RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11552
(714 letters)
>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 = 223 bits (569), Expect = 1e-63
Identities = 126/234 (53%), Positives = 162/234 (69%), Gaps = 33/234 (14%)
Query: 480 TANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMG 539
TANLD+FLRRFNEIQ+WV+TE+ L + L+KRVQ+L+K IK+AA+CKEY+N+N+ FA++MG
Sbjct: 493 TANLDLFLRRFNEIQFWVVTEVCLCSQLSKRVQLLKKFIKIAAHCKEYKNLNSFFAIVMG 552
Query: 540 LSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQSPVIPFMPLLLK 599
LSNVAVSRL+LTW+KLPSK KK Y E E+L+DPS+NHRAYR +KL+ P+IPFMPLL+K
Sbjct: 553 LSNVAVSRLALTWEKLPSKFKKFYAEFESLMDPSRNHRAYRLTAAKLEPPLIPFMPLLIK 612
Query: 600 DLAFTHDGNKTVVDGLVNFEKMHMFAQTLRTLRYCRTRHLDHDKTVVDGLVNFEKMHMFA 659
D+ FTH+GNKT +D LVNFEKM M A T RT+RY R++ + D
Sbjct: 613 DMTFTHEGNKTFIDNLVNFEKMRMIANTARTVRYYRSQPFNPDA---------------- 656
Query: 660 QTLRTLRYCRTRHLVLDPPTPKCESEVKSYVSCLRAMDNQRILTSMSQKLEPRR 713
K +V+SYV L +DNQR L+ MS +LEPRR
Sbjct: 657 -----------------AQANKNHQDVRSYVRQLNVIDNQRTLSQMSHRLEPRR 693
Score = 132 bits (333), Expect = 2e-32
Identities = 64/98 (65%), Positives = 83/98 (84%)
Query: 289 KPLDRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSW 348
P RT +DLE IY+ELLH+K L HLS +V+RELAGV++FE+H + G +LF+QG+EG SW
Sbjct: 18 PPGQRTVDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTVLFNQGEEGTSW 77
Query: 349 YIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPR 386
YII++GSV+VVIYGKG V +L+ G+DFGKLALVN+APR
Sbjct: 78 YIILKGSVNVVIYGKGVVCTLHEGDDFGKLALVNDAPR 115
Score = 70.2 bits (171), Expect = 1e-12
Identities = 34/50 (68%), Positives = 46/50 (92%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAP 440
+++F+QG+EG SWYII++GSV+VVIYGKG V +L+ G+DFGKLALVN+AP
Sbjct: 65 TVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDDFGKLALVNDAP 114
>2ije_S Guanine nucleotide-releasing protein; rasgrf1, CDC25 domain, RAS
guanine nucleotide releasing FACT specific nucleotide
exchange factor; 2.20A {Mus musculus}
Length = 240
Score = 208 bits (532), Expect = 7e-63
Identities = 49/235 (20%), Positives = 95/235 (40%), Gaps = 38/235 (16%)
Query: 480 TANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMG 539
T + + FN + ++ +EI+ ++ R + K + +A C+ N NA+ +
Sbjct: 43 TPYIMKTTKHFNHVSNFIASEIIRNEDISARASAIEKWVAVADICRCLHNYNAVLEITSS 102
Query: 540 LSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQSPVIPFMPLLLK 599
++ A+ RL TW K+ ++K +L+ L+ + R+++ P +P++ + L
Sbjct: 103 INRSAIFRLKKTWLKVSKQTKSLLDKLQKLVSSDGRFKNLRESLRNCDPPCVPYLGMYLT 162
Query: 600 DLAFTHDGNKTVVDGLVNFEKMHMFAQTLRTLRYCRTRHLDHDKTVVDGLVNFEKMHMFA 659
DL F +G + DGLVNF KM M +
Sbjct: 163 DLVFIEEGTPNYTE---------------------------------DGLVNFSKMRMIS 189
Query: 660 QTLRTLRYCRTRHLVLDPPTPKCESEVKSYVSCLRAMDNQRILTSMSQKLEPRRS 714
+R +R + +DP + +V Y+ M ++ L S +EP+
Sbjct: 190 HIIREIRQFQQTTYKIDP-----QPKVIQYLLDESFMLDEESLYESSLLIEPKLP 239
>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 = 225 bits (575), Expect = 8e-63
Identities = 126/234 (53%), Positives = 162/234 (69%), Gaps = 33/234 (14%)
Query: 480 TANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMG 539
TANLD+FLRRFNEIQ+WV+TE+ L + L+KRVQ+L+K IK+AA+CKEY+N+N+ FA++MG
Sbjct: 798 TANLDLFLRRFNEIQFWVVTEVCLCSQLSKRVQLLKKFIKIAAHCKEYKNLNSFFAIVMG 857
Query: 540 LSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQSPVIPFMPLLLK 599
LSNVAVSRL+LTW+KLPSK KK Y E E+L+DPS+NHRAYR +KL+ P+IPFMPLL+K
Sbjct: 858 LSNVAVSRLALTWEKLPSKFKKFYAEFESLMDPSRNHRAYRLTAAKLEPPLIPFMPLLIK 917
Query: 600 DLAFTHDGNKTVVDGLVNFEKMHMFAQTLRTLRYCRTRHLDHDKTVVDGLVNFEKMHMFA 659
D+ FTH+GNKT +D LVNFEKM M A T RT+RY R++ + D
Sbjct: 918 DMTFTHEGNKTFIDNLVNFEKMRMIANTARTVRYYRSQPFNPDA---------------- 961
Query: 660 QTLRTLRYCRTRHLVLDPPTPKCESEVKSYVSCLRAMDNQRILTSMSQKLEPRR 713
K +V+SYV L +DNQR L+ MS +LEPRR
Sbjct: 962 -----------------AQANKNHQDVRSYVRQLNVIDNQRTLSQMSHRLEPRR 998
Score = 198 bits (503), Expect = 2e-53
Identities = 106/241 (43%), Positives = 147/241 (60%), Gaps = 41/241 (17%)
Query: 146 RRCASGSELVDWLMSLAPSLAVSRQITTGMWQALLEEGVIYHVNGEQAFRDKCILYNFWQ 205
R+C G+ELVDW++ + SR GMWQ LLE+GV+ HV+ E+ F+DK + Y F
Sbjct: 221 RQCCVGTELVDWMIQQTSCVH-SRTQAVGMWQVLLEDGVLNHVDQERHFQDKYLFYRFLD 279
Query: 206 DKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLPREYMLH 265
D+ + T ++ E +E L++ +L L++ PDA +R ILRK
Sbjct: 280 DEREDAPLPTEEEKKECDEELQDTMLLLSQMGPDAHMRMILRK----------------- 322
Query: 266 LEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGV 325
P RT +DLE IY+ELLH+K L HLS +V+RELAGV
Sbjct: 323 -----------------------PPGQRTVDDLEIIYDELLHIKALSHLSTTVKRELAGV 359
Query: 326 VMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAP 385
++FE+H + G +LF+QG+EG SWYII++GSV+VVIYGKG V +L+ G+DFGKLALVN+AP
