RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780526|ref|YP_003064939.1| putative transcription
regulator protein [Candidatus Liberibacter asiaticus str. psy62]
(223 letters)
>2oqr_A Sensory transduction protein REGX3; response regulator,
winged-helix-turn-helix, DNA-binding, 3D domain
swapping; 2.03A {Mycobacterium tuberculosis H37RV}
Length = 230
Score = 103 bits (257), Expect = 4e-23
Identities = 56/224 (25%), Positives = 103/224 (45%), Gaps = 9/224 (4%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+++D + D L +G L R + L+ G ++
Sbjct: 9 IVEDEESLADPLAFLLRKEGFEATVVTD--GPAALAEFDRAGADIVLLDLMLPGMSGTDV 66
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRL---- 119
+ +RA S VP+I ++ S + + G DD V KP RE++AR+ A+ RR
Sbjct: 67 CKQLRARSSVPVIMVTARDSEIDKVVGLELGADDYVTKPYSARELIARIRAVLRRGGDDD 126
Query: 120 -KVSNNRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIY 178
++S+ E+GP+R+ + V G+ LP +E +LEYLM N G+ + + Q+ ++
Sbjct: 127 SEMSDGVLESGPVRMDVERHVVSVNGDTITLPLKEFDLLEYLMRNSGRVLTRGQLIDRVW 186
Query: 179 GLFDEAVEENVVESHISKLRKKLR-NKLGFDPVDSKRFLGYSID 221
G D + ++ H+ +LR K+ + + + R LGY ++
Sbjct: 187 G-ADYVGDTKTLDVHVKRLRSKIEADPANPVHLVTVRGLGYKLE 229
>1kgs_A DRRD, DNA binding response regulator D; DNA-binding protein,
ALPH-beta sandwich, winged-helix, helix-turn-helix, DNA
binding protein; HET: DNA MSE; 1.50A {Thermotoga
maritima} SCOP: a.4.6.1 c.23.1.1
Length = 225
Score = 79.9 bits (196), Expect = 4e-16
Identities = 46/217 (21%), Positives = 98/217 (45%), Gaps = 5/217 (2%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEA-FLIGKGEKVLE 62
+++D + D + +++ EE + + E + ++ +
Sbjct: 7 VVEDERDLADLITEALKKEMFTVDVCYD--GEEGMYMALNEPFDVVILDIMLPVHDGWEI 64
Query: 63 LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKVS 122
L + + P++ ++ ++ + + G DD + KP RE++ARV A+ RR S
Sbjct: 65 LKSMRESGVNTPVLMLTALSDVEYRVKGLNMGADDYLPKPFDLRELIARVRALIRRKSES 124
Query: 123 -NNRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLF 181
+ + G + + + + + L ++E +ILEYL+ N+ + V K ++ ++ F
Sbjct: 125 KSTKLVCGDLILDTATKKAYRGSKEIDLTKKEYQILEYLVMNKNRVVTKEELQEHLWS-F 183
Query: 182 DEAVEENVVESHISKLRKKLRNKLGFDPVDSKRFLGY 218
D+ V +V+ SHI LRKK+ + + R +GY
Sbjct: 184 DDEVFSDVLRSHIKNLRKKVDKGFKKKIIHTVRGIGY 220
>1p2f_A Response regulator; DRRB, OMPR/PHOB, transcription; HET: MSE; 1.80A
{Thermotoga maritima} SCOP: a.4.6.1 c.23.1.1
Length = 220
Score = 77.1 bits (189), Expect = 3e-15
Identities = 44/217 (20%), Positives = 90/217 (41%), Gaps = 12/217 (5%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGK-GEKVLE 62
++DD + G E++L V ++ L G ++
Sbjct: 7 VVDDDKNILKKVSEKLQQLGRVKTFLTG---EDFLNDEEAFHVVVLDVMLPDYSGYEICR 63
Query: 63 LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKVS 122
+ + + +I ++ ++ L F++G DD V KP + +LARV R K
Sbjct: 64 MIK--ETRPETWVILLTLLSDDESVLKGFEAGADDYVTKPFNPEILLARVKRFLEREK-- 119
Query: 123 NNRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFD 182
+ G +++ + G ++G+ LP++E IL +L N GK V + ++ +
Sbjct: 120 KGLYDFGDLKIDATGFTVFLKGKRIHLPKKEFEILLFLAENAGKVVTREKLLETFWE--- 176
Query: 183 EAVEENVVESHISKLRKKLRNKLGF-DPVDSKRFLGY 218
+ V VV++ I ++RK + + + + +GY
Sbjct: 177 DPVSPRVVDTVIKRIRKAIEDDPNRPRYIKTIWGVGY 213
>2gwr_A DNA-binding response regulator MTRA; two-component regulatory
system, transcription regulation, phosphorylation, OMPR
family; 2.10A {Mycobacterium tuberculosis}
Length = 238
Score = 75.6 bits (185), Expect = 9e-15
Identities = 42/217 (19%), Positives = 85/217 (39%), Gaps = 5/217 (2%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
++DD A + + + +G + L + + L+ G +++
Sbjct: 10 VVDDDASLAEMLTIVLRGEGFDTAVIGD--GTQALTAVRELRPDLVLLDLMLPGMNGIDV 67
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRL-KVS 122
R++RA S VP++ ++ + +SG DD + KP +E++ARV A RR
Sbjct: 68 CRVLRADSGVPIVMLTAKTDTVDVVLGLESGADDYIMKPFKPKELVARVRARLRRNDDEP 127
Query: 123 NNRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFD 182
+ + GE L E +L L + + + ++G +
Sbjct: 128 AEMLSIADVEIDVPAHKVTRNGEQISLTPLEFDLLVALARKPRQVFTRDVLLEQVWG-YR 186
Query: 183 EAVEENVVESHISKLRKKL-RNKLGFDPVDSKRFLGY 218
+ +V H+ +LR K+ ++ V + R +GY
Sbjct: 187 HPADTRLVNVHVQRLRAKVEKDPENPTVVLTVRGVGY 223
>1ys7_A Transcriptional regulatory protein PRRA; response regulator, DNA
binding domain, phosphorylation; 1.58A {Mycobacterium
tuberculosis} SCOP: a.4.6.1 c.23.1.1 PDB: 1ys6_A
Length = 233
Score = 68.4 bits (166), Expect = 1e-12
Identities = 54/222 (24%), Positives = 97/222 (43%), Gaps = 8/222 (3%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
++DD + V G + E L+S+ AI + + +
Sbjct: 12 VVDDDSDVLASLERGLRLSGFEVATAVD--GAEALRSATENRPDAIVLDINMPVLDGVSV 69
Query: 64 PRIIRAH-SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKVS 122
+RA + VP+ +S S+ + ++G DD + KP E++ARV A+ RR +
Sbjct: 70 VTALRAMDNDVPVCVLSARSSVDDRVAGLEAGADDYLVKPFVLAELVARVKALLRRRGST 129
Query: 123 NNRA----ETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIY 178
+ GP+ V GR V G L +RE +L L ++ +++ Q+ ++
Sbjct: 130 ATSSSETITVGPLEVDIPGRRARVNGVDVDLTKREFDLLAVLAEHKTAVLSRAQLLELVW 189
Query: 179 GLFDEAVEENVVESHISKLRKKLRNKLGFDPVDSKRFLGYSI 220
G +D A + NVV+ I LR+KL G + + R +G+ +
Sbjct: 190 G-YDFAADTNVVDVFIGYLRRKLEAGGGPRLLHTVRGVGFVL 230
>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide
repeat, beta-sandwich, transcription; HET: DNA TPO;
1.90A {Mycobacterium tuberculosis H37RV} SCOP: a.4.6.1
a.118.8.3 b.26.1.2 PDB: 2fez_A*
Length = 388
Score = 59.6 bits (143), Expect = 5e-10
Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 6/74 (8%)
Query: 129 GPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVEEN 188
GP+++ DG V ++R +L L+ NR + V + +A++ + +
Sbjct: 17 GPLQMTIDGT------PVPSGTPKQRAVLAMLVINRNRPVGVDALITALWEEWPPSGARA 70
Query: 189 VVESHISKLRKKLR 202
+ S++S LRK L
Sbjct: 71 SIHSYVSNLRKLLG 84
>1a04_A Nitrate/nitrite response regulator protein NARL; signal
transduction protein, response regulators, two-
component systems; 2.20A {Escherichia coli} SCOP:
a.4.6.2 c.23.1.1 PDB: 1rnl_A
Length = 215
Score = 59.9 bits (144), Expect = 5e-10
Identities = 35/202 (17%), Positives = 76/202 (37%), Gaps = 16/202 (7%)
Query: 3 VLIDDRALVKDG---YIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEK 59
+LIDD +++ G I++ D V E N + E +S + + G +
Sbjct: 9 LLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLE 68
Query: 60 VLELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRL 119
L+ R ++ + +S++ + + G D + K + ++L +
Sbjct: 69 TLDKLREKSLSGRIVVFSVSNHE--EDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGE 126
Query: 120 KVSNNRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYG 179
V + A T + + +V L RER IL+ + ++ ++
Sbjct: 127 MVLSE-ALTPVLAASLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLD----- 180
Query: 180 LFDEAVEENVVESHISKLRKKL 201
+ E+ V+ H+ + KK+
Sbjct: 181 -----ITESTVKVHVKHMLKKM 197
>2jzy_A Transcriptional regulatory protein PCOR; two-component-system
response regulator, effector domain, DNA-binding,
phosphoprotein, plasmid; NMR {Klebsiella pneumoniae}
Length = 112
Score = 59.5 bits (144), Expect = 6e-10
Identities = 19/93 (20%), Positives = 42/93 (45%), Gaps = 1/93 (1%)
Query: 129 GPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVEEN 188
+ V R G+ L +E +LE L+ G+ + ++ I S ++ + + N
Sbjct: 9 ADMTVDMVRRTVIRSGKKIHLTGKEYVLLELLLQRTGEVLPRSLISSLVWN-MNFDSDTN 67
Query: 189 VVESHISKLRKKLRNKLGFDPVDSKRFLGYSID 221
V++ + +LR K+ + + + R GY ++
Sbjct: 68 VIDVAVRRLRSKIDDDFEPKLIHTVRGAGYVLE 100
>2k4j_A Putative transcriptional regulator; response regulator, acid
resistance, DNA-binding, phosphoprotein, transcription
regulation; NMR {Helicobacter pylori J99}
Length = 115
Score = 56.1 bits (135), Expect = 7e-09
Identities = 21/97 (21%), Positives = 40/97 (41%), Gaps = 2/97 (2%)
Query: 126 AETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAV 185
+ RV D R+ + + L R E IL L++ +G ++ I +
Sbjct: 19 GDANIFRVDKDSREVYMHEKKLDLTRAEYEILSLLISKKGYVFSRESIAIESES-INPES 77
Query: 186 EENVVESHISKLRKKL-RNKLGFDPVDSKRFLGYSID 221
++ I +LR K+ +N + S R +GY ++
Sbjct: 78 SNKSIDVIIGRLRSKIEKNPKQPQYIISVRGIGYKLE 114
>2hqr_A Putative transcriptional regulator; phosporylation-independent
response regulator, H. pylori, symmetric dimer,
signaling protein; NMR {Helicobacter pylori J99}
Length = 223
Score = 55.8 bits (133), Expect = 7e-09
Identities = 28/87 (32%), Positives = 48/87 (55%), Gaps = 8/87 (9%)
Query: 132 RVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVEENVVE 191
++ GR+ EV+G+ F +L +L +R + V+K Q+ AI+ E V NV+E
Sbjct: 134 KIIYKGREVEVKGKPF-------EVLTHLARHRDQIVSKEQLLDAIWE-EPEMVTPNVIE 185
Query: 192 SHISKLRKKLRNKLGFDPVDSKRFLGY 218
I+++R+K+ LG V++ R GY
Sbjct: 186 VAINQIRQKMDKPLGISTVETVRRRGY 212
>3klo_A Transcriptional regulator VPST; REC domain, HTH domain,
DNA-binding, transcription regulation; HET: C2E TAR;
2.80A {Vibrio cholerae} PDB: 3kln_A*
Length = 225
Score = 55.1 bits (132), Expect = 1e-08
Identities = 28/202 (13%), Positives = 65/202 (32%), Gaps = 13/202 (6%)
Query: 3 VLIDDRALVKDG---YIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEK 59
++ D + + + + F+ L EE S + I+ I
Sbjct: 11 RMLSDVCMQSRLLKEALESKLPLALEITPFSELWLEENKPESRSIQMLVIDYSRISDDVL 70
Query: 60 VLELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRL 119
+ + I+ ++ L F + + V ++ ++ I +
Sbjct: 71 TDYSSFKHISCPDAKEVIINCPQDIEHKLLFKWNNLAGVFYIDDDMDTLIKGMSKILQDE 130
Query: 120 KVSNNRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYG 179
+ I + G L +RE++I++ L + +I ++
Sbjct: 131 MWLTRKLAQEYILHYRAGNSVVTSQMYAKLTKREQQIIKLLGSGASNI----EIADKLF- 185
Query: 180 LFDEAVEENVVESHISKLRKKL 201
V EN V++H+ + KK+
Sbjct: 186 -----VSENTVKTHLHNVFKKI 202
>1gxq_A PHOB, phosphate regulon transcriptional regulatory protein;
transcriptional activator, helix-winged-helix, sensory
transduction; 2.0A {Escherichia coli} SCOP: a.4.6.1 PDB:
1gxp_A 1qqi_A 2z33_A
Length = 106
Score = 53.4 bits (128), Expect = 4e-08
Identities = 20/92 (21%), Positives = 39/92 (42%), Gaps = 1/92 (1%)
Query: 127 ETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVE 186
E + + E + E ++L + M + + ++ Q+ + ++G + VE
Sbjct: 10 EMQGLSLDPTSHRVMAGEEPLEMGPTEFKLLHFFMTHPERVYSREQLLNHVWG-TNVYVE 68
Query: 187 ENVVESHISKLRKKLRNKLGFDPVDSKRFLGY 218
+ V+ HI +LRK L V + R GY
Sbjct: 69 DRTVDVHIRRLRKALEPGGHDRMVQTVRGTGY 100
>2a9o_A Response regulator; essential protein, YYCF/YYCG homolog, signaling
protein; 1.65A {Streptococcus pneumoniae} SCOP: c.23.1.1
PDB: 1nxo_A 1nxs_A 1nxv_A 1nxw_A 1nxx_A 1nxp_A 2a9p_A
2a9q_A 1nxt_A* 2a9r_A*
Length = 120
Score = 53.4 bits (128), Expect = 4e-08
Identities = 32/115 (27%), Positives = 50/115 (43%), Gaps = 2/115 (1%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
++DD + D +G + + E L+ E I L+ LE+
Sbjct: 6 IVDDEKPISDIIKFNMTKEGYEVVTAFN--GREALEQFEAEQPDIIILDLMLPEIDGLEV 63
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
+ IR S VP++ +S S + + G DD V KP +RE+ ARV A+ RR
Sbjct: 64 AKTIRKTSSVPILMLSAKDSEFDKVIGLELGADDYVTKPFSNRELQARVKALLRR 118
>1opc_A OMPR, OMPRC; transcription regulation, response regulator, winged
helix, osmoregulation; 1.95A {Escherichia coli} SCOP:
a.4.6.1 PDB: 1odd_A 2jpb_A
