 KFRQLIQVNP----DILMRLSAQMARRLQV 127
>3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix,
homodimer, transcription regulator; 3.60A {Pseudomonas
aeruginosa}
Length = 227
Score = 51.9 bits (125), Expect = 1e-07
Identities = 20/153 (13%), Positives = 50/153 (32%), Gaps = 25/153 (16%)
Query: 190 HLHREIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVV 248
+H+++L +FE + L+ L G Y+ +G+ + YYL +G +++
Sbjct: 5 RVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKIY 64
Query: 249 Q---NG--MVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTY 303
+ G ++ + + + + M++ N +A+
Sbjct: 65 RLTPEGQEKILEVTNERNTFA-EAMMFMDTPN------------------YVATAQAVVP 105
Query: 304 CDLKSVNVVGLVEVLRLYPEYQQEFAHDIQHDL 336
L + + L+ + L
Sbjct: 106 SQLFRFSNKAYLRQLQDNTPLALALLAKLSTRL 138
>2pqq_A Putative transcriptional regulator; APC7345, streptomyces
coelicolor structural genomics, PSI-2, protein structure
initiative; 2.00A {Streptomyces coelicolor A3}
Length = 149
Score = 49.2 bits (118), Expect = 2e-07
Identities = 26/137 (18%), Positives = 53/137 (38%), Gaps = 26/137 (18%)
Query: 193 REIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQNG 251
++L + P+F A L + A G+ L H+GD +Y + G +++ +
Sbjct: 4 DDVLRRNPLFAALDDEQSAELRASMSEVTLARGDTLFHEGDPGDRLYVVTEGKVKLHRTS 63
Query: 252 -----MVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCDL 306
++A++G +L+G ++S++ + ALT L
Sbjct: 64 PDGRENMLAVVGPSELIG-ELSLFDPGPR-------------------TATGTALTEVKL 103
Query: 307 KSVNVVGLVEVLRLYPE 323
++ L L + PE
Sbjct: 104 LALGHGDLQPWLNVRPE 120
>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 = 48.8 bits (117), Expect = 3e-07
Identities = 21/160 (13%), Positives = 43/160 (26%), Gaps = 33/160 (20%)
Query: 192 HREIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVV-- 248
E L F + T LK ++L G + + ++ L G +E+
Sbjct: 4 SPERLRVYRFFASLTDEQLKDIALISEEKSFPTGSVIFKENSKADNLMLLLEGGVELFYS 63
Query: 249 ------QNGMVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALT 302
V + G + G L + P +S +A
Sbjct: 64 NGGAGSAANSTVCSVVPGAIFGV---SSL----------------IKPYHYTS-SARATK 103
Query: 303 YCDLKSVNVVGLVEVLRLYPEYQQEFAHDIQHDLTYNIRE 342
+ +N L E+ + +++ +
Sbjct: 104 PVRVVDINGARLREMSENNQ----ALGQVLMNNVAAAVLA 139
>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 = 51.3 bits (123), Expect = 4e-07
Identities = 14/70 (20%), Positives = 32/70 (45%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYS 127
ES+ +LY+T ++ +VG+G+ S +T F++ +++G AV + +
Sbjct: 44 ESWTVSLYWTFVTIATVGYGDYSPSTPLGMYFTVTLIVLGIGTFAVAVERLLEFLINREQ 103
Query: 128 RRSLYQTKWR 137
+ +
Sbjct: 104 MKLMGLIDVA 113
>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 = 50.2 bits (120), Expect = 5e-07
Identities = 15/74 (20%), Positives = 26/74 (35%)
Query: 191 LHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQN 250
L + I +F +L+ + G +I +GD Y + G+++ N
Sbjct: 5 LEKSIRNNFLFNKLDSDSKRLVINCLEEKSVPKGATIIKQGDQGDYFYVVEKGTVDFYVN 64
Query: 251 GMVVAILGKGDLVG 264
V G G G
Sbjct: 65 DNKVNSSGPGSSFG 78
Score = 47.9 bits (114), Expect = 3e-06
Identities = 18/92 (19%), Positives = 37/92 (40%), Gaps = 1/92 (1%)
Query: 174 ETLKEFPEELRGDVSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDH 233
T ++ + + +P+ ++ T L+ + PGE +I +GD
Sbjct: 106 LTFRKILLGSSFKKRLMYDDLLKSMPVLKSLTTYDRAKLADALDTKIYQPGETIIREGDQ 165
Query: 234 LSSIYYLCNGSMEVVQNG-MVVAILGKGDLVG 264
+ Y + G+++V + G V+ L D G
Sbjct: 166 GENFYLIEYGAVDVSKKGQGVINKLKDHDYFG 197
>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 = 49.2 bits (118), Expect = 8e-07
Identities = 23/156 (14%), Positives = 56/156 (35%), Gaps = 30/156 (19%)
Query: 193 REIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQ-- 249
EIL + IF+ + L+ ++ G + +G+ +Y + +G +++ +
Sbjct: 5 DEILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKVKIGRRA 64
Query: 250 -NG--MVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCDL 306
+G ++ I+G D+ G ++S++ + +T
Sbjct: 65 PDGRENLLTIMGPSDMFG-ELSIFDPG-------------------PRTSSATTITEVRA 104
Query: 307 KSVNVVGLVEVLRLYPEYQQEFAHDIQHDLTYNIRE 342
S++ L + P E + + L +R
Sbjct: 105 VSMDRDALRSWIADRP----EISEQLLRVLARRLRR 136
>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 = 47.2 bits (112), Expect = 1e-06
Identities = 14/96 (14%), Positives = 38/96 (39%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYS 127
+Y AL+++ + T+VG+G++ T ++ ++ M+ G +V +
Sbjct: 39 ITYPRALWWSVETATTVGYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALATWFVGREQ 98
Query: 128 RRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTM 163
R + + + + + L +R + +
Sbjct: 99 ERRGHFVRHSEKAAEEAYTRTTRALHERFDRLERML 134
>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 = 48.8 bits (117), Expect = 1e-06
Identities = 13/82 (15%), Positives = 29/82 (35%), Gaps = 6/82 (7%)
Query: 189 MHLHREIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEV 247
+ + G ++ H + GD ++YY+ +GS+ +
