RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8820
(234 letters)
>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 = 50.9 bits (122), Expect = 3e-08
Identities = 17/77 (22%), Positives = 35/77 (45%), Gaps = 1/77 (1%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
D D ++LTG + +K + + + A+ G ++G + M+ R+ + +A ++
Sbjct: 78 DPGDYLLLILTGEVNVIKDIPNKGIQTIAKVGAGAIIGEMSMIDGMPRSASCVASLPTDF 137
Query: 63 AKLP-EGLCDHLPRSPS 78
A L + L L P
Sbjct: 138 AVLSRDALYQLLANMPK 154
Score = 45.9 bits (109), Expect = 2e-06
Identities = 23/157 (14%), Positives = 57/157 (36%), Gaps = 20/157 (12%)
Query: 80 QELIHSSK-REFMEQL-----GVKDFSGLD----------IRVEHIPGGTCLVREEVVED 123
+L+H ++ E++ +K F ++ P L+ E +
Sbjct: 22 PDLVHLGGADKYFEEILEIVNKIKLFGDFSNEEVRYLCSYMQCYAAPRDCQLLTEG--DP 79
Query: 124 NKLIYVIA-GSLFITQKSSDGSNDVHLFTAFPGDMIGGLAVLTGEASVFTIQSRLPATIA 182
+ +I G + + + + + G +IG ++++ G + + LP A
Sbjct: 80 GDYLLLILTGEVNVIKDIPNK-GIQTIAKVGAGAIIGEMSMIDGMPRSASCVASLPTDFA 138
Query: 183 WLPQDDCSTLIDADMNVTLKIAHSVLKRMSPFVRQFD 219
L +D L+ + K+ +L+ ++ R+
Sbjct: 139 VLSRDALYQLLANMPKLGNKVLIRLLQLLTARFRESY 175
>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 = 49.2 bits (118), Expect = 2e-07
Identities = 16/104 (15%), Positives = 41/104 (39%), Gaps = 8/104 (7%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
+++ + ++V+ G ++ + +G + +++G+ G + +T + AV E+
Sbjct: 50 EKAQAIHVVIDGWVKLFRMTPTGSEAVVSVFTRGESFGEAVALRNTPYPVSAEAVTPCEV 109
Query: 63 AKLP-EGLCDHLPRSP--SEQELIHSSKR-----EFMEQLGVKD 98
+P + R P L + +EQL +
Sbjct: 110 MHIPSPVFVSLMRRDPEICISILATTFGHLHSLVAQLEQLKAQT 153
Score = 40.3 bits (95), Expect = 2e-04
Identities = 23/131 (17%), Positives = 44/131 (33%), Gaps = 16/131 (12%)
Query: 99 FSGLD----------IRVEHIPGGTCLVREEVVEDNKLIYVIA-GSLFITQKSSDGS-ND 146
L G L +E E + I+V+ G + + + + GS
Sbjct: 19 IRSLPEQHVDALLSQAVWRSYDRGETLFLQE--EKAQAIHVVIDGWVKLFRMTPTGSEAV 76
Query: 147 VHLFTAFPGDMIGGLAVLTGEASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAHS 206
V +FT G+ G L + ++ P + +P +L+ D + + I +
Sbjct: 77 VSVFT--RGESFGEAVALRNTPYPVSAEAVTPCEVMHIPSPVFVSLMRRDPEICISILAT 134
Query: 207 VLKRMSPFVRQ 217
+ V Q
Sbjct: 135 TFGHLHSLVAQ 145
>2gau_A Transcriptional regulator, CRP/FNR family; structural genomics,
porphyromona gingivalis, PSI, protein structure
initiative; 1.90A {Porphyromonas gingivalis} SCOP:
a.4.5.4 b.82.3.2
Length = 232
Score = 48.8 bits (117), Expect = 3e-07
Identities = 12/77 (15%), Positives = 31/77 (40%), Gaps = 4/77 (5%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
D ++ + + G+++ ++ G+ G G+ + ++T +AV +S++
Sbjct: 49 DIPNNLFYLYEGKIKILREGVYGRFHISRIVKPGQFFGMRPYFAEETCSSTAIAVENSKV 108
Query: 63 AKLP----EGLCDHLPR 75
+P E L
Sbjct: 109 LAIPVEAIEALLKGNTS 125
Score = 36.9 bits (86), Expect = 0.003
Identities = 23/139 (16%), Positives = 48/139 (34%), Gaps = 5/139 (3%)
Query: 75 RSPSEQELIHSSKREFMEQLGVKDFSGLD--IRVEHIPGGTCLVREEVVEDNKLIYVIAG 132
++ S++ L H R+ L ++ LD I+ + + E N L Y+ G
Sbjct: 3 KTASDKGLGHL-LRDVWSLLNEEERELLDKEIQPFPCKKASTVFSEGD-IPNNLFYLYEG 60
Query: 133 SLFITQKSSDGSNDVHLFTAFPGDMIGGLAVLTGEASVFTIQSRLPATIAWLPQDDCSTL 192
+ I ++ G PG G E T + + + +P + L
Sbjct: 61 KIKILREGVYG-RFHISRIVKPGQFFGMRPYFAEETCSSTAIAVENSKVLAIPVEAIEAL 119
Query: 193 IDADMNVTLKIAHSVLKRM 211
+ + + ++ K +
Sbjct: 120 LKGNTSFCRYFLKALAKEL 138
>2pqq_A Putative transcriptional regulator; APC7345, streptomyces
coelicolor structural genomics, PSI-2, protein structure
initiative; 2.00A {Streptomyces coelicolor A3}
Length = 149
Score = 47.6 bits (114), Expect = 3e-07
Identities = 18/79 (22%), Positives = 32/79 (40%), Gaps = 1/79 (1%)
Query: 1 QYDRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDS 60
+ D D Y+V G+++ +T G+ A +L+G + + R T A+ +
Sbjct: 42 EGDPGDRLYVVTEGKVKLHRTSPDGRENMLAVVGPSELIGELSLFDPGPRTATGTALTEV 101
Query: 61 ELAKLP-EGLCDHLPRSPS 78
+L L L L P
Sbjct: 102 KLLALGHGDLQPWLNVRPE 120
Score = 39.2 bits (92), Expect = 2e-04
Identities = 23/124 (18%), Positives = 45/124 (36%), Gaps = 14/124 (11%)
Query: 99 FSGLD----------IRVEHIPGGTCLVREEVVEDNKLIYVIA-GSLFITQKSSDGSNDV 147
F+ LD + + G L E + +YV+ G + + + S DG +
Sbjct: 13 FAALDDEQSAELRASMSEVTLARGDTLFHEG--DPGDRLYVVTEGKVKLHRTSPDG-REN 69
Query: 148 HLFTAFPGDMIGGLAVLTGEASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAHSV 207
L P ++IG L++ T + + L D ++ V + +V
Sbjct: 70 MLAVVGPSELIGELSLFDPGPRTATGTALTEVKLLALGHGDLQPWLNVRPEVATALLRAV 129
Query: 208 LKRM 211
+R+
Sbjct: 130 ARRL 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 = 49.3 bits (117), Expect = 3e-07
Identities = 15/67 (22%), Positives = 25/67 (37%), Gaps = 1/67 (1%)
Query: 1 QYDRSDSTYIVLTGRLRSVKTLESGKRKEE-AEYSKGDLVGLIEMVTSTSRNTTVMAVRD 59
Q + D YI+ G ++ + E D G I ++ + R TV+A
Sbjct: 285 QGEPGDDFYIITEGTASVLQRRSPNEEYVEVGRLGPSDYFGEIALLLNRPRAATVVARGP 344
Query: 60 SELAKLP 66
+ KL
Sbjct: 345 LKCVKLD 351
>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 = 49.1 bits (116), Expect = 5e-07
Identities = 32/228 (14%), Positives = 72/228 (31%), Gaps = 68/228 (29%)
Query: 30 EAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSELAKLPEGLCDHLPRSPSEQE-------- 81
E +Y D++ + E + N V+D + L + DH+ S
Sbjct: 13 EHQYQYKDILSVFE--DAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWT 70
Query: 82 LIHSSKR---EFMEQLGVKDFSGLDIRVEHIPGGTCLVREEVVEDNKLIYVIAGSLFITQ 138
L+ + +F+E++ ++ L ++ ++ +E +Y
