RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15517
(472 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 = 269 bits (690), Expect = 5e-89
Identities = 92/212 (43%), Positives = 140/212 (66%), Gaps = 3/212 (1%)
Query: 190 AIIQRLYSGTARYHTQMLRVREFIRFHQIPNPLRQRLEEYFQHAWTYTNGIDMNSVLKGF 249
A+ QR+YS + YHT+ +++FIR H++P L QR+ E FQ W+ NGID++ +LK F
Sbjct: 2 AMDQRMYSRRSLYHTRTKDLKDFIRVHRLPKALAQRMLECFQTTWSVNNGIDVSELLKDF 61
Query: 250 PECLQADICLHLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLY 309
P+ L+ADI +HLN+ LL F+ AS GCLR+LSL KT+ PG+ L+ +GD L ++Y
Sbjct: 62 PDELRADIAMHLNKELLQ-LPLFESASRGCLRSLSLIIKTSFCAPGEFLIRQGDALQAIY 120
Query: 310 FISRGSIEILRDDVVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLD 369
F+ GS+E+L+D+ V+AILGK D+ G + + K+++NV+ALTYCDL I L +
Sbjct: 121 FVCSGSMEVLKDNTVLAILGKGDLIGSDSLTKEQVIKTNANVKALTYCDLQYISLKGLRE 180
Query: 370 VLDLYPEFYNSFTENLE--ITFYMRDEEQAGV 399
VL LYPE+ F ++ +T+ +R+ A +
Sbjct: 181 VLRLYPEYAQKFVSEIQHDLTYNLREGSGADL 212
>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 = 241 bits (616), Expect = 5e-78
Identities = 51/189 (26%), Positives = 92/189 (48%), Gaps = 3/189 (1%)
Query: 195 LYSGTARYHTQMLRVREFIRFHQIPNPLRQRLEEYFQHAWTYTNGIDMNSVLKGFPECLQ 254
+ S +Y + +V +++ FH++P RQ++ +Y++H + D +S+L L+
Sbjct: 4 MDSSRRQYQEKYKQVEQYMSFHKLPADFRQKIHDYYEHRYQ-GKMFDEDSILGELNGPLR 62
Query: 255 ADICLHLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRG 314
I R L+++ F A P + A+ K K PGD ++ +G + +YFI G
Sbjct: 63 EKIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHG 122
Query: 315 SIEILRDDVVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLY 374
+ +L L +GE L T G+ +++VRA TYC L+ + D+ +VL+ Y
Sbjct: 123 VVSVLTKGNKEMKLSDGSYFGEICLL--TRGRRTASVRADTYCRLYSLSVDNFNEVLEEY 180
Query: 375 PEFYNSFTE 383
P +F
Sbjct: 181 PMMRRAFET 189
>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 = 236 bits (604), Expect = 2e-76
Identities = 39/190 (20%), Positives = 90/190 (47%), Gaps = 4/190 (2%)
Query: 195 LYSGTARYHTQMLRVREFIRFHQIPNPLRQRLEEYFQHAWTYTNGIDMNSVLKGFPECLQ 254
+ S + +Y ++ +V E++++ ++P+ LR ++ +Y+++ + D + + E ++
Sbjct: 3 MDSSSRQYREKLKQVEEYMQYRKLPSHLRNKILDYYEYRYR-GKMFDERHIFREVSESIR 61
Query: 255 ADICLHLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRG 314
D+ + R+L+++ F GA + + + P D ++ +G ++FI +G
Sbjct: 62 QDVANYNCRDLVASVPFFVGADSNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQG 121
Query: 315 SIEILRDD-VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDL 373
++I+ D V+ L +GE L + ++V+ TYC L + VLD
Sbjct: 122 IVDIIMSDGVIATSLSDGSYFGEICLLTR--ERRVASVKCETYCTLFSLSVQHFNQVLDE 179
Query: 374 YPEFYNSFTE 383
+P + E
Sbjct: 180 FPAMRKTMEE 189
>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 = 209 bits (533), Expect = 3e-66
Identities = 74/157 (47%), Positives = 107/157 (68%), Gaps = 1/157 (0%)
Query: 239 GIDMN-SVLKGFPECLQADICLHLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDT 297
G M VL+ P+ ++ADIC+HLNR + AF+ AS GCLRAL+++F+T H PGD
Sbjct: 1 GSHMTEKVLQICPKDMRADICVHLNRKVFKEHPAFRLASDGCLRALAMEFQTVHCAPGDL 60
Query: 298 LVHKGDVLTSLYFISRGSIEILRDDVVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYC 357
+ H G+ + SL F+ GS+E+++DD V+AILGK D++G+ +T+ +S +NVRALTYC
Sbjct: 61 IYHAGESVDSLCFVVSGSLEVIQDDEVVAILGKGDVFGDVFWKEATLAQSCANVRALTYC 120
Query: 358 DLHKIHRDDLLDVLDLYPEFYNSFTENLEITFYMRDE 394
DLH I RD L VL+ Y F +SF+ NL +T+ +R
Sbjct: 121 DLHVIKRDALQKVLEFYTAFSHSFSRNLILTYNLRKR 157
>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 = 118 bits (297), Expect = 4e-32
Identities = 28/132 (21%), Positives = 50/132 (37%), Gaps = 13/132 (9%)
Query: 262 NRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRD 321
+ + F+ L A+ + K LV +GD + + FI RG +E +
Sbjct: 4 GSSGVRRVPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTT 63
Query: 322 D------VVMAILGKDDIYGE-------NPCLHSTIGKSSSNVRALTYCDLHKIHRDDLL 368
D ++L + D G+ +P S + S+ V+ALT + + D+L
Sbjct: 64 DGGRSGFYNRSLLKEGDFCGDELLTWALDPKSGSNLPSSTRTVKALTEVEAFALIADELK 123
Query: 369 DVLDLYPEFYNS 380
V + S
Sbjct: 124 FVASQFRRSGPS 135
>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 = 82.7 bits (205), Expect = 4e-19
Identities = 25/125 (20%), Positives = 44/125 (35%), Gaps = 4/125 (3%)
Query: 262 NRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRD 321
N L++ F+ P L + + P G + G+ ++F+ GS+ +
Sbjct: 9 NWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATP 68
Query: 322 DVVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNSF 381
+ LG +GE + S+ V A T L +H D + PE F
Sbjct: 69 NP--VELGPGAFFGEMALISG--EPRSATVSAATTVSLLSLHSADFQMLCSSSPEIAEIF 124
Query: 382 TENLE 386
+
Sbjct: 125 RKTAL 129
>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 = 80.6 bits (199), Expect = 7e-18
Identities = 32/168 (19%), Positives = 55/168 (32%), Gaps = 12/168 (7%)
Query: 223 RQRLEEYFQHAWTYTNGIDMNSVLKGFPECLQADICLHLNRNLLSNCSAFKGASPGCLRA 282
++ + H Y + AD +++ F S +R
Sbjct: 3 SDKIHHHHHHENLY-----FQGMYPDLVHLGGADKYFEEILEIVNKIKLFGDFSNEEVRY 57
Query: 283 LSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD-----VVMAILGKDDIYGEN 337
L + AP L+ +GD L I G + +++D +A +G I GE
Sbjct: 58 LCSYMQCYAAPRDCQLLTEGDPGDYLLLILTGEVNVIKDIPNKGIQTIAKVGAGAIIGEM 117
Query: 338 PCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNSFTENL 385
+ S++ A D + RD L +L P+ N L
Sbjct: 118 SMI--DGMPRSASCVASLPTDFAVLSRDALYQLLANMPKLGNKVLIRL 163
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 74.7 bits (184), Expect = 4e-16
Identities = 19/123 (15%), Positives = 44/123 (35%), Gaps = 6/123 (4%)
Query: 260 HLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEIL 319
+++ LL + F+ SP L+ L + G + +G+ + Y++ G ++I
Sbjct: 8 RVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKIY 67
Query: 320 RDD-----VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLY 374
R ++ + + + + E T + +A+ L + L L
Sbjct: 68 RLTPEGQEKILEVTNERNTFAEAMMFMDT-PNYVATAQAVVPSQLFRFSNKAYLRQLQDN 126
Query: 375 PEF 377
Sbjct: 127 TPL 129
>2pqq_A Putative transcriptional regulator; APC7345, streptomyces
coelicolor structural genomics, PSI-2, protein structure
initiative; 2.00A {Streptomyces coelicolor A3}
Length = 149