Length = 110
Score = 52.6 bits (126), Expect = 7e-08
Identities = 17/91 (18%), Positives = 43/91 (47%), Gaps = 2/91 (2%)
Query: 129 GPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVEEN 188
G ++ R+ + E PL E +L+ L+++ + +++ ++ + G + + E
Sbjct: 12 GKFKLNLGTREMFREDEPMPLTSGEFAVLKALVSHPREPLSRDKLMNLARG-REYSAMER 70
Query: 189 VVESHISKLRKKL-RNKLGFDPVDSKRFLGY 218
++ IS+LR+ + + + + LGY
Sbjct: 71 SIDVQISRLRRMVEEDPAHPRYIQTVWGLGY 101
>3h5i_A Response regulator/sensory box protein/ggdef domain protein;
structural genomics, transcription, PSI-2; 1.90A
{Carboxydothermus hydrogenoformans z-2901}
Length = 140
Score = 52.0 bits (124), Expect = 1e-07
Identities = 15/124 (12%), Positives = 41/124 (33%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+++D + G ++E + E S + +G+G ++
Sbjct: 10 IVEDSKFQAKTIANILNKYGYTVEIALTGEAAVEKVSGGWYPDLILMDIELGEGMDGVQT 69
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKVSN 123
I+ S++P++ ++ + V K + ++ V R + +
Sbjct: 70 ALAIQQISELPVVFLTAHTEPAVVEKIRSVTAYGYVMKSATEQVLITIVEMALRLYEANV 129
Query: 124 NRAE 127
+ E
Sbjct: 130 HANE 133
>3luf_A Two-component system response regulator/ggdef domain protein;
structural genomics, ASA_2441, PSI-2, protein structure
initiative; HET: MSE; 1.76A {Aeromonas salmonicida} PDB:
3mf4_A*
Length = 259
Score = 51.6 bits (123), Expect = 1e-07
Identities = 17/67 (25%), Positives = 31/67 (46%), Gaps = 3/67 (4%)
Query: 61 LELPRIIRAH---SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYR 117
+ L R++R Q+ +IGIS + + G +D +N+P E+ RV+
Sbjct: 185 ISLVRMLRERYSKQQLAIIGISVSDKRGLSARYLKQGANDFLNQPFEPEELQCRVSHNLE 244
Query: 118 RLKVSNN 124
L+ N+
Sbjct: 245 ALEQFNS 251
>3crn_A Response regulator receiver domain protein, CHEY- like; structural
genomics, signal regulator receiver domain; HET: PHD;
1.58A {Methanospirillum hungatei jf-1}
Length = 132
Score = 51.3 bits (122), Expect = 2e-07
Identities = 17/115 (14%), Positives = 45/115 (39%), Gaps = 1/115 (0%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
++DD + D + +G +E + + +++ L L
Sbjct: 8 IVDDDTAILDSTKQILEFEGYEVEIAATAGEGLAKIENEFFNLALFXIKLPDMEGTELLE 67
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
+ + + I ++ Y SL+ ++ ++G D + KP++ R++L ++
Sbjct: 68 -KAHKLRPGMKKIMVTGYASLENSVFSLNAGADAYIMKPVNPRDLLEKIKEKLDE 121
>2zwm_A Transcriptional regulatory protein YYCF; two-component system,
response regulator, dimerization domain, phosphorylation
site, cytoplasm; 2.04A {Bacillus subtilis}
Length = 130
Score = 49.5 bits (118), Expect = 6e-07
Identities = 21/58 (36%), Positives = 31/58 (53%)
Query: 61 LELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
+E+ R +R +P+I ++ S + + G DD V KP RE+LARV A RR
Sbjct: 62 VEVCREVRKKYDMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTRELLARVKANLRR 119
>3cg0_A Response regulator receiver modulated diguanylate cyclase with
PAS/PAC sensor; signal receiver domain; 2.15A
{Desulfovibrio desulfuricans subsp}
Length = 140
Score = 49.3 bits (117), Expect = 7e-07
Identities = 15/118 (12%), Positives = 36/118 (30%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+++D L G + G E + A+ ++ +E
Sbjct: 14 IVEDGRLAAATLRIQLESLGYDVLGVFDNGEEAVRCAPDLRPDIALVDIMLCGALDGVET 73
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKV 121
+ A +P+I I+ ++T + KP+ + + + K+
Sbjct: 74 AARLAAGCNLPIIFITSSQDVETFQRAKRVNPFGYLAKPVAADTLHRSIEMAIHKKKL 131
>3c3w_A Two component transcriptional regulatory protein DEVR; response
regulator, two-component regulatory system, DNA- binding
protein; 2.20A {Mycobacterium tuberculosis}
Length = 225
Score = 49.2 bits (116), Expect = 7e-07
Identities = 38/202 (18%), Positives = 71/202 (35%), Gaps = 17/202 (8%)
Query: 3 VLIDDRALVKDGYIALFGDDG---VSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEK 59
L+DD +V+ G + L G D V E + E + ++ + G G +
Sbjct: 5 FLVDDHEVVRRGLVDLLGADPELDVVGEAGSVAEAMARVPAARPDVAVLDVRLPDGNGIE 64
Query: 60 VLELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRL 119
+ ++ + + ++ Y S + LD +G V K I E+ A
Sbjct: 65 LCR--DLLSRMPDLRCLILTSYTSDEAMLDAILAGASGYVVKDIKGMEL--ARAVKDVGA 120
Query: 120 KVSNNRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYG 179
S + E Q + L +ER +L L + ++F
Sbjct: 121 GRSLLDNRAAAALMAKLRGAAEKQDPLSGLTDQERTLLGLLSEGLTNKQIADRMF----- 175
Query: 180 LFDEAVEENVVESHISKLRKKL 201
+ E V++++S+L KL
Sbjct: 176 -----LAEKTVKNYVSRLLAKL 192
>1s8n_A Putative antiterminator; structural genomics, transcriptional
antiterminator, two component system, PSI; 1.48A
{Mycobacterium tuberculosis H37RV} SCOP: c.23.1.1 PDB:
1sd5_A
Length = 205
Score = 49.1 bits (116), Expect = 7e-07
Identities = 19/176 (10%), Positives = 60/176 (34%), Gaps = 12/176 (6%)
Query: 4 LIDDRALVKDGYIALFGDDG--VSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVL 61
+ +D AL++ + ++G + E + E E + + D+ ++ + + +
Sbjct: 18 IAEDEALIRMDLAEMLREEGYEIVGEAGDGQEAVELAEL-HKPDLVIMDVKMPRR--DGI 74
Query: 62 ELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKV 121
+ I + P++ ++ + D+G + KP +++ + R +
Sbjct: 75 DAASEIASKRIAPIVVLTAFSQRDLVERARDAGAMAYLVKPFSISDLIPAIELAVSRFRE 134
Query: 122 SN-------NRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAK 170
+E R + +Q + + ++ +R + +
Sbjct: 135 ITALEGEVATLSERLETRKLVERAKGLLQTKHGMTEPDAFKWIQRAAMDRRTTMKR 190
>3hzh_A Chemotaxis response regulator (CHEY-3); phosphatase, complex,
response regulator, receiver domain, two-component
signal transduction; HET: BFD; 1.96A {Borrelia
burgdorferi}
Length = 157
Score = 48.4 bits (115), Expect = 1e-06
Identities = 18/118 (15%), Positives = 41/118 (34%), Gaps = 4/118 (3%)
Query: 4 LIDDRALVKDGYIALFGDDG--VSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVL 61
++DD +F +G + + E ++ ++ + + +
Sbjct: 41 IVDDSVFTVKQLTQIFTSEGFNIIDTAADGEEAVIKYKNH-YPNIDIVTLXITMPKMDGI 99
Query: 62 E-LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
L I+ +I IS Q D G + KP+ ++L RV +++ +
Sbjct: 100 TCLSNIMEFDKNARVIMISALGKEQLVKDCLIKGAKTFIVKPLDRAKVLQRVMSVFVK 157
>2pl1_A Transcriptional regulatory protein PHOP; CHEY-like fold, response
regulator, beryllium fluoride, transcription factor,
activated, virulence; 1.90A {Escherichia coli} SCOP:
c.23.1.1 PDB: 2pkx_A
Length = 121
Score = 48.6 bits (115), Expect = 1e-06
Identities = 27/119 (22%), Positives = 57/119 (47%), Gaps = 2/119 (1%)
Query: 1 MFVLI-DDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEK 59
M VL+ +D AL++ D G ++ + ++ + D++ ++ L + +
Sbjct: 1 MRVLVVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHIPDIAIVDLGLPDE-DG 59
Query: 60 VLELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
+ + R +P++ ++ S Q ++ +G DD V KP H E++AR+ A+ RR
Sbjct: 60 LSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRR 118
>2jba_A Phosphate regulon transcriptional regulatory protein PHOB;
transcription factor, sensory transduction, phosphate
regulation; 1.45A {Escherichia coli} PDB: 2jba_B 1b00_A
2iyn_A 2jb9_A 1zes_A
Length = 127
Score = 48.4 bits (115), Expect = 1e-06
Identities = 19/119 (15%), Positives = 52/119 (43%), Gaps = 5/119 (4%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+++D A +++ + +G +++ + I + G ++
Sbjct: 7 VVEDEAPIREMVCFVLEQNGFQPVEAE--DYDSAVNQLNEPWPDLILLAWMLPGGSGIQF 64
Query: 64 PRIIRAHSQ---VPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRL 119
+ +R S +P++ ++ + + ++G DD + KP +E++AR+ A+ RR+
Sbjct: 65 IKHLRRESMTRDIPVVMLTARGEEEDRVRGLETGADDCITKPFSPKELVARIKAVMRRI 123
>3cg4_A Response regulator receiver domain protein (CHEY- like); structural
genomics, unknown function, uncharacterized protein;
HET: MSE; 1.61A {Methanospirillum hungatei jf-1}
Length = 142
Score = 48.2 bits (114), Expect = 2e-06
Identities = 15/118 (12%), Positives = 40/118 (33%), Gaps = 1/118 (0%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGK-GEKVLE 62
++DD A V+ + D G + +S L V ++ + G G +
Sbjct: 12 IVDDDAHVRIAVKTILSDAGFHIISADSGGQCIDLLKKGFSGVVLLDIMMPGMDGWDTIR 71
Query: 63 LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLK 120
+ ++ ++ + + V D + KP + +++ + ++
Sbjct: 72 AILDNSLEQGIAIVMLTAKNAPDAKMIGLQEYVVDYITKPFDNEDLIEKTTFFMGFVR 129
>3hdv_A Response regulator; PSI-II, structural genomics, protein structure
initiative, NEW YORK SGX research center for structural
genomics; 2.09A {Pseudomonas putida KT2440}
Length = 136
Score = 48.0 bits (114), Expect = 2e-06
Identities = 27/117 (23%), Positives = 52/117 (44%), Gaps = 3/117 (2%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
++DD A+ ++ I G+ G + E E L ++ + + L + E L+L
Sbjct: 12 VVDDNAVNREALILYLKSRGIDAVGADGAE-EARLYLHYQKRIGLMITDLRMQPESGLDL 70
Query: 64 PRIIRA--HSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
R IRA + + +I +S ++ +D GV D + KP+ ++L V +
Sbjct: 71 IRTIRASERAALSIIVVSGDTDVEEAVDVMHLGVVDFLLKPVDLGKLLELVNKELKI 127
>3f6p_A Transcriptional regulatory protein YYCF; unphosphorelated, receiver
domain, cytoplasm, DNA-binding, phosphoprotein,
transcription regulation; 1.95A {Bacillus subtilis} PDB:
2zwm_A
Length = 120
Score = 47.6 bits (114), Expect = 2e-06
Identities = 21/58 (36%), Positives = 31/58 (53%)
Query: 61 LELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
+E+ R +R +P+I ++ S + + G DD V KP RE+LARV A RR
Sbjct: 62 VEVCREVRKKYDMPIIMLTAKDSEIDKVIGLEIGADDYVTKPFSTRELLARVKANLRR 119
>1yio_A Response regulatory protein; transcription regulation, DNA binding
protein; 2.20A {Pseudomonas fluorescens} SCOP: a.4.6.2
c.23.1.1 PDB: 1zn2_A
Length = 208
Score = 47.6 bits (112), Expect = 2e-06
Identities = 29/199 (14%), Positives = 69/199 (34%), Gaps = 23/199 (11%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNS-LEFEEWLQSSAREDVSAIEAFLIGKGEKVLE 62
++DD V++G L G +E F+ F E + + G ++ E
Sbjct: 9 VVDDDMSVREGLRNLLRSAGFEVETFDCASTFLEHRRPEQHGCLVLDMRMPGMSGIELQE 68
Query: 63 LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKVS 122
+P++ I+ + + T+ +G + + KP + +L + +
Sbjct: 69 QLT--AISDGIPIVFITAHGDIPMTVRAMKAGAIEFLPKPFEEQALLDAIEQGLQL---- 122
Query: 123 NNRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFD 182
R + +++ L RE+++L+ + + ++
Sbjct: 123 ------NAERRQARETQDQLEQLFSSLTGREQQVLQLTIRGLMNKQIAGELG-------- 168
Query: 183 EAVEENVVESHISKLRKKL 201
+ E V+ H + +KL
Sbjct: 169 --IAEVTVKVHRHNIMQKL 185
>1zh2_A KDP operon transcriptional regulatory protein KDPE; two-component
system, gene regulation, transcription factor, KDP
potassium transport system; 2.00A {Escherichia coli}
SCOP: c.23.1.1 PDB: 1zh4_A
Length = 121
Score = 47.4 bits (112), Expect = 2e-06
Identities = 26/115 (22%), Positives = 46/115 (40%), Gaps = 2/115 (1%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+++D ++ DG+ + + + L +A I L +E
Sbjct: 6 IVEDEQAIRRFLRTALEGDGMRVFEAET--LQRGLLEAATRKPDLIILDLGLPDGDGIEF 63
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
R +R S VP+I +S + D+G DD ++KP E+ AR+ RR
Sbjct: 64 IRDLRQWSAVPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRR 118
>1jbe_A Chemotaxis protein CHEY; signaling protein; 1.08A {Escherichia
coli} SCOP: c.23.1.1 PDB: 3chy_A 1a0o_A 1cey_A 1bdj_A
1eay_A 1f4v_A 1ffg_A 1ffs_A 1ffw_A 1fqw_A 2b1j_A 1chn_A
1djm_A 1kmi_Y* 1d4z_A 1cye_A 2che_A 2chf_A 2pl9_A*
2pmc_A ...