Sbjct: 6 TTVVTTTVRNATPSLTLDAGTIERFLAHSHRRRYPTRTDVFRPGDPAGTLYYVISGSVSI 65
Query: 248 VQ---NG--MVVAILGKGDLVG 264
+ + +V+ G G+ VG
Sbjct: 66 IAEEDDDRELVLGYFGSGEFVG 87
>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 = 48.8 bits (117), Expect = 1e-06
Identities = 12/83 (14%), Positives = 32/83 (38%), Gaps = 6/83 (7%)
Query: 188 SMHLHREIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSME 246
+ + I + + + + L GE L + + +I+ + +G ++
Sbjct: 5 AHEAQKAIARNSLLIRSLPEQHVDALLSQAVWRSYDRGETLFLQEEKAQAIHVVIDGWVK 64
Query: 247 VVQ---NG--MVVAILGKGDLVG 264
+ + G VV++ +G+ G
Sbjct: 65 LFRMTPTGSEAVVSVFTRGESFG 87
>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 = 49.1 bits (117), Expect = 1e-06
Identities = 16/92 (17%), Positives = 40/92 (43%), Gaps = 1/92 (1%)
Query: 174 ETLKEFPEELRGDVSMHLHREIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGD 232
+++ F + + + S L +E + + ++ + + +I +GD
Sbjct: 19 GSMQAFRKFTKSERSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGD 78
Query: 233 HLSSIYYLCNGSMEVVQNGMVVAILGKGDLVG 264
S +Y + +G +EV + G+ + +G G + G
Sbjct: 79 VGSLVYVMEDGKVEVTKEGVKLCTMGPGKVFG 110
Score = 43.0 bits (101), Expect = 2e-04
Identities = 17/97 (17%), Positives = 35/97 (36%), Gaps = 6/97 (6%)
Query: 174 ETLKEFPEELRGDVSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDH 233
+ + + +P F++ + L L+ + GEY+I +G
Sbjct: 138 QCFQTIMMRTGLIKHTEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGAR 197
Query: 234 LSSIYYLCNGSMEVVQNG------MVVAILGKGDLVG 264
+ + + G + V + + + LGKGD G
Sbjct: 198 GDTFFIISKGKVNVTREDSPNEDPVFLRTLGKGDWFG 234
>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 = 48.4 bits (116), Expect = 2e-06
Identities = 20/144 (13%), Positives = 47/144 (32%), Gaps = 26/144 (18%)
Query: 192 HREIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQ- 249
+ L + P+F+ + ++ + P E ++ + +++ + G + V +
Sbjct: 4 RLDDLKRSPLFQNVPEDAMREALKVVTERNFQPDELVVEQDAEGEALHLVTTGVVRVSRV 63
Query: 250 --NG--MVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCD 305
G V+ + +VG + + S V+ALT
Sbjct: 64 SLGGRERVLGDIYAPGVVGET-----------AVLAHQE---------RSASVRALTPVR 103
Query: 306 LKSVNVVGLVEVLRLYPEYQQEFA 329
++ +LR +P A
Sbjct: 104 TLMLHREHFELILRRHPRVLWNLA 127
>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 = 45.5 bits (108), Expect = 2e-06
Identities = 14/62 (22%), Positives = 27/62 (43%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYS 127
SY A++++ + T+VG+G+ T + + M G + A+V + R
Sbjct: 39 ISYPDAIWWSVETATTVGYGDRYPVTEEGRKVAEQVMKAGIEVFALVTAALATDFVRREE 98
Query: 128 RR 129
R
Sbjct: 99 ER 100
>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 = 48.0 bits (115), Expect = 2e-06
Identities = 20/151 (13%), Positives = 51/151 (33%), Gaps = 27/151 (17%)
Query: 193 REILQL--PIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQ- 249
+ + L ++ + +LL I+ C + +GD ++++YL G +++++
Sbjct: 8 KGLGHLLRDVWSLLNEEERELLDKEIQPFPCKKASTVFSEGDIPNNLFYLYEGKIKILRE 67
Query: 250 --NG--MVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCD 305
G + I+ G G S A+
Sbjct: 68 GVYGRFHISRIVKPGQFFGMR-----------PYFAEE---------TCSSTAIAVENSK 107
Query: 306 LKSVNVVGLVEVLRLYPEYQQEFAHDIQHDL 336
+ ++ V + +L+ + + F + +L
Sbjct: 108 VLAIPVEAIEALLKGNTSFCRYFLKALAKEL 138
>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 = 49.1 bits (116), Expect = 2e-06
Identities = 36/247 (14%), Positives = 77/247 (31%), Gaps = 11/247 (4%)
Query: 24 HWLACLWFVIADYERNRYRQDWDLGWIHTLAERLKVNVSEISHRESYITALYFTCSSLTS 83
+ ++ + L L + + Y Y C T
Sbjct: 169 GVMETGSNNDRIPDKENVPSEKILRAGKILRIAILSRAPHMIRDRKYHLKTYRQCCVGTE 228
Query: 84 VGFGNV----SANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYSRRSLYQTKWRDL 139
+ + ++ + + +L +++ V Y
Sbjct: 229 LVDWMIQQTSCVHSRTQAVGMWQVLLEDGVLNHVDQERHFQDKYLFYR-----FLDDERE 283
Query: 140 KEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEELRGDVSMHLHREILQLP 199
L + KE + +QD + + + L++ P + D ++ E+L +
Sbjct: 284 DAPLPTEEEKKECDEELQDTMLLLSQMGPDAHMRMILRKPPGQRTVDDLEIIYDELLHIK 343
Query: 200 IFEAATQGCLKLLSLHIRN-NFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQNG-MVVAIL 257
+ + L+ + + G L ++G+ +S Y + GS+ VV G VV L
Sbjct: 344 ALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTL 403
Query: 258 GKGDLVG 264
+GD G
Sbjct: 404 HEGDDFG 410
Score = 43.0 bits (100), Expect = 2e-04
Identities = 20/101 (19%), Positives = 37/101 (36%), Gaps = 7/101 (6%)
Query: 171 DVHETLKEFPEELRGDVSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHK 230
+ L + P E + + + + FE L+ + L G L +
Sbjct: 20 EWIACLDKRPLERSSEDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQ 79
Query: 231 GDHLSSIYYLCNGSMEVV-------QNGMVVAILGKGDLVG 264
GD ++ Y + GS++V Q+ + + LG G G
Sbjct: 80 GDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTLGIGTAFG 120
>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 = 47.6 bits (114), Expect = 3e-06
Identities = 21/126 (16%), Positives = 47/126 (37%), Gaps = 21/126 (16%)