Sbjct: 360 LIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDDFGKLALVNDAP 419
Query: 386 R 386
R
Sbjct: 420 R 420
Score = 117 bits (294), Expect = 3e-27
Identities = 36/168 (21%), Positives = 61/168 (36%), Gaps = 48/168 (28%)
Query: 225 HLEEALLALARRAPDAILRYILRKQLKKLQNRYLPREYMLHLEREIEDKEEEEKEEEEEE 284
+ A A L K
Sbjct: 4 GIPMVAAHAAHSQSSAEWIACLDK------------------------------------ 27
Query: 285 RQIGKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDE 344
+PL+R+SED++ I+ L +K ++ R++ +E KG LF QGD
Sbjct: 28 ----RPLERSSEDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLE-KGITLFRQGDI 82
Query: 345 GKSWYIIIQGSVDVVIYGK------GCVTSLYAGEDFGKLALVNNAPR 386
G +WY ++ GS+DV + + +L G FG+ ++++N PR
Sbjct: 83 GTNWYAVLAGSLDVKVSETSSHQDAVTICTLGIGTAFGE-SILDNTPR 129
Score = 70.6 bits (172), Expect = 1e-12
Identities = 35/138 (25%), Positives = 55/138 (39%), Gaps = 5/138 (3%)
Query: 28 HYTTTLQSSPSVPMARAGWVLRTLLLNDESGTLRDRKTSGGRTIARRCASGSELVDWLMS 87
++ PS + RAG +LR +L+ +RDRK R+C G+ELVDW++
Sbjct: 178 DRIPDKENVPSEKILRAGKILRIAILSRAPHMIRDRKYHLKTY--RQCCVGTELVDWMIQ 235
Query: 88 LAPSLAVSRQITTGMWQALLEEGVIYHGKISCFFFSETE--TIPMERIYYSLYSGGRTIA 145
+ SR GMWQ LLE+GV+ H F + + +
Sbjct: 236 QTSCVH-SRTQAVGMWQVLLEDGVLNHVDQERHFQDKYLFYRFLDDEREDAPLPTEEEKK 294
Query: 146 RRCASGSELVDWLMSLAP 163
+ + L + P
Sbjct: 295 ECDEELQDTMLLLSQMGP 312
Score = 69.1 bits (168), Expect = 3e-12
Identities = 34/50 (68%), Positives = 46/50 (92%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAP 440
+++F+QG+EG SWYII++GSV+VVIYGKG V +L+ G+DFGKLALVN+AP
Sbjct: 370 TVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDDFGKLALVNDAP 419
>3qxl_A RAS-specific guanine nucleotide-releasing factor; CDC25 domain
homology, guanine-nucleotide exchange factor, S GTPase
RAL subfamily; 2.24A {Homo sapiens}
Length = 271
Score = 206 bits (525), Expect = 2e-61
Identities = 45/174 (25%), Positives = 84/174 (48%), Gaps = 1/174 (0%)
Query: 480 TANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMG 539
N+ F RRFN++ +WV+ EIL +L R +IL +K+A E N+++L +V+
Sbjct: 70 APNVVAFTRRFNQVSFWVVREILTAQTLKIRAEILSHFVKIAKKLLELNNLHSLMSVVSA 129
Query: 540 LSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQS-PVIPFMPLLL 598
L + + RL+ TW L K K T+ +L+ L+ N++ R+ + L+ P IP++ + L
Sbjct: 130 LQSAPIFRLTKTWALLNRKDKTTFEKLDYLMSKEDNYKRTREYIRSLKMVPSIPYLGIYL 189
Query: 599 KDLAFTHDGNKTVVDGLVNFEKMHMFAQTLRTLRYCRTRHLDHDKTVVDGLVNF 652
DL + + N ++ + LR + + T + + +
Sbjct: 190 LDLIYIDSAYPASGSIMENEQRSNQMNNILRIIADLQVSCSYDHLTTLPHVQKY 243
>2ii0_A SOS-1, SON of sevenless homolog 1; signaling protein; 2.02A {Homo
sapiens} SCOP: a.117.1.1 PDB: 1xd2_C* 1nvv_S* 1nvu_S*
1nvw_S* 1nvx_S* 1bkd_S
Length = 490
Score = 181 bits (461), Expect = 4e-50
Identities = 48/241 (19%), Positives = 93/241 (38%), Gaps = 43/241 (17%)
Query: 480 TANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMG 539
+ NL +R + W I+ +L +RV ++ ++I++ +E N N + V+
Sbjct: 259 SPNLLKMIRHTTNLTLWFEKCIVETENLEERVAVVSRIIEILQVFQELNNFNGVLEVVSA 318
Query: 540 LSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQSPVIPFMPLLLK 599
+++ V RL T++++PS+ KK E L +++ Y + + P +PF + L
Sbjct: 319 MNSSPVYRLDHTFEQIPSRQKKILEEAHEL--SEDHYKKYLAKLRSINPPCVPFFGIYLT 376
Query: 600 DLAFTHDGNKTVVDGLVNFEKMHMFAQTLRTLRYCRTRHLDHDKTVVDGLVNFEKMHMFA 659
++ T +GN V+ L+NF K A
Sbjct: 377 NILKTEEGNPEVLKRHGK------------------------------ELINFSKRRKVA 406
Query: 660 QTLRTLRYCRTRHLVLDPPTPKCESEVKSYVSCLRAMDNQRILTS------MSQKLEPRR 713
+ ++ + + L ES++K + L M N S ++EPR
Sbjct: 407 EITGEIQQYQNQPYCLRV-----ESDIKRFFENLNPMGNSMEKEFTDYLFNKSLEIEPRN 461
Query: 714 S 714
Sbjct: 462 P 462
>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease
mutation, guanine-nucleotide releasing factor, signaling
protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A
Length = 1049
Score = 186 bits (474), Expect = 1e-49
Identities = 49/241 (20%), Positives = 95/241 (39%), Gaps = 43/241 (17%)
Query: 480 TANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEYRNINALFAVLMG 539
+ NL +R + W I+ +L +RV ++ ++I++ +E N N + V+
Sbjct: 818 SPNLLKMIRHTTNLTLWFEKCIVETENLEERVAVVSRIIEILQVFQELNNFNGVLEVVSA 877
Query: 540 LSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQSPVIPFMPLLLK 599
+++ V RL T++++PS+ KK E L +++ Y + + P +PF + L
Sbjct: 878 MNSSPVYRLDHTFEQIPSRQKKILEEAHEL--SEDHYKKYLAKLRSINPPCVPFFGIYLT 935
Query: 600 DLAFTHDGNKTVVDGLVNFEKMHMFAQTLRTLRYCRTRHLDHDKTVVDGLVNFEKMHMFA 659
++ T +GN V+ L+NF K A
Sbjct: 936 NILKTEEGNPEVLKRHGK------------------------------ELINFSKRRKVA 965
Query: 660 QTLRTLRYCRTRHLVLDPPTPKCESEVKSYVSCLRAMDNQRI------LTSMSQKLEPRR 713
+ ++ + + L ES++K + L M N L + S ++EPR
Sbjct: 966 EITGEIQQYQNQPYCLRV-----ESDIKRFFENLNPMGNSMEKEFTDYLFNKSLEIEPRN 1020
Query: 714 S 714
Sbjct: 1021 P 1021