Length = 128
Score = 46.7 bits (111), Expect = 4e-06
Identities = 12/65 (18%), Positives = 29/65 (44%)
Query: 57 GEKVLELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIY 116
G ++L+ R A S +P++ ++ + + +G V KP + ++ I+
Sbjct: 64 GLELLKTIRAXXAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIF 123
Query: 117 RRLKV 121
+L +
Sbjct: 124 EKLGM 128
>3cnb_A DNA-binding response regulator, MERR family; signal receiver
domain, DNA binding protein, protein structure
initiative, PSI-2; 2.00A {Colwellia psychrerythraea 34H}
Length = 143
Score = 46.5 bits (110), Expect = 5e-06
Identities = 12/124 (9%), Positives = 41/124 (33%), Gaps = 5/124 (4%)
Query: 4 LIDD----RALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEK 59
+I+D ++ ++ +N + + L + + V + G
Sbjct: 13 IIEDDKEFADMLTQ-FLENLFPYAKIKIAYNPFDAGDLLHTVKPDVVMLDLMMVGMDGFS 71
Query: 60 VLELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRL 119
+ + A + + +I ++ + G + KP++ + + + +
Sbjct: 72 ICHRIKSTPATANIIVIAMTGALTDDNVSRIVALGAETCFGKPLNFTLLEKTIKQLVEQK 131
Query: 120 KVSN 123
K ++
Sbjct: 132 KATS 135
>3cfy_A Putative LUXO repressor protein; structural genomics, unknown
function, uncharacterized protein, signal receiver
domain; 2.50A {Vibrio parahaemolyticus rimd 2210633}
Length = 137
Score = 46.6 bits (110), Expect = 5e-06
Identities = 20/121 (16%), Positives = 46/121 (38%), Gaps = 3/121 (2%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGK-GEKVLE 62
L++D + Y D+ + + ++ + ++ L GE VL+
Sbjct: 9 LVEDSTSLAILYKQYVKDEPYDIFHVETGRDAIQFIERSKPQLIILDLKLPDMSGEDVLD 68
Query: 63 LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKVS 122
+ +I + + S+ ++ G +D + KPI+ + VA +R K+
Sbjct: 69 WIN--QNDIPTSVIIATAHGSVDLAVNLIQKGAEDFLEKPINADRLKTSVALHLKRAKLE 126
Query: 123 N 123
+
Sbjct: 127 D 127
>1p6q_A CHEY2; chemotaxis, signal transduction, response regulator,
structural proteomics in europe, spine, structural
genomics; NMR {Sinorhizobium meliloti} SCOP: c.23.1.1
PDB: 1p6u_A
Length = 129
Score = 46.4 bits (110), Expect = 5e-06
Identities = 13/64 (20%), Positives = 26/64 (40%)
Query: 57 GEKVLELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIY 116
G +L+ R A + I ++ G ++V+ KP ++ A + A++
Sbjct: 66 GLGLLQAVRANPATKKAAFIILTAQGDRALVQKAAALGANNVLAKPFTIEKMKAAIEAVF 125
Query: 117 RRLK 120
LK
Sbjct: 126 GALK 129
>3lua_A Response regulator receiver protein; two-component signal
transduction system, histidine kinase, phosphorelay,
receiver domain, nysgxrc; 2.40A {Clostridium
thermocellum}
Length = 140
Score = 46.2 bits (110), Expect = 6e-06
Identities = 11/64 (17%), Positives = 23/64 (35%)
Query: 57 GEKVLELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIY 116
G +VL R + P+I + + V D + KP + + V ++
Sbjct: 66 GLEVLSAIRNNSRTANTPVIIATKSDNPGYRHAALKFKVSDYILKPYPTKRLENSVRSVL 125
Query: 117 RRLK 120
+ +
Sbjct: 126 KICQ 129
>3n0r_A Response regulator; sigma factor, receiver, two-component SI
transduction, signaling protein; HET: MSE GOL; 1.25A
{Caulobacter vibrioides}
Length = 286
Score = 46.1 bits (109), Expect = 6e-06
Identities = 19/126 (15%), Positives = 42/126 (33%), Gaps = 2/126 (1%)
Query: 1 MFVLIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKV 60
++I+D ++ AL + G + + E + R + + G
Sbjct: 162 EVLIIEDEPVIAADIEALVRELGHDVTDIAATRGEALEAVTRRTPGLVLADIQLADGSSG 221
Query: 61 LELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLK 120
++ + I VP+I I+ +P + L ++ KP + A +
Sbjct: 222 IDAVKDILGRMDVPVIFITAFP--ERLLTGERPEPTFLITKPFQPETVKAAIGQALFFHP 279
Query: 121 VSNNRA 126
+A
Sbjct: 280 RRTAKA 285
>3kht_A Response regulator; PSI-II, structural genomics, protein structure
initiative, NEW YORK SGX research center for structural
genomics; 2.10A {Hahella chejuensis kctc 2396}
Length = 144
Score = 46.0 bits (109), Expect = 6e-06
Identities = 17/128 (13%), Positives = 40/128 (31%), Gaps = 4/128 (3%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+++D + + + + L + I + E+
Sbjct: 10 VVEDNPDDIALIRRVLDRKDIHCQLEFVDNGAKALYQVQQAKYDLIILDIGLPIANGFEV 69
Query: 64 PRIIRAH---SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHH-REILARVAAIYRRL 119
+R P++ ++D S +G VV+K ++ + R+ AI+
Sbjct: 70 MSAVRKPGANQHTPIVILTDNVSDDRAKQCMAAGASSVVDKSSNNVTDFYGRIYAIFSYW 129
Query: 120 KVSNNRAE 127
N+ E
Sbjct: 130 LTVNHCQE 137
>2zay_A Response regulator receiver protein; structural genomics, NYSGXRC,
target 11006U, PSI-2, protein structure initiative;
2.00A {Desulfuromonas acetoxidans dsm 684}
Length = 147
Score = 45.8 bits (108), Expect = 7e-06
Identities = 18/118 (15%), Positives = 42/118 (35%), Gaps = 1/118 (0%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGF-NSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLE 62
L+D + I+ +G + N++E + + G +
Sbjct: 13 LVDTQLPALAASISALSQEGFDIIQCGNAIEAVPVAVKTHPHLIITEANMPKISGMDLFN 72
Query: 63 LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLK 120
+ + +P+I +S + + D G D + KP++ + AR+ + + L
Sbjct: 73 SLKKNPQTASIPVIALSGRATAKEEAQLLDMGFIDFIAKPVNAIRLSARIKRVLKLLY 130
>1zgz_A Torcad operon transcriptional regulatory protein TORR;
two-component system, gene regulation, transcription
factor, TMAO respiratory system; 1.80A {Escherichia
coli} SCOP: c.23.1.1
Length = 122
Score = 45.5 bits (107), Expect = 1e-05
Identities = 25/116 (21%), Positives = 48/116 (41%), Gaps = 2/116 (1%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+++D + + + F +G ++ S + + V I + E L L
Sbjct: 7 IVEDEPVTQARLQSYFTQEGYTVSVTAS--GAGLREIMQNQSVDLILLDINLPDENGLML 64
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRL 119
R +R S V +I ++ + + G DD V KP+ RE++ RV + R+
Sbjct: 65 TRALRERSTVGIILVTGRSDRIDRIVGLEMGADDYVTKPLELRELVVRVKNLLWRI 120
>3kto_A Response regulator receiver protein; PSI-II,structural genomics,
protein structure initiative; 1.98A {Pseudoalteromonas
atlantica T6C}
Length = 136
Score = 45.5 bits (107), Expect = 1e-05
Identities = 25/118 (21%), Positives = 43/118 (36%), Gaps = 1/118 (0%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
L+D + + L V+++ F S E Q S IEA L K + +EL
Sbjct: 11 LVDHQKDARAALSKLLSPLDVTIQCFASAESFMRQQISDDAIGMIIEAHLEDKKDSGIEL 70
Query: 64 PRIIR-AHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLK 120
+ +P I ++ + T + + D + KP ++ V I K
Sbjct: 71 LETLVKRGFHLPTIVMASSSDIPTAVRAMRASAADFIEKPFIEHVLVHDVQQIINGAK 128
>2z9m_A Response regulator YYCF; two-component system, YYCG, helix-turn-
helix motif, DNA-binding domain, phosphorylation,
transcription; 1.87A {Staphylococcus aureus} PDB: 2zxj_A
2d1v_A
Length = 120
Score = 45.5 bits (107), Expect = 1e-05
Identities = 21/103 (20%), Positives = 47/103 (45%), Gaps = 2/103 (1%)
Query: 122 SNNRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLF 181
N I ++ D + +GE L RE + YL + G+ + + + ++G +
Sbjct: 10 VTNEITIKDIVIYPDAYSIKKRGEDIELTHREFELFHYLSKHMGQVMTREHLLQTVWG-Y 68
Query: 182 DEAVEENVVESHISKLRKKLRNKLG-FDPVDSKRFLGYSIDWN 223
D + V+ I +LR+K+ + + + ++R +GY + +
Sbjct: 69 DYFGDVRTVDVTIRRLREKIEDDPSHPEYIVTRRGVGYFLQQH 111
>2qzj_A Two-component response regulator; 11017X, PSI-II, structural
genomics, protein structure initiative; 2.89A
{Clostridium difficile 630}
Length = 136
Score = 45.2 bits (106), Expect = 1e-05
Identities = 26/117 (22%), Positives = 48/117 (41%), Gaps = 2/117 (1%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+ID + G+S++ EE + I +I L
Sbjct: 9 IIDGDKDNCQKLKGFLEEKGISIDLAY--NCEEAIGKIFSNKYDLIFLEIILSDGDGWTL 66
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLK 120
+ IR + P++ ++ Q+ L+ +SG DD + KP++ + A+V AI RR+
Sbjct: 67 CKKIRNVTTCPIVYMTYINEDQSILNALNSGGDDYLIKPLNLEILYAKVKAILRRMN 123
>3gl9_A Response regulator; beta-sheet, surrounded by alpha helices, BOTH
sides, signaling protein; HET: BFD; 1.80A {Thermotoga
maritima} PDB: 3dgf_C 3dge_C
Length = 122
Score = 45.0 bits (106), Expect = 1e-05
Identities = 17/113 (15%), Positives = 40/113 (35%), Gaps = 1/113 (0%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGK-GEKVLE 62
L+DD A+++ +G + + + S D+ + + G VL+
Sbjct: 7 LVDDSAVLRKIVSFNLKKEGYEVIEAENGQIALEKLSEFTPDLIVLXIMMPVMDGFTVLK 66
Query: 63 LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAI 115
+ ++P+I ++ + G V+ KP + + V +
Sbjct: 67 KLQEKEEWKRIPVIVLTAKGGEEDESLALSLGARKVMRKPFSPSQFIEEVKHL 119
>3gt7_A Sensor protein; structural genomics, signal receiver domain,
kinase, PSI-2, protein structure initiative; 2.30A
{Syntrophus aciditrophicus SB}
Length = 154
Score = 45.2 bits (106), Expect = 1e-05
Identities = 18/131 (13%), Positives = 43/131 (32%), Gaps = 1/131 (0%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVL-E 62
+++D + + + G E + S R D+ + + L
Sbjct: 12 IVEDSPTQAEHLKHILEETGYQTEHVRNGREAVRFLSLTRPDLIISDVLMPEMDGYALCR 71
Query: 63 LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKVS 122
+ +P+I ++ + + + G DD + KP + + V + +K +
Sbjct: 72 WLKGQPDLRTIPVILLTILSDPRDVVRSLECGADDFITKPCKDVVLASHVKRLLSGVKRT 131
Query: 123 NNRAETGPIRV 133
R I +
Sbjct: 132 EERYSRESITL 142
>2qr3_A Two-component system response regulator; structural genomics,
signal receiver, PSI-2, protein structure initiative;
1.80A {Bacteroides fragilis YCH46}
Length = 140
Score = 45.0 bits (106), Expect = 1e-05
Identities = 19/121 (15%), Positives = 41/121 (33%), Gaps = 4/121 (3%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLE- 62
++DD V L + + +S + +V ++ E
Sbjct: 8 IVDDNKGVLTAVQLLLKNHFSKVITLSSPVSLSTVLREENPEVVLLDMNFTSGINNGNEG 67
Query: 63 ---LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRL 119
L I R + +P++ + Y + + G D V KP ++++L + +
Sbjct: 68 LFWLHEIKRQYRDLPVVLFTAYADIDLAVRGIKEGASDFVVKPWDNQKLLETLLNAASQA 127
Query: 120 K 120
K
Sbjct: 128 K 128
