RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1122
(150 letters)
>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 = 153 bits (389), Expect = 2e-48
Identities = 34/124 (27%), Positives = 62/124 (50%), Gaps = 3/124 (2%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTT 68
V F F+ +V ++ +F P D + ++G MF I GI+++I G + T+
Sbjct: 76 VPFFVGADSNFVTRVVTLLEFEVFQPADYVIQEGTFGDRMFFIQQGIVDIIMSDGVIATS 135
Query: 69 MKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPEAQEILQNLGR 128
+ G +FGEI +L +R A V+ Y LFSLS + + ++P ++ ++ +
Sbjct: 136 LSDGSYFGEICLLT---RERRVASVKCETYCTLFSLSVQHFNQVLDEFPAMRKTMEEIAV 192
Query: 129 KRLM 132
+RL
Sbjct: 193 RRLT 196
>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 = 147 bits (372), Expect = 8e-46
Identities = 37/130 (28%), Positives = 68/130 (52%), Gaps = 4/130 (3%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTT 68
+ +F P F+ ++ K+K +F PGD I R+G + ++M+ I G++ V+++
Sbjct: 77 MPLFANADPNFVTAMLTKLKFEVFQPGDYIIREGTIGKKMYFIQHGVVSVLTKGN-KEMK 135
Query: 69 MKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPEAQEILQNLGR 128
+ G +FGEI +L +RTA VR+ Y L+SLS ++ +++YP + + +
Sbjct: 136 LSDGSYFGEICLLT---RGRRTASVRADTYCRLYSLSVDNFNEVLEEYPMMRRAFETVAI 192
Query: 129 KRLMEAKNLN 138
RL N
Sbjct: 193 DRLDRIGKKN 202
>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 = 144 bits (365), Expect = 3e-45
Identities = 32/132 (24%), Positives = 56/132 (42%), Gaps = 6/132 (4%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTT 68
F+ L L ++ + PGDLI GE + + G LEVI + V+
Sbjct: 32 HPAFRLASDGCLRALAMEFQTVHCAPGDLIYHAGESVDSLCFVVSGSLEVIQD-DEVVAI 90
Query: 69 MKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPEAQEILQNLGR 128
+ GD FG++ L + A+VR++ Y +L + R+ + ++ Y
Sbjct: 91 LGKGDVFGDVFWKE-ATLAQSCANVRALTYCDLHVIKRDALQKVLEFYTAFSHSFS---- 145
Query: 129 KRLMEAKNLNKK 140
+ L+ NL K+
Sbjct: 146 RNLILTYNLRKR 157
>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 = 140 bits (356), Expect = 3e-43
Identities = 30/136 (22%), Positives = 63/136 (46%), Gaps = 4/136 (2%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTT 68
+ +F+ L L L +K PG+ + R+G+ + ++ + G +EV+ + VL
Sbjct: 80 LPLFESASRGCLRSLSLIIKTSFCAPGEFLIRQGDALQAIYFVCSGSMEVLKD-NTVLAI 138
Query: 69 MKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPEAQEILQNLGR 128
+ GD G + + + K A+V+++ Y +L +S + + ++ YPE + + +
Sbjct: 139 LGKGDLIGSDSLTK-EQVIKTNANVKALTYCDLQYISLKGLREVLRLYPEYAQKFVSEIQ 197
Query: 129 KRLMEAKNLNKKFKVD 144
L NL + D
Sbjct: 198 HDL--TYNLREGSGAD 211
>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 = 126 bits (317), Expect = 3e-38
Identities = 26/122 (21%), Positives = 50/122 (40%), Gaps = 11/122 (9%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESG----- 63
V +F+ L + ++K +FT + R+G+ EM I G LE ++ G
Sbjct: 11 VPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLESVTTDGGRSGF 70
Query: 64 RVLTTMKAGDFFGEIGILNLDG------LNKRTADVRSVGYAELFSLSREDVLSAMKDYP 117
+ +K GDF G+ + L T V+++ E F+L +++ +
Sbjct: 71 YNRSLLKEGDFCGDELLTWALDPKSGSNLPSSTRTVKALTEVEAFALIADELKFVASQFR 130
Query: 118 EA 119
+
Sbjct: 131 RS 132
>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 = 114 bits (288), Expect = 7e-34
Identities = 36/128 (28%), Positives = 57/128 (44%), Gaps = 6/128 (4%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTT 68
V +FQ+ P L ++V ++A G +ICR GE MF + +G + V + + L
Sbjct: 16 VPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATPNPVEL-- 73
Query: 69 MKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPEAQEILQNLGR 128
G FFGE+ +++ R+A V + L SL D PE EI +
Sbjct: 74 -GPGAFFGEMALIS---GEPRSATVSAATTVSLLSLHSADFQMLCSSSPEIAEIFRKTAL 129
Query: 129 KRLMEAKN 136
+R A +
Sbjct: 130 ERRGAAAS 137
>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 = 87.9 bits (218), Expect = 8e-23
Identities = 24/125 (19%), Positives = 52/125 (41%), Gaps = 8/125 (6%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVI--SESGR-- 64
+ +F + E + L M+ Y + +G+ + +I G + VI +
Sbjct: 44 IKLFGDFSNEEVRYLCSYMQCYAAPRDCQLLTEGDPGDYLLLILTGEVNVIKDIPNKGIQ 103
Query: 65 VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEIL 123
+ + AG GE+ + +DG R+A + + LSR+ + + + P+ ++L
Sbjct: 104 TIAKVGAGAIIGEMSM--IDG-MPRSASCVASLPTDFAVLSRDALYQLLANMPKLGNKVL 160
Query: 124 QNLGR 128
L +
Sbjct: 161 IRLLQ 165
>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 = 87.0 bits (216), Expect = 1e-22
Identities = 19/123 (15%), Positives = 48/123 (39%), Gaps = 9/123 (7%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISES---GRV 65
+ +F+ PE + ++ M + G+ + +G+ ++I G ++ + GR