>3t6a_A Breast cancer anti-estrogen resistance protein 3; CDC25-homology
domain, GTPase exchange factor, signaling Pro; HET: POG;
2.40A {Homo sapiens}
Length = 333
Score = 162 bits (410), Expect = 1e-44
Identities = 48/233 (20%), Positives = 84/233 (36%), Gaps = 18/233 (7%)
Query: 486 FLRRFNEIQYWVITEILLVT-SLNKRVQILRKMIKLAAYCKE-YRNINALFAVLMGLSNV 543
+ R N + + +IL T +L R L K+I++A K+ ++ + A++ L
Sbjct: 98 IIERHNTMAIGIAVDILGCTGTLEDRAATLSKIIQVAVELKDSMGDLYSFSALMKALEMP 157
Query: 544 AVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQSPVIPFMPLLLKDLAF 603
++RL TW L + +T E + P + S P +PLL+ +
Sbjct: 158 QITRLEKTWTALRHQYTQTAILYEKQLKPFSK-LLHEGRESTCVPPNNVSVPLLMPLV-T 215
Query: 604 THDGNKTVVDGLVNFEKMHMFAQT-LRTLRYCRT--RHLD-HDKTVVDGLVNFEKMHMFA 659
+ +G +EK + L L R D + L F+
Sbjct: 216 LMERQAVTFEGTDMWEKNDQSCEIMLNHLATARFMAEAADSYRMNAERILAGFQPDEEMN 275
Query: 660 QTLRTLRYCRTRHLVLDPPTPKCESEVKSYVSCLRAMDNQRILTSMSQKLEPR 712
+ +T R + E R +ILT++S+KLEP
Sbjct: 276 EICKTEFQMRLLWGSKGAQVNQTE----------RYEKFNQILTALSRKLEPP 318
>3t6g_A SH2 domain-containing protein 3C; CDC25-homology domain, GTPase
exchange factor, focal-adhesio targeting domain,
signaling protein; 2.50A {Homo sapiens}
Length = 331
Score = 144 bits (364), Expect = 2e-38
Identities = 48/248 (19%), Positives = 79/248 (31%), Gaps = 50/248 (20%)
Query: 486 FLRRFNEIQYWVITEILLVT-SLNKRVQILRKMIKLAAYCKE-YRNINALFAVLMGLSNV 543
L RF+ + + +IL T S +R +L K I+LAA + N+ + AV+ L
Sbjct: 99 LLERFHTMSIMLAVDILGSTGSAEERAALLHKTIQLAAELRGTMGNMFSFAAVMGALDMA 158
Query: 544 AVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQSPVIPFMP---LLLKD 600
+SRL TW L + + E + P + L + P + LL+
Sbjct: 159 QISRLEQTWVTLRQRHTEGAILYEKKLKPFLKSLNEGKEGPPLSNTTFPHVLPLITLLES 218
Query: 601 LAFTHDGNKTVVDGLVNFEKMHMFAQTLRTLRYCRTRHLDHDKTVVDGLVNFEKMHMFAQ 660
+ +G + E + L + E A
Sbjct: 219 DSAPPEGPEPWGSTEHGVEVV---------------------------LAHLEAARTVAH 251
Query: 661 TLRTLRYCRTRHLVLDPPTPKCE----------------SEVKSYVSCLRAMDNQRILTS 704
Y + L + E S+ S R ++LT+
Sbjct: 252 HGG--LYHTNAEVKLQGFQARPELLEVFSTEFQMRLLWGSQGASSSQARRYEKFDKVLTA 309
Query: 705 MSQKLEPR 712
+S KLEP
Sbjct: 310 LSHKLEPA 317
>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 = 131 bits (330), Expect = 8e-33
Identities = 106/243 (43%), Positives = 146/243 (60%), Gaps = 41/243 (16%)
Query: 144 IARRCASGSELVDWLMSLAPSLAVSRQITTGMWQALLEEGVIYHVNGEQAFRDKCILYNF 203
R+C G+ELVDW++ SR GMWQ LLE+GV+ HV+ E+ F+DK + Y F
Sbjct: 219 TYRQCCVGTELVDWMIQQTSC-VHSRTQAVGMWQVLLEDGVLNHVDQERHFQDKYLFYRF 277
Query: 204 WQDKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLPREYM 263
D+ + T ++ E +E L++ +L L++ PDA +R ILRK
Sbjct: 278 LDDEREDAPLPTEEEKKECDEELQDTMLLLSQMGPDAHMRMILRKP-------------- 323
Query: 264 LHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRRELA 323
P RT +DLE IY+ELLH+K L HLS +V+RELA
Sbjct: 324 --------------------------PGQRTVDDLEIIYDELLHIKALSHLSTTVKRELA 357
Query: 324 GVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNN 383
GV++FE+H + G +LF+QG+EG SWYII++GSV+VVIYGKG V +L+ G+DFGKLALVN+
Sbjct: 358 GVLIFESHAKGGTVLFNQGEEGTSWYIILKGSVNVVIYGKGVVCTLHEGDDFGKLALVND 417
Query: 384 APR 386
APR
Sbjct: 418 APR 420
Score = 93.4 bits (231), Expect = 3e-20
Identities = 32/104 (30%), Positives = 56/104 (53%), Gaps = 8/104 (7%)
Query: 289 KPLDRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSW 348
+PL+R+SED++ I+ L +K ++ R++ +E KG LF QGD G +W
Sbjct: 28 RPLERSSEDVDIIFTRLKGVKAFEKFHPNLLRQICLCGYYENLE-KGITLFRQGDIGTNW 86
Query: 349 YIIIQGSVDVVIYGKG------CVTSLYAGEDFGKLALVNNAPR 386
Y ++ GS+DV + + +L G FG+ ++++N PR
Sbjct: 87 YAVLAGSLDVKVSETSSHQDAVTICTLGIGTAFGE-SILDNTPR 129
Score = 40.3 bits (93), Expect = 0.002
Identities = 31/82 (37%), Positives = 42/82 (51%), Gaps = 3/82 (3%)
Query: 40 PMARAGWVLRTLLLNDESGTLRDRKTSGGRTIARRCASGSELVDWLMSLAPSLAVSRQIT 99
+ RAG +LR +L+ +RDRK R+C G+ELVDW++ SR
Sbjct: 190 KILRAGKILRIAILSRAPHMIRDRKYHLK--TYRQCCVGTELVDWMIQQTSC-VHSRTQA 246
Query: 100 TGMWQALLEEGVIYHGKISCFF 121
GMWQ LLE+GV+ H F
Sbjct: 247 VGMWQVLLEDGVLNHVDQERHF 268
>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 = 118 bits (298), Expect = 2e-31
Identities = 31/99 (31%), Positives = 51/99 (51%), Gaps = 1/99 (1%)
Query: 288 GKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKS 347
G +D+EQ+ E + L +++ SVRREL V++FE + G I+ G E S
Sbjct: 1 GSSGSSGDDDIEQLLEFMHQLPAFANMTMSVRRELCSVMIFEVVEQAGAIILEDGQELDS 60
Query: 348 WYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPR 386
WY+I+ G+V++ G V +L+ G FG ++
Sbjct: 61 WYVILNGTVEISH-PDGKVENLFMGNSFGITPTLDKQYM 98
Score = 65.5 bits (160), Expect = 5e-13
Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAP 440
+++ G E SWY+I+ G+V++ G V +L+ G FG ++
Sbjct: 49 AIILEDGQELDSWYVILNGTVEISH-PDGKVENLFMGNSFGITPTLDKQY 97