Sbjct: 71 LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY---------- 120
Query: 139 KSSDGSNDVHLFTAF-------------------PGD------MIG-GLAVLTGEA-SVF 171
ND +F + P ++G G + + +
Sbjct: 121 ------NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY 174
Query: 172 TIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAHSVLKRMSPFVRQFD 219
+Q ++ I WL +C++ +VL+ + + Q D
Sbjct: 175 KVQCKMDFKIFWLNLKNCNS------------PETVLEMLQKLLYQID 210
Score = 32.9 bits (74), Expect = 0.098
Identities = 32/200 (16%), Positives = 59/200 (29%), Gaps = 59/200 (29%)
Query: 10 IVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTS-TSRNT-TVMA-VRDSELAKLP 66
I+LT R + V S + L + T +++ D LP
Sbjct: 268 ILLTTRFKQVTDFLSAATTTH--------ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319
Query: 67 EGLCDHLPRSPSEQELIHSSKREFMEQLGVKDFSGLDIRVEHIPGGTCLVREEVVEDNKL 126
+ PR S +I S R+ + +H V +KL
Sbjct: 320 REVLTTNPRRLS---IIAESIRDGLATWD---------NWKH------------VNCDKL 355
Query: 127 IYVIAGSLFITQKSSDGSNDVHLFTAFPGDMIGGLAVLTGEASVFTIQSRLPA---TIAW 183
+I SL + + +F SVF + +P ++ W
Sbjct: 356 TTIIESSL----NVLEPAEYRKMFDRL---------------SVFPPSAHIPTILLSLIW 396
Query: 184 --LPQDDCSTLIDADMNVTL 201
+ + D +++ +L
Sbjct: 397 FDVIKSDVMVVVNKLHKYSL 416
Score = 27.1 bits (59), Expect = 6.1
Identities = 28/193 (14%), Positives = 55/193 (28%), Gaps = 56/193 (29%)
Query: 69 LCDHLPRSPSEQELIHSSKREFMEQLGVKDFSGLDIRVEHIPGGTCLVREEV---VEDNK 125
DH I + R ++ K + CL+ V V++ K
Sbjct: 216 RSDHSSNIKLRIHSIQAELRRLLKS---KPYE------------NCLL---VLLNVQNAK 257
Query: 126 LIYVIAGS---LFITQKSSDGSNDVHLFTAFPGDMIGGLAVLTGE------ASVFTIQ-S 175
S L T+ ++ + T + LT + +
Sbjct: 258 AWNAFNLSCKILLTTRFKQV-TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ 316
Query: 176 RLP-----------ATIAWLPQDDCSTL-----IDAD-MNVTLKIAHSVLKRMSPFVRQF 218
LP + IA +D +T ++ D + ++ + +VL+ R+
Sbjct: 317 DLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE--PAEYRKM 374
Query: 219 --DFALDWVFLEG 229
+ VF
Sbjct: 375 FDRLS---VFPPS 384
>2qcs_B CAMP-dependent protein kinase type I-alpha regula subunit,
CAMP-dependent protein kinase, alpha-catalytic SU;
cyclic adenosine monophosphate; HET: SEP TPO ANP TAM;
2.20A {Bos taurus} PDB: 1rl3_A* 1rgs_A* 1ne6_A* 1ne4_A*
Length = 291
Score = 47.7 bits (113), Expect = 9e-07
Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 1/67 (1%)
Query: 1 QYDRSDSTYIVLTGRLR-SVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRD 59
Q + D +I+L G + E+ + E D G I ++ + + TV+A
Sbjct: 194 QGEPGDEFFIILEGSAAVLQRRSENEEFVEVGRLGPSDYFGEIALLMNRPKAATVVARGP 253
Query: 60 SELAKLP 66
+ KL
Sbjct: 254 LKCVKLD 260
>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 = 47.8 bits (113), Expect = 1e-06
Identities = 21/100 (21%), Positives = 40/100 (40%), Gaps = 8/100 (8%)
Query: 1 QYDRSDSTYIVLTGRLRSVKT------LESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTV 54
Q D +DS +IV +G ++ +E E A +G G + +VT+ R +
Sbjct: 304 QGDLADSFFIVESGEVKITMKRKGKSEVEENGAVEIARCFRGQYFGELALVTNKPRAASA 363
Query: 55 MAVRDSELAKLPEGLCDHLPRSPSEQELIHSSKREFMEQL 94
A+ + + + L E++ + + EQL
Sbjct: 364 HAIGTVKCLAMDVQAFERLLG--PCMEIMKRNIATYEEQL 401
Score = 44.0 bits (103), Expect = 2e-05
Identities = 23/172 (13%), Positives = 53/172 (30%), Gaps = 14/172 (8%)
Query: 74 PRSPSEQELIHS--SKREFMEQLGVKDFSGL--DIRVEHIPGGTCLVREEVVEDNKLIYV 129
P++ ++ + + L + S + + + + G ++ + DN YV
Sbjct: 134 PKTDDQRNRLQEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQGDDGDN--FYV 191
Query: 130 IAGSLFITQKSSDGSNDVHLFTAFPGDMIGGLAVLTGEASVFTIQSRLPATIAWLPQDDC 189
I F DG + G LA++ TI + P + L +
Sbjct: 192 IDRGTFDIYVKCDG-VGRCVGNYDNRGSFGELALMYNTPKAATITATSPGALWGLDRVTF 250
Query: 190 STLIDADMNVTLKIAHSVLKRMSPF-------VRQFDFALDWVFLEGGQAVY 234
+I + K+ S ++ + + + G+ +
Sbjct: 251 RRIIVKNNAKKRKMYESFIESLPFLKSLEVSERLKVVDVIGTKVYNDGEQII 302
>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 = 46.5 bits (111), Expect = 2e-06
Identities = 11/64 (17%), Positives = 26/64 (40%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
++ ++V TG +R + G+ + + +VG ++ R+ +V A+
Sbjct: 45 AEGEALHLVTTGVVRVSRVSLGGRERVLGDIYAPGVVGETAVLAHQERSASVRALTPVRT 104
Query: 63 AKLP 66
L
Sbjct: 105 LMLH 108
Score = 39.2 bits (92), Expect = 4e-04
Identities = 15/124 (12%), Positives = 48/124 (38%), Gaps = 14/124 (11%)
Query: 99 FSGLD----------IRVEHIPGGTCLVREEVVEDNKLIYVIA-GSLFITQKSSDGSNDV 147
F + + + +V ++ + + ++++ G + +++ S G +
Sbjct: 14 FQNVPEDAMREALKVVTERNFQPDELVVEQD--AEGEALHLVTTGVVRVSRVSLGG-RER 70
Query: 148 HLFTAFPGDMIGGLAVLTGEASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAHSV 207
L + ++G AVL + ++++ P L ++ ++ V +A +
Sbjct: 71 VLGDIYAPGVVGETAVLAHQERSASVRALTPVRTLMLHREHFELILRRHPRVLWNLAEML 130
Query: 208 LKRM 211
+R+
Sbjct: 131 ARRV 134
>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 = 45.7 bits (109), Expect = 3e-06
Identities = 8/64 (12%), Positives = 25/64 (39%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
+ D YI+++G+++ + G+ D+ G + + R ++ + +
Sbjct: 45 EPGDRLYIIISGKVKIGRRAPDGRENLLTIMGPSDMFGELSIFDPGPRTSSATTITEVRA 104
Query: 63 AKLP 66
+
Sbjct: 105 VSMD 108
Score = 42.6 bits (101), Expect = 4e-05
Identities = 20/123 (16%), Positives = 48/123 (39%), Gaps = 12/123 (9%)
Query: 99 FSGLD----------IRVEHIPGGTCLVREEVVEDNKLIYVIAGSLFITQKSSDGSNDVH 148
F G++ ++ P G + E ++L +I+G + I +++ DG +
Sbjct: 14 FQGVEPSAIAALTKQLQPVDFPRGHTVFAEGE-PGDRLYIIISGKVKIGRRAPDG-RENL 71