Sbjct: 43 ILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRC 102
Query: 66 LTTMKAGDFFGEIGILNLDGLN-KRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEIL 123
+ FGE+ ++ N R A + + L+ L R + +++
Sbjct: 103 VGNYDNRGSFGELALMY----NTPRAATITATSPGALWGLDRVTFRRIIVKNNAKKRKMY 158
Query: 124 QNL 126
++
Sbjct: 159 ESF 161
>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 = 85.4 bits (212), Expect = 2e-22
Identities = 28/111 (25%), Positives = 52/111 (46%), Gaps = 6/111 (5%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTT 68
+ + + ++V M + I ++G+V ++++ DG +EV E G L T
Sbjct: 28 NDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLVYVMEDGKVEVTKE-GVKLCT 86
Query: 69 MKAGDFFGEIGILNLDGLN-KRTADVRSVGYAELFSLSREDVLSAMKDYPE 118
M G FGE+ IL N RTA V+++ +L+++ R+ + M
Sbjct: 87 MGPGKVFGELAILY----NCTRTATVKTLVNVKLWAIDRQCFQTIMMRTGL 133
>3pna_A CAMP-dependent protein kinase type I-alpha regula subunit;
beta-barrel, CAMP-binding, catalytic subunit,
transferase; HET: CMP; 1.50A {Bos taurus} PDB: 3fhi_B*
3iia_A 3plq_A* 1u7e_B* 3pvb_B*
Length = 154
Score = 85.5 bits (212), Expect = 3e-22
Identities = 19/111 (17%), Positives = 42/111 (37%), Gaps = 6/111 (5%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTT 68
+F D+ M F G+ + ++G+ ++I G ++V T+
Sbjct: 43 NVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVN-NEWATS 101
Query: 69 MKAGDFFGEIGILNLDGLN-KRTADVRSVGYAELFSLSREDVLSAMKDYPE 118
+ G FGE+ ++ R A V++ +L+ + R+ +
Sbjct: 102 VGEGGSFGELALIY----GTPRAATVKAKTNVKLWGIDRDSYRRILMGSTL 148
>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 = 84.3 bits (209), Expect = 6e-22
Identities = 21/134 (15%), Positives = 49/134 (36%), Gaps = 14/134 (10%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESG----- 63
F E L D+ L + F G +I ++ A + ++ +G +E+ +G
Sbjct: 11 YRFFASLTDEQLKDIALISEEKSFPTGSVIFKENSKADNLMLLLEGGVELFYSNGGAGSA 70
Query: 64 --RVLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQ 120
+ ++ G FG + + T+ R+ + ++ + ++ Q
Sbjct: 71 ANSTVCSVVPGAIFGVSSL--IKP-YHYTSSARATKPVRVVDINGARLREMSENNQALGQ 127
Query: 121 EILQNLGR---KRL 131
++ N+ RL
Sbjct: 128 VLMNNVAAAVLARL 141
>2pqq_A Putative transcriptional regulator; APC7345, streptomyces
coelicolor structural genomics, PSI-2, protein structure
initiative; 2.00A {Streptomyces coelicolor A3}
Length = 149
Score = 83.5 bits (207), Expect = 2e-21
Identities = 28/131 (21%), Positives = 56/131 (42%), Gaps = 9/131 (6%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISESGR-- 64
+F E +L M GD + +G+ ++++ +G +++ S GR
Sbjct: 10 NPLFAALDDEQSAELRASMSEVTLARGDTLFHEGDPGDRLYVVTEGKVKLHRTSPDGREN 69
Query: 65 VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEIL 123
+L + + GE+ + D RTA ++ +L +L D+ + PE A +L
Sbjct: 70 MLAVVGPSELIGELSL--FDPGP-RTATGTALTEVKLLALGHGDLQPWLNVRPEVATALL 126
Query: 124 QNLGRKRLMEA 134
+ + R RL +
Sbjct: 127 RAVAR-RLRKT 136
>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 = 85.6 bits (212), Expect = 2e-21
Identities = 22/110 (20%), Positives = 47/110 (42%), Gaps = 3/110 (2%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTT 68
+ + + L + I+ PG+ I R+G+ ++I G ++V + V+
Sbjct: 130 MPVLKSLTTYDRAKLADALDTKIYQPGETIIREGDQGENFYLIEYGAVDVSKKGQGVINK 189
Query: 69 MKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE 118
+K D+FGE+ +LN R A V + ++ +L + + +
Sbjct: 190 LKDHDYFGEVALLNDL---PRQATVTATKRTKVATLGKSGFQRLLGPAVD 236
Score = 73.7 bits (181), Expect = 6e-17
Identities = 15/110 (13%), Positives = 39/110 (35%), Gaps = 4/110 (3%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTT 68
+F + + ++ ++ G I ++G+ +++ G ++ + +
Sbjct: 12 NFLFNKLDSDSKRLVINCLEEKSVPKGATIIKQGDQGDYFYVVEKGTVDFYVN-DNKVNS 70
Query: 69 MKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE 118
G FGE+ ++ R A V + L++L R +
Sbjct: 71 SGPGSSFGELALMYNS---PRAATVVATSDCLLWALDRLTFRKILLGSSF 117
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 80.0 bits (198), Expect = 3e-20
Identities = 26/131 (19%), Positives = 52/131 (39%), Gaps = 8/131 (6%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISESGR-- 64
+F+ P L +L+ G + R+GE A + + G +++ ++ G+
Sbjct: 17 HHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKIYRLTPEGQEK 76
Query: 65 VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEIL 123
+L + F E + A ++V ++LF S + L ++D A +L
Sbjct: 77 ILEVTNERNTFAEAMM--FMDTPNYVATAQAVVPSQLFRFSNKAYLRQLQDNTPLALALL 134
Query: 124 QNLGRKRLMEA 134
L RL +
Sbjct: 135 AKLST-RLHQR 144
>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 = 79.2 bits (195), Expect = 1e-18