Query: 209 LKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQ---NG--MVVAILGKGDLV 263
L L H +I+ GD +++++ GS+ ++ +G M++ L GD
Sbjct: 6 LDKLLAHCHRRRYTAKSTIIYAGDRCETLFFIIKGSVTILIEDDDGREMIIGYLNSGDFF 65
Query: 264 GCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCDLKSVNVVGLVEVLRLYPE 323
G ++ ++ E + + S V+A C++ ++ E+ + E
Sbjct: 66 G-ELGLFEKEGSEQ---------------ERSAWVRAKVECEVAEISYAKFRELSQQDSE 109
Query: 324 YQQEFA 329
Sbjct: 110 ILYTLG 115
>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 = 46.4 bits (110), Expect = 4e-06
Identities = 13/89 (14%), Positives = 36/89 (40%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYS 127
+Y AL+++ + T+VG+G++ T ++ ++ M+ G +V +
Sbjct: 66 ITYPRALWWSVETATTVGYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALATWFVGQEQ 125
Query: 128 RRSLYQTKWRDLKEFLTLNQIPKELKQRM 156
++ + + + + L +R
Sbjct: 126 QQQQQFVRHSEKAAEEAYTRTTRALHERF 154
>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 = 46.8 bits (112), Expect = 5e-06
Identities = 26/151 (17%), Positives = 58/151 (38%), Gaps = 29/151 (19%)
Query: 197 QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQ---NG-- 251
P+F + L + + G+ + ++GD ++Y + +G + + + G
Sbjct: 3 GSPLFHGLAPEEVDLALSYFQRRLYPQGKPIFYQGDLGQALYLVASGKVRLFRTHLGGQE 62
Query: 252 MVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCDLKSVNV 311
+A+LG G+L G ++S+ + S A+ +L ++
Sbjct: 63 RTLALLGPGELFG-EMSLLDEGER-------------------SASAVAVEDTELLALFR 102
Query: 312 VGLVEVLRLYPEYQQEFAHDIQHDLTYNIRE 342
+ ++R P AH++ L +RE
Sbjct: 103 EDYLALIRRLP----LVAHNLAALLARRLRE 129
>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 = 46.9 bits (112), Expect = 5e-06
Identities = 16/131 (12%), Positives = 38/131 (29%), Gaps = 31/131 (23%)
Query: 197 QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQNG----M 252
+ I + R+ A G + + ++ + +G + V G +
Sbjct: 4 RFNIANVLLSPDGETFFRGFRSKIHAKGSLVCTGEGDENGVFVVVDGRLRVYLVGEEREI 63
Query: 253 VVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCDLKSVNVV 312
+ L GD+ + S C V+A +++ ++
Sbjct: 64 SLFYLTSGDMFC---------------------------MHSGCLVEATERTEVRFADIR 96
Query: 313 GLVEVLRLYPE 323
+ L+ P
Sbjct: 97 TFEQKLQTCPS 107
>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 = 45.0 bits (107), Expect = 8e-06
Identities = 16/74 (21%), Positives = 28/74 (37%)
Query: 191 LHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQN 250
L + I + +F + + GE +I +GD + Y + G M+V N
Sbjct: 36 LAKAIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVN 95
Query: 251 GMVVAILGKGDLVG 264
+G+G G
Sbjct: 96 NEWATSVGEGGSFG 109
>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 = 45.7 bits (109), Expect = 1e-05
Identities = 15/155 (9%), Positives = 42/155 (27%), Gaps = 36/155 (23%)
Query: 193 REIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQNG 251
+ L + E + R + L + ++ + +G + V
Sbjct: 3 QMRLTDTNLLEVLNSEEYSGVLKEFREQRYSKKAILYTPNTERNLVFLVKSGRVRVYLAY 62
Query: 252 ----MVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCDLK 307
+AIL GD+ + ++A+ +
Sbjct: 63 EDKEFTLAILEAGDIFC---------------------------THTRAFIQAMEDTTIL 95
Query: 308 SVNVVGLVEVLRLYPEYQQEFAHDIQHDLTYNIRE 342
++ ++ +P F+ ++ L ++
Sbjct: 96 YTDIRNFQNIVVEFP----AFSLNMVKVLGDLLKN 126
>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 = 46.0 bits (108), Expect = 1e-05
Identities = 24/146 (16%), Positives = 48/146 (32%), Gaps = 17/146 (11%)
Query: 10 LILTLLMLSFTLVAHWLACLWFVIADYERNRYRQDWDLGWIHTLAERLKVNVSE------ 63
+ TLL L+ + + + + + +H +
Sbjct: 132 IPFTLLFLTAVVQRITVHVTRRPVLYFHIRWGFSKQVVAIVHAVLLGFVTVSCFFFIPAA 191
Query: 64 -ISHRE---SYITALYFTCSSLTSVGFGNVSANTSAE-------KIFSICTMLIGALMHA 112
S E +++ + YF SL+++G G+ KI C +L+G +
Sbjct: 192 VFSVLEDDWNFLESFYFCFISLSTIGLGDYVPGEGYNQKFRELYKIGITCYLLLGLIAML 251
Query: 113 VVFGNVTAIIQRMYSRRSLYQTKWRD 138
VV + + R+ Y K +D
Sbjct: 252 VVLETFCELHELKKFRKMFYVKKDKD 277
Score = 32.1 bits (72), Expect = 0.43
Identities = 15/67 (22%), Positives = 28/67 (41%)
Query: 69 SYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYSR 128
+ +AL+F + L++ G+G+ + K F I +IG + V I +R
Sbjct: 93 DFTSALFFASTVLSTTGYGHTVPLSDGGKAFCIIYSVIGIPFTLLFLTAVVQRITVHVTR 152
Query: 129 RSLYQTK 135
R +
Sbjct: 153 RPVLYFH 159
>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 = 45.9 bits (108), Expect = 2e-05
Identities = 15/76 (19%), Positives = 29/76 (38%)
Query: 190 HLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQ 249
L + I + +F + + GE +I +G+ + Y + G ++V
Sbjct: 127 ALAKAISKNVLFAHLDDNERSDIFDAMFPVTHIAGETVIQQGNEGDNFYVVDQGEVDVYV 186
Query: 250 NGMVVAILGKGDLVGC 265
NG V + +G G
Sbjct: 187 NGEWVTNISEGGSFGE 202
Score = 38.2 bits (88), Expect = 0.005
Identities = 14/74 (18%), Positives = 29/74 (39%), Gaps = 6/74 (8%)
Query: 197 QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQNG----- 251
++ I E+ + ++ + GE ++ +G+ Y + G+ V+Q