Score = 73.5 bits (181), Expect = 8e-16
Identities = 28/128 (21%), Positives = 49/128 (38%), Gaps = 7/128 (5%)
Query: 263 RNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD 322
++L F L GDTL H+GD LY ++ G +++ R
Sbjct: 4 DDVLRRNPLFAALDDEQSAELRASMSEVTLARGDTLFHEGDPGDRLYVVTEGKVKLHRTS 63
Query: 323 -----VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEF 377
++A++G ++ GE G ++ ALT L + DL L++ PE
Sbjct: 64 PDGRENMLAVVGPSELIGELSLF--DPGPRTATGTALTEVKLLALGHGDLQPWLNVRPEV 121
Query: 378 YNSFTENL 385
+ +
Sbjct: 122 ATALLRAV 129
>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 = 71.2 bits (175), Expect = 5e-15
Identities = 17/129 (13%), Positives = 42/129 (32%), Gaps = 10/129 (7%)
Query: 265 LLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD-- 322
L F + L+ ++L + P G + + +L + G +E+ +
Sbjct: 7 RLRVYRFFASLTDEQLKDIALISEEKSFPTGSVIFKENSKADNLMLLLEGGVELFYSNGG 66
Query: 323 ------VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPE 376
+ + I+G + + +S+ RA + I+ L ++ +
Sbjct: 67 AGSAANSTVCSVVPGAIFGVSSLI--KPYHYTSSARATKPVRVVDINGARLREMSENNQA 124
Query: 377 FYNSFTENL 385
N+
Sbjct: 125 LGQVLMNNV 133
>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 = 71.5 bits (176), Expect = 2e-14
Identities = 30/128 (23%), Positives = 52/128 (40%), Gaps = 7/128 (5%)
Query: 263 RNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD 322
+L+ F+G P + AL+ + + P G T+ +G+ LY I G ++I R
Sbjct: 5 DEILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKVKIGRRA 64
Query: 323 -----VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEF 377
++ I+G D++GE G +S+ +T + RD L + PE
Sbjct: 65 PDGRENLLTIMGPSDMFGELSIFDP--GPRTSSATTITEVRAVSMDRDALRSWIADRPEI 122
Query: 378 YNSFTENL 385
L
Sbjct: 123 SEQLLRVL 130
>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 = 71.2 bits (175), Expect = 2e-14
Identities = 22/121 (18%), Positives = 42/121 (34%), Gaps = 8/121 (6%)
Query: 264 NLLSNCSAFKGASPGCLRAL--SLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRD 321
+ L F+G ++ +K G+T++ G+ T L F+ +G I I+ +
Sbjct: 18 DTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLLKGEISIVTN 77
Query: 322 D-----VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPE 376
V+ + + +S+ A T I + +L L Y
Sbjct: 78 AKENIYTVIEQIEAPYLIEPQSLF-GMNTNYASSYVAHTEVHTVCISKAFVLSDLFRYDI 136
Query: 377 F 377
F
Sbjct: 137 F 137
>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 = 71.6 bits (176), Expect = 3e-14
Identities = 26/129 (20%), Positives = 53/129 (41%), Gaps = 6/129 (4%)
Query: 262 NRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRD 321
+ + K + L P TL+H+G+ +LY+I +GS+ +L
Sbjct: 44 AMADIGSMVLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIK 103
Query: 322 D-----VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPE 376
D ++++ L + D GE + S+ VRA T C++ +I ++ + P+
Sbjct: 104 DEEGKEMILSYLNQGDFIGELGLFEEG-QERSAWVRAKTACEVAEISYKKFRQLIQVNPD 162
Query: 377 FYNSFTENL 385
+ +
Sbjct: 163 ILMRLSAQM 171
>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 = 68.8 bits (169), Expect = 1e-13
Identities = 18/125 (14%), Positives = 42/125 (33%), Gaps = 6/125 (4%)
Query: 266 LSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD--- 322
+ + L+ L K G+ + H+ D + + + G+++
Sbjct: 1 MGSDKIHHHHHHMDLKKLLPCGKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENG 60
Query: 323 --VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNS 380
+ + + I S+ + NV A + I ++ LD+L E
Sbjct: 61 KTLEIDEIKPVQIIASGFIF-SSEPRFPVNVVAGENSKILSIPKEVFLDLLMKDRELLLF 119
Query: 381 FTENL 385
F +++
Sbjct: 120 FLKDV 124
>3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix,
homodimer, transcription regulator; 3.60A {Pseudomonas
aeruginosa}
Length = 227
Score = 69.2 bits (170), Expect = 1e-13
Identities = 18/123 (14%), Positives = 44/123 (35%), Gaps = 6/123 (4%)
Query: 260 HLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEIL 319
+++ LL + F+ SP L+ L + G + +G+ + Y++ G ++I
Sbjct: 5 RVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKIY 64
Query: 320 RDD-----VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLY 374
R ++ + + + + E + + +A+ L + L L
Sbjct: 65 RLTPEGQEKILEVTNERNTFAEAM-MFMDTPNYVATAQAVVPSQLFRFSNKAYLRQLQDN 123
Query: 375 PEF 377
Sbjct: 124 TPL 126
>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 = 68.4 bits (168), Expect = 1e-13
Identities = 26/119 (21%), Positives = 51/119 (42%), Gaps = 6/119 (5%)
Query: 272 FKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD-----VVMA 326
K + L P TL+H+G+ +LY+I +GS+ +L D ++++
Sbjct: 4 GKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILS 63
Query: 327 ILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNSFTENL 385
L + D GE + S+ VRA T C++ +I ++ + P+ + +
Sbjct: 64 YLNQGDFIGELGLFEEG-QERSAWVRAKTACEVAEISYKKFRQLIQVNPDILMRLSAQM 121
>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 = 68.4 bits (168), Expect = 2e-13
Identities = 12/120 (10%), Positives = 40/120 (33%), Gaps = 13/120 (10%)
Query: 262 NRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRD 321
+ L++ + + + + +F+ L ++ + G + +
Sbjct: 2 TQMRLTDTNLLEVLNSEEYSGVLKEFREQRYSKKAILYTPNTERNLVFLVKSGRVRVYLA 61
Query: 322 D----VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEF 377
+AIL DI+ + + + ++A+ + + +++ +P F
Sbjct: 62 YEDKEFTLAILEAGDIFCTH---------TRAFIQAMEDTTILYTDIRNFQNIVVEFPAF 112
>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 = 66.2 bits (162), Expect = 2e-13
Identities = 24/115 (20%), Positives = 36/115 (31%), Gaps = 4/115 (3%)
Query: 259 LHLNRNLLSNCSAFKGASPGCLRALSLKFKT-THAPPGDTLVHKGDVLTSLYFISRGSIE 317
+ + AF + R L G ++ G L S Y I G++E
Sbjct: 11 IEQLLEFMHQLPAFANMTMSVRRELCSVMIFEVVEQAGAIILEDGQELDSWYVILNGTVE 70
Query: 318 ILRDDVVMAILGKDDIYGENPCLHSTIGKSSSNVRALT-YCDLHKIHRDDLLDVL 371
I D + L + +G P L VR C I + D +L
Sbjct: 71 ISHPDGKVENLFMGNSFGITPTLDKQ--YMHGIVRTKVDDCQFVCIAQQDYWRIL 123
>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 = 68.0 bits (167), Expect = 3e-13
Identities = 27/125 (21%), Positives = 56/125 (44%), Gaps = 7/125 (5%)
Query: 266 LSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD--- 322
+ F G +P + F+ P G + ++GD+ +LY ++ G + + R