Identities = 32/134 (23%), Positives = 54/134 (40%), Gaps = 9/134 (6%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVI-----SESG 63
V FQ E L L ++ + G+ I R+G FII+ G + V +E
Sbjct: 162 VPTFQSLPEEILSKLADVLEETHYENGEYIIRQGARGDTFFIISKGKVNVTREDSPNEDP 221
Query: 64 RVLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEI 122
L T+ GD+FGE + D RTA+V + + R+ + + + +
Sbjct: 222 VFLRTLGKGDWFGEKALQGED---VRTANVIAAEAVTCLVIDRDSFKHLIGGLDDVSNKA 278
Query: 123 LQNLGRKRLMEAKN 136
++ K EA+
Sbjct: 279 YEDAEAKAKYEAEA 292
Score = 73.4 bits (180), Expect = 1e-16
Identities = 27/112 (24%), Positives = 52/112 (46%), Gaps = 4/112 (3%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTT 68
+ + + ++V M + I ++G+V ++++ DG +EV E G L T
Sbjct: 44 NDFMKNLELSQIQEIVDCMYPVEYGKDSCIIKEGDVGSLVYVMEDGKVEVTKE-GVKLCT 102
Query: 69 MKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPEAQ 120
M G FGE+ IL RTA V+++ +L+++ R+ + M +
Sbjct: 103 MGPGKVFGELAILYNC---TRTATVKTLVNVKLWAIDRQCFQTIMMRTGLIK 151
>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 = 77.8 bits (192), Expect = 2e-18
Identities = 25/133 (18%), Positives = 57/133 (42%), Gaps = 8/133 (6%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISESGR-- 64
+ + + L + + + + +GE A ++ I G + V E G+
Sbjct: 51 MVLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEM 110
Query: 65 VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEIL 123
+L+ + GDF GE+G+ + +R+A VR+ E+ +S + ++ P+ +
Sbjct: 111 ILSYLNQGDFIGELGL--FEEGQERSAWVRAKTACEVAEISYKKFRQLIQVNPDILMRLS 168
Query: 124 QNLGRK-RLMEAK 135
+ R+ ++ K
Sbjct: 169 AQMARRLQVTSEK 181
>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 = 75.3 bits (186), Expect = 8e-18
Identities = 25/133 (18%), Positives = 57/133 (42%), Gaps = 8/133 (6%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISESGR-- 64
+ + + L + + + + +GE A ++ I G + V E G+
Sbjct: 1 MVLGKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEM 60
Query: 65 VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEIL 123
+L+ + GDF GE+G+ + +R+A VR+ E+ +S + ++ P+ +
Sbjct: 61 ILSYLNQGDFIGELGL--FEEGQERSAWVRAKTACEVAEISYKKFRQLIQVNPDILMRLS 118
Query: 124 QNLGRK-RLMEAK 135
+ R+ ++ K
Sbjct: 119 AQMARRLQVTSEK 131
>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 = 74.6 bits (184), Expect = 2e-17
Identities = 34/131 (25%), Positives = 62/131 (47%), Gaps = 9/131 (6%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISESGR-- 64
+F PE + + + ++ G I +G++ + ++++A G + + G+
Sbjct: 4 SPLFHGLAPEEVDLALSYFQRRLYPQGKPIFYQGDLGQALYLVASGKVRLFRTHLGGQER 63
Query: 65 VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEIL 123
L + G+ FGE+ + LD R+A +V EL +L RED L+ ++ P A +
Sbjct: 64 TLALLGPGELFGEMSL--LDEGE-RSASAVAVEDTELLALFREDYLALIRRLPLVAHNLA 120
Query: 124 QNLGRKRLMEA 134
L R RL EA
Sbjct: 121 ALLAR-RLREA 130
>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 = 74.2 bits (183), Expect = 3e-17
Identities = 35/133 (26%), Positives = 63/133 (47%), Gaps = 9/133 (6%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISESGR-- 64
IFQ +P + L +++ F G + +GE ++II G +++ + GR
Sbjct: 11 AGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKVKIGRRAPDGREN 70
Query: 65 VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEIL 123
+LT M D FGE+ I D RT+ ++ S+ R+ + S + D PE ++++L
Sbjct: 71 LLTIMGPSDMFGELSI--FDP-GPRTSSATTITEVRAVSMDRDALRSWIADRPEISEQLL 127
Query: 124 QNLGRK-RLMEAK 135
+ L R+ R
Sbjct: 128 RVLARRLRRTNNN 140
>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA;
3.10A {Mesorhizobium loti} PDB: 2zd9_A*
Length = 355
Score = 75.7 bits (186), Expect = 4e-17
Identities = 37/131 (28%), Positives = 56/131 (42%), Gaps = 6/131 (4%)
Query: 5 CVGVVTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGR 64
V V +FQ+ P L ++V ++A G +ICR GE MF + +G + V + +
Sbjct: 229 LVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEGSVSVATPNPV 288
Query: 65 VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPEAQEILQ 124
L G FFGE+ ++ R+A V + L SL D PE EI +
Sbjct: 289 EL---GPGAFFGEMALI---SGEPRSATVSAATTVSLLSLHSADFQMLCSSSPEIAEIFR 342
Query: 125 NLGRKRLMEAK 135
+R A
Sbjct: 343 KTALERRGAAA 353
>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 = 74.7 bits (183), Expect = 4e-17
Identities = 26/123 (21%), Positives = 44/123 (35%), Gaps = 8/123 (6%)
Query: 1 MGVVCVGVVTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVIS 60
M + V+I + + ++ F G I +GE E FII +G V+
Sbjct: 154 MYEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAAVLQ 213
Query: 61 -----ESGRVLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKD 115
