RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 002506
(914 letters)
>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 = 73.2 bits (179), Expect = 3e-13
Identities = 91/595 (15%), Positives = 186/595 (31%), Gaps = 220/595 (36%)
Query: 209 QYILHLLDMDKLSATKRRILDYTKYEMLNTAFKTFGD--LGDDE------ELGPVDWPT- 259
Y+ L++ K+ ++LN F + L ++ +L + T
Sbjct: 66 GYVSSLVEPSKVGQFD---------QVLNLCLTEFENCYLEGNDIHALAAKL-LQENDTT 115
Query: 260 ---VKRYIRC---LNDLEGVPMHPHSAS------ETGDSLDPTNLRDIRIRLLNGVQ--- 304
K I+ + P S S G++ ++ + G Q
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNA---------QLVAIFGGQGNT 166
Query: 305 AAYWAMLDE------------GRITQTAANILMQSVDE----------GIDLASNELCDW 342
Y+ +E G + + +A L + + G+++ W
Sbjct: 167 DDYF---EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILE-----W 218
Query: 343 RGLKDNVSFPNYYKFLQT---SMFPQKLITYFTVERLEFACSICAAFLRAHKIARQQLHD 399
L++ + P+ +L + S P LI ++ A + + +L
Sbjct: 219 --LENPSNTPDKD-YLLSIPIS-CP--LIGV-----IQLAHYV--VTAKLLGFTPGELRS 265
Query: 400 FI-GDSG-----IASVVIEESKVEGEDARKFLEDVRVNFPQVLHV---VKTR-QVTYSVL 449
++ G +G + +V I E+ E F + + + V + R Y
Sbjct: 266 YLKGATGHSQGLVTAVAIAETD-SWES---FFV----SVRKAITVLFFIGVRCYEAYPNT 317
Query: 450 NHLIDYIQNLEKVGLLEEKE---MLHLHDAVQSDLKRLLRNPPLVKFPKISDLISAHPLL 506
+ +++ + E ML + + Q ++ + + ++H
Sbjct: 318 SLPPSILEDSLENN---EGVPSPMLSISNLTQEQVQDYV------------NKTNSH--- 359
Query: 507 RELPPSVREPLELS---TKEIMKLSG--VTLY------REGSKPSGIWLISNGVVKWTSK 555
LP + +E+S + + +SG +LY R+ PSG+ +
Sbjct: 360 --LPAG--KQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGL-----------DQ 404
Query: 556 SIRNKHSL-HPVFTHGSNLGLYEVL-IGKPYMSDMVTDSVVLCFFIESDKILSILRSDPA 613
S R S F++ L + P+ S ++ + D I D
Sbjct: 405 S-RIPFSERKLKFSN-------RFLPVASPFHSHLLVPAS--------DLINK----DLV 444
Query: 614 VEDFLWQQSAIALSRILLPQIFEKLTMQDMRAL---IAERSKMTTCLRGEIIEIP----- 665
+ + I + P +++ D+R L I+ER + II +P
Sbjct: 445 KNNVSFNAKDIQI-----P-VYDTFDGSDLRVLSGSISER------IVDCIIRLPVKWET 492
Query: 666 ------YHCIGFLLEGFIKTHGLQEELITPPAALIPSQGNLSFRSAETSGVEAVS 714
H + F G GL G L+ R+ + +GV +
Sbjct: 493 TTQFKATHILDF---GPGGASGL---------------GVLTHRNKDGTGVRVIV 529
Score = 50.4 bits (120), Expect = 3e-06
Identities = 95/653 (14%), Positives = 178/653 (27%), Gaps = 257/653 (39%)
Query: 358 LQTSMF-PQKLITYFTVERL--EFACSI-------------------CAAFLR--AHKIA 393
L+ + P +F +L +F + FL + +
Sbjct: 16 LEHVLLVPTAS--FFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVE 73
Query: 394 RQQLHDFIGDSGIASVVIE-ESKV-EGED----ARKFLEDVRVNFPQVLHVVKTRQVTYS 447
++ F D + + E E+ EG D A K L++ + ++K +
Sbjct: 74 PSKVGQF--DQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKN---YIT 128
Query: 448 VLNHLIDYIQNLEKVGLLEEKEMLHLHDAVQSDLKRL----------------LRN---- 487
L AV +L LR+
Sbjct: 129 ARIMAKRPFDKKSNSALFR---------AVGEGNAQLVAIFGGQGNTDDYFEELRDLYQT 179
Query: 488 -PPLVKFPKISDLI-SAHPLLRELPPSVREPLELSTK--EIMKLSGVTLYREGSKPSGIW 543
LV DLI + L EL + + ++ T+ I++ L + P +
Sbjct: 180 YHVLVG-----DLIKFSAETLSELIRTTLDAEKVFTQGLNILEW----LENPSNTPDKDY 230
Query: 544 LIS-------NGVVKWTS-KSIRNKHSLHP---------VFTHGSNLGLYEVLIGKPYMS 586
L+S GV++ P H L + V I +
Sbjct: 231 LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGL-VTAVAIA---ET 286
Query: 587 DMVT-DSVVLCFFIESDKILSILRSDPAVEDFLW-----QQSAIALSRILLPQIFEKLTM 640
D + +S FF+ K +++L F + + A LP +
Sbjct: 287 D--SWES----FFVSVRKAITVL--------F-FIGVRCYE---AYPNTSLPP---SILE 325
Query: 641 QDMRALIAERSKMTTCLRGEIIEIPYHCIGFLLEGFIK---THGLQEELIT--------- 688
+ S M + E ++ ++ +H + +
Sbjct: 326 DSLENNEGVPSPMLSI-SNLTQE--------QVQDYVNKTNSHLPAGKQVEISLVNGAKN 376
Query: 689 -----PPAALIPSQG-NLSFRSAE-TSGVE---------AVSFSHQGSCYLVETRARVII 732
PP +L G NL+ R A+ SG++ + FS++ +L
Sbjct: 377 LVVSGPPQSL---YGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNR---FLP-------- 422
Query: 733 FDIAA-FEADKAVVRRTSSLFSHSSDQPHKSLSREHGNLMSWPEHFYKARQQKQNSEETD 791
+A+ F HS L+ A D
Sbjct: 423 --VASPF---------------HSH-------------LLV------PASDLI----NKD 442
Query: 792 RKANSLSARAMQLSIFGNMVDVQRRSRSFATGT-QTMQSHSLSFPSIPSHLNRRLVSVRS 850
N++S A + I V + T ++ S SI + ++ +
Sbjct: 443 LVKNNVSFNAKDIQI-----PV------YDTFDGSDLRVLS---GSISERIVDCIIRLP- 487
Query: 851 EGATTVR-EKLEVSRSTGQIPAPPSQNAGANESHVIDYSSDDSGAEDELIVRI 902
V+ E ++T H++D+ + L R
Sbjct: 488 -----VKWETTTQFKAT----------------HILDFGPGGASGLGVLTHRN 519
Score = 42.3 bits (99), Expect = 8e-04
Identities = 63/385 (16%), Positives = 115/385 (29%), Gaps = 154/385 (40%)
Query: 56 FYAAVARTA-----FKGESQQ--SLHYFWEMV----AY--IANTLIFILSGVV--IAEGI 100
F A A F G Q + YF E+ Y + LI + + +
Sbjct: 146 FRAVGEGNAQLVAIFGG---QGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTT 202
Query: 101 LGNDKIFQNHG---NSW----------GYL---------ILLYIFVQVSRLFVV------ 132
L +K+F G W YL I + +VV
Sbjct: 203 LDAEKVFT-QGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAH----YVVTAKLLG 257
Query: 133 ---GTLYPVLR---NFGYGL----------EWKE-------AI-ILVWSGLRG-----AV 163
G L L+ GL W+ AI +L + G+R
Sbjct: 258 FTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNT 317
Query: 164 ALSLSL---SVKRSSGGSSLITSETGTLFVFFTGGI------------VFLTLIVNGSTT 208
+L S+ S++ + G S + S + + V ++L VNG+
Sbjct: 318 SLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISL-VNGA-K 375
Query: 209 QYI-------LHLLDMD--KLSA-----------TKRRILDYTKY---------EMLNTA 239
+ L+ L++ K A ++R++ ++ +L A
Sbjct: 376 NLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPA 435
Query: 240 FKTF-GDLGDDEELGPVDWPTVKRYIRCLNDLEGVPMHPHSASETGDSLDPTNLR----D 294
DL + V + D+ +P++ + G ++LR
Sbjct: 436 SDLINKDLVKNN----VSFNA--------KDI-QIPVY---DTFDG-----SDLRVLSGS 474
Query: 295 IRIRLLNGV--QAAYWAMLDEGRIT 317