Query: 149 LFTAFPGDMIGGLAVLTGEASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAHSVL 208
L P DM G L++ + + + +D + I ++ ++ +
Sbjct: 72 LTIMGPSDMFGELSIFDPGPRTSSATTITEVRAVSMDRDALRSWIADRPEISEQLLRVLA 131
Query: 209 KRM 211
+R+
Sbjct: 132 RRL 134
>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 = 45.3 bits (108), Expect = 3e-06
Identities = 19/66 (28%), Positives = 35/66 (53%)
Query: 1 QYDRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDS 60
Q D + Y+V +G++R +T G+ + A G+L G + ++ R+ + +AV D+
Sbjct: 36 QGDLGQALYLVASGKVRLFRTHLGGQERTLALLGPGELFGEMSLLDEGERSASAVAVEDT 95
Query: 61 ELAKLP 66
EL L
Sbjct: 96 ELLALF 101
Score = 41.1 bits (97), Expect = 1e-04
Identities = 21/123 (17%), Positives = 43/123 (34%), Gaps = 12/123 (9%)
Query: 99 FSGLD----------IRVEHIPGGTCLVREEVVEDNKLIYVIAGSLFITQKSSDGSNDVH 148
F GL + P G + + L V +G + + + G +
Sbjct: 7 FHGLAPEEVDLALSYFQRRLYPQGKPIFYQGD-LGQALYLVASGKVRLFRTHLGG-QERT 64
Query: 149 LFTAFPGDMIGGLAVLTGEASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAHSVL 208
L PG++ G +++L + + + L ++D LI V +A +
Sbjct: 65 LALLGPGELFGEMSLLDEGERSASAVAVEDTELLALFREDYLALIRRLPLVAHNLAALLA 124
Query: 209 KRM 211
+R+
Sbjct: 125 RRL 127
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 44.2 bits (105), Expect = 5e-06
Identities = 13/80 (16%), Positives = 30/80 (37%), Gaps = 2/80 (2%)
Query: 1 QYDRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNT-TVMAVRD 59
Q + + + Y +++G ++ + G+ K ++ + M T T AV
Sbjct: 49 QGEPAHAFYYLISGCVKIYRLTPEGQEKILEVTNERNTFAEAMMFMDTPNYVATAQAVVP 108
Query: 60 SELAKLP-EGLCDHLPRSPS 78
S+L + + L +
Sbjct: 109 SQLFRFSNKAYLRQLQDNTP 128
Score = 37.3 bits (87), Expect = 0.001
Identities = 14/134 (10%), Positives = 39/134 (29%), Gaps = 21/134 (15%)
Query: 99 FSGLD----------IRVEHIPGGTCLVREEVVEDNKLIYVIA-GSLFITQKSSDGSNDV 147
F L + ++ G + R+ E Y + G + I + + +G +
Sbjct: 20 FEPLSPVQLQELLASSDLVNLDKGAYVFRQG--EPAHAFYYLISGCVKIYRLTPEG-QEK 76
Query: 148 HLFTAFPGDMIGGLAVLTGE----ASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKI 203
L + + A+ + P+ + + + + L +
Sbjct: 77 ILEVTNERNTFAEAMMFMDTPNYVATAQAVV---PSQLFRFSNKAYLRQLQDNTPLALAL 133
Query: 204 AHSVLKRMSPFVRQ 217
+ R+ + +
Sbjct: 134 LAKLSTRLHQRIDE 147
>1o5l_A Transcriptional regulator, CRP family; TM1171, structural GE JCSG,
PSI, protein structure initiative, joint center for S
genomics; 2.30A {Thermotoga maritima} SCOP: b.82.3.2
Length = 213
Score = 44.5 bits (106), Expect = 6e-06
Identities = 17/78 (21%), Positives = 31/78 (39%), Gaps = 5/78 (6%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSR-NTTVMAVRDSE 61
D + I+L G L++ E+GK E E ++ + +S R V+A +S+
Sbjct: 38 DPIEDVLILLEGTLKTEHVSENGKTLEIDEIKPVQIIASGFIFSSEPRFPVNVVAGENSK 97
Query: 62 LAKLP----EGLCDHLPR 75
+ +P L
Sbjct: 98 ILSIPKEVFLDLLMKDRE 115
Score = 33.7 bits (78), Expect = 0.029
Identities = 16/97 (16%), Positives = 35/97 (36%), Gaps = 20/97 (20%)
Query: 124 NKLIYVIAGSLFITQKSSDGSNDVHLFTAFPGDMIGGLAVLTGEASVFTIQSRLPAT--- 180
++ ++ G+L S +G + + P +I +F+ + R P
Sbjct: 41 EDVLILLEGTLKTEHVSENG-KTLEIDEIKPVQIIA-------SGFIFSSEPRFPVNVVA 92
Query: 181 -----IAWLPQDDCSTLIDADMNVTLKIAHSVLKRMS 212
I +P++ L+ D ++ LK +S
Sbjct: 93 GENSKILSIPKEVFLDLLMKDR----ELLLFFLKDVS 125
>3b02_A Transcriptional regulator, CRP family; structural genomics, riken
structural genomics/proteomics in RSGI; 1.92A {Thermus
thermophilus} PDB: 2zdb_A
Length = 195
Score = 44.5 bits (106), Expect = 7e-06
Identities = 12/64 (18%), Positives = 24/64 (37%), Gaps = 1/64 (1%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
+ + + Y + G +R V+ L G+ GD G + T A+ ++ +
Sbjct: 15 EEARTLYRLEEGLVRVVELLPDGRLITLRHVLPGDYFGEEALEGKA-YRYTAEAMTEAVV 73
Query: 63 AKLP 66
L
Sbjct: 74 QGLE 77
>3shr_A CGMP-dependent protein kinase 1; cyclic nucleotide binding domains,
cyclic nucleotide protein transferase, PKG; HET: CMP;
2.50A {Bos taurus}
Length = 299
Score = 44.1 bits (104), Expect = 1e-05
Identities = 11/65 (16%), Positives = 21/65 (32%), Gaps = 1/65 (1%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEE-AEYSKGDLVGLIEMVTSTSRNTTVMAVRDSE 61
R D+ +I+ G++ + + KGD G + R V+A
Sbjct: 196 ARGDTFFIISKGKVNVTREDSPNEDPVFLRTLGKGDWFGEKALQGEDVRTANVIAAEAVT 255
Query: 62 LAKLP 66
+
Sbjct: 256 CLVID 260
>3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix,
homodimer, transcription regulator; 3.60A {Pseudomonas
aeruginosa}
Length = 227
Score = 43.8 bits (104), Expect = 1e-05
Identities = 19/107 (17%), Positives = 41/107 (38%), Gaps = 9/107 (8%)
Query: 1 QYDRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNT-TVMAVRD 59
Q + + + Y +++G ++ + G+ K ++ + M T T AV
Sbjct: 46 QGEPAHAFYYLISGCVKIYRLTPEGQEKILEVTNERNTFAEAMMFMDTPNYVATAQAVVP 105
Query: 60 SELAKLP-EGLCDHLPRSPS-EQELIHS-SKR-----EFMEQLGVKD 98
S+L + + L + L+ S R + +E L +K+
Sbjct: 106 SQLFRFSNKAYLRQLQDNTPLALALLAKLSTRLHQRIDEIETLSLKN 152
Score = 33.0 bits (76), Expect = 0.048
Identities = 15/125 (12%), Positives = 42/125 (33%), Gaps = 15/125 (12%)
Query: 99 FSGLD----------IRVEHIPGGTCLVREEVVEDNKLIYVIAGSLFITQKSSDGS-NDV 147
F L + ++ G + R+ + Y+I+G + I + + +G +
Sbjct: 17 FEPLSPVQLQELLASSDLVNLDKGAYVFRQGE-PAHAFYYLISGCVKIYRLTPEGQEKIL 75
Query: 148 HLFTAFPGDMIGGLAVLTGEAS-VFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAHS 206
+ + + + V T Q+ +P+ + + + + L +