>1xhf_A DYE resistance, aerobic respiration control protein ARCA;
two-component system, gene regulation, transcription
factor, anoxic redox control; 2.15A {Escherichia coli}
SCOP: c.23.1.1 PDB: 1xhe_A
Length = 123
Score = 44.8 bits (105), Expect = 1e-05
Identities = 21/115 (18%), Positives = 48/115 (41%), Gaps = 2/115 (1%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+++D + ++ ++F +G + + S ++ ++ L GK L
Sbjct: 8 IVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEYDINLVIMDINLPGKNGL--LL 65
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
R +R + V L+ ++ + + + G DD + KP + RE+ R + R
Sbjct: 66 ARELREQANVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSR 120
>3hv2_A Response regulator/HD domain protein; PSI-2, NYSGXRC, structural
genomics, protein structure initiative; 1.50A
{Pseudomonas fluorescens pf-5}
Length = 153
Score = 44.9 bits (106), Expect = 2e-05
Identities = 19/126 (15%), Positives = 39/126 (30%), Gaps = 4/126 (3%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
L+D + ++ L +L + LQ A +V + + L
Sbjct: 19 LVDSQEVILQRLQQLLSPLPYTLHFARD--ATQALQLLASREVDLVISAAHLPQMDGPTL 76
Query: 64 PRIIRA-HSQVPLIGISDYPSLQTTLDFFDSG-VDDVVNKPIHHREILARVAAIYRRLKV 121
I + I ++ P L+ + G + ++KP +E+L +
Sbjct: 77 LARIHQQYPSTTRILLTGDPDLKLIAKAINEGEIYRYLSKPWDDQELLLALRQALEHQHS 136
Query: 122 SNNRAE 127
R
Sbjct: 137 ERERLR 142
>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein
structure initiative II (PSI II), structural genomics;
1.95A {Thermotoga maritima}
Length = 142
Score = 44.7 bits (105), Expect = 2e-05
Identities = 19/117 (16%), Positives = 38/117 (32%), Gaps = 2/117 (1%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
++D+ + DG ++ +E RE + + + E + +
Sbjct: 9 VVDESRITFLAVKNALEKDGFNVIWAK--NEQEAFTFLRREKIDLVFVDVFEGEESLNLI 66
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLK 120
RI + +S Y ++ +G D + KP +L RV I
Sbjct: 67 RRIREEFPDTKVAVLSAYVDKDLIINSVKAGAVDYILKPFRLDYLLERVKKIISSTP 123
>3cu5_A Two component transcriptional regulator, ARAC family; structural
genomics, protein structure initiative; 2.60A
{Clostridium phytofermentans isdg}
Length = 141
Score = 44.2 bits (104), Expect = 2e-05
Identities = 21/118 (17%), Positives = 43/118 (36%), Gaps = 2/118 (1%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEW-LQSSAREDVSAIEAFLIGKGEKVLE 62
++DD L +DG IA +S + + + +Q + + + + + +E
Sbjct: 7 IVDDEKLTRDGLIANINWKALSFDQIDQADDGINAIQIALKHPPNVLLTDVRMPRMDGIE 66
Query: 63 LPRIIRA-HSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRL 119
L I + +I +S Y + V KPI EI+ + + +
Sbjct: 67 LVDNILKLYPDCSVIFMSGYSDKEYLKAAIKFRAIRYVEKPIDPSEIMDALKQSIQTV 124
>1srr_A SPO0F, sporulation response regulatory protein; aspartate pocket,
two component system; 1.90A {Bacillus subtilis} SCOP:
c.23.1.1 PDB: 1pey_A 2ftk_E* 1fsp_A 1nat_A 1pux_A 2fsp_A
2jvj_A 2jvk_A 2jvi_A 1f51_E
Length = 124
Score = 44.5 bits (105), Expect = 2e-05
Identities = 19/122 (15%), Positives = 45/122 (36%), Gaps = 6/122 (4%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
++DD++ ++ +F +G + + L +E + + G +E+
Sbjct: 8 IVDDQSGIRILLNEVFNKEGYQTFQAAN--GLQALDIVTKERPDLVLLDMKIPGMDGIEI 65
Query: 64 PRIIRA-HSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKVS 122
+ ++ + +I ++ Y L + + G KP EI V L +
Sbjct: 66 LKRMKVIDENIRVIIMTAYGELDMIQESKELGALTHFAKPFDIDEIRDAVKKY---LPLK 122
Query: 123 NN 124
+N
Sbjct: 123 SN 124
>2ayx_A Sensor kinase protein RCSC; two independent structural domains,
transferase; NMR {Escherichia coli} SCOP: c.23.1.1
c.23.1.6 PDB: 2ayz_A 2ayy_A
Length = 254
Score = 44.3 bits (104), Expect = 2e-05
Identities = 19/118 (16%), Positives = 45/118 (38%), Gaps = 3/118 (2%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
++DD + + G G + N + L ++ + + + + L
Sbjct: 134 VVDDHPINRRLLADQLGSLGYQCKTAND--GVDALNVLSKNHIDIVLSDVNMPNMDGYRL 191
Query: 64 PRIIRAHS-QVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLK 120
+ IR +P+IG++ + +SG+D ++KP+ I + R++
Sbjct: 192 TQRIRQLGLTLPVIGVTANALAEEKQRCLESGMDSCLSKPVTLDVIKQTLTLYAERVR 249
>1mb3_A Cell division response regulator DIVK; signal transduction protein,
structural proteomics in europe, spine, structural
genomics; 1.41A {Caulobacter vibrioides} SCOP: c.23.1.1
PDB: 1m5u_A 1mav_A 1mb0_A 1m5t_A
Length = 124
Score = 44.4 bits (105), Expect = 2e-05
Identities = 15/118 (12%), Positives = 38/118 (32%), Gaps = 5/118 (4%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+++D L + L G L + I + LE+
Sbjct: 6 IVEDNELNMKLFHDLLEAQGYETLQTRE--GLSALSIARENKPDLILMDIQLPEISGLEV 63
Query: 64 PRIIRAH---SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
+ ++ + +P++ ++ + + G + ++KPI L + + R
Sbjct: 64 TKWLKEDDDLAHIPVVAVTAFAMKGDEERIREGGCEAYISKPISVVHFLETIKRLLER 121
>3jte_A Response regulator receiver protein; structural genomics, nysgrc,
response regulator receiver domain, target 11226E,
PSI-2; 1.90A {Clostridium thermocellum atcc 27405}
Length = 143
Score = 44.0 bits (103), Expect = 2e-05
Identities = 16/119 (13%), Positives = 44/119 (36%), Gaps = 1/119 (0%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+IDD + + L DG + +S + + + + + +++
Sbjct: 8 VIDDESTILQNIKFLLEIDGNEVLTASSSTEGLRIFTENCNSIDVVITDMKMPKLSGMDI 67
Query: 64 PRIIRA-HSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKV 121
R I+ + +I ++ + L + G + + KP+ +++ + R K+
Sbjct: 68 LREIKKITPHMAVIILTGHGDLDNAILAMKEGAFEYLRKPVTAQDLSIAINNAINRKKL 126
>1dbw_A Transcriptional regulatory protein FIXJ; doubly wound five-stranded
beta/alpha fold, nitrogen fixation regulation; HET: 15P;
1.60A {Rhizobium meliloti} SCOP: c.23.1.1 PDB: 1dck_A*
1dcm_A 1d5w_A*
Length = 126
Score = 43.9 bits (103), Expect = 3e-05
Identities = 19/116 (16%), Positives = 40/116 (34%), Gaps = 1/116 (0%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
++DD V+ + +G +++ S E R V + + V L
Sbjct: 8 IVDDEEPVRKSLAFMLTMNGFAVKMHQSAEAFLAFAPDVRNGV-LVTDLRMPDMSGVELL 66
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRL 119
+ +P I I+ + + ++ +G D + KP I+ + L
Sbjct: 67 RNLGDLKINIPSIVITGHGDVPMAVEAMKAGAVDFIEKPFEDTVIIEAIERASEHL 122
>3eqz_A Response regulator; structural genomics, unknown function, PSI-2,
protein structure initiative; 2.15A {Colwellia
psychrerythraea 34H}
Length = 135
Score = 43.8 bits (103), Expect = 3e-05
Identities = 22/121 (18%), Positives = 45/121 (37%), Gaps = 9/121 (7%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
++DD L + + ++E F L + ++D+ ++ + +E+
Sbjct: 8 IVDDDTLTCNLLKTIVEPIFGNVEAFQHPRAFLTLSLN-KQDIIILDLMMPDMDG--IEV 64
Query: 64 PRIIRA-HSQVPLIGISDY-----PSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYR 117
R + S LI IS Y S +T V + KPI+ + + ++
Sbjct: 65 IRHLAEHKSPASLILISGYDSGVLHSAETLALSCGLNVINTFTKPINTEVLTCFLTSLSN 124
Query: 118 R 118
R
Sbjct: 125 R 125
>1qkk_A DCTD, C4-dicarboxylate transport transcriptional regulatory
protein; receiver domain, 2-component signal
transduction; 1.7A {Sinorhizobium meliloti} SCOP:
c.23.1.1 PDB: 1l5z_A 1l5y_A
Length = 155
Score = 43.0 bits (101), Expect = 5e-05
Identities = 26/125 (20%), Positives = 47/125 (37%), Gaps = 4/125 (3%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
LIDD ++ G ++ F S E L + + + + + G L L
Sbjct: 8 LIDDDRDLRKAMQQTLELAGFTVSSFAS--ATEALAGLSADFAGIVISDIRMPGMDGLAL 65
Query: 64 PRIIRA-HSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARV-AAIYRRLKV 121
R I A +P+I ++ + + + G D + KP ++ A +R V
Sbjct: 66 FRKILALDPDLPMILVTGHGDIPMAVQAIQDGAYDFIAKPFAADRLVQSARRAEEKRRLV 125
Query: 122 SNNRA 126
NR+
Sbjct: 126 MENRS 130
>2qv0_A Protein MRKE; structural genomics, transcription, PSI-2, protein
structure initiative; 2.40A {Klebsiella pneumoniae}
Length = 143
Score = 43.3 bits (102), Expect = 5e-05
Identities = 12/68 (17%), Positives = 29/68 (42%), Gaps = 3/68 (4%)
Query: 61 LELPRIIRAHS-QVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRL 119
+ L + I + + ++ I+ + + ++ F+ D + KP I+ + +
Sbjct: 71 VLLAQNISQFAHKPFIVFITAWK--EHAVEAFELEAFDYILKPYQESRIINMLQKLTTAW 128
Query: 120 KVSNNRAE 127
+ NN AE
Sbjct: 129 EQQNNAAE 136
>3c3m_A Response regulator receiver protein; structural genomics, unknown
function, PSI-2, protein structure initiative; HET: MSE;
1.70A {Methanoculleus marisnigri JR1}
Length = 138
Score = 42.9 bits (100), Expect = 6e-05
Identities = 19/116 (16%), Positives = 48/116 (41%), Gaps = 1/116 (0%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGK-GEKVLE 62
++DD ++ D ++ + G S E ++ D+ ++ + G + LE
Sbjct: 8 VVDDSPMIVDVFVTMLERGGYRPITAFSGEECLEALNATPPDLVLLDIMMEPMDGWETLE 67
Query: 63 LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
+ A +P++ ++ P + + S ++D + KP H ++ + + R
Sbjct: 68 RIKTDPATRDIPVLMLTAKPLTPEEANEYGSYIEDYILKPTTHHQLYEAIEHVLAR 123
>2hqn_A Putative transcriptional regulator; phosporylation-independent
response regulator, signaling protein; NMR {Helicobacter
pylori J99}
Length = 109
Score = 42.8 bits (100), Expect = 6e-05
Identities = 26/97 (26%), Positives = 48/97 (49%), Gaps = 1/97 (1%)
Query: 122 SNNRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLF 181
+N E G + + D +G + + +L +L +R + V+K Q+ AI+
Sbjct: 3 GSNVIEIGDLTISPDEEKIIYKGREVEVKGKPFEVLTHLARHRDQIVSKEQLLDAIWEEP 62
Query: 182 DEAVEENVVESHISKLRKKLRNKLGFDPVDSKRFLGY 218
+ V NV+E I+++R+K+ LG V++ R GY
Sbjct: 63 EM-VTPNVIEVAINQIRQKMDKPLGISTVETVRRRGY 98
>1dc7_A NTRC, nitrogen regulation protein; receiver domain,
phosphorylation, signal transduction, conformational
rearrangement; NMR {Salmonella typhimurium} SCOP:
c.23.1.1 PDB: 1j56_A 1krw_A 1krx_A 1ntr_A 1dc8_A*
Length = 124
Score = 42.2 bits (99), Expect = 8e-05