I R+++ + W + + T
Sbjct: 475 ISERIVDCIIRLPVKWETTTQFKAT 499
Score = 42.0 bits (98), Expect = 0.001
Identities = 42/242 (17%), Positives = 78/242 (32%), Gaps = 79/242 (32%)
Query: 718 QGS--------CYLVETRARVIIFDIAAFEADK-----------AVVRR-TSSLFSHSSD 757
QGS Y A+ + ++ AD +V +L H
Sbjct: 1624 QGSQEQGMGMDLYKTSKAAQDV-WN----RADNHFKDTYGFSILDIVINNPVNLTIHFGG 1678
Query: 758 QPHKSLSREHGNLMSWPEHFYKARQQ-KQNSEETDRKANSLSAR---------------- 800
+ K + RE+ + M + E + + ++ +E + + S + R
Sbjct: 1679 EKGKRI-RENYSAMIF-ETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPAL 1736
Query: 801 -AMQLSIFGNMVDVQRRSR-------SFATGTQTMQSHSL-----------SFPSIPSHL 841
M+ + F ++ +S+ +FA G HSL SI S +
Sbjct: 1737 TLMEKAAFEDL-----KSKGLIPADATFA-G------HSLGEYAALASLADVM-SIESLV 1783
Query: 842 NRRLVSVRSEGATTVREKLEVSRSTGQIPA-PPSQNAGANESHVIDYSSDDSGAEDELIV 900
+V R + E+ RS + A P + A + + Y + G +V
Sbjct: 1784 --EVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLV 1841
Query: 901 RI 902
I
Sbjct: 1842 EI 1843
Score = 30.0 bits (67), Expect = 4.5
Identities = 36/213 (16%), Positives = 69/213 (32%), Gaps = 68/213 (31%)
Query: 203 VNGSTTQYILHLLDMDKLSATKRRILDYTKYEMLNTAFKTFGDLGDDEELGPVDWPTVKR 262
+N +T Y + LSAT+ +T+ + F DL + G +
Sbjct: 1710 INEHSTSYTFRS-EKGLLSATQ-----FTQPALTLMEKAAFEDL---KSKGLIPADAT-- 1758
Query: 263 YIRCLNDLEGVPMHPHS-------ASETGDSLDPTNLRDIRIRLLN--G--VQAAY---- 307
G HS AS D + + + + ++ G +Q A
Sbjct: 1759 -------FAG-----HSLGEYAALAS-LADVMS---IESL-VEVVFYRGMTMQVAVPRDE 1801
Query: 308 -----WAM--LDEGRITQTAANILMQSVDEGIDLASNELC----------------DWRG 344
+ M ++ GR+ + + +Q V E + + L D R
Sbjct: 1802 LGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRA 1861
Query: 345 LKDNVSFPNYYKFLQTSMFPQKLITYFTVERLE 377
L + N+ K + + +L ++E +E
Sbjct: 1862 LDTVTNVLNFIKLQKIDI--IELQKSLSLEEVE 1892
>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 = 68.3 bits (166), Expect = 9e-12
Identities = 94/651 (14%), Positives = 188/651 (28%), Gaps = 187/651 (28%)
Query: 66 KGESQQSLHYFWEMVAYIANTL-IFILSGVVIAEGILGNDKIF-----QNHGNSWGYLIL 119
K +L FW +++ + F+ E +L + F + +
Sbjct: 58 KDAVSGTLRLFWTLLSKQEEMVQKFV-------EEVLRINYKFLMSPIKTEQRQPSMMTR 110
Query: 120 LYIFVQVSRLFVVGTLYP-----------VLRNFGYGLEWKEAIILVWSGLRGAVALSLS 168
+YI Q RL+ ++ LR L + +++ G+ G+ ++
Sbjct: 111 MYIE-QRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLID--GVLGSGKTWVA 167
Query: 169 LSVKRSSGGSSLITSETGTLFVFFTGGIVFLTLIVNGSTTQYILHLLDMDKLSATKRRIL 228
L V S + I +L L S + L +
Sbjct: 168 LDVCLSYK-----------VQCKMDFKIFWLNLKNCNSPETVLEMLQKL----------- 205
Query: 229 DYTKYEMLNTAFKTFGDLGDDEELGPVDWPTVKR-------YIRCLNDLEGVPMHPHSAS 281
++ + + D + +L R Y CL L V +
Sbjct: 206 ----LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNV-----QNA 256
Query: 282 ETGDSLDPTNLRDIRIRLLNGVQAAYWAMLDEGRITQTAANILMQSVDEGIDLASNELCD 341
+ ++ + + ++L + T+ S ++ +
Sbjct: 257 KAWNAFN------LSCKIL--L------------TTRFKQVTDFLSAATTTHISLDHHSM 296
Query: 342 WRGLKDNVSFPNYYKFLQTSMFPQKLITYFTVERLE------FACSICAAFLRAHKIARQ 395
L + K+L PQ L E SI A +R
Sbjct: 297 --TLTPDEVKSLLLKYLDCR--PQDL-------PREVLTTNPRRLSIIAESIRDGLATWD 345
Query: 396 QLHDFIGDSGIASVVIEES--KVEGEDARK-------FLEDVRVNFP-QVLHVV---KTR 442
D + +IE S +E + RK F + P +L ++ +
Sbjct: 346 NWKHVNCDK--LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI--PTILLSLIWFDVIK 401
Query: 443 QVTYSVLNHLIDYIQNLEKVGLLEE--KEM-LHLHDAVQSDLKRLLRNPPLVKFPKISDL 499
V+N L Y L+E+ KE + + + +LK K+ +
Sbjct: 402 SDVMVVVNKLHKY-------SLVEKQPKESTISIPS-IYLELKV-----------KLENE 442
Query: 500 ISAHPLLRELPPSVREPLELSTKEIMK--------------LSGVTLYREGSKPSGIWLI 545
+ H + + P + +++ L + + ++L
Sbjct: 443 YALHRSIVD---HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFL- 498
Query: 546 SNGVVKWTSKSIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLCFFIESDKIL 605
+ ++ + IR H GS L + L K Y + ++D
Sbjct: 499 -D--FRFLEQKIR--HDSTAWNASGSILNTLQQL--KFYKP----------YICDNDPKY 541
Query: 606 SILRSDPAVEDFLWQQSAIAL----SRILLPQIFEKLTMQDMRALIAERSK 652
L + + DFL + + + +L +I L M + A+ E K
Sbjct: 542 ERLVNA--ILDFLPKIEENLICSKYTDLL--RI--AL-MAEDEAIFEEAHK 585
Score = 47.9 bits (113), Expect = 2e-05
Identities = 69/446 (15%), Positives = 125/446 (28%), Gaps = 131/446 (29%)
Query: 422 RKFLEDVRVNFPQVLHVVKTRQVTYSVL-----NHLIDYIQNLEKV----GLLEEKEMLH 472
+ L F + + S+L +H+I + L K+
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQ--- 75
Query: 473 LHDAVQSDLKRLLRNPPLVKFPKISDLISAHPLLRELPP----SVREPLELSTKEIMKLS 528
+ VQ ++ +LR + + I + R+ L + K +
Sbjct: 76 -EEMVQKFVEEVLRI----NYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130
Query: 529 GVTLYREGSKPSGIWLISNGVVKWTSKSIRNK-HSLHP---VFTHGSNLGLYEVLIGKPY 584
V+ R +P +R L P V G LG GK +
Sbjct: 131 -VS--RL--QPY--------------LKLRQALLELRPAKNVLIDGV-LG-----SGKTW 165
Query: 585 M-SDMVTDSVVLCFFIESDKILSILRSDPAVEDFLWQQSAIALSRI----LLPQIFEKLT 639
+ D+ V C KI F W + L + ++ +KL
Sbjct: 166 VALDVCLSYKVQCKM--DFKI------------F-W----LNLKNCNSPETVLEMLQKLL 206
Query: 640 MQDMRALIAERSKMTTCLRGEIIEIPYHCIGFLLEGFIKTHGLQEELITPPAALIPSQGN 699
Q + + I++ H I L +K+ + L L+
Sbjct: 207 YQIDPNWTSRSDHSSN------IKLRIHSIQAELRRLLKSKPYENCL------LV----- 249
Query: 700 LS-FRSAETSGVEAVSFSHQGSC-YLVETRARVIIFDIAAFEADKAVV---------RRT 748
L ++A+ A F+ C L+ TR + + ++A +
Sbjct: 250 LLNVQNAKA--WNA--FNLS--CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEV 303
Query: 749 SSLFSHSSDQPHKSLSRE----------------HGNLMSWPEHFYKARQQKQNSEETDR 792
SL D + L RE L +W +K + + +
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW--DNWKHVNCDKLTTIIES 361
Query: 793 KANSLSARAMQ-----LSIFGNMVDV 813
N L + LS+F +
Sbjct: 362 SLNVLEPAEYRKMFDRLSVFPPSAHI 387