E + + D+FGEI +L + A V + G + L R +
Sbjct: 214 RRSENEEFVEVGRLGPSDYFGEIALLMNR---PKAATVVARGPLKCVKLDRPRFERVLGP 270
Query: 116 YPE 118
+
Sbjct: 271 CSD 273
Score = 63.1 bits (153), Expect = 7e-13
Identities = 19/112 (16%), Positives = 43/112 (38%), Gaps = 4/112 (3%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTT 68
+F D+ M F G+ + ++G+ ++I G ++V T+
Sbjct: 44 NVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQGDEGDNFYVIDQGEMDVYVN-NEWATS 102
Query: 69 MKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPEAQ 120
+ G FGE+ ++ R A V++ +L+ + R+ + +
Sbjct: 103 VGEGGSFGELALIY---GTPRAATVKAKTNVKLWGIDRDSYRRILMGSTLRK 151
>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 = 73.1 bits (180), Expect = 8e-17
Identities = 26/130 (20%), Positives = 53/130 (40%), Gaps = 8/130 (6%)
Query: 5 CVGVVTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISES 62
+ +FQ + + + + + F P +L+ + + ++ G++ V +S
Sbjct: 7 DLKRSPLFQNVPEDAMREALKVVTERNFQPDELVVEQDAEGEALHLVTTGVVRVSRVSLG 66
Query: 63 GR--VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-A 119
GR VL + A GE + L R+A VR++ L RE ++ +P
Sbjct: 67 GRERVLGDIYAPGVVGETAV--LAHQE-RSASVRALTPVRTLMLHREHFELILRRHPRVL 123
Query: 120 QEILQNLGRK 129
+ + L R+
Sbjct: 124 WNLAEMLARR 133
>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 = 74.0 bits (181), Expect = 1e-16
Identities = 25/115 (21%), Positives = 45/115 (39%), Gaps = 8/115 (6%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVI-----SESG 63
V+I + + + ++ F G+ I +GE + +II +G V+ +E
Sbjct: 253 VSILESLEKWERLTVADALEPVQFEDGEKIVVQGEPGDDFYIITEGTASVLQRRSPNEEY 312
Query: 64 RVLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE 118
+ + D+FGEI +L R A V + G + L R + E
Sbjct: 313 VEVGRLGPSDYFGEIALLLNR---PRAATVVARGPLKCVKLDRPRFERVLGPCSE 364
Score = 63.6 bits (154), Expect = 6e-13
Identities = 20/131 (15%), Positives = 49/131 (37%), Gaps = 4/131 (3%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTT 68
+F D+ M G+ + ++G +++ G ++V G +T
Sbjct: 135 NVLFAHLDDNERSDIFDAMFPVTHIAGETVIQQGNEGDNFYVVDQGEVDVYVN-GEWVTN 193
Query: 69 MKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPEAQEILQNLGR 128
+ G FGE+ ++ R A V++ +L+ + R+ + + +
Sbjct: 194 ISEGGSFGELALIYGT---PRAATVKAKTDLKLWGIDRDSYRRILMGSTLRKRKMYEEFL 250
Query: 129 KRLMEAKNLNK 139
++ ++L K
Sbjct: 251 SKVSILESLEK 261
>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 = 74.0 bits (181), Expect = 2e-16
Identities = 18/143 (12%), Positives = 49/143 (34%), Gaps = 13/143 (9%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVI--------- 59
+ + + +V + ++ G+ I +G++A FI+ G +++
Sbjct: 272 LPFLKSLEVSERLKVVDVIGTKVYNDGEQIIAQGDLADSFFIVESGEVKITMKRKGKSEV 331
Query: 60 -SESGRVLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE 118
+ G +FGE+ ++ R A ++G + ++ + + E
Sbjct: 332 EENGAVEIARCFRGQYFGELALVTNK---PRAASAHAIGTVKCLAMDVQAFERLLGPCME 388
Query: 119 AQEILQNLGRKRLMEAKNLNKKF 141
+ ++L+ N
Sbjct: 389 IMKRNIATYEEQLVALFGTNMDI 411
Score = 70.5 bits (172), Expect = 3e-15
Identities = 20/137 (14%), Positives = 49/137 (35%), Gaps = 6/137 (4%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVI---SESGRV 65
+ +F+ PE + ++ M + G+ + +G+ ++I G ++ GR
Sbjct: 150 ILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRC 209
Query: 66 LTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPEAQEILQN 125
+ FGE+ ++ + A + + L+ L R + + +
Sbjct: 210 VGNYDNRGSFGELALMYNT---PKAATITATSPGALWGLDRVTFRRIIVKNNAKKRKMYE 266
Query: 126 LGRKRLMEAKNLNKKFK 142
+ L K+L +
Sbjct: 267 SFIESLPFLKSLEVSER 283
>3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix,
homodimer, transcription regulator; 3.60A {Pseudomonas
aeruginosa}
Length = 227
Score = 71.5 bits (176), Expect = 3e-16
Identities = 26/135 (19%), Positives = 53/135 (39%), Gaps = 8/135 (5%)
Query: 5 CVGVVTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISES 62
+ +F+ P L +L+ G + R+GE A + + G +++ ++
Sbjct: 10 LLQSHHLFEPLSPVQLQELLASSDLVNLDKGAYVFRQGEPAHAFYYLISGCVKIYRLTPE 69
Query: 63 GR--VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-A 119
G+ +L + F E + A ++V ++LF S + L ++D A
Sbjct: 70 GQEKILEVTNERNTFAEAMM--FMDTPNYVATAQAVVPSQLFRFSNKAYLRQLQDNTPLA 127
Query: 120 QEILQNLGRKRLMEA 134
+L L RL +
Sbjct: 128 LALLAKLST-RLHQR 141
>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 = 70.7 bits (174), Expect = 5e-16
Identities = 20/124 (16%), Positives = 49/124 (39%), Gaps = 7/124 (5%)
Query: 11 IFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISESGR--VL 66
I L L+ K +F G+++ + + ++ I+ +G L+ +SE+G+ +