Identities = 21/117 (17%), Positives = 46/117 (39%), Gaps = 1/117 (0%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
++DD + ++ G++ F + +S DV + + G + + L
Sbjct: 8 VVDDDSSIRWVLERALAGAGLTCTTFENGNEVLAALASKTPDVLLSDIRMPG-MDGLALL 66
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLK 120
+I + H +P+I ++ + L + + G D + KP E +A V +
Sbjct: 67 KQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDIDEAVALVERAISHYQ 123
>3hdg_A Uncharacterized protein; two-component sensor activity, response
regulator, PSI-II, 11227F, NYSGXRC, structural genomics;
2.27A {Wolinella succinogenes}
Length = 137
Score = 42.2 bits (99), Expect = 9e-05
Identities = 19/116 (16%), Positives = 43/116 (37%), Gaps = 3/116 (2%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+++D ++ + + + E E L DV + + G LE+
Sbjct: 12 IVEDDTDAREWLSTIISNHFPEVWSAGDGEEGERLFGLHAPDVIITDIRMPKLGG--LEM 69
Query: 64 PRIIRA-HSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
I+A ++ +I IS + ++ + + GV + KPI ++ +
Sbjct: 70 LDRIKAGGAKPYVIVISAFSEMKYFIKAIELGVHLFLPKPIEPGRLMETLEDFRHI 125
>3b2n_A Uncharacterized protein Q99UF4; structural genomics, PSI-2, protein
structure initiative; 2.04A {Staphylococcus aureus}
Length = 133
Score = 42.2 bits (99), Expect = 9e-05
Identities = 20/120 (16%), Positives = 49/120 (40%), Gaps = 7/120 (5%)
Query: 3 VLIDDRALVKDG---YIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGK-GE 58
++ +D+ +++ I L GD + + N L+ + ++ +V ++ + G G
Sbjct: 7 IIAEDQNMLRQAMVQLIKLHGDFEILADTDNGLDAMKLIEEY-NPNVVILDIEMPGMTGL 65
Query: 59 KVLELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
+VL I + H + +I ++ + + VD V K E++ + +
Sbjct: 66 EVLA--EIRKKHLNIKVIIVTTFKRPGYFEKAVVNDVDAYVLKERSIEELVETINKVNNG 123
>2qsj_A DNA-binding response regulator, LUXR family; structural genomics,
PSI-2, protein structure initiative; 2.10A {Silicibacter
pomeroyi dss-3}
Length = 154
Score = 42.3 bits (99), Expect = 1e-04
Identities = 18/120 (15%), Positives = 46/120 (38%), Gaps = 6/120 (5%)
Query: 3 VLIDDRALVKDGYIALFGD--DGVSLEGF-NSLEFEEWLQSSAREDVSAIEAFLIGKGEK 59
+++DD L++ G L G+ +EG + +L++ D+ ++ L +
Sbjct: 7 LIVDDHHLIRAGAKNLLEGAFSGMRVEGAETVSDALAFLEADNTVDLILLDVNL--PDAE 64
Query: 60 VLELPRIIRA-HSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
++ ++ + IS + ++G D + K + ++ V+ I
Sbjct: 65 AIDGLVRLKRFDPSNAVALISGETDHELIRAALEAGADGFIPKSADPQVLIHAVSLILEG 124
>2pln_A HP1043, response regulator; signaling protein; 1.80A {Helicobacter
pylori} PDB: 2hqo_A
Length = 137
Score = 41.7 bits (97), Expect = 1e-04
Identities = 27/120 (22%), Positives = 51/120 (42%), Gaps = 7/120 (5%)
Query: 1 MFVLI-DDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEK 59
M VL+ + +++ G + SLE E+L D+ ++
Sbjct: 19 MRVLLIEKNSVLGGEIEKGLNVKGFMADVTESLEDGEYLMDIRNYDL-----VMVSDKNA 73
Query: 60 VLELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHH-REILARVAAIYRR 118
+ + RI HS + ++ SD P+ + + F+ G DD + KP + ++AR+ A R
Sbjct: 74 LSFVSRIKEKHSSIVVLVSSDNPTSEEEVHAFEQGADDYIAKPYRSIKALVARIEARLRF 133
>3h1g_A Chemotaxis protein CHEY homolog; sulfate-bound CHEY, cytoplasm,
flagellar rotatio magnesium, metal-binding,
phosphoprotein; 1.70A {Helicobacter pylori} PDB: 3gwg_A
3h1e_A 3h1f_A
Length = 129
Score = 41.5 bits (98), Expect = 1e-04
Identities = 9/57 (15%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 65 RIIRAHS---QVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
+ +R+ S ++P+I I+ + +GV++ + KP + + ++ +
Sbjct: 71 KKVRSDSRFKEIPIIMITAEGGKAEVITALKAGVNNYIVKPFTPQVLKEKLEVVLGT 127
>2r25_B Osmosensing histidine protein kinase SLN1; alpha5-BETA5, response
regulator, four helix bundle, histidine phosphotransfer
(HPT) protein; 1.70A {Saccharomyces cerevisiae} SCOP:
c.23.1.1 PDB: 1oxk_B 1oxb_B
Length = 133
Score = 41.2 bits (96), Expect = 2e-04
Identities = 14/124 (11%), Positives = 46/124 (37%), Gaps = 8/124 (6%)
Query: 4 LIDDRALVKDGYIALFGDDG-----VSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGE 58
+++D + ++ + +G ++ +G + + + L S +
Sbjct: 7 VVEDNHVNQEVIKRMLNLEGIENIELACDGQEAFDKVKELTSKGENYNMIFMD-VQMPKV 65
Query: 59 KVLELPRIIRAH--SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIY 116
L ++IR P++ ++ + + +SG++ ++KPI ++ +
Sbjct: 66 DGLLSTKMIRRDLGYTSPIVALTAFADDSNIKECLESGMNGFLSKPIKRPKLKTILTEFC 125
Query: 117 RRLK 120
+
Sbjct: 126 AAYQ 129
>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD
subdomain; structural genomics, oceanospirillum SP.
MED92, PSI-2; 2.10A {Neptuniibacter caesariensis}
Length = 154
Score = 41.2 bits (96), Expect = 2e-04
Identities = 21/127 (16%), Positives = 46/127 (36%), Gaps = 4/127 (3%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
L+DD + + L G ++ F S + + + + + L
Sbjct: 12 LVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGTSVQLVISD-MRMPEMGGEVFL 70
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSG-VDDVVNKPIHHREILARVAAI--YRRLK 120
++ +++ + + IS Y Q T+D + G + + KP ++ V L+
Sbjct: 71 EQVAKSYPDIERVVISGYADAQATIDAVNRGKISRFLLKPWEDEDVFKVVEKGLQLAFLR 130
Query: 121 VSNNRAE 127
N R +
Sbjct: 131 EENLRLQ 137
>1dz3_A Stage 0 sporulation protein A; response regulator, domain swapping;
1.65A {Bacillus stearothermophilus} SCOP: c.23.1.1 PDB:
1qmp_A*
Length = 130
Score = 41.0 bits (96), Expect = 2e-04
Identities = 11/60 (18%), Positives = 22/60 (36%), Gaps = 2/60 (3%)
Query: 61 LELPRIIRAH--SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
L + IRA Q +I ++ + T + G + KP + + +Y +
Sbjct: 64 LAVLERIRAGFEHQPNVIMLTAFGQEDVTKKAVELGASYFILKPFDMENLAHHIRQVYGK 123
>1mvo_A PHOP response regulator; phosphate regulon, transcriptional
regulatory protein, alpha/beta doubly wound fold,
phosphorylation; 1.60A {Bacillus subtilis} SCOP:
c.23.1.1
Length = 136
Score = 40.7 bits (95), Expect = 3e-04
Identities = 16/65 (24%), Positives = 30/65 (46%)
Query: 63 LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKVS 122
++ + P++ ++ + + G DD + KP RE+ ARV AI RR ++
Sbjct: 66 CKQLRQQKLMFPILMLTAKDEEFDKVLGLELGADDYMTKPFSPREVNARVKAILRRSEIR 125
Query: 123 NNRAE 127
+E
Sbjct: 126 APSSE 130
>3m6m_D Sensory/regulatory protein RPFC; RPFF, REC, enoyl-COA hydratase,
lyase-transferase COMP; 2.50A {Xanthomonas campestris
PV}
Length = 143
Score = 40.4 bits (95), Expect = 3e-04
Identities = 24/129 (18%), Positives = 46/129 (35%), Gaps = 25/129 (19%)
Query: 4 LIDD---------RALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLI 54
+ DD R L K G+ L + E+ L + A ED A+ L
Sbjct: 19 VADDHEANRMVLQRLLEKAGHKVLCVNGA-----------EQVLDAMAEEDYDAVIVDLH 67
Query: 55 GKGEKVLELPRIIRAHS-----QVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREIL 109
G L++ + +R P++ +S + + +G + KP+ ++L
Sbjct: 68 MPGMNGLDMLKQLRVMQASGMRYTPVVVLSADVTPEAIRACEQAGARAFLAKPVVAAKLL 127
Query: 110 ARVAAIYRR 118
+A +
Sbjct: 128 DTLADLAVS 136
>3a10_A Response regulator; phosphoacceptor, signaling protein; HET: MSE
PG4; 1.63A {Thermotoga maritima} PDB: 3a0r_B* 3a0u_A*
Length = 116
Score = 40.4 bits (94), Expect = 4e-04
Identities = 19/113 (16%), Positives = 45/113 (39%), Gaps = 5/113 (4%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
++DD +++ ++G ++ + EE L+ + + + G LE+
Sbjct: 6 VVDDEPNIRELLKEELQEEGYEIDTAEN--GEEALKKFFSGNYDLVILDIEMPGISGLEV 63
Query: 64 PRIIRAHSQ-VPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAI 115
IR + +I ++ Y ++ D D+ V K + E+ +V +
Sbjct: 64 AGEIRKKKKDAKIILLTAYSHYRS--DMSSWAADEYVVKSFNFDELKEKVKKL 114
>1i3c_A Response regulator RCP1; phytochrome, signaling protein; 1.90A
{Synechocystis SP} SCOP: c.23.1.1 PDB: 1jlk_A
Length = 149
Score = 40.0 bits (93), Expect = 4e-04
Identities = 7/61 (11%), Positives = 26/61 (42%), Gaps = 3/61 (4%)
Query: 61 LELPRIIRAH---SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYR 117
E+ I+ + ++P++ ++ + + ++ V+ + K + +++ V I
Sbjct: 77 REVLAEIKQNPDLKRIPVVVLTTSHNEDDVIASYELHVNCYLTKSRNLKDLFKMVQGIES 136
Query: 118 R 118
Sbjct: 137 F 137
>1tmy_A CHEY protein, TMY; chemotaxis, phosphoryl transfer, signal
transduction; 1.90A {Thermotoga maritima} SCOP: c.23.1.1
PDB: 2tmy_A 3tmy_A 4tmy_A 1u0s_Y
Length = 120
Score = 40.3 bits (94), Expect = 4e-04
Identities = 7/55 (12%), Positives = 20/55 (36%)
Query: 63 LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYR 117
+ I++ +I S ++ +G D + KP ++ + + +
Sbjct: 66 IKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVKPFQPSRVVEALNKVSK 120
>3heb_A Response regulator receiver domain protein (CHEY); NYSGXRC, PSI-II,
respose regulator, protein structure initiative; 2.40A
{Rhodospirillum rubrum atcc 11170}
Length = 152
Score = 39.7 bits (92), Expect = 5e-04
Identities = 16/135 (11%), Positives = 51/135 (37%), Gaps = 16/135 (11%)
Query: 3 VLIDD---------RALVKDGYIA--LFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEA 51
V+I+D + + + G + DG S + + + S+ R + ++
Sbjct: 8 VMIEDDLGHARLIEKNIRRAGVNNEIIAFTDGTSALNYLFGDDKSGRVSAGRAQLVLLDL 67
Query: 52 FLIGKGEKVLELPRIIRAH---SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREI 108
L +++ ++++ + + P++ ++ + +D G + + KP+++
Sbjct: 68 NLPD--MTGIDILKLVKENPHTRRSPVVILTTTDDQREIQRCYDLGANVYITKPVNYENF 125
Query: 109 LARVAAIYRRLKVSN 123
+ + V
Sbjct: 126 ANAIRQLGLFFSVMQ 140
>1k68_A Phytochrome response regulator RCPA; phosphorylated aspartate, CHEY
homologue, homodimer, (beta/alpha)5, signaling protein;
HET: PHD; 1.90A {Tolypothrix SP} SCOP: c.23.1.1
Length = 140
Score = 39.9 bits (93), Expect = 5e-04
Identities = 9/61 (14%), Positives = 24/61 (39%), Gaps = 3/61 (4%)
Query: 61 LELPRIIRAH---SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYR 117
E+ I++ ++P++ +S + +D V+ + K + ++ V I
Sbjct: 71 REVLAEIKSDPTLKRIPVVVLSTSINEDDIFHSYDLHVNCYITKSANLSQLFQIVKGIEE 130