Sbjct: 252 KVSILESLEKWERLTVADALEPVQFEDGEKIVVQGEPGDDFYIITEGTASVLQRRSPNEE 311
Query: 252 -MVVAILGKGDLVG 264
+ V LG D G
Sbjct: 312 YVEVGRLGPSDYFG 325
>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 = 45.0 bits (106), Expect = 3e-05
Identities = 16/75 (21%), Positives = 28/75 (37%)
Query: 191 LHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQN 250
L + I + +F + + GE +I +GD + Y + G M+V N
Sbjct: 37 LAKAIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVN 96
Query: 251 GMVVAILGKGDLVGC 265
+G+G G
Sbjct: 97 NEWATSVGEGGSFGE 111
Score = 41.9 bits (98), Expect = 3e-04
Identities = 13/82 (15%), Positives = 30/82 (36%), Gaps = 6/82 (7%)
Query: 189 MHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVV 248
+ ++ I E+ + ++ + G+ ++ +G+ + + GS V+
Sbjct: 153 KMYEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAAVL 212
Query: 249 QNG------MVVAILGKGDLVG 264
Q + V LG D G
Sbjct: 213 QRRSENEEFVEVGRLGPSDYFG 234
>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling;
HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB:
4avb_A* 4avc_A*
Length = 333
Score = 45.4 bits (107), Expect = 3e-05
Identities = 17/74 (22%), Positives = 33/74 (44%), Gaps = 4/74 (5%)
Query: 195 ILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQNG--- 251
+ + +F+ L L+ ++ A G+ L+ +G+ S + +GS EV G
Sbjct: 15 LAGMDVFQGCPAEGLVSLAASVQPLRAAAGQVLLRQGEPAVSFLLISSGSAEVSHVGDDG 74
Query: 252 -MVVAILGKGDLVG 264
++A G +VG
Sbjct: 75 VAIIARALPGMIVG 88
>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 = 44.1 bits (105), Expect = 3e-05
Identities = 20/137 (14%), Positives = 42/137 (30%), Gaps = 24/137 (17%)
Query: 197 QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQ---NG-- 251
I LK L + GE + H+ D + + L G+++ NG
Sbjct: 3 SDKIHHHHHHMDLKKLLPCGKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENGKT 62
Query: 252 MVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCDLKSVNV 311
+ + + ++ ++ SE + +V A + S+
Sbjct: 63 LEIDEIKPVQIIA-SGFIFSSEP------------------RFPVNVVAGENSKILSIPK 103
Query: 312 VGLVEVLRLYPEYQQEF 328
+++L E F
Sbjct: 104 EVFLDLLMKDRELLLFF 120
>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 = 44.2 bits (105), Expect = 5e-05
Identities = 18/159 (11%), Positives = 44/159 (27%), Gaps = 33/159 (20%)
Query: 190 HLHREIL-QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVV 248
L ++ + L+ + A G +I G+ ++S+ +L G +++
Sbjct: 5 GLGKDFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLD 64
Query: 249 Q---NG--MVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTY 303
+G ++ G L+G ++ A+
Sbjct: 65 IIFEDGSEKLLYYAGGNSLIG-----------------------KLYPTGNNIYATAMEP 101
Query: 304 CDLKSVNVVGLVEVLRLYPEYQQEFAHDIQHDLTYNIRE 342
+ L V R + +I + +
Sbjct: 102 TRTCWFSEKSLRTVFRTDE----DMIFEIFKNYLTKVAY 136
>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 = 44.3 bits (104), Expect = 5e-05
Identities = 17/120 (14%), Positives = 34/120 (28%), Gaps = 25/120 (20%)
Query: 11 ILTLLMLSFTLVAHWLACLWFVIADYERNRYRQDWDLGWIHTLAERLKVNVSEISHRESY 70
+TL+ + + A + D N + S+
Sbjct: 49 FITLITGLYLVTNALFALAYLACGDVIEN-------------------------ARPGSF 83
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYSRRS 130
A +F+ ++ ++G+G + L G L AV + A R +
Sbjct: 84 TDAFFFSVQTMATIGYGKLIPIGPLANTLVTLEALCGMLGLAVAASLIYARFTRPTAGVL 143
>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 = 43.8 bits (104), Expect = 5e-05
Identities = 14/151 (9%), Positives = 39/151 (25%), Gaps = 27/151 (17%)
Query: 197 QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQ---NG-- 251
P++ KL+S ++ G + + + + + +G + G
Sbjct: 7 YFPLWNDLNTAQKKLISDNLITQHVKKGTIIHNGNMDCTGLLLVKSGQLRTYILSDEGRE 66
Query: 252 MVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCDLKSVNV 311
+ + L D+ S + ++A DL +
Sbjct: 67 ITLYRLFDMDMCLLSASCIMRSIQ------------------FEVTIEAEKDTDLWIIPA 108
Query: 312 VGLVEVLRLYPEYQQEFAHDIQHDLTYNIRE 342
+++ A+ + +
Sbjct: 109 EIYKGIMKDSA----PVANYTNELMATRFSD 135
>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 = 43.8 bits (104), Expect = 5e-05
Identities = 16/85 (18%), Positives = 33/85 (38%), Gaps = 8/85 (9%)
Query: 188 SMHLHREIL-QLPIFEAATQGCLKLLSLHIRNNFC--APGEYLIHKGDHLSSIYYLCNGS 244
M + L QLP+F+ + ++ +F GE +I G+ + + +L G
Sbjct: 12 HMETMFDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLLKGE 71
Query: 245 MEVVQ---NG--MVVAILGKGDLVG 264
+ +V V+ + L+
Sbjct: 72 ISIVTNAKENIYTVIEQIEAPYLIE 96
>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 = 41.2 bits (97), Expect = 9e-05
Identities = 12/62 (19%), Positives = 27/62 (43%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYS 127
+Y AL++ C + T+V +G++ T ++ ++ M+ G +V +
Sbjct: 60 ITYPRALWWACETATTVAYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALATWFVGREQ 119
Query: 128 RR 129
R
Sbjct: 120 ER 121
>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 = 42.0 bits (99), Expect = 1e-04