>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 = 90.5 bits (225), Expect = 2e-21
Identities = 32/111 (28%), Positives = 55/111 (49%), Gaps = 2/111 (1%)
Query: 276 EEKEEEEEERQIGKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKG 335
E EE+ + K + + + + + + + HL ++ R ++ MF G
Sbjct: 11 EVYTEEDAASYVRKVIPKDYKTMAALAKAIEKNVLFSHLDDNERSDIFDA-MFPVSFIAG 69
Query: 336 EILFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPR 386
E + QGDEG ++Y+I QG +DV + + TS+ G FG+LAL+ PR
Sbjct: 70 ETVIQQGDEGDNFYVIDQGEMDVYVNNEW-ATSVGEGGSFGELALIYGTPR 119
Score = 62.0 bits (151), Expect = 1e-11
Identities = 21/48 (43%), Positives = 30/48 (62%), Gaps = 1/48 (2%)
Query: 393 VFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAP 440
V QGDEG ++Y+I QG +DV + + TS+ G FG+LAL+ P
Sbjct: 72 VIQQGDEGDNFYVIDQGEMDVYVNNEW-ATSVGEGGSFGELALIYGTP 118
>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 = 90.1 bits (224), Expect = 3e-21
Identities = 32/113 (28%), Positives = 59/113 (52%), Gaps = 6/113 (5%)
Query: 277 EKEEEEEERQIGKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGE 336
++EE++ E +I P +T + ++ E + +L ++ MFE ++GE
Sbjct: 14 DEEEDDAESRIIHP--KTDDQRNRLQEACKDILLFKNLDPEQMSQVLDA-MFEKLVKEGE 70
Query: 337 ILFHQGDEGKSWYIIIQGSVDVVIYGKG---CVTSLYAGEDFGKLALVNNAPR 386
+ QGD+G ++Y+I +G+ D+ + G CV + FG+LAL+ N PR
Sbjct: 71 HVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGELALMYNTPR 123
Score = 62.0 bits (151), Expect = 2e-11
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 3/53 (5%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIYGKG---CVTSLYAGEDFGKLALVNNAP 440
V QGD+G ++Y+I +G+ D+ + G CV + FG+LAL+ N P
Sbjct: 70 EHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGELALMYNTP 122
>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 = 78.5 bits (194), Expect = 2e-17
Identities = 23/94 (24%), Positives = 45/94 (47%), Gaps = 2/94 (2%)
Query: 293 RTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIII 352
++ + + I E +L + +L S +E+ M+ K + +GD G Y++
Sbjct: 13 KSPQSKDLIKEAILDNDFMKNLELSQIQEIVDC-MYPVEYGKDSCIIKEGDVGSLVYVME 71
Query: 353 QGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPR 386
G V+V G + ++ G+ FG+LA++ N R
Sbjct: 72 DGKVEVTKEGV-KLCTMGPGKVFGELAILYNCTR 104
Score = 56.2 bits (136), Expect = 1e-09
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAP 440
S + +GD G Y++ G V+V G + ++ G+ FG+LA++ N
Sbjct: 55 SCIIKEGDVGSLVYVMEDGKVEVTKEGV-KLCTMGPGKVFGELAILYNCT 103
>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 = 77.7 bits (191), Expect = 8e-16
Identities = 25/108 (23%), Positives = 47/108 (43%), Gaps = 2/108 (1%)
Query: 279 EEEEEERQIGKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEIL 338
E Q + ++ + I E +L + +L S +E+ M+ K +
Sbjct: 15 IEGRGSMQAFRKFTKSERSKDLIKEAILDNDFMKNLELSQIQEIVDC-MYPVEYGKDSCI 73
Query: 339 FHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPR 386
+GD G Y++ G V+V G + ++ G+ FG+LA++ N R
Sbjct: 74 IKEGDVGSLVYVMEDGKVEVTKEGV-KLCTMGPGKVFGELAILYNCTR 120
Score = 63.0 bits (153), Expect = 7e-11
Identities = 23/89 (25%), Positives = 38/89 (42%), Gaps = 6/89 (6%)
Query: 303 EELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIYG 362
E L + L + +LA V+ + GE + QG G +++II +G V+V
Sbjct: 157 EFLKSVPTFQSLPEEILSKLADVLEETHYE-NGEYIIRQGARGDTFFIISKGKVNVTRED 215
Query: 363 KG-----CVTSLYAGEDFGKLALVNNAPR 386
+ +L G+ FG+ AL R
Sbjct: 216 SPNEDPVFLRTLGKGDWFGEKALQGEDVR 244
Score = 49.5 bits (118), Expect = 1e-06
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAP 440
S + +GD G Y++ G V+V G + ++ G+ FG+LA++ N
Sbjct: 71 SCIIKEGDVGSLVYVMEDGKVEVTKEGV-KLCTMGPGKVFGELAILYNCT 119
Score = 47.6 bits (113), Expect = 7e-06
Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 5/53 (9%)
Query: 393 VFHQGDEGKSWYIIIQGSVDVVIYGKG-----CVTSLYAGEDFGKLALVNNAP 440
+ QG G +++II +G V+V + +L G+ FG+ AL
Sbjct: 191 IIRQGARGDTFFIISKGKVNVTREDSPNEDPVFLRTLGKGDWFGEKALQGEDV 243
>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 = 75.6 bits (186), Expect = 2e-15
Identities = 25/89 (28%), Positives = 47/89 (52%), Gaps = 2/89 (2%)
Query: 298 LEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVD 357
L+++ + + + + L + +R + + E KG + QGD+G +Y++ +G+VD
Sbjct: 2 LQRLEKSIRNNFLFNKLDSDSKRLVINC-LEEKSVPKGATIIKQGDQGDYFYVVEKGTVD 60
Query: 358 VVIYGKGCVTSLYAGEDFGKLALVNNAPR 386
+ V S G FG+LAL+ N+PR
Sbjct: 61 FYVNDN-KVNSSGPGSSFGELALMYNSPR 88
Score = 69.1 bits (169), Expect = 3e-13
Identities = 27/82 (32%), Positives = 47/82 (57%), Gaps = 1/82 (1%)
Query: 305 LLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIYGKG 364
L + L L+ R +LA + + GE + +GD+G+++Y+I G+VDV G+G
Sbjct: 127 LKSMPVLKSLTTYDRAKLADA-LDTKIYQPGETIIREGDQGENFYLIEYGAVDVSKKGQG 185
Query: 365 CVTSLYAGEDFGKLALVNNAPR 386
+ L + FG++AL+N+ PR
Sbjct: 186 VINKLKDHDYFGEVALLNDLPR 207