Sbjct: 76 EVTN--ERNTFAEAMMFMDTPNYVATAQAVVPSQLFRFSNKAYLRQLQDNTPLALALLAK 133
Query: 207 VLKRM 211
+ R+
Sbjct: 134 LSTRL 138
>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 = 43.8 bits (104), Expect = 1e-05
Identities = 11/65 (16%), Positives = 28/65 (43%), Gaps = 1/65 (1%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTST-SRNTTVMAVRDSE 61
D + + Y V++G + + + + + G+ VG + + + +R + E
Sbjct: 50 DPAGTLYYVISGSVSIIAEEDDDRELVLGYFGSGEFVGEMGLFIESDTREVILRTRTQCE 109
Query: 62 LAKLP 66
LA++
Sbjct: 110 LAEIS 114
>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 = 42.7 bits (101), Expect = 1e-05
Identities = 6/67 (8%), Positives = 22/67 (32%), Gaps = 3/67 (4%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEE---AEYSKGDLVGLIEMVTSTSRNTTVMAVRD 59
++D+ ++L G + + G + G+ ++ ++ A +
Sbjct: 45 SKADNLMLLLEGGVELFYSNGGAGSAANSTVCSVVPGAIFGVSSLIKPYHYTSSARATKP 104
Query: 60 SELAKLP 66
+ +
Sbjct: 105 VRVVDIN 111
Score = 39.6 bits (93), Expect = 2e-04
Identities = 13/127 (10%), Positives = 44/127 (34%), Gaps = 15/127 (11%)
Query: 99 FSGLD----------IRVEHIPGGTCLVREEVVEDNKLIYVIA-GSLFITQKSSDGSND- 146
F+ L + P G+ + +E DN + ++ G + + + +
Sbjct: 14 FASLTDEQLKDIALISEEKSFPTGSVIFKENSKADN--LMLLLEGGVELFYSNGGAGSAA 71
Query: 147 -VHLFTAFPGDMIGGLAVLTGEASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAH 205
+ + PG + G +++ + ++ P + + + + + + + +
Sbjct: 72 NSTVCSVVPGAIFGVSSLIKPYHYTSSARATKPVRVVDINGARLREMSENNQALGQVLMN 131
Query: 206 SVLKRMS 212
+V +
Sbjct: 132 NVAAAVL 138
>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 = 43.4 bits (103), Expect = 1e-05
Identities = 13/65 (20%), Positives = 32/65 (49%), Gaps = 1/65 (1%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTS-RNTTVMAVRDSE 61
+++++ Y ++ G + + E GK + ++GD +G + + R+ V A E
Sbjct: 35 EKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQERSAWVRAKTACE 94
Query: 62 LAKLP 66
+A++
Sbjct: 95 VAEIS 99
Score = 33.7 bits (78), Expect = 0.029
Identities = 20/127 (15%), Positives = 45/127 (35%), Gaps = 19/127 (14%)
Query: 99 FSGLD----------IRVEHIPGGTCLVREEVVEDNKLIYVIAGSLFITQKSSDGSNDVH 148
+ P + L+ + + L Y++ GS+ + K +G ++
Sbjct: 4 GKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGE-KAETLYYIVKGSVAVLIKDEEG-KEMI 61
Query: 149 LFTAFPGDMIGGLAVLTGE----ASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIA 204
L GD IG L + A V +A + LI + ++ ++++
Sbjct: 62 LSYLNQGDFIGELGLFEEGQERSAWVRAKT---ACEVAEISYKKFRQLIQVNPDILMRLS 118
Query: 205 HSVLKRM 211
+ +R+
Sbjct: 119 AQMARRL 125
>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 = 43.5 bits (103), Expect = 2e-05
Identities = 9/66 (13%), Positives = 19/66 (28%), Gaps = 2/66 (3%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAV--RDS 60
D + + G + E+G Y ++ + T TS + V +
Sbjct: 34 DPQEYCIFLYDGITKLTSISENGTIMNLQYYKGAFVIMSGFIDTETSVGYYNLEVISEQA 93
Query: 61 ELAKLP 66
+
Sbjct: 94 TAYVIK 99
Score = 37.0 bits (86), Expect = 0.003
Identities = 13/111 (11%), Positives = 39/111 (35%), Gaps = 4/111 (3%)
Query: 103 DIRVEHIPGGTCLVREEVVEDNKLIYVIAGSLFITQKSSDGSNDVHLFTAFPGDMIGGLA 162
I+ + + + I++ G +T S +G ++L +I
Sbjct: 17 GIKPKQFHKKELIFNQWD-PQEYCIFLYDGITKLTSISENG-TIMNLQYYKGAFVIMSGF 74
Query: 163 VLTGEASVFTIQSRL--PATIAWLPQDDCSTLIDADMNVTLKIAHSVLKRM 211
+ T + + + AT + ++ L+ ++ + ++ K++
Sbjct: 75 IDTETSVGYYNLEVISEQATAYVIKINELKELLSKNLTHFFYVFQTLQKQV 125
>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 = 43.1 bits (102), Expect = 2e-05
Identities = 13/65 (20%), Positives = 32/65 (49%), Gaps = 1/65 (1%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTS-RNTTVMAVRDSE 61
+++++ Y ++ G + + E GK + ++GD +G + + R+ V A E
Sbjct: 85 EKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQERSAWVRAKTACE 144
Query: 62 LAKLP 66
+A++
Sbjct: 145 VAEIS 149
Score = 34.3 bits (79), Expect = 0.023
Identities = 20/127 (15%), Positives = 45/127 (35%), Gaps = 19/127 (14%)
Query: 99 FSGLD----------IRVEHIPGGTCLVREEVVEDNKLIYVIAGSLFITQKSSDGSNDVH 148
+ P + L+ + + L Y++ GS+ + K +G ++
Sbjct: 54 GKPQTDPTLEWFLSHCHIHKYPSKSTLIHQGE-KAETLYYIVKGSVAVLIKDEEG-KEMI 111
Query: 149 LFTAFPGDMIGGLAVLTGE----ASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIA 204
L GD IG L + A V +A + LI + ++ ++++
Sbjct: 112 LSYLNQGDFIGELGLFEEGQERSAWVRAKT---ACEVAEISYKKFRQLIQVNPDILMRLS 168
Query: 205 HSVLKRM 211
+ +R+
Sbjct: 169 AQMARRL 175
>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 = 43.1 bits (102), Expect = 3e-05
Identities = 14/66 (21%), Positives = 30/66 (45%), Gaps = 2/66 (3%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTS--TSRNTTVMAVRDS 60
D ++ Y +L G ++ + E+G+ A + + G++ ++T + R +A
Sbjct: 59 DPAERVYFLLKGAVKLSRVYEAGEEITVALLRENSVFGVLSLLTGNKSDRFYHAVAFTPV 118
Query: 61 ELAKLP 66
EL P
Sbjct: 119 ELLSAP 124
Score = 35.8 bits (83), Expect = 0.007
Identities = 14/148 (9%), Positives = 48/148 (32%), Gaps = 19/148 (12%)
Query: 69 LCDHLPRSPSEQELIHSSKREFMEQLGVKDFSGLDIRVEHIPGGTCLVREEVVEDNKLIY 128
H+ ++ + + + R+ VE + ++ +
Sbjct: 17 RGSHM--IVTQDKALANVFRQMATG-------AFPPVVETFERNKTIFFPGD-PAERVYF 66
Query: 129 VIAGSLFITQKSSDGSNDVHLFTAFPGDMIGGLAVLTGE-----ASVFTIQSRLPATIAW 183
++ G++ +++ G ++ + + G L++LTG P +
Sbjct: 67 LLKGAVKLSRVYEAG-EEITVALLRENSVFGVLSLLTGNKSDRFYHAVAFT---PVELLS 122
Query: 184 LPQDDCSTLIDADMNVTLKIAHSVLKRM 211
P + + + +++ + + R+
Sbjct: 123 APIEQVEQALKENPELSMLMLRGLSSRI 150