>2pqq_A Putative transcriptional regulator; APC7345, streptomyces
coelicolor structural genomics, PSI-2, protein structure
initiative; 2.00A {Streptomyces coelicolor A3}
Length = 149
Score = 50.0 bits (120), Expect = 2e-07
Identities = 27/135 (20%), Positives = 48/135 (35%), Gaps = 8/135 (5%)
Query: 496 ISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSK 555
+ D++ +PL L L S E+ G TL+ EG +++++ G VK
Sbjct: 3 MDDVLRRNPLFAALDDEQSAELRASMSEVTLARGDTLFHEGDPGDRLYVVTEGKVKLHRT 62
Query: 556 SIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLCFFIESDKILSILRSDPAVE 615
S + ++ V +G + P + + V + + L P V
Sbjct: 63 SPDGRENMLAVVGPSELIGELSLFDPGPRTATGTALTEVKLLALGHGDLQPWLNVRPEV- 121
Query: 616 DFLWQQSAIALSRIL 630
A AL R +
Sbjct: 122 -------ATALLRAV 129
>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 = 51.1 bits (123), Expect = 4e-07
Identities = 26/159 (16%), Positives = 62/159 (38%), Gaps = 10/159 (6%)
Query: 496 ISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSK 555
+ ++++ + + + PS L + + G T++ EG +++I +G VK +
Sbjct: 4 MDEILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKVKIGRR 63
Query: 556 SIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSD--MVTDSVVLCFFIESDKILSILRSDPA 613
+ + +L + G + P S +T+ + ++ D + S + P
Sbjct: 64 APDGRENLLTIMGPSDMFGELSIFDPGPRTSSATTITEVRAV--SMDRDALRSWIADRPE 121
Query: 614 VEDFLWQQSAIALSRIL--LPQIFEKLTMQDMRALIAER 650
+ +Q L+R L L D+ +A++
Sbjct: 122 ----ISEQLLRVLARRLRRTNNNLADLIFTDVPGRVAKQ 156
>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 = 48.1 bits (115), Expect = 1e-06
Identities = 22/134 (16%), Positives = 49/134 (36%), Gaps = 3/134 (2%)
Query: 498 DLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVK-WTSKS 556
+ + + L + + L ++E +G +++E SK + L+ G V+ + S
Sbjct: 6 ERLRVYRFFASLTDEQLKDIALISEEKSFPTGSVIFKENSKADNLMLLLEGGVELFYSNG 65
Query: 557 IRNKHSLHPV--FTHGSNLGLYEVLIGKPYMSDMVTDSVVLCFFIESDKILSILRSDPAV 614
+ V G+ G+ ++ Y S V I ++ + ++ A+
Sbjct: 66 GAGSAANSTVCSVVPGAIFGVSSLIKPYHYTSSARATKPVRVVDINGARLREMSENNQAL 125
Query: 615 EDFLWQQSAIALSR 628
L A A+
Sbjct: 126 GQVLMNNVAAAVLA 139
>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 = 49.0 bits (117), Expect = 1e-06
Identities = 24/174 (13%), Positives = 50/174 (28%), Gaps = 4/174 (2%)
Query: 472 HLHDAVQSDLKRLLRNPPLVKFPKISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVT 531
+ DL L F +I ++++ L + L +
Sbjct: 15 LYFQGMYPDLVHLGGADK--YFEEILEIVNKIKLFGDFSNEEVRYLCSYMQCYAAPRDCQ 72
Query: 532 LYREGSKPSGIWLISNGVVKWTSKSIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMVTD 591
L EG + LI G V G+ +G ++ G P + V
Sbjct: 73 LLTEGDPGDYLLLILTGEVNVIKDIPNKGIQTIAKVGAGAIIGEMSMIDGMPRSASCVAS 132
Query: 592 SVVLCFFIESDKILSILRSDPAVEDFLWQQSAIALSRIL--LPQIFEKLTMQDM 643
+ D + +L + P + + + + L+ T+ ++
Sbjct: 133 LPTDFAVLSRDALYQLLANMPKLGNKVLIRLLQLLTARFRESYDRILPKTLGEL 186
>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 = 47.3 bits (112), Expect = 1e-05
Identities = 19/138 (13%), Positives = 47/138 (34%), Gaps = 1/138 (0%)
Query: 478 QSDLKRLLRNPPLVKFPKISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGS 537
+ +R+L L K + +S +L L R + + + + G + +G
Sbjct: 137 RDSYRRILMGSTLRKRKMYEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGE 196
Query: 538 KPSGIWLISNGVVKWTSKSIRNKHSLH-PVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLC 596
++I G + N+ + G +L+ +P + +V + C
Sbjct: 197 PGDEFFIILEGSAAVLQRRSENEEFVEVGRLGPSDYFGEIALLMNRPKAATVVARGPLKC 256
Query: 597 FFIESDKILSILRSDPAV 614
++ + +L +
Sbjct: 257 VKLDRPRFERVLGPCSDI 274
Score = 43.8 bits (103), Expect = 1e-04
Identities = 27/167 (16%), Positives = 64/167 (38%), Gaps = 12/167 (7%)
Query: 496 ISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSK 555
++ I + L L + R + + + ++G T+ ++G + ++I G +
Sbjct: 37 LAKAIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVY-- 94
Query: 556 SIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLCFFIESDKILSILRSDPAVE 615
+ N+ G + G ++ G P + + + V + I+ D IL +
Sbjct: 95 -VNNEW--ATSVGEGGSFGELALIYGTPRAATVKAKTNVKLWGIDRDSYRRILMGSTLRK 151
Query: 616 DFLWQQSAIALSRILLPQIFEKLTMQDMRALIAERSKMTTCLRGEII 662
++++ +S I E L + R +A+ + G+ I
Sbjct: 152 RKMYEEFLSKVS------ILESLDKWE-RLTVADALEPVQFEDGQKI 191
>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 = 46.4 bits (111), Expect = 1e-05
Identities = 25/155 (16%), Positives = 57/155 (36%), Gaps = 10/155 (6%)
Query: 500 ISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSIRN 559
+ PL L P + + + G ++ +G ++L+++G V+ +
Sbjct: 1 MKGSPLFHGLAPEEVDLALSYFQRRLYPQGKPIFYQGDLGQALYLVASGKVRLFRTHLGG 60
Query: 560 KHSLHPVFTHGSNLGLYEVLIGKPYMSDMV--TDSVVLCFFIESDKILSILRSDPAVEDF 617
+ + G G +L + V D+ +L + + L+++R P
Sbjct: 61 QERTLALLGPGELFGEMSLLDEGERSASAVAVEDTELL--ALFREDYLALIRRLPL---- 114
Query: 618 LWQQSAIALSRIL--LPQIFEKLTMQDMRALIAER 650
+ A L+R L + L+ ++ R +A
Sbjct: 115 VAHNLAALLARRLREADLELDLLSFEEARNRVAYA 149
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 43.8 bits (104), Expect = 4e-05
Identities = 22/136 (16%), Positives = 45/136 (33%), Gaps = 13/136 (9%)
Query: 498 DLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSI 557
L+ +H L L P + L S+ + G ++R+G + + +G VK +
Sbjct: 12 QLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKIYRLTP 71
Query: 558 RNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMV---TDSVVLCFFIESDKILSILRSDPAV 614
+ + V + + + P S + + L L+ + +
Sbjct: 72 EGQEKILEVTNERNTFAEAMMFMDTPNYVATAQAVVPSQLF--RFSNKAYLRQLQDNTPL 129
Query: 615 EDFLWQQSAIALSRIL 630
A+AL L
Sbjct: 130 --------ALALLAKL 137
>3e97_A Transcriptional regulator, CRP/FNR family; YP_604437.1, structural
genomics, joint center for structural genomics, JCSG;