Score = 54.8 bits (132), Expect = 2e-08
Identities = 18/49 (36%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 392 MVFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAP 440
+ QGD+G +Y++ +G+VD + V S G FG+LAL+ N+P
Sbjct: 40 TIIKQGDQGDYFYVVEKGTVDFYVNDN-KVNSSGPGSSFGELALMYNSP 87
Score = 54.8 bits (132), Expect = 2e-08
Identities = 18/48 (37%), Positives = 33/48 (68%)
Query: 393 VFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAP 440
+ +GD+G+++Y+I G+VDV G+G + L + FG++AL+N+ P
Sbjct: 159 IIREGDQGENFYLIEYGAVDVSKKGQGVINKLKDHDYFGEVALLNDLP 206
>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 = 76.7 bits (188), Expect = 5e-15
Identities = 30/116 (25%), Positives = 57/116 (49%), Gaps = 5/116 (4%)
Query: 275 EEEKEEEEEERQIGKPL-DRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPR 333
E +EEE+ + + +T + ++ E + +L ++ MFE +
Sbjct: 116 EAYNPDEEEDDAESRIIHPKTDDQRNRLQEACKDILLFKNLDPEQMSQVLDA-MFEKLVK 174
Query: 334 KGEILFHQGDEGKSWYIIIQGSVDVVIYGKG---CVTSLYAGEDFGKLALVNNAPR 386
+GE + QGD+G ++Y+I +G+ D+ + G CV + FG+LAL+ N P+
Sbjct: 175 EGEHVIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGELALMYNTPK 230
Score = 60.9 bits (147), Expect = 6e-10
Identities = 27/103 (26%), Positives = 46/103 (44%), Gaps = 11/103 (10%)
Query: 294 TSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQ 353
++ + + L L L S R ++ V+ + + GE + QGD S++I+
Sbjct: 258 NAKKRKMYESFIESLPFLKSLEVSERLKVVDVIGTKVYN-DGEQIIAQGDLADSFFIVES 316
Query: 354 GSVDVVIYGKGC----------VTSLYAGEDFGKLALVNNAPR 386
G V + + KG + + G+ FG+LALV N PR
Sbjct: 317 GEVKITMKRKGKSEVEENGAVEIARCFRGQYFGELALVTNKPR 359
Score = 49.4 bits (117), Expect = 2e-06
Identities = 19/51 (37%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 393 VFHQGDEGKSWYIIIQGSVDVVIYGKG---CVTSLYAGEDFGKLALVNNAP 440
V QGD+G ++Y+I +G+ D+ + G CV + FG+LAL+ N P
Sbjct: 179 VIDQGDDGDNFYVIDRGTFDIYVKCDGVGRCVGNYDNRGSFGELALMYNTP 229
Score = 46.3 bits (109), Expect = 3e-05
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 10/60 (16%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIYGKGC----------VTSLYAGEDFGKLALVNNAP 440
+ QGD S++I+ G V + + KG + + G+ FG+LALV N P
Sbjct: 299 EQIIAQGDLADSFFIVESGEVKITMKRKGKSEVEENGAVEIARCFRGQYFGELALVTNKP 358
>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 = 76.3 bits (187), Expect = 7e-15
Identities = 32/111 (28%), Positives = 57/111 (51%), Gaps = 2/111 (1%)
Query: 276 EEKEEEEEERQIGKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKG 335
E EE+ + K + + + + + + + HL ++ R ++ MF G
Sbjct: 103 EVYTEEDAVSYVRKVIPKDYKTMTALAKAISKNVLFAHLDDNERSDIFDA-MFPVTHIAG 161
Query: 336 EILFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPR 386
E + QG+EG ++Y++ QG VDV + G+ VT++ G FG+LAL+ PR
Sbjct: 162 ETVIQQGNEGDNFYVVDQGEVDVYVNGE-WVTNISEGGSFGELALIYGTPR 211
Score = 61.7 bits (149), Expect = 3e-10
Identities = 24/87 (27%), Positives = 37/87 (42%), Gaps = 6/87 (6%)
Query: 305 LLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIYGKG 364
L + L L R +A + GE + QG+ G +YII +G+ V+
Sbjct: 250 LSKVSILESLEKWERLTVADALEPVQFE-DGEKIVVQGEPGDDFYIITEGTASVLQRRSP 308
Query: 365 -----CVTSLYAGEDFGKLALVNNAPR 386
V L + FG++AL+ N PR
Sbjct: 309 NEEYVEVGRLGPSDYFGEIALLLNRPR 335
Score = 50.5 bits (120), Expect = 1e-06
Identities = 21/49 (42%), Positives = 32/49 (65%), Gaps = 1/49 (2%)
Query: 392 MVFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAP 440
V QG+EG ++Y++ QG VDV + G+ VT++ G FG+LAL+ P
Sbjct: 163 TVIQQGNEGDNFYVVDQGEVDVYVNGE-WVTNISEGGSFGELALIYGTP 210
Score = 47.0 bits (111), Expect = 1e-05
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 393 VFHQGDEGKSWYIIIQGSVDVVIYGKG-----CVTSLYAGEDFGKLALVNNAP 440
+ QG+ G +YII +G+ V+ V L + FG++AL+ N P
Sbjct: 282 IVVQGEPGDDFYIITEGTASVLQRRSPNEEYVEVGRLGPSDYFGEIALLLNRP 334
>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 = 74.3 bits (182), Expect = 1e-14
Identities = 32/111 (28%), Positives = 55/111 (49%), Gaps = 2/111 (1%)
Query: 276 EEKEEEEEERQIGKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKG 335
E EE+ + K + + + + + + + HL ++ R ++ MF G
Sbjct: 12 EVYTEEDAASYVRKVIPKDYKTMAALAKAIEKNVLFSHLDDNERSDIFDA-MFPVSFIAG 70
Query: 336 EILFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPR 386
E + QGDEG ++Y+I QG +DV + + TS+ G FG+LAL+ PR
Sbjct: 71 ETVIQQGDEGDNFYVIDQGEMDVYVNNE-WATSVGEGGSFGELALIYGTPR 120
Score = 60.8 bits (147), Expect = 3e-10
Identities = 26/102 (25%), Positives = 45/102 (44%), Gaps = 7/102 (6%)
Query: 291 LDRTSEDLEQIYEELLHLKP-LHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWY 349
L ++ ++YEE L L L R +A + G+ + QG+ G ++
Sbjct: 144 LMGSTLRKRKMYEEFLSKVSILESLDKWERLTVADA-LEPVQFEDGQKIVVQGEPGDEFF 202
Query: 350 IIIQGSVDVVIYGKGC-----VTSLYAGEDFGKLALVNNAPR 386
II++GS V+ V L + FG++AL+ N P+