>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 = 42.2 bits (100), Expect = 4e-05
Identities = 19/109 (17%), Positives = 36/109 (33%), Gaps = 10/109 (9%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMV--TSTSRNTTVMAVRDS 60
+V +G+LR+ + G+ D+ L S T+ A +D+
Sbjct: 42 MDCTGLLLVKSGQLRTYILSDEGREITLYRLFDMDMCLLSASCIMRSIQFEVTIEAEKDT 101
Query: 61 ELAKLP-EGLCDHLPRSPSEQELIHS--SKR-----EFMEQLGVKDFSG 101
+L +P E + S + + R +EQ+ K
Sbjct: 102 DLWIIPAEIYKGIMKDSAPVANYTNELMATRFSDVMWLIEQIMWKSLDK 150
>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary
phase, DNA-binding, transcription regulation; 1.50A
{Thermus thermophilus}
Length = 202
Score = 42.2 bits (100), Expect = 4e-05
Identities = 16/64 (25%), Positives = 18/64 (28%), Gaps = 1/64 (1%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
D Y VL G +R E G G G + R A D L
Sbjct: 23 GPRDRAYRVLEGLVRLEAVDEEGNALTLRLVRPGGFFGEEALFGQE-RIYFAEAATDVRL 81
Query: 63 AKLP 66
LP
Sbjct: 82 EPLP 85
Score = 33.4 bits (77), Expect = 0.034
Identities = 13/87 (14%), Positives = 26/87 (29%), Gaps = 7/87 (8%)
Query: 105 RVEHIPGGTCLVRE-EVVEDNKLIYVIAGSLFITQKSSDGSNDVHLFTAFPGDMIGGLAV 163
G ++ ++ V+ G + + +G N + L PG G A+
Sbjct: 6 ETVSFKAGDVILYPGVPGPRDRAYRVLEGLVRLEAVDEEG-NALTLRLVRPGGFFGEEAL 64
Query: 164 LTGE--ASVFTIQSRLPATIAWLPQDD 188
E + LP++
Sbjct: 65 FGQERIYFAEAAT---DVRLEPLPENP 88
>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 = 42.2 bits (100), Expect = 4e-05
Identities = 12/68 (17%), Positives = 29/68 (42%), Gaps = 4/68 (5%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTS----RNTTVMAVR 58
DR ++ + ++ G + + + G+ + GD G + + R+ V A
Sbjct: 29 DRCETLFFIIKGSVTILIEDDDGREMIIGYLNSGDFFGELGLFEKEGSEQERSAWVRAKV 88
Query: 59 DSELAKLP 66
+ E+A++
Sbjct: 89 ECEVAEIS 96
Score = 32.6 bits (75), Expect = 0.069
Identities = 18/114 (15%), Positives = 35/114 (30%), Gaps = 12/114 (10%)
Query: 105 RVEHIPGGTCLVREEVVEDNKLIYVIAGSLFITQKSSDGSNDVHLFTAFPGDMIGGLAVL 164
+ ++ L ++I GS+ I + DG ++ + GD G L +
Sbjct: 14 HRRRYTAKSTIIYAGD-RCETLFFIIKGSVTILIEDDDG-REMIIGYLNSGDFFGELGLF 71
Query: 165 TGE-------ASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAHSVLKRM 211
E A V +A + L D + + + R+
Sbjct: 72 EKEGSEQERSAWVRAKV---ECEVAEISYAKFRELSQQDSEILYTLGSQMADRL 122
>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 = 41.9 bits (99), Expect = 6e-05
Identities = 10/64 (15%), Positives = 20/64 (31%), Gaps = 3/64 (4%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
+ S ++ G+++ E G K L+G + T N A+ +
Sbjct: 48 EEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIG---KLYPTGNNIYATAMEPTRT 104
Query: 63 AKLP 66
Sbjct: 105 CWFS 108
Score = 41.9 bits (99), Expect = 7e-05
Identities = 19/113 (16%), Positives = 45/113 (39%), Gaps = 5/113 (4%)
Query: 105 RVEHIPGGTCLVREEVVEDNKLIYVIAGSLFITQKSSDGSNDVHLFTAFPGDMIGGLAVL 164
+ G+ ++ E +I+++ G + + DG ++ L+ A +IG L
Sbjct: 33 LIRDFAKGSAVIMPGE-EITSMIFLVEGKIKLDIIFEDG-SEKLLYYAGGNSLIGKLYPT 90
Query: 165 TGEASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAHSVLKRMSPFVRQ 217
++ P W + T+ D ++ +I + L +++ + RQ
Sbjct: 91 GNNIYATAME---PTRTCWFSEKSLRTVFRTDEDMIFEIFKNYLTKVAYYARQ 140
>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 = 41.5 bits (98), Expect = 8e-05
Identities = 5/67 (7%), Positives = 17/67 (25%), Gaps = 1/67 (1%)
Query: 1 QYDRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNT-TVMAVRD 59
+ +L G + V + + L+ + + + +A +
Sbjct: 57 SGNPCTQLCFLLKGEISIVTNAKENIYTVIEQIEAPYLIEPQSLFGMNTNYASSYVAHTE 116
Query: 60 SELAKLP 66
+
Sbjct: 117 VHTVCIS 123
Score = 36.1 bits (84), Expect = 0.006
Identities = 10/128 (7%), Positives = 35/128 (27%), Gaps = 19/128 (14%)
Query: 99 FSGLDIRVEHIPGGTCLVRE-EVVEDNKLIYVIAGSLFITQKSSDGSNDVHLFTAFPGDM 157
+ + G +++ +L +++ G + I + + + +
Sbjct: 38 LDKVKLHFIKHKAGETIIKSGNPC--TQLCFLLKGEISIVTNAKEN-IYTVIEQIEAPYL 94
Query: 158 IGGLAVLTGEASVFTIQSRLPAT--------IAWLPQDDCSTLIDADMNVTLKIAHSVLK 209
I S+F + + ++ + + + + L + V
Sbjct: 95 IE-------PQSLFGMNTNYASSYVAHTEVHTVCISKAFVLSDLFRYDIFRLNYMNIVSN 147
Query: 210 RMSPFVRQ 217
R +
Sbjct: 148 RAQNLYSR 155
>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 = 40.6 bits (95), Expect = 2e-04
Identities = 12/63 (19%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
D+ ++ Y++ G + K + + D G + ++ R TV A + +++
Sbjct: 164 DQGENFYLIEYGAVDVSKKGQ----GVINKLKDHDYFGEVALLNDLPRQATVTATKRTKV 219
Query: 63 AKL 65
A L
Sbjct: 220 ATL 222
>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 = 40.0 bits (93), Expect = 5e-04
Identities = 41/262 (15%), Positives = 73/262 (27%), Gaps = 94/262 (35%)
Query: 16 LRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSELAKLP---EGLC-D 71
R + TL G E+ + + T++ + + ++ LP EG D
Sbjct: 6 TRPL-TLSHG----SLEHV-------LLVPTASFFIASQL--QEQFNKILPEPTEGFAAD 51
Query: 72 HLPRSPSEQELIHSSKREFMEQLGVKDFSGLDIRVEHIPGGTCLVREEVVEDNKLIYVIA 131
P +P EL+ +F+ + + VE G ++V+ L
Sbjct: 52 DEPTTP--AELV----GKFL------GY--VSSLVEPSKVGQ---FDQVL---NLCLTEF 91
Query: 132 GSLFITQKSSDGSNDVHLFTA-FPGDMIGGL----------------------------- 161
+ ++ ND+H A + L
Sbjct: 92 ENCYL------EGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL 145
Query: 162 --AVLTGEASVFTI---QSRLPATIAWLP---------QDDCSTLIDADMNVTLKIAHSV 207
AV G A + I Q T + LI ++ +
Sbjct: 146 FRAVGEGNAQLVAIFGGQG---NTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTT 202
Query: 208 LKRMSPFVRQFDFALDWVFLEG 229
L F + + L+W LE