HET: MSE; 1.86A {Deinococcus geothermalis dsm 11300}
Length = 231
Score = 44.9 bits (107), Expect = 4e-05
Identities = 20/119 (16%), Positives = 41/119 (34%), Gaps = 4/119 (3%)
Query: 498 DLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSI 557
D + PL + +P E + + ++ + L++ GVV+ + S+
Sbjct: 6 DDLKRSPLFQNVPEDAMREALKVVTERNFQPDELVVEQDAEGEALHLVTTGVVRVSRVSL 65
Query: 558 RNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMV--TDSVVLCFFIESDKILSILRSDPAV 614
+ + +G VL + + + T L + + ILR P V
Sbjct: 66 GGRERVLGDIYAPGVVGETAVLAHQERSASVRALTPVRTL--MLHREHFELILRRHPRV 122
>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 = 45.0 bits (107), Expect = 4e-05
Identities = 30/119 (25%), Positives = 47/119 (39%), Gaps = 4/119 (3%)
Query: 498 DLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSI 557
+ L+R LP + L G TL+ + K I ++ +G VK +
Sbjct: 11 AIARNSLLIRSLPEQHVDALLSQAVWRSYDRGETLFLQEEKAQAIHVVIDGWVKLFRMTP 70
Query: 558 RNKHSLHPVFTHGSNLGLYEVLIGKPYMSDM--VTDSVVLCFFIESDKILSILRSDPAV 614
++ VFT G + G L PY VT V+ I S +S++R DP +
Sbjct: 71 TGSEAVVSVFTRGESFGEAVALRNTPYPVSAEAVTPCEVM--HIPSPVFVSLMRRDPEI 127
>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 = 8e-05
Identities = 18/157 (11%), Positives = 53/157 (33%), Gaps = 8/157 (5%)
Query: 498 DLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSI 557
+ PL +L + ++ + + G ++ +G+ L+ +G ++ S
Sbjct: 3 SFENYFPLWNDLNTAQKKLISDNLITQHVKKGTIIHNGNMDCTGLLLVKSGQLRTYILSD 62
Query: 558 RNKHSLHPVFTHGSNLGLYEVLI--GKPYMSDMV--TDSVVLCFFIESDKILSILRSDPA 613
+ L I + + D+ + I ++ I++
Sbjct: 63 EGREITLYRLFDMDMCLLSASCIMRSIQFEVTIEAEKDTDLW--IIPAEIYKGIMKDSAP 120
Query: 614 VEDFLWQQSAIALSRILLPQIFEKLTMQDMRALIAER 650
V ++ + A S ++ + E++ + + +A
Sbjct: 121 VANYTNELMATRFSDVM--WLIEQIMWKSLDKRVASF 155
>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 = 44.1 bits (104), Expect = 1e-04
Identities = 25/162 (15%), Positives = 59/162 (36%), Gaps = 1/162 (0%)
Query: 478 QSDLKRLLRNPPLVKFPKISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGS 537
+ + ++ L+K + + + + P + LP + L +E +G + R+G+
Sbjct: 137 RQCFQTIMMRTGLIKHTEYMEFLKSVPTFQSLPEEILSKLADVLEETHYENGEYIIRQGA 196
Query: 538 KPSGIWLISNGVVKWTSKSIRNKHSLH-PVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLC 596
+ ++IS G V T + N+ + G G + ++++ V C
Sbjct: 197 RGDTFFIISKGKVNVTREDSPNEDPVFLRTLGKGDWFGEKALQGEDVRTANVIAAEAVTC 256
Query: 597 FFIESDKILSILRSDPAVEDFLWQQSAIALSRILLPQIFEKL 638
I+ D ++ V + ++ + F L
Sbjct: 257 LVIDRDSFKHLIGGLDDVSNKAYEDAEAKAKYEAEAAFFANL 298
Score = 37.2 bits (86), Expect = 0.017
Identities = 27/181 (14%), Positives = 62/181 (34%), Gaps = 19/181 (10%)
Query: 489 PLVKFPK-------ISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSG 541
KF K I + I + ++ L S + + + + +EG S
Sbjct: 23 AFRKFTKSERSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSL 82
Query: 542 IWLISNGVVKWTSKSIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLCFFIES 601
++++ +G V+ + + G G +L + + T V + I+
Sbjct: 83 VYVMEDGKVE-----VTKEGVKLCTMGPGKVFGELAILYNCTRTATVKTLVNVKLWAIDR 137
Query: 602 DKILSILRSDPAVEDFLWQQSAIALSRILLPQIFEKLTMQDMRALIAERSKMTTCLRGEI 661
+I+ ++ + + L + F+ L + + +A+ + T GE
Sbjct: 138 QCFQTIMMRTGLIKHTEYME---FLKSV---PTFQSLPEEI-LSKLADVLEETHYENGEY 190
Query: 662 I 662
I
Sbjct: 191 I 191
>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 = 43.6 bits (102), Expect = 2e-04
Identities = 21/143 (14%), Positives = 43/143 (30%), Gaps = 6/143 (4%)
Query: 478 QSDLKRLLRNPPLVKFPKISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGS 537
+ +R++ K I + P L+ L S R + + G + +G
Sbjct: 247 RVTFRRIIVKNNAKKRKMYESFIESLPFLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGD 306
Query: 538 KPSGIWLISNGVVKWTSKSIRNKHSLHPVFTHGSNL------GLYEVLIGKPYMSDMVTD 591
+++ +G VK T K + G ++ KP +
Sbjct: 307 LADSFFIVESGEVKITMKRKGKSEVEENGAVEIARCFRGQYFGELALVTNKPRAASAHAI 366
Query: 592 SVVLCFFIESDKILSILRSDPAV 614
V C ++ +L +
Sbjct: 367 GTVKCLAMDVQAFERLLGPCMEI 389
Score = 38.2 bits (88), Expect = 0.012
Identities = 20/183 (10%), Positives = 55/183 (30%), Gaps = 15/183 (8%)
Query: 487 NPPLVKFPK-------ISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKP 539
+ PK + + L + L P + + E + G + +G
Sbjct: 127 AESRIIHPKTDDQRNRLQEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDG 186
Query: 540 SGIWLISNGVVKWTSKSIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLCFFI 599
++I G K + + + + G ++ P + + S + +
Sbjct: 187 DNFYVIDRGTFDIYVKCDGVGRCVG-NYDNRGSFGELALMYNTPKAATITATSPGALWGL 245
Query: 600 ESDKILSILRSDPAVEDFLWQQSAIALSRILLPQIFEKLTMQDMRALIAERSKMTTCLRG 659
+ I+ + A + +++ + + + L + + + + G
Sbjct: 246 DRVTFRRIIVKNNAKKRKMYES---FIESL---PFLKSLEVSERLK-VVDVIGTKVYNDG 298
Query: 660 EII 662
E I
Sbjct: 299 EQI 301
>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 = 42.9 bits (101), Expect = 2e-04
Identities = 25/137 (18%), Positives = 45/137 (32%), Gaps = 4/137 (2%)
Query: 478 QSDLKRLLRNPPLVKFPKISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGS 537
+ +++L K DL+ + P+L+ L R L + + G T+ REG
Sbjct: 105 RLTFRKILLGSSFKKRLMYDDLLKSMPVLKSLTTYDRAKLADALDTKIYQPGETIIREGD 164
Query: 538 KPSGIWLISNGVVKWTSKSIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLCF 597
+ +LI G V + K + L G +L P + +
Sbjct: 165 QGENFYLIEYGAVDVSKKGQGVINKLKD----HDYFGEVALLNDLPRQATVTATKRTKVA 220
Query: 598 FIESDKILSILRSDPAV 614
+ +L V
Sbjct: 221 TLGKSGFQRLLGPAVDV 237
Score = 39.4 bits (92), Expect = 0.003
Identities = 30/169 (17%), Positives = 58/169 (34%), Gaps = 16/169 (9%)
Query: 496 ISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSK 555
+ I + L +L + + +E G T+ ++G + +++ G V +