Sbjct: 203 IILEGSAAVLQRRSENEEFVEVGRLGPSDYFGEIALLMNRPK 244
Score = 49.2 bits (117), Expect = 2e-06
Identities = 21/51 (41%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPS 441
V QGDEG ++Y+I QG +DV + + TS+ G FG+LAL+ P
Sbjct: 71 ETVIQQGDEGDNFYVIDQGEMDVYVNNE-WATSVGEGGSFGELALIYGTPR 120
Score = 44.6 bits (105), Expect = 6e-05
Identities = 16/53 (30%), Positives = 27/53 (50%), Gaps = 5/53 (9%)
Query: 393 VFHQGDEGKSWYIIIQGSVDVVIYGKGC-----VTSLYAGEDFGKLALVNNAP 440
+ QG+ G ++II++GS V+ V L + FG++AL+ N P
Sbjct: 191 IVVQGEPGDEFFIILEGSAAVLQRRSENEEFVEVGRLGPSDYFGEIALLMNRP 243
>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 = 63.6 bits (155), Expect = 8e-12
Identities = 25/124 (20%), Positives = 47/124 (37%), Gaps = 8/124 (6%)
Query: 270 IEDKEEEEKEEEEEERQIGKPLDRTS---EDLEQIYEELLHLKPLHHLSNSVRRELAGVV 326
+ E + + L + E+I E + +K SN R L +
Sbjct: 3 SDKIHHHHHHENLYFQGMYPDLVHLGGADKYFEEILEIVNKIKLFGDFSNEEVRYLCSYM 62
Query: 327 MFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIYGKG----CVTSLYAGEDFGKLALVN 382
A P + L +GD G +I+ G V+V+ + + AG G++++++
Sbjct: 63 QCYAAP-RDCQLLTEGDPGDYLLLILTGEVNVIKDIPNKGIQTIAKVGAGAIIGEMSMID 121
Query: 383 NAPR 386
PR
Sbjct: 122 GMPR 125
Score = 44.4 bits (105), Expect = 3e-05
Identities = 11/53 (20%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 392 MVFHQGDEGKSWYIIIQGSVDVVIYGKG----CVTSLYAGEDFGKLALVNNAP 440
+ +GD G +I+ G V+V+ + + AG G++++++ P
Sbjct: 72 QLLTEGDPGDYLLLILTGEVNVIKDIPNKGIQTIAKVGAGAIIGEMSMIDGMP 124
>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling;
HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB:
4avb_A* 4avc_A*
Length = 333
Score = 65.1 bits (158), Expect = 2e-11
Identities = 22/99 (22%), Positives = 39/99 (39%), Gaps = 4/99 (4%)
Query: 291 LDRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYI 350
+D +E E+L + LA + G++L QG+ S+ +
Sbjct: 1 MDGIAELTGARVEDLAGMDVFQGCPAEGLVSLAAS-VQPLRAAAGQVLLRQGEPAVSFLL 59
Query: 351 IIQGSVDVVIY---GKGCVTSLYAGEDFGKLALVNNAPR 386
I GS +V G + G G++AL+ ++PR
Sbjct: 60 ISSGSAEVSHVGDDGVAIIARALPGMIVGEIALLRDSPR 98
Score = 47.3 bits (112), Expect = 8e-06
Identities = 13/51 (25%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 393 VFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLYAGEDFGKLALVNNAP 440
+ QG+ S+ +I GS +V G + G G++AL+ ++P
Sbjct: 47 LLRQGEPAVSFLLISSGSAEVSHVGDDGVAIIARALPGMIVGEIALLRDSP 97
>1fsh_A Dishevelled-1; three-helix bundle, beta-ARM, signaling protein; NMR
{Mus musculus} SCOP: a.4.5.31
Length = 105
Score = 59.9 bits (145), Expect = 3e-11
Identities = 16/90 (17%), Positives = 30/90 (33%), Gaps = 13/90 (14%)
Query: 125 TETIPMERIYYSLYSGG-----------RTIARRCASGSELVDWLMSLAPSLAVSRQITT 173
T M I + + G+++VDWL + R+
Sbjct: 16 TVKSDMSAIVRVMQLPDSGLEIRDRMWLKITIANAVIGADVVDWLYTHV-EGFKERREAR 74
Query: 174 GMWQALLEEGVIYHVNGEQAFRDKCILYNF 203
++L+ G + H + F ++C Y F
Sbjct: 75 KYASSMLKHGFLRHTVNKITFSEQC-YYVF 103
Score = 49.1 bits (117), Expect = 2e-07
Identities = 19/91 (20%), Positives = 36/91 (39%), Gaps = 3/91 (3%)
Query: 24 TRVVHYTTTLQSSPSVPMARAGWVLRTLLLNDESGTLRDRKTSGGRTIARRCASGSELVD 83
T V L+ +P + ++R + L D +RDR + G+++VD
Sbjct: 1 TSSVPGAPQLEEAPLTVKSDMSAIVRVMQLPDSGLEIRDRM--WLKITIANAVIGADVVD 58
Query: 84 WLMSLAPSLAVSRQITTGMWQALLEEGVIYH 114
WL + R+ ++L+ G + H
Sbjct: 59 WLYTHV-EGFKERREARKYASSMLKHGFLRH 88
>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 = 59.6 bits (145), Expect = 7e-11
Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 4/76 (5%)
Query: 311 LHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLY 370
L +V E+ + P G ++ G+ G + +++GSV V L
Sbjct: 19 FQKLGPAVLVEIVRALRARTVPA-GAVICRIGEPGDRMFFVVEGSVSVA---TPNPVELG 74
Query: 371 AGEDFGKLALVNNAPR 386
G FG++AL++ PR
Sbjct: 75 PGAFFGEMALISGEPR 90
Score = 46.5 bits (111), Expect = 3e-06
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 392 MVFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAP 440
++ G+ G + +++GSV V L G FG++AL++ P
Sbjct: 44 VICRIGEPGDRMFFVVEGSVSVA---TPNPVELGPGAFFGEMALISGEP 89
>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 = 64.1 bits (155), Expect = 1e-10
Identities = 83/603 (13%), Positives = 171/603 (28%), Gaps = 163/603 (27%)
Query: 206 DKEGSSSQATAQDIAEAEEHLEEALLA--LARRAPDAILRYILRKQLKKLQNRYLPREYM 263
D E Q +DI E+A + + D + ++++ +
Sbjct: 8 DFETGEHQYQYKDILS---VFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 264 LHLEREIEDKEEEEKEE-----------------EEEERQIGKPLDRTSEDLEQIYEELL 306
L L + K+EE ++ + E+RQ E +++Y +
Sbjct: 65 LRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 307 HLKPLH----HLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYII-------IQGS 355
+ +R+ L E P K ++ GK+W + +Q
Sbjct: 125 VFAKYNVSRLQPYLKLRQAL-----LELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK 179