Sbjct: 203 LDAEKVFTQGLNI-LEW--LEN 221
Score = 34.3 bits (78), Expect = 0.031
Identities = 35/176 (19%), Positives = 57/176 (32%), Gaps = 52/176 (29%)
Query: 10 IVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSELAKLPEGL 69
+V++G +S+ L RK +A S D SR + SE + +
Sbjct: 377 LVVSGPPQSLYGLNLTLRKAKAP-SGLD----------QSR------IPFSE--RKLKFS 417
Query: 70 CDHLPRS-PSEQELIHSS-----KREFMEQLGVKDF----SGLDIRVEHIPGGTCLVREE 119
LP + P HS + L + + I V G+ L R
Sbjct: 418 NRFLPVASP-----FHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDL-RV- 470
Query: 120 VVEDNKLIYVIAGSLF--ITQK-----SSDGSNDVHLFTAF-PGDMIGGLAVLTGE 167
+ + I+ + I + ++ H+ F PG GL VLT
Sbjct: 471 -LSGS-----ISERIVDCIIRLPVKWETTTQFKATHILD-FGPGG-ASGLGVLTHR 518
Score = 31.9 bits (72), Expect = 0.21
Identities = 31/150 (20%), Positives = 49/150 (32%), Gaps = 51/150 (34%)
Query: 10 IVLTGR--LRSVKTLESGKRKEEA--------EYSKGDLVG---------LIEMVTSTSR 50
+ L + +K G +A EY+ L L+E+V R
Sbjct: 1736 LTLMEKAAFEDLK--SKGLIPADATFAGHSLGEYAA--LASLADVMSIESLVEVVFY--R 1789
Query: 51 -NTTVMAVRDSELAKLPEGLCDHLPRSPS---EQELIHSSKREFMEQLGVKDFSGLDIRV 106
T +AV EL + G+ P + QE + + +E++G +
Sbjct: 1790 GMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEAL----QYVVERVGKRT-------- 1837
Query: 107 EHIPGGTCLVREEVVEDNK--LIYVIAGSL 134
G E+V N YV AG L
Sbjct: 1838 ----GWLV----EIVNYNVENQQYVAAGDL 1859
>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 = 36.5 bits (85), Expect = 0.002
Identities = 14/77 (18%), Positives = 23/77 (29%), Gaps = 8/77 (10%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
+ D + V+ G + E G G + +++ R+ TV A L
Sbjct: 50 EPGDRMFFVVEGSVSVA-------TPNPVELGPGAFFGEMALISGEPRSATVSAATTVSL 102
Query: 63 AKLP-EGLCDHLPRSPS 78
L SP
Sbjct: 103 LSLHSADFQMLCSSSPE 119
Score = 27.3 bits (61), Expect = 3.1
Identities = 25/141 (17%), Positives = 49/141 (34%), Gaps = 25/141 (17%)
Query: 87 KREFMEQL----GVKDFSGLD----------IRVEHIPGGTCLVREEVVEDNKLIYVIA- 131
+ +F+ V F L +R +P G + R D ++ +
Sbjct: 3 RGDFVRNWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDR--MFFVVE 60
Query: 132 GSLFITQKSSDGSNDVHLFTAFPGDMIGGLAVLTGEASVFTIQSRLPATIAWLPQDDCST 191
GS+ + + V L PG G +A+++GE T+ + ++ L D
Sbjct: 61 GSVSVATPN-----PVELG---PGAFFGEMALISGEPRSATVSAATTVSLLSLHSADFQM 112
Query: 192 LIDADMNVTLKIAHSVLKRMS 212
L + + + L+R
Sbjct: 113 LCSSSPEIAEIFRKTALERRG 133
>3bpz_A Potassium/sodium hyperpolarization-activated cyclic
nucleotide-gated channel 2; CNBD, C-linker, pacemaker,
HCN, HCN2, CAP, PKA, CAMP, ION channel; HET: CMP; 1.65A
{Mus musculus} PDB: 3ffq_A 1q3e_A* 1q43_A* 1q5o_A*
3u10_A* 2q0a_A* 3etq_A* 3u11_A* 3otf_A* 3u0z_A*
Length = 202
Score = 37.3 bits (87), Expect = 0.002
Identities = 17/97 (17%), Positives = 35/97 (36%), Gaps = 6/97 (6%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
Y + G + + +E + S G G I ++T R +V A L
Sbjct: 111 TIGKKMYFIQHGVVSVLTKGN-----KEMKLSDGSYFGEICLLTRGRRTASVRADTYCRL 165
Query: 63 AKLP-EGLCDHLPRSPSEQELIHSSKREFMEQLGVKD 98
L + + L P + + + ++++G K+
Sbjct: 166 YSLSVDNFNEVLEEYPMMRRAFETVAIDRLDRIGKKN 202
>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 = 36.9 bits (86), Expect = 0.003
Identities = 13/93 (13%), Positives = 28/93 (30%), Gaps = 5/93 (5%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
D + + G + + S G G I ++T R +V L
Sbjct: 110 TFGDRMFFIQQGIVDII----MSDGVIATSLSDGSYFGEICLLTRERRVASVKCETYCTL 165
Query: 63 AKLP-EGLCDHLPRSPSEQELIHSSKREFMEQL 94
L + L P+ ++ + + ++
Sbjct: 166 FSLSVQHFNQVLDEFPAMRKTMEEIAVRRLTRI 198
>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 = 34.6 bits (80), Expect = 0.009
Identities = 13/63 (20%), Positives = 23/63 (36%), Gaps = 1/63 (1%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
D D+ Y++ G + G + Y G + ++ +T R T+ A L
Sbjct: 77 DDGDNFYVIDRGTFD-IYVKCDGVGRCVGNYDNRGSFGELALMYNTPRAATITATSPGAL 135
Query: 63 AKL 65
L
Sbjct: 136 WGL 138
Score = 29.3 bits (66), Expect = 0.73
Identities = 19/125 (15%), Positives = 41/125 (32%), Gaps = 9/125 (7%)
Query: 74 PRSPSEQELIHS--SKREFMEQLGVKDFSGLDIRVE--HIPGGTCLVREEVVEDNKLIYV 129
P++ ++ + + L + S + + + G ++ + +D YV
Sbjct: 27 PKTDDQRNRLQEACKDILLFKNLDPEQMSQVLDAMFEKLVKEGEHVIDQG--DDGDNFYV 84
Query: 130 IA-GSLFITQKSSDGSNDVHLFTAFPGDMIGGLAVLTGEASVFTIQSRLPATIAWLPQDD 188
I G+ I K + G LA++ TI + P + L +
Sbjct: 85 IDRGTFDIYVKCDGV--GRCVGNYDNRGSFGELALMYNTPRAATITATSPGALWGLDRVT 142
Query: 189 CSTLI 193
+I
Sbjct: 143 FRRII 147
>2fmy_A COOA, carbon monoxide oxidation system transcription RE COOA-1;
DNA transcription regulator, DNA binding protein; HET:
HEM; 2.20A {Carboxydothermus hydrogenoformans} PDB:
2hkx_A*
Length = 220
Score = 34.9 bits (81), Expect = 0.012
Identities = 12/64 (18%), Positives = 22/64 (34%), Gaps = 8/64 (12%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
+ ++V +GR+R E K A GD+ T + A+ D+ +
Sbjct: 43 TERNLVFLVKSGRVRVYLAYE-DKEFTLAILEAGDIFC-------THTRAFIQAMEDTTI 94
Query: 63 AKLP 66
Sbjct: 95 LYTD 98
Score = 31.5 bits (72), Expect = 0.15
Identities = 12/124 (9%), Positives = 34/124 (27%), Gaps = 22/124 (17%)
Query: 99 FSGLD----------IRVEHIPGGTCLVREEVVEDNKLIYVIA-GSLFITQKSSDGSNDV 147
L+ R + L + L++++ G + + + + +
Sbjct: 12 LEVLNSEEYSGVLKEFREQRYSKKAILYTPN--TERNLVFLVKSGRVRVY-LAYED-KEF 67
Query: 148 HLFTAFPGDMIGGLAVLTGEASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAHSV 207
L GD+ +A TI + + ++ +L + +