Sbjct: 1 MKGSPLFHGLAPEEVDLALSYFQRRLYPQGKPIFYQGDLGQALYLVASGKVRLFRTHLGG 60
Query: 323 --VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNS 380
+A+LG +++GE L G+ S++ A+ +L + R+D L ++ P ++
Sbjct: 61 QERTLALLGPGELFGEMSLLDE--GERSASAVAVEDTELLALFREDYLALIRRLPLVAHN 118
Query: 381 FTENL 385
L
Sbjct: 119 LAALL 123
>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 = 68.1 bits (167), Expect = 3e-13
Identities = 24/129 (18%), Positives = 48/129 (37%), Gaps = 7/129 (5%)
Query: 262 NRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRD 321
+ L F+ +R + P + +V + +L+ ++ G + + R
Sbjct: 4 RLDDLKRSPLFQNVPEDAMREALKVVTERNFQPDELVVEQDAEGEALHLVTTGVVRVSRV 63
Query: 322 D-----VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPE 376
V+ + + GE L + S++VRALT +HR+ +L +P
Sbjct: 64 SLGGRERVLGDIYAPGVVGETAVLAH--QERSASVRALTPVRTLMLHREHFELILRRHPR 121
Query: 377 FYNSFTENL 385
+ E L
Sbjct: 122 VLWNLAEML 130
>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 = 69.2 bits (169), Expect = 3e-13
Identities = 29/135 (21%), Positives = 51/135 (37%), Gaps = 8/135 (5%)
Query: 258 CLHLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIE 317
L + F+ L L+ + TH G+ ++ +G + + IS+G +
Sbjct: 151 KHTEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFFIISKGKVN 210
Query: 318 ILRDD------VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVL 371
+ R+D V + LGK D +GE ++NV A I RD ++
Sbjct: 211 VTREDSPNEDPVFLRTLGKGDWFGEKALQGED--VRTANVIAAEAVTCLVIDRDSFKHLI 268
Query: 372 DLYPEFYNSFTENLE 386
+ N E+ E
Sbjct: 269 GGLDDVSNKAYEDAE 283
Score = 67.6 bits (165), Expect = 1e-12
Identities = 17/123 (13%), Positives = 46/123 (37%), Gaps = 2/123 (1%)
Query: 263 RNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD 322
+ + + K ++ + ++ +GDV + +Y + G +E+ ++
Sbjct: 38 KEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLVYVMEDGKVEVTKEG 97
Query: 323 VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNSFT 382
V + +G ++GE L++ ++ V+ L L I R ++ ++
Sbjct: 98 VKLCTMGPGKVFGELAILYNC--TRTATVKTLVNVKLWAIDRQCFQTIMMRTGLIKHTEY 155
Query: 383 ENL 385
Sbjct: 156 MEF 158
>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 = 67.3 bits (165), Expect = 6e-13
Identities = 18/123 (14%), Positives = 48/123 (39%), Gaps = 7/123 (5%)
Query: 260 HLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEIL 319
+ + N + + AL + G+TL + + +++ + G +++
Sbjct: 7 EAQKAIARNSLLIRSLPEQHVDALLSQAVWRSYDRGETLFLQEEKAQAIHVVIDGWVKLF 66
Query: 320 R-----DDVVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLY 374
R + V+++ + + +GE L + + A+T C++ I + ++
Sbjct: 67 RMTPTGSEAVVSVFTRGESFGEAVALRN--TPYPVSAEAVTPCEVMHIPSPVFVSLMRRD 124
Query: 375 PEF 377
PE
Sbjct: 125 PEI 127
>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 = 67.2 bits (164), Expect = 9e-13
Identities = 22/127 (17%), Positives = 47/127 (37%), Gaps = 2/127 (1%)
Query: 259 LHLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEI 318
L + N F R + + P G T++ +GD Y + +G+++
Sbjct: 2 LQRLEKSIRNNFLFNKLDSDSKRLVINCLEEKSVPKGATIIKQGDQGDYFYVVEKGTVDF 61
Query: 319 LRDDVVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEFY 378
+D + G +GE ++++ ++ V A + C L + R +L
Sbjct: 62 YVNDNKVNSSGPGSSFGELALMYNS--PRAATVVATSDCLLWALDRLTFRKILLGSSFKK 119
Query: 379 NSFTENL 385
++L
Sbjct: 120 RLMYDDL 126
Score = 64.1 bits (156), Expect = 9e-12
Identities = 22/120 (18%), Positives = 46/120 (38%), Gaps = 3/120 (2%)
Query: 258 CLHLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIE 317
+ +LL + K + L+ T PG+T++ +GD + Y I G+++
Sbjct: 119 KRLMYDDLLKSMPVLKSLTTYDRAKLADALDTKIYQPGETIIREGDQGENFYLIEYGAVD 178
Query: 318 ILRD-DVVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPE 376
+ + V+ L D +GE L+ + V A + + + +L +
Sbjct: 179 VSKKGQGVINKLKDHDYFGEVALLNDL--PRQATVTATKRTKVATLGKSGFQRLLGPAVD 236
>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 = 66.2 bits (162), Expect = 2e-12
Identities = 16/131 (12%), Positives = 38/131 (29%), Gaps = 10/131 (7%)
Query: 260 HLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEIL 319
L ++ LR + G ++ G+ +TS+ F+ G I++
Sbjct: 5 GLGKDFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLD 64
Query: 320 R-----DDVVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLY 374
+ ++ G + + G+ ++ A+ L V
Sbjct: 65 IIFEDGSEKLLYYAGGNSLIGKLY-----PTGNNIYATAMEPTRTCWFSEKSLRTVFRTD 119
Query: 375 PEFYNSFTENL 385
+ +N
Sbjct: 120 EDMIFEIFKNY 130
>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 = 64.2 bits (157), Expect = 5e-12
Identities = 11/125 (8%), Positives = 28/125 (22%), Gaps = 13/125 (10%)
Query: 265 LLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD-- 322
+ + F++ G + ++ + G + +
Sbjct: 1 MPPRFNIANVLLSPDGETFFRGFRSKIHAKGSLVCTGEGDENGVFVVVDGRLRVYLVGEE 60
Query: 323 --VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNS 380
+ + L D++ + S V A ++ L P
Sbjct: 61 REISLFYLTSGDMFCMH---------SGCLVEATERTEVRFADIRTFEQKLQTCPSMAWG 111
Query: 381 FTENL 385
L
Sbjct: 112 LIAIL 116
>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 = 64.3 bits (157), Expect = 7e-12
Identities = 18/111 (16%), Positives = 39/111 (35%), Gaps = 5/111 (4%)
Query: 280 LRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD-----VVMAILGKDDIY 334
+ + T+ GD +YF+ +G++++ R + +A+L ++ ++
Sbjct: 36 MATGAFPPVVETFERNKTIFFPGDPAERVYFLLKGAVKLSRVYEAGEEITVALLRENSVF 95
Query: 335 GENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNSFTENL 385
G L + A T +L + + L PE L
Sbjct: 96 GVLSLLTGNKSDRFYHAVAFTPVELLSAPIEQVEQALKENPELSMLMLRGL 146
>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 = 61.9 bits (151), Expect = 7e-12
Identities = 17/114 (14%), Positives = 44/114 (38%), Gaps = 2/114 (1%)
Query: 263 RNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD 322
+ + + K ++ + ++ +GDV + +Y + G +E+ ++
Sbjct: 22 KEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLVYVMEDGKVEVTKEG 81
Query: 323 VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPE 376
V + +G ++GE L++ ++ V+ L L I R ++
Sbjct: 82 VKLCTMGPGKVFGELAILYNC--TRTATVKTLVNVKLWAIDRQCFQTIMMRTGL 133
>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 = 63.4 bits (155), Expect = 9e-12