Identities = 12/78 (15%), Positives = 26/78 (33%), Gaps = 4/78 (5%)
Query: 191 LHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQN 250
L + +F+ + + + GE++I +GD + Y + G+ ++
Sbjct: 36 LQEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVK 95
Query: 251 ----GMVVAILGKGDLVG 264
G V G
Sbjct: 96 CDGVGRCVGNYDNRGSFG 113
>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 = 43.3 bits (101), Expect = 1e-04
Identities = 13/62 (20%), Positives = 28/62 (45%)
Query: 69 SYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYSR 128
++ A +F+ +L +VG+G++ T + + +G A+ G V A R ++
Sbjct: 96 GFVGAFFFSVETLATVGYGDMHPQTVYAHAIATLEIFVGMSGIALSTGLVFARFARPRAK 155
Query: 129 RS 130
Sbjct: 156 IM 157
>3sya_A G protein-activated inward rectifier potassium CH; ION channel,
potassium channel, inward rectification, sodium PIP2
binding, G protein binding; HET: PIO; 2.98A {Mus
musculus} PDB: 3syo_A 3syc_A 3syp_A 3syq_A*
Length = 340
Score = 43.2 bits (101), Expect = 1e-04
Identities = 18/122 (14%), Positives = 52/122 (42%), Gaps = 14/122 (11%)
Query: 11 ILTLLMLSFTLVAHWLACLWFVIADYERNRYRQDWDLGWIHTLAERLKVNVSEISHRESY 70
L + ++ +T+ + +W++IA D+ I + +++ +
Sbjct: 45 NLLIFVMVYTVTWLFFGMIWWLIA-------YIRGDMDHIEDPS-----WTPCVTNLNGF 92
Query: 71 ITALYFTCSSLTSVGFGN--VSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYSR 128
++A F+ + T++G+G ++ I + ++G++++A + G + I + R
Sbjct: 93 VSAFLFSIETETTIGYGYRVITDKCPEGIILLLIQSVLGSIVNAFMVGCMFVKISQPKKR 152
Query: 129 RS 130
Sbjct: 153 AE 154
>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 = 42.8 bits (100), Expect = 2e-04
Identities = 16/114 (14%), Positives = 35/114 (30%), Gaps = 25/114 (21%)
Query: 11 ILTLLMLSFTLVAHWLACLWFVIADYERNRYRQDWDLGWIHTLAERLKVNVSEISHRESY 70
L + F L+ A L+ + + N +
Sbjct: 45 FFVSLAVLFLLLNTAFATLYMLGSAPIAN-------------------------QFPAGF 79
Query: 71 ITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQR 124
A +F+ +L +VG+G++ T + + +G A+ G + +
Sbjct: 80 GGAFFFSVETLATVGYGDMHPQTVYAHWIATLEIFVGMSSIALATGCAFIKMSQ 133
>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 = 41.9 bits (99), Expect = 2e-04
Identities = 24/168 (14%), Positives = 50/168 (29%), Gaps = 35/168 (20%)
Query: 185 GDVSMHLHREILQLPIFE-----------AATQGCLKLLSLHIRNNFCAPGEYLIHKGDH 233
G H H +P + + F + + GD
Sbjct: 2 GSSHHHHHHSSGLVPRGSHMIVTQDKALANVFRQMATGAFPPVVETF-ERNKTIFFPGDP 60
Query: 234 LSSIYYLCNGSMEVVQ---NG--MVVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGV 288
+Y+L G++++ + G + VA+L + + G +S+ K+
Sbjct: 61 AERVYFLLKGAVKLSRVYEAGEEITVALLRENSVFG-VLSLLTGNKS------------- 106
Query: 289 DPIVKSSCDVKALTYCDLKSVNVVGLVEVLRLYPEYQQEFAHDIQHDL 336
A T +L S + + + L+ PE + +
Sbjct: 107 ----DRFYHAVAFTPVELLSAPIEQVEQALKENPELSMLMLRGLSSRI 150
>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 = 41.0 bits (96), Expect = 2e-04
Identities = 15/62 (24%), Positives = 29/62 (46%)
Query: 68 ESYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYS 127
SY AL+++ + T+VG+G++ T + ++ M+ G + +VF V
Sbjct: 83 ISYPDALWWSVETATTVGYGDLYPVTLWGRCVAVVVMVAGITSYGLVFAAVATWFVGREQ 142
Query: 128 RR 129
R
Sbjct: 143 ER 144
>3spc_A Inward-rectifier K+ channel KIR2.2; PIP, membrane protein, lipid,
receptor, metal transport; HET: P8P; 2.45A {Gallus
gallus} PDB: 3jyc_A* 3spi_A* 3sph_A* 3spj_A 3spg_A*
Length = 343
Score = 42.4 bits (99), Expect = 3e-04
Identities = 18/122 (14%), Positives = 45/122 (36%), Gaps = 13/122 (10%)
Query: 11 ILTLLMLSFTLVAHWLACLWFVIADYERNRYRQDWDLGWIHTLAERLKVNVSEISHRESY 70
+L L L+F + ++++IA + D + + +
Sbjct: 47 MLLLFSLAFLVSWLLFGLIFWLIALIHGDLENPGGDDTFK-----------PCVLQVNGF 95
Query: 71 ITALYFTCSSLTSVGFGN--VSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYSR 128
+ A F+ + T++G+G V+ + ++G ++ + + G + A + R R
Sbjct: 96 VAAFLFSIETQTTIGYGFRCVTEECPLAVFMVVVQSIVGCIIDSFMIGAIMAKMARPKKR 155
Query: 129 RS 130
Sbjct: 156 AQ 157
>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA;
3.10A {Mesorhizobium loti} PDB: 2zd9_A*
Length = 355
Score = 41.8 bits (98), Expect = 4e-04
Identities = 11/95 (11%), Positives = 36/95 (37%), Gaps = 1/95 (1%)
Query: 69 SYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYSR 128
S A+++ +L++ G+G+ + A ++ + M+ G + + G + + R
Sbjct: 161 SIPQAMWWAVVTLSTTGYGDTIPQSFAGRVLAGAVMMSGIGIFGLWAGILATGFYQEVRR 220
Query: 129 RSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTM 163
+ W+ + ++ + + +
Sbjct: 221 GD-FVRNWQLVAAVPLFQKLGPAVLVEIVRALRAR 254
>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 = 41.7 bits (97), Expect = 5e-04
Identities = 12/79 (15%), Positives = 26/79 (32%), Gaps = 4/79 (5%)
Query: 190 HLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQ 249
L + +F+ + + + GE++I +GD + Y + G+ ++
Sbjct: 142 RLQEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYV 201
Query: 250 N----GMVVAILGKGDLVG 264
G V G
Sbjct: 202 KCDGVGRCVGNYDNRGSFG 220
Score = 41.3 bits (96), Expect = 6e-04