Sbjct: 5 LEKSIRNNFLFNKLDSDSKRLVINCLEEKSVPKGATIIKQGDQGDYFYVVEKGTVDFYVN 64
Query: 556 SIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLCFFIESDKILSILRSDPAVE 615
+S P GS+ G ++ P + +V S L + ++ R
Sbjct: 65 D-NKVNSSGP----GSSFGELALMYNSPRAATVVATSDCLLWALD--------RLTFRKI 111
Query: 616 DFLWQQSAIALSRILLPQ--IFEKLTMQDMRALIAERSKMTTCLRGEII 662
+ LL + + LT D RA +A+ GE I
Sbjct: 112 LLGSSFKKRLMYDDLLKSMPVLKSLTTYD-RAKLADALDTKIYQPGETI 159
>3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix,
homodimer, transcription regulator; 3.60A {Pseudomonas
aeruginosa}
Length = 227
Score = 42.3 bits (100), Expect = 3e-04
Identities = 24/155 (15%), Positives = 56/155 (36%), Gaps = 7/155 (4%)
Query: 498 DLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSI 557
L+ +H L L P + L S+ + G ++R+G + + +G VK +
Sbjct: 9 QLLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKIYRLTP 68
Query: 558 RNKHSLHPVFTHGSNLGLYEVLIGKP-YMSD--MVTDSVVLCFFIESDKILSILRSDPAV 614
+ + V + + + P Y++ V S + + L L+ + +
Sbjct: 69 EGQEKILEVTNERNTFAEAMMFMDTPNYVATAQAVVPSQLF--RFSNKAYLRQLQDNTPL 126
Query: 615 EDFLWQQSAIALSRILLPQIFEKLTMQDMRALIAE 649
L + + L + E L++++ +
Sbjct: 127 ALALLAKLSTRLHQ--RIDEIETLSLKNATHRVVR 159
>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 = 41.5 bits (98), Expect = 6e-04
Identities = 28/151 (18%), Positives = 59/151 (39%), Gaps = 10/151 (6%)
Query: 504 PLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSIRNKHSL 563
+ L RE L+ + T++ EG P+ ++ + G +K + + + +
Sbjct: 16 DVWSLLNEEERELLDKEIQPFPCKKASTVFSEGDIPNNLFYLYEGKIKILREGVYGRFHI 75
Query: 564 HPVFTHGSNLGLYEVLIGKPYMSD--MVTDSVVLCFFIESDKILSILRSDPAVEDFLWQQ 621
+ G G+ + S V +S VL I + I ++L+ + + +
Sbjct: 76 SRIVKPGQFFGMRPYFAEETCSSTAIAVENSKVL--AIPVEAIEALLKGNTS----FCRY 129
Query: 622 SAIALSRIL--LPQIFEKLTMQDMRALIAER 650
AL++ L + LT + +R +AE
Sbjct: 130 FLKALAKELGYAERRTVTLTQKHVRGRLAET 160
>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 = 41.1 bits (97), Expect = 6e-04
Identities = 20/153 (13%), Positives = 46/153 (30%), Gaps = 7/153 (4%)
Query: 500 ISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSIRN 559
+ + + + L K I+ G + + + ++ G +K S
Sbjct: 1 MGSDKIHHHHHHMDLKKLLPCGKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENG 60
Query: 560 KHSLHPVFTHGSNLGLYEVLIGKPYMSDMV---TDSVVLCFFIESDKILSILRSDPAVED 616
K + + +P V +S +L I + L +L D +
Sbjct: 61 KTLEIDEIKPVQIIASGFIFSSEPRFPVNVVAGENSKIL--SIPKEVFLDLLMKDRELLL 118
Query: 617 FLWQQSAIALSRILLPQIFEKLTMQDMRALIAE 649
F + + + + LT + +R +
Sbjct: 119 FFLKDVSEHFRV--VSEKLFFLTTKTLREKLMN 149
>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 = 41.8 bits (97), Expect = 0.001
Identities = 39/352 (11%), Positives = 92/352 (26%), Gaps = 20/352 (5%)
Query: 474 HDAVQSDLKRLLRNPPLVKFPK----ISDLISAHPLLRELPPSVREPLELSTKEIMKLSG 529
H ++ L PL + + I + + P++ + L G
Sbjct: 14 HSQSSAEWIACLDKRPLERSSEDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLEKG 73
Query: 530 VTLYREGSKPSGIWLISNGVVKWTSKSIRNKHSLHPVFTHGSNLGLYEVLIGKPYMS-DM 588
+TL+R+G + + + G + + + T G E ++ +
Sbjct: 74 ITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQDAVTICTLGIGTAFGESILDNTPRHATI 133
Query: 589 VTDSVVLCFFIESDKILSILRSDPAVEDFL----WQQSAIALSRILLPQIFEKLTMQDMR 644
VT IE + ++ L + + +P + + +R
Sbjct: 134 VTRESSELLRIEQEDFKALWEKYRQYMAGLLAPPYGVMETGSNNDRIPDKENVPSEKILR 193
Query: 645 ALIAERSKMTTCLRGEIIEIPYHCIGFLLEGFIKTHGLQEELITPPAALIPSQGNLSFRS 704
A R + + I + YH + + EL+ +I + R
Sbjct: 194 AGKILRIAILSRAPHMIRDRKYH------LKTYRQCCVGTELVD---WMIQQTSCVHSR- 243
Query: 705 AETSGVEAVSFSHQGSCYLVETRARVIIFDIAAFEADKAVVRRTSSLFSHSSDQPHKSLS 764
+ G V+ + D + +
Sbjct: 244 -TQAVGMWQVLLEDGVLNHVDQERHFQDKYLFYRFLDDEREDAPLPTEEEKKECDEELQD 302
Query: 765 REHGNLMSWPEHFYKARQQKQNSEETDRKANSLSARAMQLSIFGNMVDVQRR 816
P+ + +K + T + + + ++ +R
Sbjct: 303 TMLLLSQMGPDAHMRMILRKPPGQRTVDDLEIIYDELLHIKALSHLSTTVKR 354
>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 = 41.6 bits (97), Expect = 0.001
Identities = 19/138 (13%), Positives = 48/138 (34%), Gaps = 1/138 (0%)
Query: 478 QSDLKRLLRNPPLVKFPKISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGS 537
+ +R+L L K + +S +L L R + + + + G + +G
Sbjct: 228 RDSYRRILMGSTLRKRKMYEEFLSKVSILESLEKWERLTVADALEPVQFEDGEKIVVQGE 287
Query: 538 KPSGIWLISNGVVKWTSKSIRNKHSLH-PVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLC 596
++I+ G + N+ + G +L+ +P + +V + C
Sbjct: 288 PGDDFYIITEGTASVLQRRSPNEEYVEVGRLGPSDYFGEIALLLNRPRAATVVARGPLKC 347
Query: 597 FFIESDKILSILRSDPAV 614
++ + +L +
Sbjct: 348 VKLDRPRFERVLGPCSEI 365
>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 = 40.4 bits (95), Expect = 0.002
Identities = 27/161 (16%), Positives = 49/161 (30%), Gaps = 11/161 (6%)
Query: 495 KISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTS 554
K I + L + E S TL +G K ++ I G V
Sbjct: 43 KAMADIGSMVLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLI 102
Query: 555 KSIRNKHSLHPVFTHGSNLGLYEVLI-GKPYMSD--MVTDSVVLCFFIESDKILSILRSD 611
K K + G +G + G+ + T V I K +++ +
Sbjct: 103 KDEEGKEMILSYLNQGDFIGELGLFEEGQERSAWVRAKTACEVA--EISYKKFRQLIQVN 160
Query: 612 PAVEDFLWQQSAIALSRIL--LPQIFEKLTMQDMRALIAER 650
P + + + ++R L + L + IA+
Sbjct: 161 PD----ILMRLSAQMARRLQVTSEKVGNLAFLLVTGRIAQT 197
>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 = 39.9 bits (94), Expect = 0.002
Identities = 19/165 (11%), Positives = 48/165 (29%), Gaps = 21/165 (12%)
Query: 495 KISDLISAHPLLRELPPSVREPL-ELSTKEIMKLS-GVTLYREGSKPSGIWLISNGVVKW 552
+ D + PL + L + + +K G T+ + G+ + + + G +
Sbjct: 15 TMFDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLLKGEISI 74
Query: 553 TSKSIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMV---TDSVVLCFFIESDKILSILR 609