Identities = 24/113 (21%), Positives = 45/113 (39%), Gaps = 7/113 (6%)
Query: 280 LRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD-----VVMAILGKDDIY 334
L L T+++ GD +L+FI +GS+ IL +D +++ L D +
Sbjct: 6 LDKLLAHCHRRRYTAKSTIIYAGDRCETLFFIIKGSVTILIEDDDGREMIIGYLNSGDFF 65
Query: 335 GENPCLHSTIGKS--SSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNSFTENL 385
GE + S+ VRA C++ +I ++ E + +
Sbjct: 66 GELGLFEKEGSEQERSAWVRAKVECEVAEISYAKFRELSQQDSEILYTLGSQM 118
>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 = 62.7 bits (153), Expect = 2e-11
Identities = 20/118 (16%), Positives = 41/118 (34%), Gaps = 6/118 (5%)
Query: 260 HLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEIL 319
+ + N + G + P + GD +LY++ GS+ I+
Sbjct: 7 TVVTTTVRNATPSLTLDAGTIERFLAHSHRRRYPTRTDVFRPGDPAGTLYYVISGSVSII 66
Query: 320 RDD-----VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLD 372
++ +V+ G + GE + +R T C+L +I + L +
Sbjct: 67 AEEDDDRELVLGYFGSGEFVGEMGLFIES-DTREVILRTRTQCELAEISYERLQQLFQ 123
>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 = 60.5 bits (147), Expect = 3e-11
Identities = 20/114 (17%), Positives = 42/114 (36%), Gaps = 2/114 (1%)
Query: 263 RNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD 322
+ F + G+T++ +GD + Y I +G +++ ++
Sbjct: 37 AKAIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVNN 96
Query: 323 VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPE 376
+G+ +GE ++ T ++ V+A T L I RD +L
Sbjct: 97 EWATSVGEGGSFGELALIYGT--PRAATVKAKTNVKLWGIDRDSYRRILMGSTL 148
>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 = 63.6 bits (154), Expect = 3e-11
Identities = 22/137 (16%), Positives = 48/137 (35%), Gaps = 6/137 (4%)
Query: 263 RNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD 322
+S F + G+T++ +G+ + Y + +G +++ +
Sbjct: 129 AKAISKNVLFAHLDDNERSDIFDAMFPVTHIAGETVIQQGNEGDNFYVVDQGEVDVYVNG 188
Query: 323 VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEF----Y 378
+ + + +GE ++ T ++ V+A T L I RD +L Y
Sbjct: 189 EWVTNISEGGSFGELALIYGT--PRAATVKAKTDLKLWGIDRDSYRRILMGSTLRKRKMY 246
Query: 379 NSFTENLEITFYMRDEE 395
F + I + E
Sbjct: 247 EEFLSKVSILESLEKWE 263
Score = 59.7 bits (144), Expect = 7e-10
Identities = 24/133 (18%), Positives = 44/133 (33%), Gaps = 8/133 (6%)
Query: 260 HLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEIL 319
+ LS S + ++ + G+ +V +G+ Y I+ G+ +L
Sbjct: 244 KMYEEFLSKVSILESLEKWERLTVADALEPVQFEDGEKIVVQGEPGDDFYIITEGTASVL 303
Query: 320 RDD------VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDL 373
+ V + LG D +GE L + ++ V A K+ R VL
Sbjct: 304 QRRSPNEEYVEVGRLGPSDYFGEIALLLNR--PRAATVVARGPLKCVKLDRPRFERVLGP 361
Query: 374 YPEFYNSFTENLE 386
E +
Sbjct: 362 CSEILKRNIQRYN 374
>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 = 62.0 bits (150), Expect = 7e-11
Identities = 20/109 (18%), Positives = 42/109 (38%), Gaps = 2/109 (1%)
Query: 263 RNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD 322
+ F + G+T++ +GD + Y I +G +++ ++
Sbjct: 38 AKAIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVNN 97
Query: 323 VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVL 371
+G+ +GE ++ T ++ V+A T L I RD +L
Sbjct: 98 EWATSVGEGGSFGELALIYGT--PRAATVKAKTNVKLWGIDRDSYRRIL 144
Score = 57.7 bits (139), Expect = 2e-09
Identities = 23/133 (17%), Positives = 42/133 (31%), Gaps = 8/133 (6%)
Query: 260 HLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEIL 319
+ LS S + ++ + G +V +G+ + I GS +L
Sbjct: 153 KMYEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAAVL 212
Query: 320 RDD------VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDL 373
+ V + LG D +GE L + ++ V A K+ R VL
Sbjct: 213 QRRSENEEFVEVGRLGPSDYFGEIALLMNR--PKAATVVARGPLKCVKLDRPRFERVLGP 270
Query: 374 YPEFYNSFTENLE 386
+ +
Sbjct: 271 CSDILKRNIQQYN 283
>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 = 59.6 bits (145), Expect = 3e-10
Identities = 21/119 (17%), Positives = 43/119 (36%), Gaps = 7/119 (5%)
Query: 272 FKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD-----VVMA 326
+ + L + + T+ +GD+ +L+++ G I+ILR+ +
Sbjct: 18 WSLLNEEERELLDKEIQPFPCKKASTVFSEGDIPNNLFYLYEGKIKILREGVYGRFHISR 77
Query: 327 ILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNSFTENL 385
I+ +G P SS A+ + I + + +L F F + L
Sbjct: 78 IVKPGQFFGMRPYFAE--ETCSSTAIAVENSKVLAIPVEAIEALLKGNTSFCRYFLKAL 134
>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 = 57.8 bits (140), Expect = 3e-10
Identities = 20/127 (15%), Positives = 44/127 (34%), Gaps = 10/127 (7%)
Query: 263 RNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD 322
+ + FK P + + G+ ++ +GD + Y I RG+ +I
Sbjct: 37 QEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKC 96
Query: 323 ----VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYP--- 375
+ +GE +++T ++ + A + L + R ++
Sbjct: 97 DGVGRCVGNYDNRGSFGELALMYNT--PRAATITATSPGALWGLDRVTFRRIIVKNNAKK 154
Query: 376 -EFYNSF 381
+ Y SF
Sbjct: 155 RKMYESF 161
>1ujl_A Potassium voltage-gated channel subfamily H member 2; two helices,
amphiphatic helix, membrane protein; NMR {Synthetic}
SCOP: j.12.1.1
Length = 42
Score = 52.9 bits (127), Expect = 1e-09
Identities = 17/40 (42%), Positives = 22/40 (55%), Gaps = 5/40 (12%)
Query: 71 AIGNAEKSS----VGWLDILANDTHQFYI-NGTGGPSIKT 105
AIGN E+ +GWL L + + Y +G GGPSIK
Sbjct: 1 AIGNMEQPHMDSRIGWLHNLGDQIGKPYNSSGLGGPSIKD 40
>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 = 59.4 bits (143), Expect = 1e-09
Identities = 16/144 (11%), Positives = 41/144 (28%), Gaps = 13/144 (9%)
Query: 254 QADICLHLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISR 313
+ + + + K + T G+ ++ +GD+ S + +
Sbjct: 257 NNAKKRKMYESFIESLPFLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGDLADSFFIVES 316
Query: 314 GSIEILRDD-----------VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKI 362
G ++I V +A + +GE + + +++ A+ +
Sbjct: 317 GEVKITMKRKGKSEVEENGAVEIARCFRGQYFGELALVTNK--PRAASAHAIGTVKCLAM 374
Query: 363 HRDDLLDVLDLYPEFYNSFTENLE 386
+L E E
Sbjct: 375 DVQAFERLLGPCMEIMKRNIATYE 398
Score = 57.1 bits (137), Expect = 5e-09
Identities = 23/145 (15%), Positives = 49/145 (33%), Gaps = 10/145 (6%)