Sbjct: 6 IHHHHHHMDLKKLLPCGKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENGKTLEI 65
Query: 67 TTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEILQN 125
+K I + +V + +++ S+ +E L + E L++
Sbjct: 66 DEIKPVQIIASGFI--FSSEPRFPVNVVAGENSKILSIPKEVFLDLLMKDRELLLFFLKD 123
Query: 126 LGRK 129
+
Sbjct: 124 VSEH 127
>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 = 70.8 bits (174), Expect = 6e-16
Identities = 19/149 (12%), Positives = 52/149 (34%), Gaps = 13/149 (8%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYI--FTPGDLICRKGEVAREMFIIADGILEV--ISESGR 64
+ +FQ E ++ K+K + G+ I + G ++ + G + + ++
Sbjct: 23 LPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLLKGEISIVTNAKENI 82
Query: 65 --VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQE 121
V+ ++A + ++ + + +S+ VLS + Y
Sbjct: 83 YTVIEQIEAPYLIEPQSLFGMN--TNYASSYVAHTEVHTVCISKAFVLSDLFRYDIFRLN 140
Query: 122 ILQNLGRKRLMEAKNLNKKFKVDAEKSKR 150
+ + + A+NL + + +
Sbjct: 141 YMNIVSNR----AQNLYSRLWDEPTLDLK 165
>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 = 72.3 bits (176), Expect = 8e-16
Identities = 22/125 (17%), Positives = 44/125 (35%), Gaps = 5/125 (4%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGD-LICRKGEVAREMFIIADGILEVISESGRVLT 67
+ +L + G ++ +GE +II G + V+ V+
Sbjct: 342 IKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVC 401
Query: 68 TMKAGDFFGEIGILNLDGLNKRTADVRSV-GYAELFSLSREDVLSAMKDYPEAQEILQNL 126
T+ GD FG++ ++N R A + + +ED ++D L+
Sbjct: 402 TLHEGDDFGKLALVNDA---PRAASIVLREDNCHFLRVDKEDFNRILRDVEANTVRLKEH 458
Query: 127 GRKRL 131
+ L
Sbjct: 459 DQDVL 463
Score = 66.5 bits (161), Expect = 9e-14
Identities = 26/139 (18%), Positives = 51/139 (36%), Gaps = 10/139 (7%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVI------SES 62
V F++ P L + L G + R+G++ + + G L+V +
Sbjct: 47 VKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQD 106
Query: 63 GRVLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPEAQEI 122
+ T+ G FGE + N R A + + +EL + +ED + + Y +
Sbjct: 107 AVTICTLGIGTAFGESILDN----TPRHATIVTRESSELLRIEQEDFKALWEKYRQYMAG 162
Query: 123 LQNLGRKRLMEAKNLNKKF 141
L + N ++
Sbjct: 163 LLAPPYGVMETGSNNDRIP 181
>2oz6_A Virulence factor regulator; winged helix, helix-turn-helix,
transcription factor, CAMP-B proteins, CAMP receptor
protein; HET: CMP; 2.80A {Pseudomonas aeruginosa} SCOP:
a.4.5.4 b.82.3.2
Length = 207
Score = 70.0 bits (172), Expect = 8e-16
Identities = 26/124 (20%), Positives = 49/124 (39%), Gaps = 7/124 (5%)
Query: 17 PEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISESGR--VLTTMKAG 72
+ L L+ +T I G+ +F I G + + + GR ++ + +G
Sbjct: 3 LKHLDKLLAHCHRRRYTAKSTIIYAGDRCETLFFIIKGSVTILIEDDDGREMIIGYLNSG 62
Query: 73 DFFGEIGIL-NLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEILQNLGRKR 130
DFFGE+G+ +R+A VR+ E+ +S + E + + R
Sbjct: 63 DFFGELGLFEKEGSEQERSAWVRAKVECEVAEISYAKFRELSQQDSEILYTLGSQMAD-R 121
Query: 131 LMEA 134
L +
Sbjct: 122 LRKT 125
>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 = 70.0 bits (172), Expect = 1e-15
Identities = 22/135 (16%), Positives = 50/135 (37%), Gaps = 9/135 (6%)
Query: 5 CVGVVTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISES 62
+ + + + L+ + + G+ + + E A+ + ++ DG +++ ++ +
Sbjct: 12 IARNSLLIRSLPEQHVDALLSQAVWRSYDRGETLFLQEEKAQAIHVVIDGWVKLFRMTPT 71
Query: 63 GR--VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-A 119
G V++ G+ FGE L +V E+ + +S M+ PE
Sbjct: 72 GSEAVVSVFTRGESFGEAVA--LRNTP-YPVSAEAVTPCEVMHIPSPVFVSLMRRDPEIC 128
Query: 120 QEILQNLGRKRLMEA 134
IL L
Sbjct: 129 ISILATTFG-HLHSL 142
>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 = 67.8 bits (166), Expect = 1e-15
Identities = 19/112 (16%), Positives = 41/112 (36%), Gaps = 6/112 (5%)
Query: 9 VTIFQECQPEFLHDLVLKMK-AYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLT 67
+ F +L M + G +I G+ ++I +G +E+ G+V
Sbjct: 21 LPAFANMTMSVRRELCSVMIFEVVEQAGAIILEDGQELDSWYVILNGTVEISHPDGKV-E 79
Query: 68 TMKAGDFFGEIGILNLDGLNKRTADVRS-VGYAELFSLSREDVLSAMKDYPE 118
+ G+ FG L+ VR+ V + ++++D + +
Sbjct: 80 NLFMGNSFGITPTLDKQ---YMHGIVRTKVDDCQFVCIAQQDYWRILNHVEK 128
>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 = 69.7 bits (171), Expect = 2e-15
Identities = 26/147 (17%), Positives = 47/147 (31%), Gaps = 17/147 (11%)
Query: 5 CVGVVTIFQECQPEF----------LHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADG 54
G+V + F I G+ A ++ + G
Sbjct: 11 SSGLVPRGSHMIVTQDKALANVFRQMATGAFPPVVETFERNKTIFFPGDPAERVYFLLKG 70
Query: 55 I--LEVISESGR--VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVL 110