+ + N +++ + + + T+ + I +LS L
Sbjct: 75 VTNAKENIYTVIEQIEAPYLIEPQSLFGMNTNYASSYVAHTEVHTV--CISKAFVLSDLF 132
Query: 610 SDPAVEDFLWQQSAIALSRIL------LPQIFEKLTMQDMRALIA 648
+ I+ L D+++ I
Sbjct: 133 RYDIF--------RLNYMNIVSNRAQNLYSRLWDEPTLDLKSKII 169
>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 = 39.6 bits (93), Expect = 0.002
Identities = 29/197 (14%), Positives = 75/197 (38%), Gaps = 15/197 (7%)
Query: 434 QVLHVVKTRQVTYSVLNHLIDYIQNLEKVGLLEEKEMLH-LHDAVQSDLKRLLRNPPLVK 492
QV ++ R++ + N ++DY + + + +E+ + + ++++ D+
Sbjct: 16 QVEEYMQYRKLPSHLRNKILDYYEYRYRGKMFDERHIFREVSESIRQDVANYNC------ 69
Query: 493 FPKISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKW 552
DL+++ P + + + + + +EG+ ++ I G+V
Sbjct: 70 ----RDLVASVPFFVGADSNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQGIVDI 125
Query: 553 TSKSIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLCFFIESDKILSILRSDP 612
SL GS G +L + ++ + ++ F + +L P
Sbjct: 126 IMSDGVIATSLSD----GSYFGEICLLTRERRVASVKCETYCTLFSLSVQHFNQVLDEFP 181
Query: 613 AVEDFLWQQSAIALSRI 629
A+ + + + L+RI
Sbjct: 182 AMRKTMEEIAVRRLTRI 198
>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 = 37.7 bits (88), Expect = 0.007
Identities = 32/197 (16%), Positives = 70/197 (35%), Gaps = 19/197 (9%)
Query: 434 QVLHVVKTRQVTYSVLNHLIDYIQNLEKVGLLEEKEMLH-LHDAVQSDLKRLLRNPPLVK 492
QV + ++ + DY ++ + + +E +L L+ ++ +
Sbjct: 17 QVEQYMSFHKLPADFRQKIHDYYEHRYQGKMFDEDSILGELNGPLREKIVNFN------- 69
Query: 493 FPKISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKW 552
L+++ PL P+ + K + G + REG+ ++ I +GVV
Sbjct: 70 ---CRKLVASMPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSV 126
Query: 553 TSKSIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLCFFIESDKILSILRSDP 612
+K + L GS G +L + + D+ + + D +L P
Sbjct: 127 LTKGNKEMK-LSD----GSYFGEICLLTRGRRTASVRADTYCRLYSLSVDNFNEVLEEYP 181
Query: 613 AVEDFLWQQSAIALSRI 629
+ +A+ R+
Sbjct: 182 MMRRAF---ETVAIDRL 195
>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 = 37.2 bits (87), Expect = 0.014
Identities = 19/147 (12%), Positives = 47/147 (31%), Gaps = 10/147 (6%)
Query: 504 PLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSIRNKHSL 563
+ L E + + G + +G++++ +G ++ +
Sbjct: 6 NIANVLLSPDGETFFRGFRSKIHAKGSLVCTGEGDENGVFVVVDGRLR-VYLVGEEREIS 64
Query: 564 HPVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLCFFIESDKILSILRSDPAVEDFLWQQSA 623
T G ++ + + + V F + L++ P++ L
Sbjct: 65 LFYLTSGDMFCMHS-----GCLVEATERTEVR--FADIRTFEQKLQTCPSMAWGLIAILG 117
Query: 624 IALSRILLPQIFEKLTMQDMRALIAER 650
AL+ + + E L D++ IA
Sbjct: 118 RALTSCM--RTIEDLMFHDIKQRIAGF 142
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 35.3 bits (80), Expect = 0.029
Identities = 7/31 (22%), Positives = 15/31 (48%), Gaps = 4/31 (12%)
Query: 522 KEIMKL-SGVTLYREGSKPSGIWLISNGVVK 551
+ + KL + + LY + S P+ L ++
Sbjct: 20 QALKKLQASLKLYADDSAPA---LAIKATME 47
>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 = 35.8 bits (83), Expect = 0.042
Identities = 14/123 (11%), Positives = 37/123 (30%), Gaps = 4/123 (3%)
Query: 529 GVTLYREGSKPSGIWLISNGVVKWTSKSIRNKHSLHPVFTHGSNLGLYEVLIGKP--YMS 586
++ + + +G+ K TS S + + + Y +
Sbjct: 26 KELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYYKGAFVIMSGFIDTETSVGYYN 85
Query: 587 DMVTDSVVLCFFIESDKILSILRSDPAVEDFLWQQSAIALSRILLPQIFEKLTMQDMRAL 646
V + I+ +++ +L + +++Q +S L F ++
Sbjct: 86 LEVISEQATAYVIKINELKELLSKNLTHFFYVFQTLQKQVSYSL--AKFNDFSINGKLGS 143
Query: 647 IAE 649
I
Sbjct: 144 ICS 146
>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 = 35.3 bits (82), Expect = 0.048
Identities = 26/152 (17%), Positives = 47/152 (30%), Gaps = 11/152 (7%)
Query: 504 PLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSIRNKHSL 563
L + E S TL +G K ++ I G V K K +
Sbjct: 2 VLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMI 61
Query: 564 HPVFTHGSNLGLYEVLI-GKPYMSD--MVTDSVVLCFFIESDKILSILRSDPAVEDFLWQ 620
G +G + G+ + T V I K +++ +P +
Sbjct: 62 LSYLNQGDFIGELGLFEEGQERSAWVRAKTACEVA--EISYKKFRQLIQVNPD----ILM 115
Query: 621 QSAIALSRIL--LPQIFEKLTMQDMRALIAER 650
+ + ++R L + L D+ IA+
Sbjct: 116 RLSAQMARRLQVTSEKVGNLAFLDVTGRIAQT 147
>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 = 33.8 bits (78), Expect = 0.081
Identities = 22/121 (18%), Positives = 48/121 (39%), Gaps = 7/121 (5%)
Query: 498 DLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSI 557
L++A PL ++L P+V + + + +G + R G ++ + G V + +
Sbjct: 11 QLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATPNP 70
Query: 558 RNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLCFFIESDKILSILRSDPAVEDF 617
L P G+ G ++ G+P + + + V + S + S P + +
Sbjct: 71 V---ELGP----GAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQMLCSSSPEIAEI 123
Query: 618 L 618
Sbjct: 124 F 124
>2fmy_A COOA, carbon monoxide oxidation system transcription RE COOA-1; DNA
transcription regulator, DNA binding protein; HET: HEM;
2.20A {Carboxydothermus hydrogenoformans} PDB: 2hkx_A*
Length = 220
Score = 34.5 bits (80), Expect = 0.084
Identities = 23/152 (15%), Positives = 52/152 (34%), Gaps = 14/152 (9%)
Query: 500 ISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSIRN 559
++ LL L + +E LY ++ + ++L+ +G V+ + +
Sbjct: 6 LTDTNLLEVLNSEEYSGVLKEFREQRYSKKAILYTPNTERNLVFLVKSGRVR-VYLAYED 64
Query: 560 KHSLHPVFTHGSNLGLYEVLIGKPYMSDM--VTDSVVLCFFIESDKILSILRSDPAVEDF 617
K + G + + + + D+ +L + + +I+ PA
Sbjct: 65 KEFTLAILEAGD-------IFCTHTRAFIQAMEDTTIL--YTDIRNFQNIVVEFPAFSLN 115
Query: 618 LWQQSAIALSRILLPQIFEKLTMQDMRALIAE 649
+ + L I L +D R +AE
Sbjct: 116 MVKVLGDLLKN--SLTIINGLVFKDARLRLAE 145