Query: 259 LHLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEI 318
+ + + FK P + + G+ ++ +GD + Y I RG+ +I
Sbjct: 140 RNRLQEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDI 199
Query: 319 LRD----DVVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLY 374
+ +GE +++T ++ + A + L + R ++
Sbjct: 200 YVKCDGVGRCVGNYDNRGSFGELALMYNT--PKAATITATSPGALWGLDRVTFRRIIVKN 257
Query: 375 PE----FYNSFTENLEITFYMRDEE 395
Y SF E+L + E
Sbjct: 258 NAKKRKMYESFIESLPFLKSLEVSE 282
>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA;
3.10A {Mesorhizobium loti} PDB: 2zd9_A*
Length = 355
Score = 58.7 bits (142), Expect = 1e-09
Identities = 26/122 (21%), Positives = 45/122 (36%), Gaps = 4/122 (3%)
Query: 262 NRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRD 321
N L++ F+ P L + + P G + G+ ++F+ GS+ +
Sbjct: 226 NWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATP 285
Query: 322 DVVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNSF 381
+ V LG +GE + S+ V A T L +H D + PE F
Sbjct: 286 NPV--ELGPGAFFGEMALISGE--PRSATVSAATTVSLLSLHSADFQMLCSSSPEIAEIF 341
Query: 382 TE 383
+
Sbjct: 342 RK 343
Score = 36.4 bits (84), Expect = 0.019
Identities = 9/81 (11%), Positives = 27/81 (33%), Gaps = 1/81 (1%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYASIFGNVSAIIQRLYSGTARYHTQMLRVRE 211
++ G+G+ P + ++ VM+ G ++ G ++ + L
Sbjct: 174 STTGYGDTIPQSFAGRVLAGAVMMSGIGIFGLWAGILATGFYQEVRRGDFVRNWQLV-AA 232
Query: 212 FIRFHQIPNPLRQRLEEYFQH 232
F ++ + + +
Sbjct: 233 VPLFQKLGPAVLVEIVRALRA 253
>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 = 58.8 bits (141), Expect = 1e-09
Identities = 26/128 (20%), Positives = 52/128 (40%), Gaps = 10/128 (7%)
Query: 259 LHLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEI 318
+ + L AF+ P LR + L + G TL +GD+ T+ Y + GS+++
Sbjct: 37 VDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSLDV 96
Query: 319 LRDD-------VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVL 371
+ V + LG +GE L + + + +L +I ++D +
Sbjct: 97 KVSETSSHQDAVTICTLGIGTAFGE-SILDN--TPRHATIVTRESSELLRIEQEDFKALW 153
Query: 372 DLYPEFYN 379
+ Y ++
Sbjct: 154 EKYRQYMA 161
Score = 56.5 bits (135), Expect = 1e-08
Identities = 37/238 (15%), Positives = 76/238 (31%), Gaps = 9/238 (3%)
Query: 145 FKHLYLRTSVGFGNVAPNTDNEKIFTILVMLVGSLMYASIFGNVSAIIQRLYSGTARYHT 204
Y + VG V VG G ++ + Q +
Sbjct: 216 HLKTYRQCCVGTELVDWMIQQTSCVHSRTQAVGMWQVLLEDGVLNHVDQERHFQDKYLFY 275
Query: 205 QMLRVREFIRFHQIPNPLRQR---LEEYFQHAWTYTNGIDMNSVLKGFPECLQADICLHL 261
+ L ++ L++ M +L+ P D +
Sbjct: 276 RFLDDEREDAPLPTEEEKKECDEELQDTMLLLSQMGPDAHMRMILRKPPGQRTVDDL-EI 334
Query: 262 NRNLLSNCSAFKGASPGCLRALSLKFKT-THAPPGDTLVHKGDVLTSLYFISRGSIEIL- 319
+ L + A S R L+ +HA G L ++G+ TS Y I +GS+ ++
Sbjct: 335 IYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVI 394
Query: 320 RDDVVMAILGKDDIYGENPCLHSTIGKSSSNVRALT-YCDLHKIHRDDLLDVLDLYPE 376
V+ L + D +G+ ++ ++++ C ++ ++D +L
Sbjct: 395 YGKGVVCTLHEGDDFGKLALVNDA--PRAASIVLREDNCHFLRVDKEDFNRILRDVEA 450
>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 = 56.9 bits (138), Expect = 2e-09
Identities = 16/129 (12%), Positives = 38/129 (29%), Gaps = 9/129 (6%)
Query: 264 NLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILR--- 320
+ + + + + +S T H G + + T L + G +
Sbjct: 3 SFENYFPLWNDLNTAQKKLISDNLITQHVKKGTIIHNGNMDCTGLLLVKSGQLRTYILSD 62
Query: 321 --DDVVMAILGKDD--IYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPE 376
++ + L D + + + S + + A DL I + ++
Sbjct: 63 EGREITLYRLFDMDMCLLSASCIMRS--IQFEVTIEAEKDTDLWIIPAEIYKGIMKDSAP 120
Query: 377 FYNSFTENL 385
N E +
Sbjct: 121 VANYTNELM 129
>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 = 57.0 bits (138), Expect = 2e-09
Identities = 9/107 (8%), Positives = 28/107 (26%), Gaps = 5/107 (4%)
Query: 284 SLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD-----VVMAILGKDDIYGENP 338
+ K + + ++ D F+ G ++ + + +
Sbjct: 15 TNGIKPKQFHKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYYKGAFVIMSGF 74
Query: 339 CLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNSFTENL 385
T + + I ++L ++L + + L
Sbjct: 75 IDTETSVGYYNLEVISEQATAYVIKINELKELLSKNLTHFFYVFQTL 121
>3dn7_A Cyclic nucleotide binding regulatory protein; structural genomics,
APC88869, cyclic nucleotide binding REG protein, PSI-2;
1.80A {Cytophaga hutchinsonii}
Length = 194
Score = 52.8 bits (127), Expect = 2e-08
Identities = 19/139 (13%), Positives = 46/139 (33%), Gaps = 12/139 (8%)
Query: 264 NLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILR--- 320
L+++ F + LS F+ +TL+ G++ YF+ +G LR
Sbjct: 7 ALINHIRKFIFLTDEDAGTLSAFFQLKKVRKKETLLKTGEICRINYFVVKG---CLRLFF 63
Query: 321 -----DDVVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYP 375
+ ++ + + ++++ C+L I + ++ + P
Sbjct: 64 IDEKGIEQTTQFAIENWWLSDYMAFQKQQ-PADFYIQSVENCELLSITYTEQENLFERIP 122
Query: 376 EFYNSFTENLEITFYMRDE 394
F + +F
Sbjct: 123 ALERYFRLVYQKSFAAAQL 141
>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling;
HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB:
4avb_A* 4avc_A*
Length = 333
Score = 53.1 bits (127), Expect = 7e-08
Identities = 23/132 (17%), Positives = 40/132 (30%), Gaps = 6/132 (4%)
Query: 265 LLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEILRDD-- 322
L+ F+G L +L+ + A G L+ +G+ S IS GS E+
Sbjct: 14 DLAGMDVFQGCPAEGLVSLAASVQPLRAAAGQVLLRQGEPAVSFLLISSGSAEVSHVGDD 73
Query: 323 --VVMAILGKDDIYGENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNS 380
++A I GE L S+ V + R ++ +
Sbjct: 74 GVAIIARALPGMIVGEIALLRD--SPRSATVTTIEPLTGWTGGRGAFATMVHIPGVGERL 131
Query: 381 FTENLEITFYMR 392
+
Sbjct: 132 LRTARQRLAAFV 143
>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 = 52.7 bits (126), Expect = 2e-07
Identities = 76/427 (17%), Positives = 121/427 (28%), Gaps = 165/427 (38%)
Query: 18 TTTLIGLLKTARLLRLVRVARKIDRYSEYGA--AVLLLLMATFALIAHWLACIWYAIGNA 75
TT L+ + L V + ++ S+ G VL L + F
Sbjct: 54 PTTPAELV--GKFLGYV--SSLVEP-SKVGQFDQVLNLCLTEF----------------- 91
Query: 76 EKSSVGWLDILA-NDTHQFYINGTGGPSIKTTTLIGLLKTARLLR-----LVRVARKIDR 129
E L ND H TTL +KT L++ + R D+
Sbjct: 92 EN------CYLEGNDIHALAAKL---LQENDTTL---VKTKELIKNYITARIMAKRPFDK 139