L + E+G + ++ FG + +L + R + EL S E V
Sbjct: 71 AVKLSRVYEAGEEITVALLRENSVFGVLSLLT-GNKSDRFYHAVAFTPVELLSAPIEQVE 129
Query: 111 SAMKDYPE-AQEILQNLGRK-RLMEAK 135
A+K+ PE + +L+ L + E
Sbjct: 130 QALKENPELSMLMLRGLSSRILQTEMM 156
>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 = 65.7 bits (161), Expect = 5e-14
Identities = 19/132 (14%), Positives = 50/132 (37%), Gaps = 9/132 (6%)
Query: 11 IFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGI--LEVISESGR--VL 66
++ E L +++ + + +G++ +F + +G + GR +
Sbjct: 17 VWSLLNEEERELLDKEIQPFPCKKASTVFSEGDIPNNLFYLYEGKIKILREGVYGRFHIS 76
Query: 67 TTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEILQN 125
+K G FFG ++ +V +++ ++ E + + +K + L+
Sbjct: 77 RIVKPGQFFGMRPY--FAE-ETCSSTAIAVENSKVLAIPVEAIEALLKGNTSFCRYFLKA 133
Query: 126 LGRKRLMEAKNL 137
L + L A+
Sbjct: 134 LAK-ELGYAERR 144
>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 = 64.7 bits (158), Expect = 1e-13
Identities = 18/123 (14%), Positives = 36/123 (29%), Gaps = 11/123 (8%)
Query: 12 FQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISESGR--VLT 67
E L + F G + GE M + +G +++ I E G +L
Sbjct: 17 DNFFPIEKLRNYTQMGLIRDFAKGSAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLY 76
Query: 68 TMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEILQNL 126
G++ ++ S + + + + + EI +N
Sbjct: 77 YAGGNSLIGKLYPTG------NNIYATAMEPTRTCWFSEKSLRTVFRTDEDMIFEIFKNY 130
Query: 127 GRK 129
K
Sbjct: 131 LTK 133
>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling;
HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB:
4avb_A* 4avc_A*
Length = 333
Score = 63.5 bits (154), Expect = 7e-13
Identities = 24/112 (21%), Positives = 44/112 (39%), Gaps = 6/112 (5%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESG---RV 65
+ +FQ C E L L ++ G ++ R+GE A +I+ G EV +
Sbjct: 18 MDVFQGCPAEGLVSLAASVQPLRAAAGQVLLRQGEPAVSFLLISSGSAEVSHVGDDGVAI 77
Query: 66 LTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYP 117
+ G GEI +L + R+A V ++ ++ R + +
Sbjct: 78 IARALPGMIVGEIALLR---DSPRSATVTTIEPLTGWTGGRGAFATMVHIPG 126
>3iwz_A CAP-like, catabolite activation-like protein; XCC, pathogenicity,
CRP, CLP, C-DI-GMP receptor, quorum SENS binding,
transcription; 2.30A {Xanthomonas campestris PV}
Length = 230
Score = 62.3 bits (152), Expect = 7e-13
Identities = 23/131 (17%), Positives = 47/131 (35%), Gaps = 12/131 (9%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISESGR-- 64
T + + + + R G+ A ++ + G + + + R
Sbjct: 16 ATPSLTLDAGTIERFLAHSHRRRYPTRTDVFRPGDPAGTLYYVISGSVSIIAEEDDDREL 75
Query: 65 VLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMK-----DYPE- 118
VL +G+F GE+G+ + + R +R+ EL +S E + + D P
Sbjct: 76 VLGYFGSGEFVGEMGLFI-ES-DTREVILRTRTQCELAEISYERLQQLFQTSLSPDAPRI 133
Query: 119 AQEILQNLGRK 129
I L ++
Sbjct: 134 LYAIGVQLSKR 144
>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 = 59.7 bits (145), Expect = 8e-12
Identities = 21/123 (17%), Positives = 37/123 (30%), Gaps = 8/123 (6%)
Query: 14 ECQPEFLHDLVLKMKAYI--FTPGDLICRKGEVAREMFIIADGI--LEVISESGR--VLT 67
Q E + F +LI + + + DGI L ISE+G L
Sbjct: 3 NAQAEEFKKYLETNGIKPKQFHKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQ 62
Query: 68 TMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEILQNL 126
K I + +V S A + + ++ + + Q L
Sbjct: 63 YYKGAFVIMSGFIDTETSVGYYNLEVISE-QATAYVIKINELKELLSKNLTHFFYVFQTL 121
Query: 127 GRK 129
++
Sbjct: 122 QKQ 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 = 59.6 bits (145), Expect = 8e-12
Identities = 14/130 (10%), Positives = 48/130 (36%), Gaps = 15/130 (11%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV-ISESGR--V 65
+ + E ++ + + ++ ++ +F++ G + V ++ +
Sbjct: 9 TNLLEVLNSEEYSGVLKEFREQRYSKKAILYTPNTERNLVFLVKSGRVRVYLAYEDKEFT 68
Query: 66 LTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEILQ 124
L ++AGD F A ++++ + + + + ++P + +++
Sbjct: 69 LAILEAGDIFCT----------HTRAFIQAMEDTTILYTDIRNFQNIVVEFPAFSLNMVK 118
Query: 125 NLGRKRLMEA 134
LG L +
Sbjct: 119 VLGD-LLKNS 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 = 55.3 bits (134), Expect = 3e-10
Identities = 18/136 (13%), Positives = 40/136 (29%), Gaps = 11/136 (8%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEV--ISESGR-- 64
++ + + + G +I + ++ G L +S+ GR
Sbjct: 8 FPLWNDLNTAQKKLISDNLITQHVKKGTIIHNGNMDCTGLLLVKSGQLRTYILSDEGREI 67
Query: 65 VLTTMKAGD--FFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQE 121
L + D I+ + + + +L+ + E MKD A
Sbjct: 68 TLYRLFDMDMCLLSASCIM---RSIQFEVTIEAEKDTDLWIIPAEIYKGIMKDSAPVANY 124
Query: 122 ILQNLGRKRLMEAKNL 137
+ + R + L