Sbjct: 68 TLAILEAGDIFCTHTRAFIQAME-------DTTILYTDIRNFQNIVVEFPAFSLNMVKVL 120
Query: 208 LKRM 211
+
Sbjct: 121 GDLL 124
>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 = 33.0 bits (76), Expect = 0.057
Identities = 14/115 (12%), Positives = 40/115 (34%), Gaps = 10/115 (8%)
Query: 105 RVEHIPGGTCLVREEVVEDNKLIYVIAGSLFITQKSSDGSNDVHLFTAFPGDMIGGLAVL 164
R + G+ + E ++N + V+ G L + + ++ LF GDM
Sbjct: 24 RSKIHAKGSLVCTGEG-DENGVFVVVDGRLRVYLVGEER--EISLFYLTSGDMF------ 74
Query: 165 TGEASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAHSVLKRMSPFVRQFD 219
S +++ + + + ++ + + + ++ +R +
Sbjct: 75 -CMHSGCLVEATERTEVRFADIRTFEQKLQTCPSMAWGLIAILGRALTSCMRTIE 128
Score = 32.6 bits (75), Expect = 0.067
Identities = 11/64 (17%), Positives = 21/64 (32%), Gaps = 8/64 (12%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDSEL 62
+ ++V+ GRLR E + + GD+ + V A +E+
Sbjct: 39 GDENGVFVVVDGRLRVYLVGE-EREISLFYLTSGDMFCM-------HSGCLVEATERTEV 90
Query: 63 AKLP 66
Sbjct: 91 RFAD 94
>3dn7_A Cyclic nucleotide binding regulatory protein; structural genomics,
APC88869, cyclic nucleotide binding REG protein, PSI-2;
1.80A {Cytophaga hutchinsonii}
Length = 194
Score = 32.4 bits (74), Expect = 0.070
Identities = 15/100 (15%), Positives = 30/100 (30%), Gaps = 11/100 (11%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIE-MVTSTSRNTTVMAVRDSE 61
+ Y V+ G LR E G + + + + + +V + E
Sbjct: 46 EICRINYFVVKGCLRLFFIDEKGIEQTTQFAIENWWLSDYMAFQKQQPADFYIQSVENCE 105
Query: 62 LAKLP----EGLCDHLP------RSPSEQELIHSSKREFM 91
L + E L + +P R ++ + R
Sbjct: 106 LLSITYTEQENLFERIPALERYFRLVYQKSFAAAQLRSKF 145
>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 = 31.6 bits (72), Expect = 0.12
Identities = 13/65 (20%), Positives = 25/65 (38%), Gaps = 5/65 (7%)
Query: 1 QYDRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDS 60
Q D D+ Y++ G + + +G G + ++ T R TV A +
Sbjct: 75 QGDEGDNFYVIDQGEMDVYV-----NNEWATSVGEGGSFGELALIYGTPRAATVKAKTNV 129
Query: 61 ELAKL 65
+L +
Sbjct: 130 KLWGI 134
Score = 27.3 bits (61), Expect = 3.3
Identities = 17/107 (15%), Positives = 36/107 (33%), Gaps = 16/107 (14%)
Query: 72 HLPRSPSEQELIHS--SKREFMEQLGVKDFSGL--DIRVEHIPGGTCLVREEVVEDNKLI 127
+P+ + K L + S + + G ++++ ++
Sbjct: 25 VIPKDYKTMAALAKAIEKNVLFSHLDDNERSDIFDAMFPVSFIAGETVIQQG--DEGDNF 82
Query: 128 YVIA-GSLFITQKSSDGSNDVHLFTAFPGDMIGGLAVLTGE---ASV 170
YVI G + + N+ + G G LA++ G A+V
Sbjct: 83 YVIDQGEMDVYV------NNEWATSVGEGGSFGELALIYGTPRAATV 123
>2q2h_A AGR_C_4014P, secretion chaperone, phage-display derived peptid;
beta barrel, OB fold, homodimer, protein secretio; HET:
CIT; 1.65A {Agrobacterium tumefaciens str}
Length = 131
Score = 30.3 bits (69), Expect = 0.24
Identities = 11/54 (20%), Positives = 19/54 (35%), Gaps = 5/54 (9%)
Query: 77 PSEQELIHSSKREFMEQLGVKDFSGLDIRVEHIPGGTCLVREEVVEDNKLIYVI 130
P +++ ++ DF +DIRV GT + E K +
Sbjct: 6 PGQKQHYVQPTAANSGEISYADFEKVDIRV-----GTIVEAVPFPEARKPAIKV 54
>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 = 31.4 bits (70), Expect = 0.26
Identities = 12/58 (20%), Positives = 23/58 (39%), Gaps = 4/58 (6%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDS 60
+ S YI+L G + V + +GD G + +V R +++ D+
Sbjct: 377 EEGTSWYIILKGSVNVVI----YGKGVVCTLHEGDDFGKLALVNDAPRAASIVLREDN 430
>1wgh_A Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fold, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, unknown function; NMR {Mus musculus}
SCOP: d.15.1.1
Length = 116
Score = 28.9 bits (64), Expect = 0.66
Identities = 7/39 (17%), Positives = 13/39 (33%)
Query: 49 SRNTTVMAVRDSELAKLPEGLCDHLPRSPSEQELIHSSK 87
S N + + P + SP+ LI+ +
Sbjct: 34 SPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGR 72
>1wgp_A Probable cyclic nucleotide-gated ION channel 6; cyclic nucleotide
monophosphate, CNMP, CNMP-binding, structural genomics;
NMR {Arabidopsis thaliana} SCOP: b.82.3.2
Length = 137
Score = 29.0 bits (65), Expect = 0.67
Identities = 18/89 (20%), Positives = 27/89 (30%), Gaps = 14/89 (15%)
Query: 3 DRSDSTYIVLTGRLRSVKTL-ESGKRKEEAEYSKGDLVG---------LIEMVTSTSRNT 52
D + ++ GRL SV T + +GD G S
Sbjct: 45 DPVNEMLFIIRGRLESVTTDGGRSGFYNRSLLKEGDFCGDELLTWALDPKSGSNLPSSTR 104
Query: 53 TVMAVRDSELAKLP----EGLCDHLPRSP 77
TV A+ + E L + + RS
Sbjct: 105 TVKALTEVEAFALIADELKFVASQFRRSG 133
>1pxf_A Hypothetical protein YGJH; oligonucleotide-oligosaccharide binding
fold, OB fold, beta- barrel; 1.87A {Escherichia coli}
SCOP: b.40.4.4 PDB: 3ers_X
Length = 111
Score = 28.4 bits (64), Expect = 0.77
Identities = 9/36 (25%), Positives = 15/36 (41%), Gaps = 6/36 (16%)
Query: 91 MEQLGVKDFSGLDIRV------EHIPGGTCLVREEV 120
ME + DF+ L++RV + L +V
Sbjct: 1 METVAYADFARLEMRVGKIVEVKRHENADKLYIVQV 36
>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural
genomics, protein structure initiative, PSI; NMR {Homo
sapiens}
Length = 125
Score = 28.4 bits (63), Expect = 0.98
Identities = 6/37 (16%), Positives = 12/37 (32%)
Query: 51 NTTVMAVRDSELAKLPEGLCDHLPRSPSEQELIHSSK 87
N + + P + SP+ LI+ +
Sbjct: 37 NDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGR 73
>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 = 28.1 bits (63), Expect = 1.3
Identities = 10/64 (15%), Positives = 20/64 (31%), Gaps = 6/64 (9%)
Query: 3 DRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMA-VRDSE 61
DS Y++L G + + G+ G+ + + V V D +