Identities = 15/102 (14%), Positives = 31/102 (30%), Gaps = 11/102 (10%)
Query: 174 ETLKEFPEELRGDVSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDH 233
T + + I LP ++ + I GE +I +GD
Sbjct: 248 VTFRRIIVKNNAKKRKMYESFIESLPFLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGDL 307
Query: 234 LSSIYYLCNGSMEVVQNG-----------MVVAILGKGDLVG 264
S + + +G +++ + +A +G G
Sbjct: 308 ADSFFIVESGEVKITMKRKGKSEVEENGAVEIARCFRGQYFG 349
>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 = 40.0 bits (94), Expect = 9e-04
Identities = 9/59 (15%), Positives = 21/59 (35%), Gaps = 5/59 (8%)
Query: 211 LLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVVQ---NG--MVVAILGKGDLVG 264
L + I+ E + ++ D +L +G ++ NG M + ++
Sbjct: 13 LETNGIKPKQFHKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYYKGAFVIM 71
>3um7_A Potassium channel subfamily K member 4; potassium ION channel,
metal transport; 3.31A {Homo sapiens}
Length = 309
Score = 40.6 bits (94), Expect = 0.001
Identities = 21/141 (14%), Positives = 45/141 (31%), Gaps = 19/141 (13%)
Query: 7 YSALILTLLMLSFTLVAHWLACLWFVIADYERNRYRQDWDLGWIHTLAERLKVNVSEI-- 64
Y+ + + L + V L + + + + + + +
Sbjct: 149 YALVGIPLFGILLAGVGDRLGSSLRHGIGHIEAIFLKWHVPPELVRVLSAMLFLLIGCLL 208
Query: 65 ---------SHRE--SYITALYFTCSSLTSVGFGNVSANTSAE------KIFSICTMLIG 107
+ E S + A+YF +LT+VGFG+ A + +L+G
Sbjct: 209 FVLTPTFVFCYMEDWSKLEAIYFVIVTLTTVGFGDYVAGADPRQDSPAYQPLVWFWILLG 268
Query: 108 ALMHAVVFGNVTAIIQRMYSR 128
A V + ++ + R
Sbjct: 269 LAYFASVLTTIGNWLRVVSRR 289
Score = 36.3 bits (83), Expect = 0.020
Identities = 19/99 (19%), Positives = 39/99 (39%), Gaps = 9/99 (9%)
Query: 38 RNRYRQDWDLGWIHTLAERLKVNVSEISHRE--------SYITALYFTCSSLTSVGFGNV 89
Q+ L I +A+ L + +A +F+ + +T++G+GNV
Sbjct: 77 PCVSDQELGL-LIKEVADALGGGADPETQSTSQSSHSAWDLGSAFFFSGTIITTIGYGNV 135
Query: 90 SANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYSR 128
+ T A ++F I L+G + ++ V +
Sbjct: 136 ALRTDAGRLFCIFYALVGIPLFGILLAGVGDRLGSSLRH 174
>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 = 39.1 bits (92), Expect = 0.002
Identities = 17/58 (29%), Positives = 30/58 (51%)
Query: 69 SYITALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMY 126
S AL++ + T+VG+G+V T K+ I ML G ++ G V+ + Q++
Sbjct: 165 SVFDALWWAVVTATTVGYGDVVPATPIGKVIGIAVMLTGISALTLLIGTVSNMFQKIL 222
>3b02_A Transcriptional regulator, CRP family; structural genomics, riken
structural genomics/proteomics in RSGI; 1.92A {Thermus
thermophilus} PDB: 2zdb_A
Length = 195
Score = 38.7 bits (91), Expect = 0.002
Identities = 12/48 (25%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 222 APGEYLIHKGDHLSSIYYLCNGSMEVVQ---NG--MVVAILGKGDLVG 264
A E + +G+ ++Y L G + VV+ +G + + + GD G
Sbjct: 5 ARKETIYLRGEEARTLYRLEEGLVRVVELLPDGRLITLRHVLPGDYFG 52
>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 = 39.5 bits (91), Expect = 0.003
Identities = 79/566 (13%), Positives = 159/566 (28%), Gaps = 187/566 (33%)
Query: 29 LWFVIADYERNRYRQ------DWDLGWIHTLAERLKVNVSEIS-HRESYITALYFTCSSL 81
L++ + + ++ + + L +K + S YI +
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRINYKF---LMSPIKTEQRQPSMMTRMYIEQRDRLYNDN 123
Query: 82 TSVGFGNVSANTSAEKIFSICTMLIGALMHA---VVFG-------NVTAIIQRMYSRRSL 131
NV + + + L+ L A ++ G V + Y +
Sbjct: 124 QVFAKYNV---SRLQPYLKLRQALLE-LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK 179
Query: 132 YQTK--WRDLKEFLTLNQI--PKELKQRMQD-YFQTMWSLSHGIDVHETLKEFPEELRGD 186
K W L L P+ + + +Q +Q + + D +K ++ +
Sbjct: 180 MDFKIFW------LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233
Query: 187 VSMHLHRE-------IL----QLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLS 235
+ L + +L + A C K+L L R D LS
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC-KIL-LTTRFKQVT---------DFLS 282
Query: 236 SIYYLCNGSMEVVQNGM----VVAILGKGDLVGCDISMWLSEKNGGSAVGPGAGTGVDPI 291
+ + S++ + V ++L K +L + P +P
Sbjct: 283 AATT-THISLDHHSMTLTPDEVKSLLLK----------YLDCRPQDL---PREVLTTNPR 328
Query: 292 VKS----SCDVKALTYCDLKSVNVVGLVEVLR-----LYP-EYQQEFAHDIQHDLTYNI- 340
S S T+ + K VN L ++ L P EY++ F L+ +
Sbjct: 329 RLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF-----DRLS--VF 381
Query: 341 REGYEAEESDIGLPSLTLPSINEDDEAGEGETSPLSPPSRSPLHIPMSNSPRHTKINMRG 400
+P++ L I D + + N
Sbjct: 382 PP-------SAHIPTILLSLIWFDVIKSDVMV--------------VVN----------- 409
Query: 401 AERFRRGELEKKSSVDR-LDTQVTSLHHHVATLSQEVRNAIQALQELATTSSNVASNRYP 459
+L K S V++ S+ + E++ ++ L
Sbjct: 410 -------KLHKYSLVEKQPKESTISIPS----IYLELKVKLENEYAL------------- 445
Query: 460 YPLPAHSNPNLPHNTQCPQQRALLQRSSSHPPEMFCWESM-----DQERYAHCV---SQS 511
H R+++ + P+ F + + DQ Y+H
Sbjct: 446 -----H--------------RSIVDHYN--IPKTFDSDDLIPPYLDQYFYSHIGHHLKNI 484
Query: 512 TQTDYPIDMFE------SFVKENKLR 531
+ + +F F+ E K+R
Sbjct: 485 EHPER-MTLFRMVFLDFRFL-EQKIR 508
Score = 33.7 bits (76), Expect = 0.18
Identities = 29/268 (10%), Positives = 81/268 (30%), Gaps = 59/268 (22%)