Sbjct: 125 TNELMAT-RFSDVMWL 139
>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 = 55.3 bits (134), Expect = 3e-10
Identities = 23/133 (17%), Positives = 37/133 (27%), Gaps = 15/133 (11%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISES-GR--V 65
I ++ I G L+C +F++ DG L V R
Sbjct: 5 FNIANVLLSPDGETFFRGFRSKIHAKGSLVCTGEGDENGVFVVVDGRLRVYLVGEEREIS 64
Query: 66 LTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEILQ 124
L + +GD F V + E+ ++ P A ++
Sbjct: 65 LFYLTSGDMFCMH----------SGCLVEATERTEVRFADIRTFEQKLQTCPSMAWGLIA 114
Query: 125 NLGRKRLMEAKNL 137
LGR L
Sbjct: 115 ILGR-ALTSCMRT 126
>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary
phase, DNA-binding, transcription regulation; 1.50A
{Thermus thermophilus}
Length = 202
Score = 52.6 bits (127), Expect = 2e-09
Identities = 24/110 (21%), Positives = 42/110 (38%), Gaps = 19/110 (17%)
Query: 32 FTPGDLICRKGE--VAREMFIIADGILEV--ISESGR--VLTTMKAGDFFGEIGILNLDG 85
F GD+I G + + +G++ + + E G L ++ G FFGE +
Sbjct: 10 FKAGDVILYPGVPGPRDRAYRVLEGLVRLEAVDEEGNALTLRLVRPGGFFGEEALFG--- 66
Query: 86 LNKRTADVRSVGYAELFSLSREDVLSAMKDYPE-AQEILQNLGRKRLMEA 134
+R + L L PE +++ Q+L + L EA
Sbjct: 67 -QERIYFAEAATDVRLEPLPEN-------PDPELLKDLAQHLSQ-GLAEA 107
>3b02_A Transcriptional regulator, CRP family; structural genomics, riken
structural genomics/proteomics in RSGI; 1.92A {Thermus
thermophilus} PDB: 2zdb_A
Length = 195
Score = 52.2 bits (126), Expect = 3e-09
Identities = 21/107 (19%), Positives = 41/107 (38%), Gaps = 14/107 (13%)
Query: 32 FTPGDLICRKGEVAREMFIIADGILEV--ISESGR--VLTTMKAGDFFGEIGILNLDGLN 87
F + I +GE AR ++ + +G++ V + GR L + GD+FGE +
Sbjct: 4 FARKETIYLRGEEARTLYRLEEGLVRVVELLPDGRLITLRHVLPGDYFGEEALEG----K 59
Query: 88 KRTADVRSVGYAELFSLSREDVLSAMKDYPEAQEILQNLGRKRLMEA 134
++ A + L + + +NL R ++
Sbjct: 60 AYRYTAEAMTEAVVQGLEPRAMDHEA-----LHRVARNLAR-QMRRV 100
>2byv_E RAP guanine nucleotide exchange factor 4; EPAC2, CAMP-GEF2, CAMP,
cyclic nucleotide, regulation, auto-inhibition, CDC25
homology domain; 2.7A {Mus musculus}
Length = 999
Score = 41.0 bits (95), Expect = 5e-05
Identities = 24/116 (20%), Positives = 46/116 (39%), Gaps = 10/116 (8%)
Query: 9 VTIFQECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVI------SES 62
V F++ P L + L G + R+G++ + + G L+V +
Sbjct: 47 VKAFEKFHPNLLRQICLCGYYENLEKGITLFRQGDIGTNWYAVLAGSLDVKVSETSSHQD 106
Query: 63 GRVLTTMKAGDFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPE 118
+ T+ G FGE + N R A + + +EL + +ED + + Y +
Sbjct: 107 AVTICTLGIGTAFGESILDNT----PRHATIVTRESSELLRIEQEDFKALWEKYRQ 158
Score = 31.4 bits (70), Expect = 0.11
Identities = 14/48 (29%), Positives = 26/48 (54%)
Query: 35 GDLICRKGEVAREMFIIADGILEVISESGRVLTTMKAGDFFGEIGILN 82
G ++ +GE +II G + V+ V+ T+ GD FG++ ++N
Sbjct: 369 GTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDDFGKLALVN 416
>3dn7_A Cyclic nucleotide binding regulatory protein; structural genomics,
APC88869, cyclic nucleotide binding REG protein, PSI-2;
1.80A {Cytophaga hutchinsonii}
Length = 194
Score = 38.2 bits (89), Expect = 3e-04
Identities = 20/124 (16%), Positives = 41/124 (33%), Gaps = 6/124 (4%)
Query: 17 PEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGIL--EVISESGRVLTT--MKAG 72
E L + + + + GE+ R + + G L I E G TT
Sbjct: 20 DEDAGTLSAFFQLKKVRKKETLLKTGEICRINYFVVKGCLRLFFIDEKGIEQTTQFAIEN 79
Query: 73 DFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPEAQEILQNLGRKRLM 132
+ + ++SV EL S++ + + + P + + + +K
Sbjct: 80 WWLSDYMAFQKQ--QPADFYIQSVENCELLSITYTEQENLFERIPALERYFRLVYQKSFA 137
Query: 133 EAKN 136
A+
Sbjct: 138 AAQL 141
>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 = 34.4 bits (78), Expect = 0.009
Identities = 19/140 (13%), Positives = 43/140 (30%), Gaps = 43/140 (30%)
Query: 13 QECQPEFLHDLVLKMKAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTTMKAG 72
+ + L + I E R+ D V + ++ T +++
Sbjct: 321 EVLT---TNPRRLSI----------I---AESIRDGLATWDNWKHVNCD--KLTTIIESS 362
Query: 73 DFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDV------LSAM---KDYPEAQEIL 123
L+ L A+ R + + + S+ LS + + ++
Sbjct: 363 ----------LNVLE--PAEYRKM-F-DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVV 408
Query: 124 QNLGRKRLMEAKNLNKKFKV 143
L + L+E K K+ +
Sbjct: 409 NKLHKYSLVE-KQ-PKESTI 426
Score = 28.3 bits (62), Expect = 1.3
Identities = 26/169 (15%), Positives = 53/169 (31%), Gaps = 42/169 (24%)
Query: 11 IFQEC-QPEFLHDLVLKMKAYIFTPGDLICRKGEVAR-EMFI-IADGILEVISESGRVLT 67
I E QP + + ++ + ++ + K V+R + ++ + +LE+ ++
Sbjct: 98 IKTEQRQPSMMTRMYIEQRDRLYNDNQVF-AKYNVSRLQPYLKLRQALLELRPAKNVLID 156