Query: 130 YSE---YGAAGKGWGGFNFKHLYLRTSV--GFGNVAPNTDNEKIFTILVMLVGSLMYASI 184
S + A G+G N + L + G GN + F L
Sbjct: 140 KSNSALFRAVGEG----NAQ-LVA---IFGGQGN------TDDYFEEL------------ 173
Query: 185 FGNVSAIIQRLYSGTARYHTQMLRVREFIRFHQIPNPLRQRLEEYFQHAWT----YTNGI 240
+ LY YH V + I+F + L E + +T G+
Sbjct: 174 --------RDLYQ---TYHV---LVGDLIKFS------AETLSELIRTTLDAEKVFTQGL 213
Query: 241 DMNSVLKGFPECLQADICLHLNRNLLSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVH 300
++ L+ P + P D L+
Sbjct: 214 NILEWLEN-PS---------------------------------------NTPDKDYLLS 233
Query: 301 KGDVLTSLYFISRGSIEILRDDVVMAILGKDDIYGE-NPCLHSTIGKSSSNVRALTYCDL 359
+ S I G I++ V +LG GE L G S V A+
Sbjct: 234 ---IPISCPLI--GVIQLAHYVVTAKLLGFT--PGELRSYLKGATGHSQGLVTAV----- 281
Query: 360 HKIHRDDLLDVLDLYPEFYNSFTENLEITFYMRDEEQAGVDPRCGRHSRRRSGSSSNDRP 419
+ D + F+ S + + + F++ GV RC S S
Sbjct: 282 -------AIAETDSWESFFVSVRKAITVLFFI------GV--RCYEAYPNTSLPPSILED 326
Query: 420 TVDVGGG 426
+++ G
Sbjct: 327 SLENNEG 333
Score = 52.0 bits (124), Expect = 4e-07
Identities = 79/487 (16%), Positives = 138/487 (28%), Gaps = 171/487 (35%)
Query: 2 SEYHEILSK--DFF---FLQRTT--TLIGLLKTARLLRLVRVARKIDRYSEYGAAVLL-- 52
++ ++L+ F +L+ L L LV+ I Y A ++
Sbjct: 78 GQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNY--ITARIMAKR 135
Query: 53 ---------LLMATFALIAHWLACIWYAI----GNAEKSSVGWLDILANDTHQFYINGTG 99
L A A + AI GN + + + L D +Q Y
Sbjct: 136 PFDKKSNSALFRAVGEGNAQ----L-VAIFGGQGNTDD----YFEELR-DLYQTY----- 180
Query: 100 GPSIKTTTLIGLLKTA--RLLRLVRVARKIDRYSEYGAAGKGW----------------- 140
+ L+K + L L+R ++ G W
Sbjct: 181 HVLVGD-----LIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIP 235
Query: 141 ------GGFNFKHLYLRTSVGFGNVAPNTDNEKIFTILVM---LVGSLMYA------SIF 185
G H Y+ T+ G P + LV ++ A S F
Sbjct: 236 ISCPLIGVIQLAH-YVVTAKLLG-FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFF 293
Query: 186 GNVSAIIQRL-YSGTARYH------------------------TQMLRVREFIRFHQIPN 220
+V I L + G R + + ML + N
Sbjct: 294 VSVRKAITVLFFIG-VRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS---------N 343
Query: 221 PLRQRLEEYFQHAWTYTNGIDMNSVLKGFPECLQADICLHLN--RNL-LSNCSAFKGASP 277
++++++Y TN P Q +I L N +NL +S G P
Sbjct: 344 LTQEQVQDYVNK----TN--------SHLPAGKQVEISLV-NGAKNLVVS------G-PP 383
Query: 278 GCLRALSLKFKTTHAPPGD------------TLVHKGDVLT----SLYFISRGSIEILRD 321
L L+L + AP G ++ + S + +++
Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLL--VPASDLINK 441
Query: 322 DVV---MAILGKD------DIY-GENPC-LHSTIGKSSSNVRALT--YCDLHKIHRDDLL 368
D+V ++ KD D + G + L +I + V + +
Sbjct: 442 DLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERI--VDCIIRLPVKWETTTQFKAT 499
Query: 369 DVLDLYP 375
+LD P
Sbjct: 500 HILDFGP 506
>3b02_A Transcriptional regulator, CRP family; structural genomics, riken
structural genomics/proteomics in RSGI; 1.92A {Thermus
thermophilus} PDB: 2zdb_A
Length = 195
Score = 45.6 bits (109), Expect = 8e-06
Identities = 10/80 (12%), Positives = 27/80 (33%), Gaps = 8/80 (10%)
Query: 293 PPGDTLVHKGDVLTSLYFISRGSIEILRDD-----VVMAILGKDDIYGENPCLHSTIGKS 347
+T+ +G+ +LY + G + ++ + + + D +GE
Sbjct: 5 ARKETIYLRGEEARTLYRLEEGLVRVVELLPDGRLITLRHVLPGDYFGEEALEG---KAY 61
Query: 348 SSNVRALTYCDLHKIHRDDL 367
A+T + + +
Sbjct: 62 RYTAEAMTEAVVQGLEPRAM 81
>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 = 43.1 bits (102), Expect = 8e-06
Identities = 9/41 (21%), Positives = 21/41 (51%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYASIFGNVSAII 192
+VG+G+ +P+T FT ++++G +A + +
Sbjct: 41 ATVGYGDYSPHTPLGMYFTCTLIVLGIGTFAVAVERLLEFL 81
>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 = 44.6 bits (105), Expect = 9e-06
Identities = 21/81 (25%), Positives = 36/81 (44%), Gaps = 5/81 (6%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVG-SLMYASIFGNVSAIIQRLYSGTARYHTQMLRVR 210
T+VG GN +P TD K+FTIL + +G L++ I + + T R+
Sbjct: 65 TTVGDGNFSPQTDFGKVFTILYIFIGIGLVFGFIHKLAVNVQLPSILSNRKKETDAYRLE 124
Query: 211 EFIRFHQIPNPLRQRLEEYFQ 231
+ I ++L E+ +
Sbjct: 125 VMEKLEAI----EKKLAEHSR 141
>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary
phase, DNA-binding, transcription regulation; 1.50A
{Thermus thermophilus}
Length = 202
Score = 43.4 bits (103), Expect = 4e-05
Identities = 13/96 (13%), Positives = 32/96 (33%), Gaps = 10/96 (10%)
Query: 283 LSLKFKTTHAPPGDTLVHKG--DVLTSLYFISRGSIEILRDD-----VVMAILGKDDIYG 335
++ +T GD +++ G Y + G + + D + + ++ +G
Sbjct: 1 MTQVRETVSFKAGDVILYPGVPGPRDRAYRVLEGLVRLEAVDEEGNALTLRLVRPGGFFG 60
Query: 336 ENPCLHSTIGKSSSNVRALTYCDLHKIHRDDLLDVL 371
E + A T L + + ++L
Sbjct: 61 EEALFG---QERIYFAEAATDVRLEPLPENPDPELL 93
>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 = 45.2 bits (106), Expect = 4e-05
Identities = 28/146 (19%), Positives = 53/146 (36%), Gaps = 14/146 (9%)
Query: 266 LSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYFISRGSIEIL------ 319
L AF+ P LR + L + G TL +GD+ T+ Y + GS+++
Sbjct: 44 LKGVKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSS 103
Query: 320 -RDDVVMAILGKDDIYGENPCLHSTIGKS--SSNVRALTYCDLHKIHRDDLLDVLDLYPE 376
+D V + LG +GE S + + + + +L +I ++D + + Y +
Sbjct: 104 HQDAVTICTLGIGTAFGE-----SILDNTPRHATIVTRESSELLRIEQEDFKALWEKYRQ 158
Query: 377 FYNSFTENLEITFYMRDEEQAGVDPR 402
+ D
Sbjct: 159 YMAGLLAPPYGVMETGSNNDRIPDKE 184
>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 = 40.6 bits (95), Expect = 9e-05
Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVG-SLMYASIFGNVSAIIQR 194
T+VG+G+ +P TD KIFTIL + +G L++ I +
Sbjct: 45 TTVGYGDFSPQTDFGKIFTILYIFIGIGLVFGFIHKLAVNVQLP 88
>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 = 40.6 bits (95), Expect = 1e-04
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYASIFGNVSAIIQR 194
T+VG GN +P TD KIFTIL + +G + ++ +Q
Sbjct: 62 TTVGAGNFSPQTDFGKIFTILYIFIGIGLVFGFIHKLAVNVQL 104
>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 = 42.4 bits (100), Expect = 2e-04
Identities = 11/58 (18%), Positives = 24/58 (41%), Gaps = 1/58 (1%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYASIFGNV-SAIIQRLYSGTARYHTQMLR 208
+VG+G+ +P+T FT+ ++++G +A + +I R