Query: 307 KSVNVVGLV-EVLRLYPEYQQEFAHDIQHDLTYNIREGYEAEESDIGLPSLTLPSINEDD 365
K+ + +V Y + Q + I + + + L + +
Sbjct: 163 KTW----VALDVCLSY-KVQCKMDFKI-----FWLNLKNCNSPETVLEMLQKLLYQIDPN 212
Query: 366 EAGEGETSPLSPPSRSPLHIPMSNSPRHTKINMRGAERFRRG-----ELEKKSSVDRLDT 420
TS S L I +S + + ++ + ++ + + +
Sbjct: 213 W-----TSRSDHSSNIKLRI---HSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL 264
Query: 421 QVTSLHHHVATLSQEVRNAIQALQELATTSSNVASNRYPYPLPA------------HSNP 468
L + T ++V + + A T+++++ + + L
Sbjct: 265 SCKIL---LTTRFKQVTDFLSA-----ATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ 316
Query: 469 NLPHNTQC---PQQRALLQRSSSHPPEMF-CWESMDQERYAHCVSQSTQTDYPIDM---F 521
+LP P++ +++ S + W+ ++ ++ + S P + F
Sbjct: 317 DLPREV-LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF 375
Query: 522 ES---FVKENKL--RVLE--WLGLKHNV 542
+ F + +L W + +
Sbjct: 376 DRLSVFPPSAHIPTILLSLIWFDVIKSD 403
>2byv_E RAP guanine nucleotide exchange factor 4; EPAC2, CAMP-GEF2, CAMP,
cyclic nucleotide, regulation, auto-inhibition, CDC25
homology domain; 2.7A {Mus musculus}
Length = 999
Score = 37.5 bits (86), Expect = 0.012
Identities = 30/154 (19%), Positives = 62/154 (40%), Gaps = 5/154 (3%)
Query: 116 GNVTAIIQRMYSRRSLYQTKWRDLKE---FLTLNQIPKELKQRMQDYFQTMWSLSHGIDV 172
G + + Q + + ++ D + L + KE + +QD + + +
Sbjct: 257 GVLNHVDQERHFQDKYLFYRFLDDEREDAPLPTEEEKKECDEELQDTMLLLSQMGPDAHM 316
Query: 173 HETLKEFPEELRGDVSMHLHREILQLPIFEAATQGCLKLLSLHIR-NNFCAPGEYLIHKG 231
L++ P + D ++ E+L + + + L+ + + G L ++G
Sbjct: 317 RMILRKPPGQRTVDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQG 376
Query: 232 DHLSSIYYLCNGSMEVVQNG-MVVAILGKGDLVG 264
+ +S Y + GS+ VV G VV L +GD G
Sbjct: 377 EEGTSWYIILKGSVNVVIYGKGVVCTLHEGDDFG 410
Score = 34.8 bits (79), Expect = 0.083
Identities = 18/84 (21%), Positives = 32/84 (38%), Gaps = 7/84 (8%)
Query: 191 LHREILQLPIFEAATQGCLKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSMEVV-- 248
+ + + FE L+ + L G L +GD ++ Y + GS++V
Sbjct: 40 IFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSLDVKVS 99
Query: 249 -----QNGMVVAILGKGDLVGCDI 267
Q+ + + LG G G I
Sbjct: 100 ETSSHQDAVTICTLGIGTAFGESI 123
>3on7_A Oxidoreductase, iron/ascorbate family; structural genomics, joint
center for structural genomics, J protein structure
initiative; 2.20A {Shewanella oneidensis}
Length = 280
Score = 36.1 bits (84), Expect = 0.019
Identities = 5/38 (13%), Positives = 16/38 (42%), Gaps = 3/38 (7%)
Query: 134 TKWRDLKEFLTLNQIPKEL---KQRMQDYFQTMWSLSH 168
+D+KE+ + + + + Y++ +L+
Sbjct: 81 HTVKDIKEYYHVYPWGRIPDSLRANILAYYEKANTLAS 118
>2r9r_B Paddle chimera voltage gated potassium channel KV; voltage sensor,
voltage dependent, ION CH shaker, membrane protein,
eukaryotic; HET: NAP PGW; 2.40A {Rattus norvegicus} PDB:
3lnm_B* 3lut_B* 2a79_B*
Length = 514
Score = 36.6 bits (84), Expect = 0.021
Identities = 22/112 (19%), Positives = 42/112 (37%), Gaps = 2/112 (1%)
Query: 73 ALYFTCSSLTSVGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYSR--RS 130
A ++ S+T+VG+G++ T KI + G L A+ + + Y R
Sbjct: 379 AFWWAVVSMTTVGYGDMVPTTIGGKIVGSLCAIAGVLTIALPVPVIVSNFNYFYHRETEG 438
Query: 131 LYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWSLSHGIDVHETLKEFPEE 182
Q ++ + + P K R + V+ + ++F EE
Sbjct: 439 EEQAQYLQVTSSPKIPSSPDLKKSRSASTISKSDYMEIQEGVNNSNEDFREE 490
>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary
phase, DNA-binding, transcription regulation; 1.50A
{Thermus thermophilus}
Length = 202
Score = 34.5 bits (80), Expect = 0.049
Identities = 7/50 (14%), Positives = 18/50 (36%), Gaps = 7/50 (14%)
Query: 222 APGEYLIHKG--DHLSSIYYLCNGSMEVVQ---NG--MVVAILGKGDLVG 264
G+ +++ G Y + G + + G + + ++ G G
Sbjct: 11 KAGDVILYPGVPGPRDRAYRVLEGLVRLEAVDEEGNALTLRLVRPGGFFG 60
>3dn7_A Cyclic nucleotide binding regulatory protein; structural genomics,
APC88869, cyclic nucleotide binding REG protein, PSI-2;
1.80A {Cytophaga hutchinsonii}
Length = 194
Score = 32.4 bits (74), Expect = 0.25
Identities = 14/135 (10%), Positives = 37/135 (27%), Gaps = 24/135 (17%)
Query: 209 LKLLSLHIRNNFCAPGEYLIHKGDHLSSIYYLCNGSM---EVVQNG--MVVAILGKGDLV 263
LS + E L+ G+ Y++ G + + + G + +
Sbjct: 23 AGTLSAFFQLKKVRKKETLLKTGEICRINYFVVKGCLRLFFIDEKGIEQTTQFAIENWWL 82
Query: 264 GCDISMWLSEKNGGSAVGPGAGTGVDPIVKSSCDVKALTYCDLKSVNVVGLVEVLRLYPE 323
++ + + ++++ C+L S+ + P
Sbjct: 83 SDYMAFQKQQ-------------------PADFYIQSVENCELLSITYTEQENLFERIPA 123
Query: 324 YQQEFAHDIQHDLTY 338
++ F Q
Sbjct: 124 LERYFRLVYQKSFAA 138
>3cf6_E RAP guanine nucleotide exchange factor (GEF) 4; EPAC, rapgef4,
CAMP, SP-camps, GEF, gunanine nucleotide exchange
factor, G-protein, GTP-binding, nucleotide-binding; HET:
SP1; 2.20A {Mus musculus}
Length = 694
Score = 32.9 bits (74), Expect = 0.35
Identities = 23/103 (22%), Positives = 40/103 (38%), Gaps = 18/103 (17%)
Query: 172 VHETLKEFPEELRGDVSMHLHREILQLPIFEAATQGCLKLLSLHIRNNFCA--------- 222
+ L++ P + D ++ E+L + LS ++