Query: 68 TMK-------AGD----------FFGEIGILN----------LDGLNKRTADVRSVGYAE 100
+ A D +I LN L+ L K + +
Sbjct: 157 GVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSR 216
Query: 101 LFSLSR-----EDV------LSAMKDYPEAQEILQNLGRKRLMEAKNLN 138
S + L K Y +L N+ + A NL+
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS 265
Score = 27.9 bits (61), Expect = 1.4
Identities = 22/138 (15%), Positives = 45/138 (32%), Gaps = 32/138 (23%)
Query: 14 ECQPE----FLHDLVLKMKAYIFTPGDL---------ICRKGEVAREMFIIADG-ILEVI 59
E QP+ + + L++K + L I + + + D I
Sbjct: 418 EKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHI 477
Query: 60 SESGRVLTTMKAG---DFFGEIGILNLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDY 116
G L ++ F + L+ L ++ +R A S S + L +K Y
Sbjct: 478 ---GHHLKNIEHPERMTLFRMV-FLDFRFLEQK---IRHDSTAWNASGSILNTLQQLKFY 530
Query: 117 --------PEAQEILQNL 126
P+ + ++ +
Sbjct: 531 KPYICDNDPKYERLVNAI 548
>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 = 34.3 bits (78), Expect = 0.012
Identities = 22/110 (20%), Positives = 38/110 (34%), Gaps = 25/110 (22%)
Query: 34 PG---DLICRKGEVAREMFIIADG---------ILEVISESGRVLTTMKAGDFFGEIG-- 79
G DL + + A++++ AD IL+++ + LT F GE G
Sbjct: 1629 QGMGMDL-YKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIH----FGGEKGKR 1683
Query: 80 IL-NLDGLNKRTADVRSVGYAELFSLSREDVLSAMKDYPEAQEIL---QN 125
I N + T + ++F E S + +L Q
Sbjct: 1684 IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEK--GLLSATQF 1731
>3cf6_E RAP guanine nucleotide exchange factor (GEF) 4; EPAC, rapgef4,
CAMP, SP-camps, GEF, gunanine nucleotide exchange
factor, G-protein, GTP-binding, nucleotide-binding; HET:
SP1; 2.20A {Mus musculus}
Length = 694
Score = 31.7 bits (71), Expect = 0.071
Identities = 14/48 (29%), Positives = 26/48 (54%)
Query: 35 GDLICRKGEVAREMFIIADGILEVISESGRVLTTMKAGDFFGEIGILN 82
G ++ +GE +II G + V+ V+ T+ GD FG++ ++N
Sbjct: 64 GTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDDFGKLALVN 111
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 30.0 bits (67), Expect = 0.21
Identities = 13/63 (20%), Positives = 25/63 (39%), Gaps = 26/63 (41%)
Query: 3 VVCVGVVTIFQECQ---PEFLHDLVLKMKAYIFTPGDLICRK-GEVAREMFIIADGILEV 58
+ C EC+ P+ + F+ GD++C G V ++D +++
Sbjct: 22 LTC-------PECKVYPPKIVER---------FSEGDVVCALCGLV------LSDKLVDT 59
Query: 59 ISE 61
SE
Sbjct: 60 RSE 62
>1vbg_A Pyruvate,orthophosphate dikinase; transferase, maize, riken
structural genomics/proteomics INI RSGI, structural
genomics; 2.30A {Zea mays} SCOP: c.1.12.2 c.8.1.1
d.142.1.5 PDB: 1vbh_A*
Length = 876
Score = 29.7 bits (67), Expect = 0.42
Identities = 21/93 (22%), Positives = 36/93 (38%), Gaps = 6/93 (6%)
Query: 37 LICRKGEVAREMFIIADGILEVISESGRVLTTMKAGDFFGEIGILNLDGLNKRTADVRSV 96
L+ E+ ++ +I +V + G+ + L D + A+ S
Sbjct: 712 LVGTPQELGHQVTLIRQVAEKVFANVGKTIGYKVGTMIEIPRAALVADEI-AEQAEFFSF 770
Query: 97 GYAEL----FSLSREDVLSAMKDYPEAQEILQN 125
G +L F SR+DV + Y Q ILQ+
Sbjct: 771 GTNDLTQMTFGYSRDDVGKFIPVYLA-QGILQH 802
>1y9l_A Lipoprotein MXIM; cracked beta barrel, mixed alpha/beta, lipid
binding protein; HET: UND; 1.50A {Shigella flexneri}
PDB: 1y9t_A* 2jw1_A
Length = 115
Score = 27.0 bits (59), Expect = 1.7
Identities = 19/83 (22%), Positives = 36/83 (43%), Gaps = 9/83 (10%)
Query: 28 KAYIFTPGDLICRKGEVAREMFIIADGILEVISESGRVLTTMKAGDFFGEIGILNLDGLN 87
K Y P DL+ + + + + I SG+ + + AG F G + +DG
Sbjct: 16 KDYFSIPNDLLWSFNTTNKSINVYSKCI------SGKAVYSFNAGKFMGNFNVKEVDGC- 68
Query: 88 KRTADVRSVGYAELFSLSREDVL 110
D + + +LFS+ ++ V+
Sbjct: 69 --FMDAQKIAIDKLFSMLKDGVV 89
>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase,
ATP-binding, reticulum, nucleotidyltransferase,
multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4}
PDB: 2vbc_A 2wzq_A
Length = 618
Score = 25.7 bits (56), Expect = 8.3
Identities = 6/39 (15%), Positives = 12/39 (30%)
Query: 96 VGYAELFSLSREDVLSAMKDYPEAQEILQNLGRKRLMEA 134
+FS + EA+ +L N+ +
Sbjct: 468 EDDQYVFSGDPLKNDEDHAHWTEAKMLLDNIYTPEGIIP 506
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
0.322 0.140 0.391
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: 2,329,002
Number of extensions: 141036
Number of successful extensions: 479
Number of sequences better than 10.0: 1
Number of HSP's gapped: 403
Number of HSP's successfully gapped: 71
Length of query: 150
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 65
Effective length of database: 4,328,508
Effective search space: 281353020
Effective search space used: 281353020
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: 53 (24.2 bits)