Sbjct: 56 QELDSWYVILNGTVEISHP-----DGKVENLFMGNSFGITPTLDKQYMHGIVRTKVDDCQ 110
Query: 62 LAKL 65
+
Sbjct: 111 FVCI 114
>1rc6_A Hypothetical protein YLBA; structural genomics, NYSGXRC, SGX clone
NAME 3174C1TCT3B1, T T1521, PSI, protein initiative;
2.60A {Escherichia coli} SCOP: b.82.1.11
Length = 261
Score = 28.5 bits (63), Expect = 1.6
Identities = 16/132 (12%), Positives = 32/132 (24%), Gaps = 11/132 (8%)
Query: 106 VEHIPGGTCLVREEVVEDNKLIYVIAGSLFITQKSSDGSNDVHLFTA-----FPGDMIGG 160
V G +YVI+G++ + P +
Sbjct: 64 VTLHQNGGNQQGFGGEGIETFLYVISGNITAKA-----EGKTFALSEGGYLYCPPGSLMT 118
Query: 161 LAVLTGE-ASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAHSVLKRMSPFVRQFD 219
E + +F + R + P + + + +L P FD
Sbjct: 119 FVNAQAEDSQIFLYKRRYVPVEGYAPWLVSGNASELERIHYEGMDDVILLDFLPKELGFD 178
Query: 220 FALDWVFLEGGQ 231
+ + G
Sbjct: 179 MNMHILSFAPGA 190
>3ocp_A PRKG1 protein; serine/threonine kinase, TF2I and IRAG, transferase;
HET: CMP; 2.49A {Homo sapiens} PDB: 3od0_A* 3ogj_A*
Length = 139
Score = 27.7 bits (62), Expect = 1.8
Identities = 11/65 (16%), Positives = 28/65 (43%), Gaps = 5/65 (7%)
Query: 1 QYDRSDSTYIVLTGRLRSVKTLESGKRKEEAEYSKGDLVGLIEMVTSTSRNTTVMAVRDS 60
+ D Y++ G+ V+ + G + G + G + ++ + +R TV + +
Sbjct: 60 EGDVGSLVYVMEDGK---VEVTKEGVKL--CTMGPGKVFGELAILYNCTRTATVKTLVNV 114
Query: 61 ELAKL 65
+L +
Sbjct: 115 KLWAI 119
>2q2i_A AGR_C_4014P, secretion chaperone; beta barrel, OB fold, homodimer,
protein secretio; 1.55A {Agrobacterium tumefaciens str}
Length = 116
Score = 27.1 bits (61), Expect = 2.1
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 5/42 (11%)
Query: 89 EFMEQLGVKDFSGLDIRVEHIPGGTCLVREEVVEDNKLIYVI 130
++ DF +DIRV GT + E K +
Sbjct: 3 HMSGEISYADFEKVDIRV-----GTIVEAVPFPEARKPAIKV 39
>2cwp_A Metrs related protein; structural GEN riken structural
genomics/proteomics initiative, RSGI; 2.10A {Pyrococcus
horikoshii}
Length = 112
Score = 26.8 bits (60), Expect = 3.3
Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 5/39 (12%)
Query: 89 EFMEQLGVKDFSGLDIRVEHIPGGTCLVREEVVEDNKLI 127
+ME V +F ++V G E++ KLI
Sbjct: 2 NYMELYDVDEFWKFQMKV-----GLVKKAEKIKRTKKLI 35
>1sef_A Conserved hypothetical protein; structural genomics, nysgxrc target
T1582, PSI, protein STRU initiative; 2.05A {Enterococcus
faecalis} SCOP: b.82.1.11
Length = 274
Score = 27.3 bits (60), Expect = 4.4
Identities = 25/131 (19%), Positives = 38/131 (29%), Gaps = 9/131 (6%)
Query: 106 VEHIPGGTCLVREEVVEDNKLIYVIAGSLFITQKSSDGSNDVHL----FTAFPGDMIGGL 161
G L+YVI G L ++ DG L + F +M L
Sbjct: 67 ATFHKNGQQTTGFGGDGIQTLVYVIDGRLRVS----DGQETHELEAGGYAYFTPEMKMYL 122
Query: 162 AVLTGE-ASVFTIQSRLPATIAWLPQDDCSTLIDADMNVTLKIAHSVLKRMSPFVRQFDF 220
A VF + R P ++ D + +L + P FD
Sbjct: 123 ANAQEADTEVFLYKKRYQPLAGHQPYKVVGSIHDQQPEEYEGMTDVLLWSLLPKEFDFDM 182
Query: 221 ALDWVFLEGGQ 231
+ + E G
Sbjct: 183 NMHILSFEPGA 193
>2h85_A Putative ORF1AB polyprotein; endoribonuclease, RNA, NSP, viral
protein; 2.60A {Sars coronavirus} SCOP: c.66.1.48
d.294.1.2 PDB: 2ozk_A 2rhb_A
Length = 347
Score = 27.0 bits (59), Expect = 5.4
Identities = 15/79 (18%), Positives = 29/79 (36%), Gaps = 22/79 (27%)
Query: 31 AEYSKGDLVGLIEMVTSTSRNTTVMAVRDSELAKLPEGLCDHLPRSPSEQELIHSSKREF 90
+ G + L E + SR+ D PRS E + + + EF
Sbjct: 181 FKKVDGIIQQLPETYFTQSRDLE-----------------DFKPRSQMETDFLELAMDEF 223
Query: 91 MEQLGVKDFSGLDIRVEHI 109
+++ ++ ++ EHI
Sbjct: 224 IQRYKLEGYA-----FEHI 237
>2nzh_A Protein CSAA; beta barrel, oligonucleotide/oligosaccharide binding
fold, H chaperone; 1.90A {Bacillus subtilis} PDB: 2nzo_A
Length = 113
Score = 25.6 bits (57), Expect = 9.3
Identities = 11/39 (28%), Positives = 14/39 (35%), Gaps = 5/39 (12%)
Query: 92 EQLGVKDFSGLDIRVEHIPGGTCLVREEVVEDNKLIYVI 130
+ DF LDIR GT + EE E +
Sbjct: 3 HMAVIDDFEKLDIRT-----GTIVKAEEFPEARVPAIKL 36
>1saz_A Probable butyrate kinase 2; askha (acetate and sugar kinases,
HSC70, actin) superfamily, acetate kinase, isobutyrate
kinase; HET: ACP; 2.50A {Thermotoga maritima} SCOP:
c.55.1.2 c.55.1.2 PDB: 1x9j_A*
Length = 381
Score = 26.3 bits (59), Expect = 9.3
Identities = 6/19 (31%), Positives = 11/19 (57%)
Query: 105 RVEHIPGGTCLVREEVVED 123
++ IPGG LV +++
Sbjct: 77 LLDPIPGGVYLVDGLMIKT 95
>3pe7_A Oligogalacturonate lyase; seven-bladed beta-propeller; 1.65A
{Yersinia enterocolitica subsp}
Length = 388
Score = 26.3 bits (57), Expect = 9.4
Identities = 14/114 (12%), Positives = 33/114 (28%), Gaps = 1/114 (0%)
Query: 76 SPSEQELIHSSKREFMEQLGVKDFSGLDIRVEHIPGGTCLVREEVVEDNKLIYVIAGSLF 135
SP + L + + ++ + + D + I
Sbjct: 89 SPDDDALFYVKDGRNLMRVDLATLEENVVYQVPAEWVG-YGTWVANSDCTKLVGIEIRRE 147
Query: 136 ITQKSSDGSNDVHLFTAFPGDMIGGLAVLTGEASVFTIQSRLPATIAWLPQDDC 189
+D + P + + + TGE++V +++ + P DD
Sbjct: 148 DWVPLTDWKKFHEFYFTKPCCRLMRVDLKTGESTVILQENQWLGHPIYRPYDDS 201
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
0.318 0.135 0.386
Gapped
Lambda K H
0.267 0.0774 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,493,824
Number of extensions: 202105
Number of successful extensions: 447
Number of sequences better than 10.0: 1
Number of HSP's gapped: 440
Number of HSP's successfully gapped: 89
Length of query: 234
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 143
Effective length of database: 4,160,982
Effective search space: 595020426
Effective search space used: 595020426
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.3 bits)