Sbjct: 11 MRMILRKPPGQRTVDDLEIIYDELLHIKALSH--------LSTTVKRELAGVLIFESHAK 62
Query: 223 PGEYLIHKGDHLSSIYYLCNGSMEVVQNGM-VVAILGKGDLVG 264
G L ++G+ +S Y + GS+ VV G VV L +GD G
Sbjct: 63 GGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDDFG 105
>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module,
phosphoinositide binding, caspase regulation, metal
binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1
g.50.1.1
Length = 120
Score = 27.8 bits (61), Expect = 3.9
Identities = 8/31 (25%), Positives = 16/31 (51%)
Query: 119 TAIIQRMYSRRSLYQTKWRDLKEFLTLNQIP 149
+ R L + K +DL+++L+L+ I
Sbjct: 64 QRFRATAFQREELMKMKVKDLRDYLSLHDIS 94
>2f3o_A PFLD, PFL2, pyruvate formate-lyase 2; glycerol dehydratase, glycyl
R hyperthermophilic, unknown function; HET: PGE; 2.90A
{Archaeoglobus fulgidus}
Length = 776
Score = 29.1 bits (65), Expect = 5.0
Identities = 11/61 (18%), Positives = 21/61 (34%), Gaps = 5/61 (8%)
Query: 186 DVSMHLHREILQLPIFEAATQGCLK----LLSLHIRNNFCAPGEY-LIHKGDHLSSIYYL 240
+V + + E+ P+ + C + + R NF + GD L +I
Sbjct: 499 NVLSYANAEVKPTPLLSLCVEDCFEKGVDVSRGGARYNFTGIQAVGIADVGDSLVAIEGA 558
Query: 241 C 241
Sbjct: 559 L 559
>2w31_A Globin; oxygen transport, hexacoordination; HET: HEM; 1.50A
{Geobacter sulfurreducens}
Length = 162
Score = 27.9 bits (62), Expect = 5.5
Identities = 11/56 (19%), Positives = 25/56 (44%), Gaps = 4/56 (7%)
Query: 110 MHAVVFGNVTAIIQRMYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWS 165
+ + N + + Y + EFL + + ++LKQ QD+F ++++
Sbjct: 24 LFPLAETNKERLADQFYDY----LLGIPETAEFLKEDLVLQKLKQTHQDWFVSLFA 75
>1or4_A Heme-based aerotactic transducer hemat; globin fold, signaling
protein; HET: HEM; 2.15A {Bacillus subtilis} SCOP:
a.1.1.2 PDB: 1or6_A*
Length = 178
Score = 28.0 bits (62), Expect = 6.1
Identities = 9/56 (16%), Positives = 22/56 (39%), Gaps = 4/56 (7%)
Query: 110 MHAVVFGNVTAIIQRMYSRRSLYQTKWRDLKEFLTLNQIPKELKQRMQDYFQTMWS 165
+ ++ N+ I+ Y L + + + LKQ ++ + Q M++
Sbjct: 54 LQPLIQENIVNIVDAFYKN----LDHESSLMDIINDHSSVDRLKQTLKRHIQEMFA 105
>1ps9_A 2,4-dienoyl-COA reductase; iron-sulfur, TIM barrel, flavodoxin,
flavin, electron transfer, hydride transfer,
oxidoreductase; HET: FAD FMN NAP MDE; 2.20A {Escherichia
coli} SCOP: c.1.4.1 c.3.1.1 c.4.1.1
Length = 671
Score = 28.4 bits (64), Expect = 7.5
Identities = 9/21 (42%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 254 VAILGKGDLVGCDISMWLSEK 274
VAI+G +G D +M+LS+
Sbjct: 497 VAIIG-CGGIGFDTAMYLSQP 516
>2him_A L-asparaginase 1; hydrolase; 1.82A {Escherichia coli} PDB: 2p2d_A
2p2n_A 3ntx_A* 2ocd_A
Length = 358
Score = 28.1 bits (63), Expect = 7.7
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 163 MWSLSHGIDVHETLKEFPEELRGDVS 188
+ LS +D K + LRG+++
Sbjct: 330 HYLLSQELDTETIRKAMSQNLRGELT 355
>2cb5_A Protein (bleomycin hydrolase); aminopeptidase, cysteine protease,
SELF- compartmentalizing, cylinase; 1.85A {Homo sapiens}
SCOP: d.3.1.1 PDB: 1cb5_A
Length = 453
Score = 28.2 bits (62), Expect = 9.1
Identities = 11/46 (23%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 481 ALLQRSSSHPPEMFCWESMDQERYAHCVSQSTQTDYPIDMFESFVK 526
++ +PPE F WE D+++ + T P++ + VK
Sbjct: 217 RVVCICLGNPPETFTWEYRDKDKNYEKIGPIT----PLEFYREHVK 258
>1z3a_A TRNA-specific adenosine deaminase; tRNA adenosine deaminase, dimer,
zinc, metalloenzyme, structural genomics, PSI, protein
structure initiative; 2.03A {Escherichia coli} SCOP:
c.97.1.2 PDB: 3ocq_A
Length = 168
Score = 27.1 bits (61), Expect = 9.2
Identities = 9/19 (47%), Positives = 12/19 (63%), Gaps = 4/19 (21%)
Query: 102 CTMLIGALMHA----VVFG 116
C M GA++H+ VVFG
Sbjct: 88 CVMCAGAMIHSRIGRVVFG 106
>3p94_A GDSL-like lipase; serine hydrolase, catalytic triad, flavodo
structural genomics, joint center for structural
genomics; HET: MSE PG4; 1.93A {Parabacteroides
distasonis}
Length = 204
Score = 27.5 bits (61), Expect = 9.5
Identities = 14/113 (12%), Positives = 34/113 (30%), Gaps = 16/113 (14%)
Query: 84 VGFGNVSANTSAEKIFSICTMLIGALMHAVVFGNVTAIIQRMYSRRSLYQTKWRDLKEFL 143
G +++ N + ++ L+ A + + ++ + + +
Sbjct: 82 AGINDIAHNNGVIALENVFGNLVSMAELAKANHIKVIFCSVLPAYDFPWRPGMQPADKVI 141
Query: 144 TLNQIPKELKQRMQDYFQTMWSLSHGIDVHETL----KEFPEELRGDVSMHLH 192
LN+ KE + + +D H + P L D +H
Sbjct: 142 QLNKWIKEYADKNGLTY---------VDYHSAMKDERNGLPANLSKD---GVH 182
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
0.319 0.133 0.404
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: 8,332,318
Number of extensions: 490870
Number of successful extensions: 1234
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1182
Number of HSP's successfully gapped: 96
Length of query: 547
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 449
Effective length of database: 3,965,535
Effective search space: 1780525215
Effective search space used: 1780525215
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: 60 (26.9 bits)