Sbjct: 58 ATVGYGDYSPSTPLGMYFTVTLIVLGIGTFAVAVERLLEFLINREQMKLMGLIDVAKS 115
>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 = 42.1 bits (98), Expect = 3e-04
Identities = 72/448 (16%), Positives = 137/448 (30%), Gaps = 123/448 (27%)
Query: 2 SEYHEILSKD---F--FFLQRTTTLIGLLKTARLLRLVRVARKIDRYSEYGA--AVLLL- 53
E + L D F + + R + L + A LL L R A+ + G+ + L
Sbjct: 113 IEQRDRLYNDNQVFAKYNVSRLQPYLKL-RQA-LLEL-RPAKNVLIDGVLGSGKTWVALD 169
Query: 54 ------LMATFALIAHWLACIWYAIGNAEKSSVGWLDILANDTHQFYINGTGGPSIKTTT 107
+ WL + N S L++L +Q N T +
Sbjct: 170 VCLSYKVQCKMDFKIFWLN-----LKN-CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 108 LIGL--LKTARLLRLVRVARK-----I--DRYSEYGAAGKGWGGFNFKHLYLRTSVGFGN 158
+ + ++ A L RL++ + + + K W FN L T
Sbjct: 224 KLRIHSIQ-AELRRLLKSKPYENCLLVLLNVQNA-----KAWNAFNLSCKILLT------ 271
Query: 159 VAPNTDNEKIFTILVMLVGSLMYASIFGNVSAIIQRLYSGTARYHTQMLRVREFIRFHQI 218
T +++ L A+ ++S + + T +L R +
Sbjct: 272 ----TRFKQVTDFLS--------AATTTHIS-LDHHSMTLTPDEVKSLLLKYLDCRPQDL 318
Query: 219 P------NPLR-----QRLEEYFQHA--WTYTNGIDMNSVLKGFPECLQADICLHLNRNL 265
P NP R + + + W + N + ++++ L+ R +
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA----EYRKM 374
Query: 266 LSNCSAFKGASPGCLRALSLKFKTTHAPPGDTLVHKGDVLTSLYF--ISRGSIEILRDDV 323
S F P + H P +L+ ++F I + ++
Sbjct: 375 FDRLSVF----P----------PSAHIPT--------ILLSLIWFDVIKSDVMVVVNKLH 412
Query: 324 VMAILGKDD------IYGENPCLHSTIGKSSSNVRAL------TYCDLHKIHRDDLL-DV 370
+++ K I ++ + N AL Y DDL+
Sbjct: 413 KYSLVEKQPKESTISIPS----IYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY 468
Query: 371 LDLYPEFYNSFTENLEITFYMRDEEQAG 398
LD Y FY+ I ++++ E
Sbjct: 469 LDQY--FYS------HIGHHLKNIEHPE 488
Score = 37.9 bits (87), Expect = 0.008
Identities = 36/230 (15%), Positives = 83/230 (36%), Gaps = 56/230 (24%)
Query: 145 FKHLYLRTSVGFGNVAPNTDNEKI-FTILVMLVGSLMY------ASIFGNVSAIIQRLYS 197
++ ++ R SV F P + I +L ++ ++ + S + ++
Sbjct: 371 YRKMFDRLSV-F----P--PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 198 GTARYHTQMLRV-----------REFIRFHQIP------NPLRQRLEEYF-QHAWTYTNG 239
T + L + R + + IP + + L++YF H +
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKN 483
Query: 240 IDMNSVLKGFPEC------LQADICLHLNRNLLSNCSAFKGASPGCLRALSL--KFKTTH 291
I+ + F L+ I R+ + +A G+ L+ L + +
Sbjct: 484 IEHPERMTLFRMVFLDFRFLEQKI-----RHDSTAWNA-SGSILNTLQQLKFYKPYICDN 537
Query: 292 APPGDTLVHKGDVLTSLYFISRGSIEILRD---DVV-MAILGKDD-IYGE 336
P + LV +L F+ + ++ D++ +A++ +D+ I+ E
Sbjct: 538 DPKYERLV--NAILD---FLPKIEENLICSKYTDLLRIALMAEDEAIFEE 582
Score = 33.7 bits (76), Expect = 0.17
Identities = 53/391 (13%), Positives = 114/391 (29%), Gaps = 105/391 (26%)
Query: 143 FNFKHL--YLR---TSVGFGNV--APNTDNE--KIFTILV--------MLVGSLM---YA 182
F+ K + + + ++ + + + ++F L+ V ++ Y
Sbjct: 33 FDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK 92
Query: 183 SIFGNVSAIIQRLYSGTARYHTQMLR----VREFIRFHQIPNP-----LRQRLEEYFQHA 233
+ + ++ T Y Q R + F +++ + LRQ L E
Sbjct: 93 FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN-VSRLQPYLKLRQALLELRPAK 151
Query: 234 WTYTNGIDMNSVLKGF-PECLQADICLHLNRNLLSNCSAFKGASPGCLRALSLKFKTTHA 292
+G + G + D+CL + F L K ++
Sbjct: 152 NVLIDG--V----LGSGKTWVALDVCLSYKVQCKMDFKIF-----------WLNLKNCNS 194
Query: 293 PPGDTLVHKGDVLTSLYFISRGSIEILRDDVVMAILGKDDIYGENPCLHSTIGKSSSNVR 352
P +T++ ++L L + + D L I E +R
Sbjct: 195 P--ETVL---EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE--------------LR 235
Query: 353 ALTYCDLHKIHRDDLL---DVLDLYPEFYNSF---------TENLEITFYMR-------- 392
L K + + LL +V + + +N+F T ++T ++
Sbjct: 236 RLL---KSKPYENCLLVLLNVQN--AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290
Query: 393 -DEEQAGVDPRCGRH-SRRRSGSSSNDRPTVDVGGGGGLEIDI-----RRFPSRPARTRA 445
D + P + + D P +V + I R + +
Sbjct: 291 LDHHSMTLTPDEVKSLLLKYLDCRPQDLP-REVLTTNPRRLSIIAESIRDGLATWDNWKH 349
Query: 446 FNQDSMESAAAAMFQDVMDDDRM----DDFG 472
N D + + +V++ D
Sbjct: 350 VNCDKLTT-IIESSLNVLEPAEYRKMFDRLS 379
>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 = 38.3 bits (89), Expect = 0.001
Identities = 11/77 (14%), Positives = 30/77 (38%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYASIFGNVSAIIQRLYSGTARYHTQMLRVRE 211
T+VG+G++ P T ++ ++VM+ G + + ++ + +
Sbjct: 53 TTVGYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALATWFVGREQERRGHFVRHSEKAA 112
Query: 212 FIRFHQIPNPLRQRLEE 228
+ + L +R +
Sbjct: 113 EEAYTRTTRALHERFDR 129
>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 = 38.7 bits (90), Expect = 0.001
Identities = 11/77 (14%), Positives = 30/77 (38%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYASIFGNVSAIIQRLYSGTARYHTQMLRVRE 211
T+VG+G++ P T ++ ++VM+ G + + ++ + +
Sbjct: 80 TTVGYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALATWFVGQEQQQQQQFVRHSEKAA 139
Query: 212 FIRFHQIPNPLRQRLEE 228
+ + L +R +
Sbjct: 140 EEAYTRTTRALHERFDR 156
>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 = 35.5 bits (82), Expect = 0.006
Identities = 10/39 (25%), Positives = 20/39 (51%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYASIFGNVSA 190
T+VG+G+ P T+ + VM G ++A + ++
Sbjct: 53 TTVGYGDRYPVTEEGRKVAEQVMKAGIEVFALVTAALAT 91
>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 = 35.5 bits (81), Expect = 0.027
Identities = 14/60 (23%), Positives = 22/60 (36%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYASIFGNVSAIIQRLYSGTARYHTQMLRVRE 211
+VG+G++ P T L + VG A G V A R + ++R
Sbjct: 109 ATVGYGDMHPQTVYAHAIATLEIFVGMSGIALSTGLVFARFARPRAKIMFARHAIVRPFN 168
>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 = 32.7 bits (75), Expect = 0.082
Identities = 8/39 (20%), Positives = 21/39 (53%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYASIFGNVSA 190
T+V +G++ P T ++ ++VM+ G + + ++
Sbjct: 74 TTVAYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALAT 112
>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 = 33.4 bits (77), Expect = 0.12
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYA 182
T+VG+G+V P T K+ I VML G
Sbjct: 178 TTVGYGDVVPATPIGKVIGIAVMLTGISALT 208
Score = 28.7 bits (65), Expect = 3.1
Identities = 12/54 (22%), Positives = 24/54 (44%), Gaps = 5/54 (9%)
Query: 13 FFLQRTTTLIGLLKTARLLRLVRVARKIDRYSEYGAAVL-----LLLMATFALI 61