Query: 118 R 118
Sbjct: 131 F 131
>3f6c_A Positive transcription regulator EVGA; structural genomics, ,
PSI-2, protein structure initiative; 1.45A {Escherichia
coli k-12}
Length = 134
Score = 39.7 bits (93), Expect = 5e-04
Identities = 18/117 (15%), Positives = 38/117 (32%), Gaps = 2/117 (1%)
Query: 3 VLIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLE 62
++IDD L L + + + + E +Q + + G ++
Sbjct: 5 IIIDDHPLAIAAIRNLLIKNDIEILAELT-EGGSAVQRVETLKPDIVIIDVDIPGVNGIQ 63
Query: 63 LPRIIRA-HSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
+ +R +I +S D+G + V+K I+A + A
Sbjct: 64 VLETLRKRQYSGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEAAKNG 120
>3eul_A Possible nitrate/nitrite response transcriptional regulatory
protein NARL (DNA-binding...; central beta strand
flanked by alpha helices; 1.90A {Mycobacterium
tuberculosis}
Length = 152
Score = 39.5 bits (92), Expect = 6e-04
Identities = 16/117 (13%), Positives = 33/117 (28%), Gaps = 1/117 (0%)
Query: 3 VLIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLE 62
V+ DD L ++G + G + + L+ G +
Sbjct: 19 VVGDDHPLFREGVVRALSLSGSVNVVGEADDGAAALELIKAHLPDVALLDYRMPGMDGAQ 78
Query: 63 LPRIIRA-HSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
+ +R+ ++ IS + G + K EI+ V +
Sbjct: 79 VAAAVRSYELPTRVLLISAHDEPAIVYQALQQGAAGFLLKDSTRTEIVKAVLDCAKG 135
>3lte_A Response regulator; structural genomics, PSI, protein structure
initiative, nysgrc, NEW YORK structural genomix research
consortium; 2.00A {Bermanella marisrubri}
Length = 132
Score = 39.6 bits (93), Expect = 6e-04
Identities = 12/60 (20%), Positives = 23/60 (38%), Gaps = 2/60 (3%)
Query: 61 LELPRIIRAH--SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
L++ R +R + + P I + G DD + KP + +L R+ +
Sbjct: 66 LDVIRSLRQNKVANQPKILVVSGLDKAKLQQAVTEGADDYLEKPFDNDALLDRIHDLVNE 125
>3nhm_A Response regulator; protein structure initiative II(PSI II),
NYSGXRC, structural genomics; 2.19A {Myxococcus xanthus}
Length = 133
Score = 39.6 bits (93), Expect = 6e-04
Identities = 13/61 (21%), Positives = 26/61 (42%), Gaps = 4/61 (6%)
Query: 61 LELPRIIRAH---SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYR 117
L R+ +P+I +S Y + +T D + KP+ ++A++ A+
Sbjct: 63 YALCGHFRSEPTLKHIPVIFVSGY-APRTEGPADQPVPDAYLVKPVKPPVLIAQLHALLA 121
Query: 118 R 118
R
Sbjct: 122 R 122
>3eod_A Protein HNR; response regulator, phosphoprotein, two-component
regulatory system, signaling protein; 1.75A {Escherichia
coli K12}
Length = 130
Score = 39.2 bits (91), Expect = 7e-04
Identities = 22/117 (18%), Positives = 40/117 (34%), Gaps = 4/117 (3%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+++D + + + F G + L D+ + + L+L
Sbjct: 12 IVEDEQVFRSLLDSWFSSLGATTVLAADGVDALELLGGFTPDLMICD--IAMPRMNGLKL 69
Query: 64 PRIIRAH-SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREIL-ARVAAIYRR 118
IR Q P++ IS ++ GV+DV+ KP+ L V A
Sbjct: 70 LEHIRNRGDQTPVLVISATENMADIAKALRLGVEDVLLKPVKDLNRLREMVFACLYP 126
>1k66_A Phytochrome response regulator RCPB; CHEY homologue, homodimer,
APO-protein, (beta/alpha)5, signaling protein; 1.75A
{Tolypothrix SP} SCOP: c.23.1.1
Length = 149
Score = 39.2 bits (91), Expect = 7e-04
Identities = 6/61 (9%), Positives = 23/61 (37%), Gaps = 3/61 (4%)
Query: 61 LELPRIIRAH---SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYR 117
E+ + I+ ++P++ ++ + + + + + KP+ + V +
Sbjct: 78 REVLQEIKQDEVLKKIPVVIMTTSSNPKDIEICYSYSISSYIVKPLEIDRLTETVQTFIK 137
Query: 118 R 118
Sbjct: 138 Y 138
>3cz5_A Two-component response regulator, LUXR family; structural genomics,
protein structure initiative; 2.70A {Aurantimonas SP}
Length = 153
Score = 38.8 bits (90), Expect = 9e-04
Identities = 22/116 (18%), Positives = 40/116 (34%), Gaps = 1/116 (0%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
L+DD +V++GY L + + E + + L G +E
Sbjct: 10 LVDDHPIVREGYRRLIERRPGYAVVAEAADAGEAYRLYRETTPDIVVMDLTLPGPGGIEA 69
Query: 64 PRIIRA-HSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
R IR ++ + + L F++G V K E++ + AI
Sbjct: 70 TRHIRQWDGAARILIFTMHQGSAFALKAFEAGASGYVTKSSDPAELVQAIEAILAG 125
>3grc_A Sensor protein, kinase; protein structure initiative II(PSI II),
NYSGXRC, 11025B, structural genomics; 2.21A {Polaromonas
SP}
Length = 140
Score = 38.5 bits (89), Expect = 0.001
Identities = 12/121 (9%), Positives = 36/121 (29%), Gaps = 6/121 (4%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+ +D + + G + +S + ++ + + L
Sbjct: 11 ICEDDPDIARLLNLMLEKGGFDSDMVHSAAQALEQVARRPYAAMTVDLN--LPDQDGVSL 68
Query: 64 PRIIRAHSQ---VPLIGISDYPSL-QTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRL 119
R +R S+ + ++ +S + + V + KPI ++ + +
Sbjct: 69 IRALRRDSRTRDLAIVVVSANAREGELEFNSQPLAVSTWLEKPIDENLLILSLHRAIDNM 128
Query: 120 K 120
Sbjct: 129 A 129
>2j48_A Two-component sensor kinase; pseudo-receiver, circadian clock,
transferase, response regulator, histidine protein
kinase; NMR {Synechococcus elongatus}
Length = 119
Score = 37.8 bits (87), Expect = 0.002
Identities = 12/112 (10%), Positives = 31/112 (27%), Gaps = 2/112 (1%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
L+++ + G + L I + L L
Sbjct: 6 LLEEEDEAATVVCEMLTAAGFKVIWLVD--GSTALDQLDLLQPIVILMAWPPPDQSCLLL 63
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAI 115
+ +R H P + + + +++KP+ + +L + +
Sbjct: 64 LQHLREHQADPHPPLVLFLGEPPVDPLLTAQASAILSKPLDPQLLLTTLQGL 115
>2hwv_A DNA-binding response regulator VICR; essential response regulator,
C-terminal domain, DNA- binding domain, transcription;
1.90A {Enterococcus faecalis V583}
Length = 121
Score = 37.8 bits (87), Expect = 0.002
Identities = 20/100 (20%), Positives = 45/100 (45%), Gaps = 2/100 (2%)
Query: 122 SNNRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLF 181
+ G + + D +GE L RE +L YL + G+ + + + ++G +
Sbjct: 17 RGSHMTIGDLTIHPDAYMVSKRGEKIELTHREFELLYYLAKHIGQVMTREHLLQTVWG-Y 75
Query: 182 DEAVEENVVESHISKLRKKLRNKLG-FDPVDSKRFLGYSI 220
D + V+ + +LR+K+ + + ++R +GY +
Sbjct: 76 DYFGDVRTVDVTVRRLREKIEDSPSHPTYLVTRRGVGYYL 115
>2gkg_A Response regulator homolog; social motility, receiver domain,
signalling, high resolution, signaling protein; 1.00A
{Myxococcus xanthus} PDB: 2i6f_A 2nt4_A 2nt3_A
Length = 127
Score = 37.7 bits (87), Expect = 0.002
Identities = 15/118 (12%), Positives = 40/118 (33%), Gaps = 5/118 (4%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+++ + + G +++ + R D+ + A + G+ +
Sbjct: 10 IVESDTALSATLRSALEGRGFTVDETTDGKGSVEQIRRDRPDL-VVLAVDLSAGQNGYLI 68
Query: 64 PRIIRAH---SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
++ VP++ I P + D+ V KP+ +++ R A+
Sbjct: 69 CGKLKKDDDLKNVPIVIIG-NPDGFAQHRKLKAHADEYVAKPVDADQLVERAGALIGF 125
>2rdm_A Response regulator receiver protein; structural genomics, unknown
function, PSI-2, protein structure initiative; HET: MSE;
1.76A {Sinorhizobium medicae WSM419}
Length = 132
Score = 37.3 bits (86), Expect = 0.003
Identities = 18/116 (15%), Positives = 42/116 (36%), Gaps = 3/116 (2%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGF-NSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLE 62
L DD A++ + + D G + + + E L+S A D + +
Sbjct: 10 LADDEAILLLDFESTLTDAGFLVTAVSSGAKAIEMLKSGAAIDGVVTDIRFCQPPDGWQV 69
Query: 63 LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
+P++ IS + +L+ + ++ KP +++ V+ +
Sbjct: 70 ARVAREIDPNMPIVYISGHAALEWASNGVPDS--IILEKPFTSAQLITAVSQLLNA 123
>3bre_A Probable two-component response regulator; protein-nucleotide
complex, signaling protein; HET: C2E; 2.40A {Pseudomonas
aeruginosa PAO1} PDB: 3i5a_A*
Length = 358
Score = 37.3 bits (86), Expect = 0.003
Identities = 14/61 (22%), Positives = 24/61 (39%), Gaps = 3/61 (4%)
Query: 61 LELPRIIRAH---SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYR 117
L L R + +P+I +S F +G +D + K E++AR+ R
Sbjct: 79 LTLLAAYRGNPATRDIPIIVLSTKEEPTVKSAAFAAGANDYLVKLPDAIELVARIRYHSR 138
Query: 118 R 118
Sbjct: 139 S 139
>3i42_A Response regulator receiver domain protein (CHEY- like); structural
genomics, PSI-2, protein structure initiative; 2.15A
{Methylobacillus flagellatus KT}
Length = 127
Score = 37.2 bits (86), Expect = 0.003
Identities = 18/115 (15%), Positives = 36/115 (31%), Gaps = 6/115 (5%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+++D + + L G + S S+ D I+ L L L
Sbjct: 8 IVEDYQAAAETFKELLEMLGFQADYVMSGTDALHAMSTRGYDAVFIDLNL--PDTSGLAL 65
Query: 64 PRIIRA---HSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAI 115
+ +RA + +S + + D + KPI + + +I
Sbjct: 66 VKQLRALPMEKTSKFVAVSGFAKNDLGKEA-CELFDFYLEKPIDIASLEPILQSI 119
>3c97_A Signal transduction histidine kinase; structural genomics,
signaling, PSI-2, protein structure initiative; 1.70A
{Aspergillus oryzae RIB40}
Length = 140
Score = 37.3 bits (86), Expect = 0.003
Identities = 16/120 (13%), Positives = 37/120 (30%), Gaps = 9/120 (7%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
+ +D + + + + + LQ+ I + LE
Sbjct: 15 IAEDNDICRLVAAKALEKCTNDITVVTN--GLQALQAYQNRQFDVIIMDIQMPVMDGLEA 72
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFD-----SGVDDVVNKPIHHREILARVAAIYRR 118
IR + + + T D D + +D+ V+KP++ ++ V +
Sbjct: 73 VSEIRNYERTH--NTKRASIIAITADTIDDDRPGAELDEYVSKPLNPNQLRDVVLTCHSE 130
>1dcf_A ETR1 protein; beta-alpha five sandwich; 2.50A {Arabidopsis
thaliana} SCOP: c.23.1.2
Length = 136
Score = 36.9 bits (85), Expect = 0.004
Identities = 10/49 (20%), Positives = 19/49 (38%)
Query: 70 HSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
H + L+ +S T G+D V+ KP+ I ++ +
Sbjct: 81 HQRPLLVALSGNTDKSTKEKCMSFGLDGVLLKPVSLDNIRDVLSDLLEP 129
>3kcn_A Adenylate cyclase homolog; SGX, PSI 2, structural genomics, protein