Query: 356 VDVVIY----GKGCVT---------SLYAGEDFGKLALVNNAPRLIITSMVFHQGDEGKS 402
+D I+ C + L D + +++ + + H
Sbjct: 180 MDFKIFWLNLKN-CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLR---IHSIQAELR 235
Query: 403 WYIIIQGSV-------DV----VI--YGKGC---VTSLYA-------GEDFGKLALVNNA 439
+ + +V + C +T+ + ++L +++
Sbjct: 236 RLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHS 295
Query: 440 PSYQLHMYLEQMAVYFTTTAPDIKGPRRYKFRGPNRFQQITANLDVFLRRFNEIQYWVIT 499
+ + Y D+ PR P R I ++ L + W
Sbjct: 296 MTLTPDEVKSLLLKYLDCRPQDL--PREVLTTNPRRLSIIAESIRDGLATW---DNW--- 347
Query: 500 EILLVTSLNKRVQI--LRKMIKLAAYC---KEYRNINALFAVLMGLSNVAVSRLSLTW-- 552
K V L +I+ + EYR + +V +++ LSL W
Sbjct: 348 ---------KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFD 398
Query: 553 ----------DKLPSKS-------KKTYT------ELEALIDPSKN-HR----AYRQAVS 584
+KL S + T + EL+ ++ HR Y +
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT 458
Query: 585 KLQSPVIP-------------------------FMPLLLKDLAFTHDGNKTVVDGLVNFE 619
+IP ++ D F K D +
Sbjct: 459 FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFL--EQKIRHDST-AWN 515
Query: 620 KMHMFAQTLRTLRYCRTRHLDHDKT---VVDGLVNFEKMHMFAQTLRTLRYCRTRHLVLD 676
TL+ L++ + D+D +V+ +++F + + L +Y + L
Sbjct: 516 ASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDF--LPKIEENLICSKYTDLLRIALM 573
Query: 677 PPT 679
Sbjct: 574 AED 576
Score = 52.5 bits (125), Expect = 4e-07
Identities = 44/282 (15%), Positives = 77/282 (27%), Gaps = 89/282 (31%)
Query: 491 NEIQYWVITEILLVTSLNKRVQILRKMIKLAAYCKEY----RNI--NALFAVLMGLSNVA 544
E QY + + CK+ ++I ++ + A
Sbjct: 12 GEHQY----------QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKD-A 60
Query: 545 VSRLSLTWDKLPSKSKKTYTEL--EAL---------------IDPSKNHRAYRQAVSKLQ 587
VS + L SK ++ + E L PS R Y + +L
Sbjct: 61 VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY 120
Query: 588 SPVIPFMPL----------LLKDLAFTHDGNKTVVDGLVNFEKMHMFAQTLR-------- 629
+ F L + L ++DG++ K +
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180
Query: 630 -------TLRYCRT------------RHLDHDKTV-VDGLVNFE-KMHMFAQTLRTL--- 665
L+ C + +D + T D N + ++H LR L
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS 240
Query: 666 -RYCRTRHLVLDPPTPKCESEVKSYVSCLRAMDNQ-RIL-TS 704
Y LVL V++ A + +IL T+
Sbjct: 241 KPYENCL-LVLL--------NVQN-AKAWNAFNLSCKILLTT 272
Score = 47.9 bits (113), Expect = 1e-05
Identities = 54/386 (13%), Positives = 110/386 (28%), Gaps = 104/386 (26%)
Query: 381 VNNAPRLIITSM----VFHQGDEGKSWYIII-----QGSVDVVIYGKGCVTSLYAGEDF- 430
V + P+ I++ + D + + V + + + Y F
Sbjct: 38 VQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY---KFL 94
Query: 431 -GKLALVNNAPSYQLHMYLEQMAVYFTTTAPDIKGPRRYKFRGPNRFQQITANLDVFLRR 489
+ PS MY+EQ + K +R Q L L
Sbjct: 95 MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV-------SRLQPYL-KLRQALLE 146
Query: 490 FNEIQYWVI--------TEILLVTSLNKRVQILRKM------IKLAAYCKEYRNINALFA 535
+ +I T + L L+ +VQ KM + L +
Sbjct: 147 LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ--CKMDFKIFWLNLKNCNSP----ETVLE 200
Query: 536 VLMGLSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQAVSKLQSPVIPFMP 595
+L L ++ W S + ++ + + + L
Sbjct: 201 MLQKLL----YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL--------- 247
Query: 596 LLLKDL-------AF---------THDGNKTVVD-----------------GLVNFEKMH 622
L+L ++ AF T K V D L E
Sbjct: 248 LVLLNVQNAKAWNAFNLSCKILLTTRF--KQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 623 MFAQTLRTLRYCRTRHLDHDKTVVDGLVNFEKMHMFAQTLR--TLRYCRTRHLVLDPPTP 680
+ + L CR + L + + + + A+++R + +H+ D
Sbjct: 306 LLLKYLD----CRPQDLPREVLTTNPRR----LSIIAESIRDGLATWDNWKHVNCD---- 353
Query: 681 KCESEVKSYVSCLRAMDNQRILTSMS 706
K + ++S ++ L + +++ +S
Sbjct: 354 KLTTIIESSLNVLEPAEYRKMFDRLS 379
Score = 43.7 bits (102), Expect = 3e-04
Identities = 89/638 (13%), Positives = 187/638 (29%), Gaps = 213/638 (33%)
Query: 47 VLRTLLLNDESGTLRDRKTSGGRTIARRCASGSELVD--WLMS------LAPSLA----- 93
V TL L TL ++ + ++ ++ +LMS PS+
Sbjct: 61 VSGTLRLFW---TLLSKQEE----MVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYI 113
Query: 94 -----------------VSR-----QITTGMWQALLEEGVIYHGKISCFFFSETETIPME 131
VSR ++ + + + V+ G +
Sbjct: 114 EQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGS------------ 161
Query: 132 RIYYSLYSGGRTIARRCASGSELVDWLMSLAPSLAVSRQITTGMWQALLEEGVIYHVNGE 191
G+T +A + +S ++ M + I+ +N +
Sbjct: 162 ---------GKT----------------WVALDVCLSYKVQCKM------DFKIFWLNLK 190
Query: 192 QAFRDKCILYNFWQ-----DKEGSSSQATAQDIAEAEEHLEEAL--LALARRAPDAILRY 244
+ +L + D +S + +I ++ L L ++ + +L
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL-- 248
Query: 245 ILR-----KQLKK--LQNRYLPREYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSED 297
+L K L + L + +++ D L T ++