++ +GL + RLLR +R+ I R S++ +A+ + F +
Sbjct: 87 ALIEGHLAGLGLFRLVRLLRFLRILLIISRGSKFLSAIADAADKIRFYHLFGAV 140
>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 = 33.1 bits (75), Expect = 0.17
Identities = 12/63 (19%), Positives = 20/63 (31%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYASIFGNVSAIIQRLYSGTARYHTQMLRVRE 211
++G+G + P L L G L A + A R +G ++ E
Sbjct: 95 ATIGYGKLIPIGPLANTLVTLEALCGMLGLAVAASLIYARFTRPTAGVLFSSRMVISDFE 154
Query: 212 FIR 214
Sbjct: 155 GKP 157
>2gai_A DNA topoisomerase I; zinc ribbon; HET: DNA; 1.70A {Thermotoga
maritima} PDB: 2gaj_A*
Length = 633
Score = 33.3 bits (77), Expect = 0.20
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 3/38 (7%)
Query: 369 DVLDLYPEFYNSFTENLEITFYMRDEEQAGVDPRCGRH 406
VL EFY SF+ + + + CG+
Sbjct: 530 IVLR---EFYESFSSVFDRNDRIVVDFPTNQKCSCGKE 564
>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 = 31.7 bits (72), Expect = 0.25
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYASIFGNVSA 190
T+VG+G++ P T + ++VM+ G Y +F V+
Sbjct: 97 TTVGYGDLYPVTLWGRCVAVVVMVAGITSYGLVFAAVAT 135
Score = 27.1 bits (60), Expect = 8.9
Identities = 13/61 (21%), Positives = 23/61 (37%), Gaps = 4/61 (6%)
Query: 2 SEYHEILSKDFFFLQRTTTLIGLLKTARLLRLVRVARKID----RYSEYGAAVLLLLMAT 57
S +H S R + + + L RLV++ + GAA +LL++
Sbjct: 4 SHHHHHHSSGIEGRGRLIKHMPPMLSGLLARLVKLLLGRHGSALHWRAAGAATVLLVIVL 63
Query: 58 F 58
Sbjct: 64 L 64
>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 = 32.4 bits (73), Expect = 0.27
Identities = 16/81 (19%), Positives = 24/81 (29%), Gaps = 3/81 (3%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYASIFGNVSAIIQRLYSGTARYHTQMLRVRE 211
+VG+G++ P T L + VG A G ++ R T M
Sbjct: 91 ATVGYGDMHPQTVYAHWIATLEIFVGMSSIALATGCAFI---KMSQPKKRAETLMFSEHA 147
Query: 212 FIRFHQIPNPLRQRLEEYFQH 232
I L R+
Sbjct: 148 VISMRDGKLTLMFRVGNLRNS 168
>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 = 31.9 bits (72), Expect = 0.53
Identities = 17/112 (15%), Positives = 45/112 (40%), Gaps = 26/112 (23%)
Query: 77 KSSVGWLDILANDTHQFYIN----GTGGPSIKTTTLIGLLKTARLLRLVRVARKIDRYSE 132
+ + +DI+A +Y+ + ++ + +++ R++R++R+ K+ R+S
Sbjct: 271 TNIMNIIDIVA--IIPYYVTIFLTESNKSVLQFQNVRRVVQIFRIMRILRIF-KLSRHS- 326
Query: 133 YGAAGKGWGGFNFKHLYLRTSVGFGNVAPNTDNEKIFTILVMLVGSLMYASI 184
G L+ S+ E I + +G ++++S
Sbjct: 327 --------KGLQILGQTLKASM----------RELGLLIFFLFIGVILFSSA 360
Score = 30.4 bits (68), Expect = 1.5
Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 4/48 (8%)
Query: 152 TSVGFGNVAPNTDNEKIFTILVMLVGSLMYA----SIFGNVSAIIQRL 195
T+VG+G++ P T KI L + G L A I N + R
Sbjct: 388 TTVGYGDMVPTTIGGKIVGSLCAIAGVLTIALPVPVIVSNFNYFYHRE 435
>3n3a_C Protein NRDI; ribonucleotide reductase, four-helix bundle,
dimanganese CLU flavoprotein, oxidoreductase; HET: FMN;
1.99A {Escherichia coli} PDB: 3n39_C* 3n3b_C*
Length = 153
Score = 28.1 bits (62), Expect = 3.5
Identities = 13/75 (17%), Positives = 20/75 (26%), Gaps = 13/75 (17%)
Query: 181 YASIFGNVSAIIQRLYSGTARYHTQMLRVREFIRFHQIPNPLRQRLEEYFQHAWTYTNGI 240
++S N I+RL +R Q E Y +Y G
Sbjct: 27 FSSSSENTQRFIERL-------------GLPAVRIPLNERERIQVDEPYILIVPSYGGGG 73
Query: 241 DMNSVLKGFPECLQA 255
+V + L
Sbjct: 74 TAGAVPRQVIRFLND 88
>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 = 27.6 bits (61), Expect = 5.4
Identities = 10/35 (28%), Positives = 18/35 (51%)
Query: 12 FFFLQRTTTLIGLLKTARLLRLVRVARKIDRYSEY 46
++ +GL + RLLR +R+ I R S++
Sbjct: 84 LALIEGHLAGLGLFRLVRLLRFLRILLIISRGSKF 118
>3nio_A Guanidinobutyrase; PA1421, GBUA, hydrolase; HET: MLY; 2.00A
{Pseudomonas aeruginosa}
Length = 319
Score = 27.7 bits (62), Expect = 7.5
Identities = 22/125 (17%), Positives = 45/125 (36%), Gaps = 19/125 (15%)
Query: 295 GDTLVHKGDVLTSLYFISRGSIEILRDDVVMAILGKDDIYGENPCLHSTIGKSSSNVRAL 354
GD ++ ++L ++ I + IL ++ LG D H+ + +RA+
Sbjct: 92 GDVAINTFNLLEAVRIIEQEYDRILGHGILPLTLGGD---------HTI---TLPILRAI 139
Query: 355 --TYCDLHKIHRDDLLDVLDLYPEFYNSFTENLEITFYMRDEEQAGVDPRCGRHSRRRSG 412
+ + +H D DV D + T + R E+ +D R+
Sbjct: 140 XKXHGXVGLVHVDAHADVNDHMFGEXIAHG-----TTFRRAVEEDLLDCDRVVQIGLRAQ 194
Query: 413 SSSND 417
+ +
Sbjct: 195 GYTAE 199
>2weu_A Tryptophan 5-halogenase; regioselectivity, antifungal protei; HET:
TRP; 1.70A {Streptomyces rugosporus} PDB: 2wet_A*
2wes_A*
Length = 511
Score = 27.8 bits (60), Expect = 8.4
Identities = 21/174 (12%), Positives = 42/174 (24%), Gaps = 26/174 (14%)
Query: 109 IGLLKTARLLRLVRVARKIDRYSEYGAAGKGWGGFNFKHLYLRT-----SVGFGNVAPNT 163
G + + + R++ G + V G A
Sbjct: 291 NGYVYSDEFISPEEAERELRSTVAPGRDDLEANHIQMRIGRNERTWINNCVAVGLSAAFV 350
Query: 164 DNEKIFTILVMLVGSLMYASIFGNVSAIIQRLYSGTARYHTQMLRVREFIRFH------- 216
+ + I + F + + R + V+EF+ H
Sbjct: 351 EPLESTGIFFIQHAIEQLVKHFPGERWDPVLISAYNERMAHMVDGVKEFLVLHYKGAQRE 410
Query: 217 -----------QIPNPLRQRLEEYFQHAWTYTNGIDMNSVLKGFPECLQADICL 259
+P+ L ++LE H + + GF + L
Sbjct: 411 DTPYWKAAKTRAMPDGLARKLELSASH---LLDEQTIYPYYHGFETYSWITMNL 461
>3rl5_A Metallophosphoesterase mpped2; alpha-beta fold,
metallophosphodiesterase, active site mutan nucleotide
polymorphism, hydrolase; 1.26A {Rattus norvegicus} PDB:
3rl3_A* 3rl4_A*
Length = 296
Score = 27.6 bits (60), Expect = 8.9
Identities = 17/100 (17%), Positives = 36/100 (36%), Gaps = 11/100 (11%)
Query: 293 PPGDTLVHKGDVLTSLYFIS--RGSIEILRD---DVVMAILGKDDIYGENPCLHSTIGKS 347
P GD L+H GD T L S + + L + + + I G ++ + + + +
Sbjct: 78 PYGDILLHTGD-FTELGLPSEVKKFNDWLGNLPYEYKIVIAGNHELTFDKEFMADLVKQD 136
Query: 348 SSNVRALTYCDLHKIHRDDLLDVLDLYPEFYNSFTENLEI 387
+ + K+ +D +V L + +
Sbjct: 137 YYR-----FPSVSKLKPEDFDNVQSLLTNSIYLQDSEVTV 171
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 0.139 0.421
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: 7,426,773
Number of extensions: 459928
Number of successful extensions: 1363
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1282
Number of HSP's successfully gapped: 92
Length of query: 472
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 375
Effective length of database: 3,993,456
Effective search space: 1497546000
Effective search space used: 1497546000
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: 59 (26.5 bits)