structure initiative; 2.45A {Rhodopirellula baltica}
Length = 151
Score = 36.6 bits (84), Expect = 0.004
Identities = 19/125 (15%), Positives = 43/125 (34%), Gaps = 2/125 (1%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
L+DD + + D + E ++ S V + + E +
Sbjct: 9 LVDDDYSLLNTLKRNLSFDFEVTTCESGPEALACIKKSDPFSV-IMVDMRMPGMEGTEVI 67
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLDFFDSG-VDDVVNKPIHHREILARVAAIYRRLKVS 122
+ + ++ L T ++ + G V +NKP +I A + A ++ +
Sbjct: 68 QKARLISPNSVYLMLTGNQDLTTAMEAVNEGQVFRFLNKPCQMSDIKAAINAGIKQYDLV 127
Query: 123 NNRAE 127
++ E
Sbjct: 128 TSKEE 132
>3kyj_B CHEY6 protein, putative histidine protein kinase; protein-protein
interaction, histidine kinase, response regulator,
phosphorylation; 1.40A {Rhodobacter sphaeroides} PDB:
3kyi_B*
Length = 145
Score = 36.4 bits (84), Expect = 0.005
Identities = 19/122 (15%), Positives = 43/122 (35%), Gaps = 9/122 (7%)
Query: 4 LIDDRALVKDG---YIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKV 60
++DD A+++ +I D V + N E + L + D+ ++ +
Sbjct: 18 IVDDAAMMRLYIASFIKTLPDFKVVAQAANGQEALDKLAAQPNVDLILLDIEM--PVMDG 75
Query: 61 LELPRIIRAHSQ--VPLIGISDYPSLQTTLDFFDSGVDDVVNKPI--HHREILARVAAIY 116
+E R + ++ + ++ + G D VV KP ++ +
Sbjct: 76 MEFLRHAKLKTRAKICMLSSVAVSGSPHAARARELGADGVVAKPSGTVSHDLEEKTGGEL 135
Query: 117 RR 118
R
Sbjct: 136 AR 137
>1w25_A Stalked-cell differentiation controlling protein; two-component
system, response regulator, diguanylate cyclase, ggdef
domain; HET: C2E; 2.70A {Caulobacter vibrioides} SCOP:
c.23.1.1 c.23.1.1 d.58.29.2 PDB: 2v0n_A*
Length = 459
Score = 36.3 bits (83), Expect = 0.005
Identities = 21/131 (16%), Positives = 42/131 (32%), Gaps = 12/131 (9%)
Query: 61 LELPRIIRAH---SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAA--- 114
+ R ++ +P++ I+ + +SG D + KPI + ARV +
Sbjct: 61 FTVCRKLKDDPTTRHIPVVLITALDGRGDRIQGLESGASDFLTKPIDDVMLFARVRSLTR 120
Query: 115 ---IYRRLKVSNNRAETGPIRVFSDGRDPEVQGEVFPLPRRER---RILEYLMANRGKRV 168
+ L+ + + R + G V + ER R+ L +
Sbjct: 121 FKLVIDELRQREASGRRMGVIAGAAARLDGLGGRVLIVDDNERQAQRVAAELGVEHRPVI 180
Query: 169 AKTQIFSAIYG 179
+ I
Sbjct: 181 ESDPEKAKISA 191
>2qvg_A Two component response regulator; NYSGXRC, PSI-2, structural
genomics, protein structure initiative; 1.50A
{Legionella pneumophila subsp}
Length = 143
Score = 36.1 bits (83), Expect = 0.007
Identities = 12/123 (9%), Positives = 38/123 (30%), Gaps = 9/123 (7%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLE------GFNSLEFEEWLQSSAREDVSAIEAFLIGKG 57
++D + +F ++ G +L+ + I +
Sbjct: 12 YLEDDEVDIQSVERVFHKISSLIKIEIAKSGNQALDMLYGRNKENKIHPKLILLDINIPK 71
Query: 58 EKVLELPRIIRAH---SQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAA 114
+E + +R + + + ++ + + L F + + KP+ + E +
Sbjct: 72 MNGIEFLKELRDDSSFTDIEVFVLTAAYTSKDKLAFESLNIRGHLIKPLDYGEAIKLFWI 131
Query: 115 IYR 117
+
Sbjct: 132 LQS 134
>1qo0_D AMIR; binding protein, gene regulator, receptor; 2.25A {Pseudomonas
aeruginosa} SCOP: c.23.1.3
Length = 196
Score = 36.0 bits (82), Expect = 0.008
Identities = 7/58 (12%), Positives = 19/58 (32%)
Query: 61 LELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRR 118
+ + L+ + +Y S + V+ +P+ +L + + R
Sbjct: 68 EIAALLAAGTPRTTLVALVEYESPAVLSQIIELECHGVITQPLDAHRVLPVLVSARRI 125
>3eq2_A Probable two-component response regulator; adaptor sigmas,
signaling protein; 3.40A {Pseudomonas aeruginosa}
Length = 394
Score = 35.8 bits (82), Expect = 0.008
Identities = 18/103 (17%), Positives = 35/103 (33%), Gaps = 2/103 (1%)
Query: 61 LELPRIIRA-HSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREIL-ARVAAIYRR 118
LEL R IR S+ P+I +S + ++ G D + KP+ +L V R
Sbjct: 65 LELIRRIRQTASETPIIVLSGAGVMSDAVEALRLGAADYLIKPLEDLAVLEHSVRRALDR 124
Query: 119 LKVSNNRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLM 161
+ ++ + R++ ++
Sbjct: 125 AYLRVENQRYRDKLEAANRELQASLNLLQEDQNAGRQVQMNML 167
>2jk1_A HUPR, hydrogenase transcriptional regulatory protein HUPR1;
nucleotide-binding, transcription regulation; 2.10A
{Rhodobacter capsulatus} PDB: 2vui_B 2vuh_B
Length = 139
Score = 35.8 bits (82), Expect = 0.009
Identities = 20/116 (17%), Positives = 37/116 (31%), Gaps = 3/116 (2%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
L+DD DD L + L+ + + I + V L
Sbjct: 6 LVDDEPHSLAAMKLALEDDFDVLTAQGAEAAIAILEEEWVQVI--ICDQRMPGRTGVDFL 63
Query: 64 PRIIRAHSQVPLIGISDYPSLQTTLD-FFDSGVDDVVNKPIHHREILARVAAIYRR 118
+ + I I+ Y + + D+G+ + KP H ++L+ R
Sbjct: 64 TEVRERWPETVRIIITGYTDSASMMAAINDAGIHQFLTKPWHPEQLLSSARNAARM 119
>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+
ATPase, response regulator, transcriptional activator,
ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB:
1zit_A 2jrl_A
Length = 368
Score = 33.7 bits (77), Expect = 0.039
Identities = 18/129 (13%), Positives = 40/129 (31%), Gaps = 3/129 (2%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAREDVSAIEAFLIGKGEKVLEL 63
++DD + A+ ++G + +L E + I + +
Sbjct: 5 VVDDEESITSSLSAILEEEGYHPDTAKTLR--EAEKKIKELFFPVIVLDVWMPDGDGVNF 62
Query: 64 PRIIRAHS-QVPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKVS 122
I+ +S +I I+ + S+ T + G + + KP L + +
Sbjct: 63 IDFIKENSPDSVVIVITGHGSVDTAVKAIKKGAYEFLEKPFSVERFLLTIKHAFEEYSKK 122
Query: 123 NNRAETGPI 131
E
Sbjct: 123 APPQEEIEF 131
>2b4a_A BH3024; 10175646, structural genomics, joint center for structural
genomics, JCSG, protein structure initiative PSI,
unknown function; 2.42A {Bacillus halodurans c-125}
SCOP: c.23.1.1
Length = 138
Score = 32.6 bits (74), Expect = 0.068
Identities = 14/123 (11%), Positives = 35/123 (28%), Gaps = 7/123 (5%)
Query: 4 LIDDRALVKDGYIALFGDDGVSLEGFNSLEFEEWLQSSAR-EDVSAIEAFLIGKGEKVLE 62
L++D G + S + Q ++ + +
Sbjct: 20 LVEDEPSHATLIQYHLNQLGAEVTVHPS--GSAFFQHRSQLSTCDLLIVSDQLVDLSIFS 77
Query: 63 LPRIIRAHSQ-VPLIGISDYPSLQTTLDFFDSGVDDVVNKPIHHREILARVAAIYRRLKV 121
L I++ ++ ++ ++ L + KP E+ A + + V
Sbjct: 78 LLDIVKEQTKQPSVLILTTGRH---ELIESSEHNLSYLQKPFAISELRAAIDYHKPSMGV 134
Query: 122 SNN 124
+ N
Sbjct: 135 TMN 137
>3ilh_A Two component response regulator; NYSGXRC, PSI-II, protein
structure initiative, structural genomics; 2.59A
{Cytophaga hutchinsonii atcc 33406}
Length = 146
Score = 32.5 bits (73), Expect = 0.077
Identities = 5/29 (17%), Positives = 9/29 (31%)
Query: 90 FFDSGVDDVVNKPIHHREILARVAAIYRR 118
VD V+KP+ + +
Sbjct: 111 EASDWVDYYVSKPLTANALNNLYNKVLNE 139
>2krf_A Transcriptional regulatory protein COMA; activator, competence,
DNA-binding, transcription regulation component
regulatory system; NMR {Bacillus subtilis}
Length = 73
Score = 31.8 bits (73), Expect = 0.14
Identities = 14/65 (21%), Positives = 24/65 (36%), Gaps = 10/65 (15%)
Query: 137 GRDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVEENVVESHISK 196
G Q E L RE IL+ + +G +I + L + +E ++
Sbjct: 1 GSHMSSQKEQDVLTPRECLILQEVE--KGFTNQ--EI-ADALHLS-----KRSIEYSLTS 50
Query: 197 LRKKL 201
+ KL
Sbjct: 51 IFNKL 55
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 30.7 bits (69), Expect = 0.31
Identities = 23/103 (22%), Positives = 34/103 (33%), Gaps = 36/103 (34%)
Query: 9 AL---VKDG----YIALFGDDGVSLEGFNSL----------------EFEEWLQSSARED 45
AL V +G A+FG G + + F L E L R
Sbjct: 144 ALFRAVGEGNAQLV-AIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTT 202
Query: 46 VSAIEAFLIGKGEKV---LELPR-------IIRAHSQVPLIGI 78
+ A + F +G + LE P ++ PLIG+
Sbjct: 203 LDAEKVF--TQGLNILEWLENPSNTPDKDYLLSIPISCPLIGV 243
>3c57_A Two component transcriptional regulatory protein DEVR; response
regulator, two-component regulatory system, DNA- binding
protein; 1.70A {Mycobacterium tuberculosis} PDB: 1zlk_A
1zlj_A
Length = 95
Score = 29.1 bits (65), Expect = 0.81
Identities = 14/64 (21%), Positives = 25/64 (39%), Gaps = 10/64 (15%)
Query: 138 RDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVEENVVESHISKL 197
R +Q + L +ER +L L G + + E V++++S+L
Sbjct: 17 RGSHMQDPLSGLTDQERTLLGLLS--EGLTNKQIADRMFL--------AEKTVKNYVSRL 66
Query: 198 RKKL 201
KL
Sbjct: 67 LAKL 70
>3cc2_Z 50S ribosomal protein L37AE, 50S ribosomal protein L32E; genomic
sequnece for R-proteins, ribonucleoprotein, RNA-binding,
rRNA-binding, tRNA-binding; HET: 1MA OMU OMG UR3 PSU;
2.40A {Haloarcula marismortui} SCOP: g.41.8.1 PDB:
3cc4_Z* 3cc7_Z* 3cce_Z* 3ccj_Z* 3ccl_Z* 3ccm_Z* 3ccq_Z*
3ccr_Z* 3ccs_Z* 3ccu_Z* 3ccv_Z* 3cd6_Z* 3cma_Z* 3cme_Z*
3cpw_Y*
Length = 116
Score = 29.0 bits (65), Expect = 0.93
Identities = 12/65 (18%), Positives = 26/65 (40%), Gaps = 20/65 (30%)
Query: 138 RDPEVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVEENVVESHISKL 197
R+P ++G ++PL ++ MA++ + + F A YG
Sbjct: 7 REPNLEGLMWPLGGQQTT-----MASKSGKTGSSGRFGARYG---------------RVS 46
Query: 198 RKKLR 202
R+++
Sbjct: 47 RRRVA 51
>1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA
complex, two-component response regulator,
helix-turn-helix, DNA bending; 2.12A {Escherichia coli}
SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A
Length = 82
Score = 28.5 bits (64), Expect = 1.3
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 10/57 (17%)
Query: 145 EVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVEENVVESHISKLRKKL 201
+V L RER IL+ + +G I + + E+ V+ H+ + KK+
Sbjct: 18 DVNQLTPRERDILKLIA--QGLPNK--MI-ARRLDI-----TESTVKVHVKHMLKKM 64
>3cwo_X Beta/alpha-barrel protein based on 1THF and 1TMY; XRAY, CHEY, HISF,
half barrel, de novo protein; 3.10A {Thermotoga
maritima}
Length = 237
Score = 28.4 bits (63), Expect = 1.4
Identities = 10/80 (12%), Positives = 27/80 (33%), Gaps = 5/80 (6%)
Query: 63 LPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDVVNKP--IHHREILARVAAIYRRLK 120
+ I++ +I S ++ +G D + + + ++ ++A +