>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 = 34.6 bits (80), Expect = 0.097
Identities = 18/161 (11%), Positives = 51/161 (31%), Gaps = 8/161 (4%)
Query: 496 ISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSK 555
++ + L E + + ++R G ++ + +G V ++
Sbjct: 9 VTTTVRNATPSLTLDAGTIERFLAHSHRRRYPTRTDVFRPGDPAGTLYYVISGSVSIIAE 68
Query: 556 SIRNKHSLHPVFTHGSNLGLYEVLI-GKPYMSD--MVTDSVVLCFFIESDKILSILRSDP 612
++ + F G +G + I T + I +++ + ++
Sbjct: 69 EDDDRELVLGYFGSGEFVGEMGLFIESDTREVILRTRTQCELA--EISYERLQQLFQTSL 126
Query: 613 AVED-FLWQQSAIALSRIL--LPQIFEKLTMQDMRALIAER 650
+ + + + LS+ L + +L D+ I
Sbjct: 127 SPDAPRILYAIGVQLSKRLLDTTRKASRLAFLDVTDRIVRT 167
>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 = 34.2 bits (79), Expect = 0.12
Identities = 15/123 (12%), Positives = 41/123 (33%), Gaps = 11/123 (8%)
Query: 496 ISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSK 555
++ + + R++ P+ + + T++ G ++ + G VK +
Sbjct: 23 VTQDKALANVFRQMATGAFPPV---VETFER--NKTIFFPGDPAERVYFLLKGAVKLSRV 77
Query: 556 SIRNKHSLHPVFTHGSNLGLYEVLIGKPYMSDM----VTDSVVLCFFIESDKILSILRSD 611
+ + S G+ +L G T +L +++ L+ +
Sbjct: 78 YEAGEEITVALLRENSVFGVLSLLTGNKSDRFYHAVAFTPVELL--SAPIEQVEQALKEN 135
Query: 612 PAV 614
P +
Sbjct: 136 PEL 138
>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling;
HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB:
4avb_A* 4avc_A*
Length = 333
Score = 34.2 bits (78), Expect = 0.17
Identities = 18/125 (14%), Positives = 42/125 (33%), Gaps = 1/125 (0%)
Query: 498 DLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSI 557
+ ++ + + P L S + + +G L R+G LIS+G + +
Sbjct: 13 EDLAGMDVFQGCPAEGLVSLAASVQPLRAAAGQVLLRQGEPAVSFLLISSGSAEVS-HVG 71
Query: 558 RNKHSLHPVFTHGSNLGLYEVLIGKPYMSDMVTDSVVLCFFIESDKILSILRSDPAVEDF 617
+ ++ G +G +L P + + T + + +++ E
Sbjct: 72 DDGVAIIARALPGMIVGEIALLRDSPRSATVTTIEPLTGWTGGRGAFATMVHIPGVGERL 131
Query: 618 LWQQS 622
L
Sbjct: 132 LRTAR 136
>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 = 32.7 bits (75), Expect = 0.33
Identities = 27/203 (13%), Positives = 67/203 (33%), Gaps = 24/203 (11%)
Query: 434 QVLHVVKTRQVTYSVLNHLIDYIQNL--EKVGLLEEKEMLHLHDAVQSDLKRLLRNPPLV 491
+ ++ ++ ++ +++ Q G+ + + D +++D+ L N L+
Sbjct: 20 DLKDFIRVHRLPKALAQRMLECFQTTWSVNNGIDVSELLKDFPDELRADIAMHL-NKELL 78
Query: 492 KFPKISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVK 551
+ PL L L K G L R+G I+ + +G +
Sbjct: 79 Q----------LPLFESASRGCLRSLSLIIKTSFCAPGEFLIRQGDALQAIYFVCSGSM- 127
Query: 552 WTSKSIRNKHSLHPVFTHGSNLGLYEVLI----GKPYMSDMVTDSVVLCFFIESDKILSI 607
+ +++ L + G +G + +++ + +I + +
Sbjct: 128 ---EVLKDNTVLA-ILGKGDLIG--SDSLTKEQVIKTNANVKALTYCDLQYISLKGLREV 181
Query: 608 LRSDPAVEDFLWQQSAIALSRIL 630
LR P + L+ L
Sbjct: 182 LRLYPEYAQKFVSEIQHDLTYNL 204
>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 = 32.7 bits (75), Expect = 0.48
Identities = 13/118 (11%), Positives = 31/118 (26%), Gaps = 5/118 (4%)
Query: 498 DLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVKWTSKSI 557
D A P G + G + + + + G +K
Sbjct: 9 DFCGAIIPDNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFE 68
Query: 558 RNKHSLHPVFTHGSNLGLYEV-LIGKPYMSDMVTDSVVLCFFIESDKILSILRSDPAV 614
L S +G ++ G + + + + + ++ R+D +
Sbjct: 69 DGSEKLLYYAGGNSLIG--KLYPTGNNIYATAMEPTRTC--WFSEKSLRTVFRTDEDM 122
>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 = 31.2 bits (71), Expect = 0.51
Identities = 12/57 (21%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 496 ISDLISAHPLLRELPPSVREPL-ELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVK 551
+ + + P + SVR L + E+++ +G + +G + ++I NG V+
Sbjct: 14 LLEFMHQLPAFANMTMSVRRELCSVMIFEVVEQAGAIILEDGQELDSWYVILNGTVE 70
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding
mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli}
SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*
Length = 758
Score = 32.6 bits (75), Expect = 0.69
Identities = 22/130 (16%), Positives = 46/130 (35%), Gaps = 29/130 (22%)
Query: 385 AFLRAHKIARQQLHDFIG---------DSGIASVVIEESKVEGEDARKFLED-VRVNFPQ 434
+ A AR+ H+F+ + A +E V+ R+ LE + P
Sbjct: 9 SLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALEACSVDLVALRQELEAFIEQTTPV 68
Query: 435 VLHVVKTRQVTYS-----VLNHLIDYIQNLEK---------VGLLEEKE-----MLHLHD 475
+ + R + VL + ++Q+ + V + E+E +L H+
Sbjct: 69 LPASEEERDTQPTLSFQRVLQRAVFHVQSSGRNEVTGANVLVAIFSEQESQAAYLLRKHE 128
Query: 476 AVQSDLKRLL 485
+ D+ +
Sbjct: 129 VSRLDVVNFI 138
>3fes_A ATP-dependent CLP endopeptidase; alpha-helical bundles, structural
genomics, PSI-2, protein S initiative; HET: PG4 EPE;
1.82A {Clostridium difficile}
Length = 145
Score = 30.3 bits (69), Expect = 1.3
Identities = 10/62 (16%), Positives = 22/62 (35%), Gaps = 11/62 (17%)
Query: 385 AFLRAHKIARQQLHDFIG-----------DSGIASVVIEESKVEGEDARKFLEDVRVNFP 433
A A + A+ H+ +G + GIA+ V+ + + D+
Sbjct: 15 AIDLAFESAKSLGHNIVGSEHILLGLLREEEGIAAKVLSKVGFTEAYLEGKIVDMEGKGE 74
Query: 434 QV 435
++
Sbjct: 75 EI 76
>3fh2_A Probable ATP-dependent protease (heat shock prote; struct genomics,
PSI2, MCSG, protein structure initiative; 1.60A
{Corynebacterium glutamicum}
Length = 146
Score = 29.2 bits (66), Expect = 2.8
Identities = 11/55 (20%), Positives = 24/55 (43%), Gaps = 11/55 (20%)
Query: 385 AFLRAHKIARQQLHDFIG-----------DSGIASVVIEESKVEGEDARKFLEDV 428
+ A + AR H++IG G+A+ +E + + R+ +E++
Sbjct: 14 VIVLAQEEARMLNHNYIGTEHILLGLIHEGEGVAAKALESMGISLDAVRQEVEEI 68
>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 = 29.0 bits (65), Expect = 3.3
Identities = 10/56 (17%), Positives = 20/56 (35%)
Query: 496 ISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKPSGIWLISNGVVK 551
S + PL + + + + K + L REG + + I G ++
Sbjct: 4 GSSGVRRVPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLE 59
>3gl3_A Putative thiol:disulfide interchange protein DSBE; oxidoreductase,
PSI-II, structural genomics, protein structure
initiative; 2.09A {Chlorobium tepidum tls}
Length = 152
Score = 29.2 bits (66), Expect = 3.4
Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 5/44 (11%)
Query: 395 QQLHDFIGDSG--IASVVIEESKVEGEDARKFLEDVRVNFPQVL 436
Q+ G + +V ++ DA KFL V F
Sbjct: 51 NQMQAKYKAKGFQVVAVNLDAKT---GDAMKFLAQVPAEFTVAF 91
>2y1q_A CLPC N-domain, negative regulator of genetic competence CLPC/MEC;
transcription, proteolysis; 1.50A {Bacillus subtilis}
PDB: 2y1r_A* 2k77_A
Length = 150
Score = 29.2 bits (66), Expect = 3.6
Identities = 11/55 (20%), Positives = 21/55 (38%), Gaps = 11/55 (20%)
Query: 385 AFLRAHKIARQQLHDFIG-----------DSGIASVVIEESKVEGEDARKFLEDV 428
A + A + H+ IG GIA+ ++ + E +K +E +
Sbjct: 13 VLALAQEEALRLGHNNIGTEHILLGLVREGEGIAAKALQALGLGSEKIQKEVESL 67
>3acz_A Methionine gamma-lyase; L-methionine; HET: LLP; 1.97A {Entamoeba
histolytica} PDB: 3aej_A* 3ael_A* 3aem_A* 3aen_A*
3aeo_A* 3aep_A*
Length = 389
Score = 29.4 bits (67), Expect = 5.0
Identities = 9/41 (21%), Positives = 19/41 (46%), Gaps = 7/41 (17%)
Query: 390 HKIARQQLHDFIGDSGIASVVIEESKVEGEDARKFLEDVRV 430
H IA++Q+ + ++ E A+K +E ++V
Sbjct: 293 HDIAKKQMTGY---GSTFLFEMKS----FEAAKKLMEHLKV 326
>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 = 28.8 bits (65), Expect = 5.3
Identities = 12/89 (13%), Positives = 28/89 (31%), Gaps = 11/89 (12%)
Query: 463 GLLEEKEMLH-LHDAVQSDLKRLLRNPPLVKFPKISDLISAHPLLRELPPSVREPLELST 521
G +++L +++D+ L + HP R L +
Sbjct: 1 GSHMTEKVLQICPKDMRADICVHLN----------RKVFKEHPAFRLASDGCLRALAMEF 50
Query: 522 KEIMKLSGVTLYREGSKPSGIWLISNGVV 550
+ + G +Y G + + +G +
Sbjct: 51 QTVHCAPGDLIYHAGESVDSLCFVVSGSL 79
>1pff_A Methionine gamma-lyase; homocysteine; 2.50A {Trichomonas vaginalis}
SCOP: c.67.1.3
Length = 331
Score = 29.4 bits (67), Expect = 5.5
Identities = 10/41 (24%), Positives = 21/41 (51%), Gaps = 7/41 (17%)
Query: 390 HKIARQQLHDFIGDSGIASVVIEESKVEGEDARKFLEDVRV 430
H+IA++Q+ F + + ++ E A+K L++ V
Sbjct: 234 HEIAKKQMKMF---GSMIAFDVDG----LEKAKKVLDNCHV 267
>2wwb_A Protein transport protein SEC61 subunit alpha ISO; ribosome,
protein EXIT tunnel, cotranslational protein
translocation, protein conducting channel; 6.48A {Canis
lupus familiaris}
Length = 476
Score = 29.6 bits (66), Expect = 5.6
Identities = 19/85 (22%), Positives = 33/85 (38%), Gaps = 2/85 (2%)
Query: 115 GYLILLYIFVQVSRLFVVGTLYPVLRNFGYGLEWKEAIILVWSGLRGAVALSLSLSVKRS 174
G I L+I + V P N G G+E++ AII ++ L +L
Sbjct: 176 GSGISLFIATNICETIVWKAFSPTTVNTGRGMEFEGAIIALFHLLATRTDKVRALREAFY 235
Query: 175 SGGSSLITSETGTLFVFFTGGIVFL 199
+ + T+FVF +++
Sbjct: 236 RQNLPNLMNLIATIFVFA--VVIYF 258
>2f9s_A Thiol-disulfide oxidoreductase RESA; thioredoxin-like protein; HET:
MSE; 1.40A {Bacillus subtilis} SCOP: c.47.1.10 PDB:
1st9_A 1su9_A 2h1d_A 2h1b_A 2h1a_A 2h19_A 2h1g_A 3c71_A
3c73_A
Length = 151
Score = 28.4 bits (64), Expect = 5.8
Identities = 13/44 (29%), Positives = 18/44 (40%), Gaps = 5/44 (11%)
Query: 395 QQLHDFIGDSG--IASVVIEESKVEGEDARKFLEDVRVNFPQVL 436
+ G I +V + ESK F++ VNFP VL
Sbjct: 49 ANQYKHFKSQGVEIVAVNVGESK---IAVHNFMKSYGVNFPVVL 89
>1gc0_A Methionine gamma-lyase; pyridoxal-5'-phosphate; HET: LLP; 1.70A
{Pseudomonas putida} SCOP: c.67.1.3 PDB: 1gc2_A* 1pg8_A*
1ukj_A* 2o7c_A*
Length = 398
Score = 29.4 bits (67), Expect = 6.2
Identities = 7/41 (17%), Positives = 19/41 (46%), Gaps = 6/41 (14%)
Query: 390 HKIARQQLHDFIGDSGIASVVIEESKVEGEDARKFLEDVRV 430
+ +ARQQ+ G+ + ++ R+F+ +++
Sbjct: 300 YTLARQQMSQP---GGMIAFELKGGI---GAGRRFMNALQL 334
>1r7j_A Conserved hypothetical protein SSO10A; winged helix-turn-helix,
two-stranded antiparallel coiled CO structural genomics,
PSI; 1.47A {Sulfolobus solfataricus} SCOP: a.4.5.49 PDB:
1xsx_A
Length = 95
Score = 27.5 bits (61), Expect = 6.7
Identities = 7/32 (21%), Positives = 17/32 (53%), Gaps = 2/32 (6%)
Query: 440 KTRQVTYSVLNH--LIDYIQNLEKVGLLEEKE 469
KTR + + L++ YI+ L + ++ ++
Sbjct: 23 KTRIMYGANLSYALTGRYIKMLMDLEIIRQEG 54
>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 = 27.7 bits (62), Expect = 8.6
Identities = 12/72 (16%), Positives = 29/72 (40%), Gaps = 7/72 (9%)
Query: 487 NPPLVKFPK-------ISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKP 539
+ L +PK I + I + ++ L S + + + + +EG
Sbjct: 5 HVTLPFYPKSPQSKDLIKEAILDNDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVG 64
Query: 540 SGIWLISNGVVK 551
S ++++ +G V+
Sbjct: 65 SLVYVMEDGKVE 76
>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 = 28.1 bits (63), Expect = 9.6
Identities = 10/72 (13%), Positives = 21/72 (29%), Gaps = 7/72 (9%)
Query: 487 NPPLVKFPK-------ISDLISAHPLLRELPPSVREPLELSTKEIMKLSGVTLYREGSKP 539
+ PK + + L + L P + + E + G + +G
Sbjct: 20 AESRIIHPKTDDQRNRLQEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDG 79
Query: 540 SGIWLISNGVVK 551
++I G
Sbjct: 80 DNFYVIDRGTFD 91
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
0.321 0.136 0.394
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: 13,801,678
Number of extensions: 855324
Number of successful extensions: 1556
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1531
Number of HSP's successfully gapped: 69
Length of query: 914
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 812
Effective length of database: 3,853,851
Effective search space: 3129327012
Effective search space used: 3129327012
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 (21.9 bits)
S2: 62 (27.7 bits)