Sbjct: 44 IKEIMKIDPNAKIIVCSAMGQQAMVIEAIKAGAKDFIVNTAAVENPSLITQIAQTFGSQA 103
Query: 121 VSN---NRAETGPIRVFSDG 137
V + G VF+
Sbjct: 104 VVVAIDAKRVDGEFMVFTYS 123
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.0 bits (61), Expect = 1.8
Identities = 7/32 (21%), Positives = 17/32 (53%), Gaps = 6/32 (18%)
Query: 6 DDRALVK-DGYIALFGDD---GVSLEGFNSLE 33
+ +AL K + L+ DD ++++ ++E
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKA--TME 47
>1vh4_A SUFD protein; structural genomics, protein binding protein; 1.75A
{Escherichia coli} SCOP: b.80.6.1 PDB: 2zu0_A*
Length = 435
Score = 27.7 bits (60), Expect = 2.0
Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 6/51 (11%)
Query: 157 LEYLMANRG--KRVAKTQIFSAIYGLFDEAVEENVVESHISKLRKKLRNKL 205
+ YL + RG ++ A+ I IY E E E ++ ++ +L
Sbjct: 374 IFYLRS-RGINQQDAQQMI---IYAFAAELTEALRDEGLKQQVLARIGQRL 420
>2huj_A LIN2004 protein; hypothetical protein, structural genomics, PSI- 2,
protein structure initiative, joint center for
structural genomics, JCSG; 1.74A {Listeria innocua}
SCOP: a.24.26.1
Length = 140
Score = 27.8 bits (62), Expect = 2.1
Identities = 8/87 (9%), Positives = 25/87 (28%), Gaps = 13/87 (14%)
Query: 123 NNRAETGPIRVFSDGRDPEVQGEVFP--------LPRRERRILEYLMANRGKRVAKTQIF 174
N + + + + + ++ P + ++ R + + Q+
Sbjct: 33 NEKNWELYLSNREEEKPFDFYKDMKPFVDEAKRCADDFLELAIPWVNTERPPYLGELQLR 92
Query: 175 SAIYGLFDEAVEENVVESHISKLRKKL 201
A + V+ V + + K
Sbjct: 93 QAC-----DNVQMTAVSAFNGRSFYKH 114
>1x3u_A Transcriptional regulatory protein FIXJ; helix-turn-helix; NMR
{Sinorhizobium meliloti}
Length = 79
Score = 27.0 bits (60), Expect = 3.3
Identities = 10/61 (16%), Positives = 24/61 (39%), Gaps = 10/61 (16%)
Query: 141 EVQGEVFPLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVEENVVESHISKLRKK 200
+++ + L RER++L ++A + + + VE H + + K
Sbjct: 9 DIRARLQTLSERERQVLSAVVAGLPNKSIAYDLD----------ISPRTVEVHRANVMAK 58
Query: 201 L 201
+
Sbjct: 59 M 59
>1p4w_A RCSB; solution structure, DNA binding domain, DNA binding protein;
NMR {Erwinia amylovora} SCOP: a.4.6.2
Length = 99
Score = 27.1 bits (60), Expect = 3.6
Identities = 6/54 (11%), Positives = 11/54 (20%), Gaps = 10/54 (18%)
Query: 148 PLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVEENVVESHISKLRKKL 201
L +E +L ++ + S KL
Sbjct: 34 RLSPKESEVLRLFAEGFLVTEIAKKLN----------RSIKTISSQKKSAMMKL 77
>2ijz_A Probable M18-family aminopeptidase 2; putative aminopeptidase 2,
structural genomics, PSI, protein structure initiative;
3.00A {Pseudomonas aeruginosa}
Length = 428
Score = 27.0 bits (59), Expect = 3.8
Identities = 25/174 (14%), Positives = 48/174 (27%), Gaps = 27/174 (15%)
Query: 47 SAIEAFLIGKGEKVLELPRIIRAHSQVPLIGISDYPSL--QTTLDFFDSGVDDVVNKP-- 102
S++ A +G+ + R++ AH +D P L + + +G + +
Sbjct: 58 SSLIAIRLGRRSPLESGFRLVGAH--------TDSPCLRVKPNPEIARNGFLQLGVEVYG 109
Query: 103 -IHHREILARVAAIYRRLKVSNNRAETGPIRVFSDGRDPEVQGEVFPLPRRERRILEYLM 161
R ++ R+ RA D R + L R
Sbjct: 110 GALFAPWFDRDLSLAGRVTF---RANGKLESRLVDFRKA--IAVIPNLNIHLNR-----A 159
Query: 162 ANRGKRVAKTQIFSAIYGLFDEAVEENVVESHISKLRKKLRNKLGFDPVDSKRF 215
AN G + I + L ++L + G +
Sbjct: 160 ANEGWPINAQNELPPIIAQLAPGEAAD----FRLLLDEQLLREHGITADVVLDY 209
>2yxn_A Tyrosyl-tRNA synthetase; tRNA synthetases class I, structural
genomics, NPPSFA; HET: AZY; 1.80A {Escherichia coli str}
PDB: 1wq3_A* 1wq4_A* 1x8x_A* 1vbn_A* 1vbm_A*
Length = 322
Score = 26.3 bits (57), Expect = 5.4
Identities = 7/31 (22%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 179 GLFDEAVEENVVESHISKLRKKLRNKLGFDP 209
GL + +E + +++ + GFDP
Sbjct: 14 GLVAQVTDEEALAERLAQ--GPIALVCGFDP 42
>2jan_A Tyrosyl-tRNA synthetase; protein biosynthesis, aminoacyl-tRNA
synthetase, tyrrs, ligase, tyrosine, RNA-binding,
ATP-binding; 2.9A {Mycobacterium tuberculosis}
Length = 432
Score = 26.3 bits (57), Expect = 5.5
Identities = 6/31 (19%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 179 GLFDEAVEENVVESHISKLRKKLRNKLGFDP 209
GL ++ + + + + + + GFDP
Sbjct: 13 GLIAQSTDLDTLAAEAQR--GPMTVYAGFDP 41
>1ep3_A Dihydroorotate dehydrogenase B (PYRD subunit); heterotetramer,
alpha-beta barrel, beta sandwich, FAD domain, alpha/beta
NADP domain; HET: FMN FAD; 2.10A {Lactococcus lactis}
SCOP: c.1.4.1 PDB: 1ep2_A* 1ep1_A*
Length = 311
Score = 26.5 bits (58), Expect = 5.5
Identities = 11/72 (15%), Positives = 29/72 (40%), Gaps = 6/72 (8%)
Query: 58 EKVLELPRIIRAHSQVPLIGISDYPSLQTTLDFFDSGVDDV------VNKPIHHREILAR 111
L+L + +P+IG+ + Q L+ + +G V P +I+ +
Sbjct: 227 PVALKLIHQVAQDVDIPIIGMGGVANAQDVLEMYMAGASAVAVGTANFADPFVCPKIIDK 286
Query: 112 VAAIYRRLKVSN 123
+ + + ++ +
Sbjct: 287 LPELMDQYRIES 298
>3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics,
midwest center for structura genomics, protein structure
initiative; 2.50A {Fusobacterium nucleatum subsp}
Length = 164
Score = 26.4 bits (57), Expect = 5.9
Identities = 4/21 (19%), Positives = 10/21 (47%)
Query: 185 VEENVVESHISKLRKKLRNKL 205
+++ I ++RKK +
Sbjct: 136 KNLKSIDNTIQRIRKKSEEWI 156
>2rnj_A Response regulator protein VRAR; HTH LUXR-type domain, DNA binding
domain, activator, antibiotic resistance, cytoplasm,
DNA-binding; NMR {Staphylococcus aureus}
Length = 91
Score = 26.3 bits (58), Expect = 6.0
Identities = 14/66 (21%), Positives = 28/66 (42%), Gaps = 11/66 (16%)
Query: 137 GRDPEVQGEVF-PLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVEENVVESHIS 195
G + + E++ L RE IL + +G +I ++ + V++H+S
Sbjct: 17 GSHMKKRAELYEMLTEREMEILLLIA--KGYSNQ--EI-ASASHI-----TIKTVKTHVS 66
Query: 196 KLRKKL 201
+ KL
Sbjct: 67 NILSKL 72
>2hfi_A Hypothetical protein YPPE; YPPE_bacsu, GFT structural genomics,
PSI, protein structure initiative, northeast structural
genomics consortium; NMR {Bacillus subtilis} SCOP:
a.24.26.1 PDB: 2im8_A
Length = 131
Score = 26.3 bits (58), Expect = 6.1
Identities = 15/93 (16%), Positives = 29/93 (31%), Gaps = 13/93 (13%)
Query: 117 RRLKVSNNRAETGPIRVFSDGRDPEVQGEVFP--------LPRRERRILEYLMANRGKRV 168
++ + + + + P R LE + R K V
Sbjct: 11 EQMIEVAEKGADRYQEGKNSNHSYDFFETIKPAVEENDELAARWAEGALELIKVRRPKYV 70
Query: 169 AKTQIFSAIYGLFDEAVEENVVESHISKLRKKL 201
K QI + + E V++S++ + KK
Sbjct: 71 HKEQIEAVK-----DNFLELVLQSYVHHIHKKR 98
>3bld_A Queuine tRNA-ribosyltransferase; TGT, PREQ1, glycosyltransferase,
metal-binding, queuosine biosynthesis, tRNA processing,
zinc; HET: PRF; 1.19A {Zymomonas mobilis} PDB: 3bl3_A*
1ozq_A* 1ozm_A* 1r5y_A* 1enu_A* 1f3e_A* 1k4h_A* 1n2v_A*
1p0b_A* 1p0d_A 1p0e_A* 1pud_A 1q2r_A* 1q2s_A* 1q4w_A*
1q63_A* 1q65_A* 1q66_A* 1k4g_A* 1s38_A* ...
Length = 386
Score = 26.2 bits (57), Expect = 6.8
Identities = 10/58 (17%), Positives = 20/58 (34%)
Query: 96 DDVVNKPIHHREILARVAAIYRRLKVSNNRAETGPIRVFSDGRDPEVQGEVFPLPRRE 153
D+ P + + R K S + ++ + + QG VF R++
Sbjct: 156 DECTPYPATPSRAASSMERSMRWAKRSRDAFDSRKEQAENAALFGIQQGSVFENLRQQ 213
>2ts1_A Tyrosyl-tRNA synthetase; ligase (synthetase); 2.30A {Geobacillus
stearothermophilus} SCOP: c.26.1.1 PDB: 3ts1_A* 1tyd_E*
1tya_E* 1tyc_A 1tyb_E* 4ts1_A* 1jh3_A
Length = 419
Score = 25.9 bits (56), Expect = 6.9
Identities = 7/31 (22%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 179 GLFDEAVEENVVESHISKLRKKLRNKLGFDP 209
GL ++ +E+ + +++ +++ GFDP
Sbjct: 11 GLVNQTTDEDGLRKLLNE--ERVTLYCGFDP 39
>2q0o_A Probable transcriptional activator protein TRAR; helix-turn-helix,
two-helix coiled coil; HET: LAE; 2.00A {Rhizobium SP}
Length = 236
Score = 26.0 bits (56), Expect = 7.1
Identities = 12/54 (22%), Positives = 20/54 (37%), Gaps = 10/54 (18%)
Query: 148 PLPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVEENVVESHISKLRKKL 201
L RE L A++GK + + + V+ ++ K R KL
Sbjct: 175 MLSPREMLCLV--WASKGKTAS--VTANLTG------INARTVQHYLDKARAKL 218
>2zkr_g 60S acidic ribosomal protein P0; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 317
Score = 25.6 bits (56), Expect = 8.4
Identities = 13/53 (24%), Positives = 20/53 (37%), Gaps = 6/53 (11%)
Query: 161 MANRGKRVAKTQIFSAIYGLFDEA-----VE-ENVVESHISKLRKKLRNKLGF 207
M + K+ F I L D+ V +NV + ++R LR K
Sbjct: 1 MPREDRATWKSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVV 53
>3mva_O Transcription termination factor, mitochondrial; all alpha-helix,
protein-DNA, transcription factor, terminat
mitochondria; 2.20A {Homo sapiens} PDB: 3n6s_A* 3mvb_O
3n7q_A*
Length = 343
Score = 25.5 bits (55), Expect = 9.6
Identities = 9/58 (15%), Positives = 18/58 (31%), Gaps = 3/58 (5%)
Query: 36 EWLQSSAREDVSAIEAFLIGKGEKVLELPRIIRAHSQVPLIGISDYPSLQTTLDFFDS 93
+ + ++ FL+ KG + II + P +L D +
Sbjct: 41 PGVFHRMITNEQDLKMFLLSKGASKEVIASIISRY---PRAITRTPENLSKRWDLWRK 95
>1fse_A GERE; helix-turn-helix DNA-binding protein transcriptional
regulator; 2.05A {Bacillus subtilis} SCOP: a.4.6.2
Length = 74
Score = 25.5 bits (56), Expect = 9.6
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 10/53 (18%)
Query: 149 LPRRERRILEYLMANRGKRVAKTQIFSAIYGLFDEAVEENVVESHISKLRKKL 201
L +RER + E L+ + K +I ++ + E V +HIS +KL
Sbjct: 12 LTKREREVFELLV--QDKTTK--EI-ASELFIS-----EKTVRNHISNAMQKL 54
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.321 0.140 0.404
Gapped
Lambda K H
0.267 0.0499 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,022,495
Number of extensions: 94375
Number of successful extensions: 439
Number of sequences better than 10.0: 1
Number of HSP's gapped: 411
Number of HSP's successfully gapped: 143
Length of query: 223
Length of database: 5,693,230
Length adjustment: 89
Effective length of query: 134
Effective length of database: 3,535,514
Effective search space: 473758876
Effective search space used: 473758876
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.5 bits)