Sbjct: 249 VLLNVQNAKAWNAFNLSCKIL----LTTRFKQVTDFLSAATTTHISLDHHSMTL--TPDE 302
Query: 298 LEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRK----GEILFHQGDEGKSWYIIIQ 353
++ + + L +P + RE+ +PR+ E + +W +
Sbjct: 303 VKSLLLKYLDCRP-----QDLPREVLTT-----NPRRLSIIAESIRDGLATWDNWKHVNC 352
Query: 354 GSVDVVIYGKGCVTSLYAGED---FGKLA-LVNNAPRLIITSMVFHQGDEGKSWYIIIQG 409
+ +I + + L E F +L+ +A I +++ W+ +I+
Sbjct: 353 DKLTTII--ESSLNVLEPAEYRKMFDRLSVFPPSAH---IPTILL-----SLIWFDVIKS 402
Query: 410 SVDVVIYGKGCVTSLYAGEDFGKLALVN---NAPSYQLH-MYLEQMAVYFTTTAPDI--- 462
V VV+ K +LV + + +YLE +
Sbjct: 403 DVMVVV------------NKLHKYSLVEKQPKESTISIPSIYLE-----LKVKLENEYAL 445
Query: 463 --------KGPRRYKFRG--PNR-----FQQI-----TANLDVFLRRFNEIQY----WVI 498
P+ + P + I + F + + ++
Sbjct: 446 HRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV-FLDFRFLE 504
Query: 499 TEILLV-TSLNKRVQILRKMIKLAAYCKEY---------RNINALFAVLMGLSNVAVSRL 548
+I T+ N IL + +L Y K Y R +NA+ L + +
Sbjct: 505 QKIRHDSTAWNASGSILNTLQQLKFY-KPYICDNDPKYERLVNAILDFLPKIEENLI--- 560
Query: 549 SLTWDKLPSKSKKTYTEL--EALIDPSKN--HRAYRQA 582
SK YT+L AL+ + A++Q
Sbjct: 561 ---------CSK--YTDLLRIALMAEDEAIFEEAHKQV 587
Score = 40.2 bits (93), Expect = 0.003
Identities = 48/354 (13%), Positives = 106/354 (29%), Gaps = 84/354 (23%)
Query: 2 WSITVL----ISARIRTITFNLSVTNTRVVHYTTTLQSSPSVPMARAGWVL-----RTLL 52
+ +S +I T VT+ TT + + L ++LL
Sbjct: 254 QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTT------HISLDHHSMTLTPDEVKSLL 307
Query: 53 ---LNDESGTLRDRKTSGG----RTIARRCASGSELVD-WLMSLAPSLAVSRQITTGMWQ 104
L+ L + IA G D W L + +
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSL---- 363
Query: 105 ALLEEGVIYHGKISCFFFSETETIPMERI----YYSLYSGGRTIARRCASGSELVDW--- 157
+LE F + IP + + + S + + S +
Sbjct: 364 NVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 158 ----LMSLAPSLAVSRQITTGMWQALLE------------------EGVI-----YHV-N 189
+ S+ L V + + +++++ + +H+ N
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKN 483
Query: 190 GEQA-----FRDKCILYNFWQDK---EGSSSQATA------QDIAEAEEHLEEALLALAR 235
E FR + + F + K + ++ A+ Q + + ++ + R
Sbjct: 484 IEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYER 543
Query: 236 RAPDAILRYILRKQLKKLQNRYLPREYMLHLEREIEDKEEEEKEEEEEERQIGK 289
+AIL ++ + + + ++Y +L + E+E EE +Q+ +
Sbjct: 544 LV-NAILDFLPKIEENLICSKYTD---LLRIALM----AEDEAIFEEAHKQVQR 589
>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 = 58.5 bits (142), Expect = 2e-10
Identities = 16/91 (17%), Positives = 37/91 (40%), Gaps = 8/91 (8%)
Query: 303 EELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIYG 362
E L + L++ +++A + E G ++F + + + ++++G V++
Sbjct: 6 ERLRVYRFFASLTDEQLKDIALI-SEEKSFPTGSVIFKENSKADNLMLLLEGGVELFYSN 64
Query: 363 KGC-------VTSLYAGEDFGKLALVNNAPR 386
G V S+ G FG +L+
Sbjct: 65 GGAGSAANSTVCSVVPGAIFGVSSLIKPYHY 95
Score = 42.7 bits (101), Expect = 5e-05
Identities = 10/56 (17%), Positives = 24/56 (42%), Gaps = 7/56 (12%)
Query: 392 MVFHQGDEGKSWYIIIQGSVDVVIYGKGC-------VTSLYAGEDFGKLALVNNAP 440
++F + + + ++++G V++ G V S+ G FG +L+
Sbjct: 39 VIFKENSKADNLMLLLEGGVELFYSNGGAGSAANSTVCSVVPGAIFGVSSLIKPYH 94
>2ysr_A DEP domain-containing protein 1; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 105
Score = 56.8 bits (137), Expect = 3e-10
Identities = 18/66 (27%), Positives = 27/66 (40%), Gaps = 8/66 (12%)
Query: 146 RRCASGSELVDWLMSLAPSL-----AVSRQITTGMWQALLEEGVIYHVNGE---QAFRDK 197
C + E VDWL L + V+RQ T + + L+ VI + G + D
Sbjct: 38 GNCFTAGEAVDWLYDLLRNNSNFGPEVTRQQTIQLLRKFLKNHVIEDIKGRWGSENVDDN 97
Query: 198 CILYNF 203
L+ F
Sbjct: 98 NQLFRF 103
Score = 45.6 bits (108), Expect = 3e-06
Identities = 17/73 (23%), Positives = 24/73 (32%), Gaps = 10/73 (13%)
Query: 60 LRDRKTSGGRTIARRCASGSELVDWLMSLAPSL-----AVSRQITTGMWQALLEEGVIYH 114
LR + C + E VDWL L + V+RQ T + + L+ VI
Sbjct: 27 LRKHR--QHFKKYGNCFTAGEAVDWLYDLLRNNSNFGPEVTRQQTIQLLRKFLKNHVIED 84
Query: 115 GKISC---FFFSE 124
K
Sbjct: 85 IKGRWGSENVDDN 97
>2z69_A DNR protein; beta barrel, dimerization helix, transcription
regulator; 2.10A {Pseudomonas aeruginosa}
Length = 154
Score = 57.7 bits (140), Expect = 4e-10
Identities = 19/95 (20%), Positives = 38/95 (40%), Gaps = 6/95 (6%)
Query: 297 DLEQIYEELLHLKPL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGS 355
+ ++++++LL L LS +EL KG +F QG+ ++Y +I G
Sbjct: 5 EFQRVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLD-KGAYVFRQGEPAHAFYYLISGC 63
Query: 356 VDVVIY---GKGCVTS-LYAGEDFGKLALVNNAPR 386
V + G+ + F + + + P
Sbjct: 64 VKIYRLTPEGQEKILEVTNERNTFAEAMMFMDTPN 98
Score = 41.5 bits (98), Expect = 2e-04
Identities = 12/55 (21%), Positives = 23/55 (41%), Gaps = 4/55 (7%)
Query: 392 MVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTS-LYAGEDFGKLALVNNAPSY 442
VF QG+ ++Y +I G V + G+ + F + + + P+Y
Sbjct: 45 YVFRQGEPAHAFYYLISGCVKIYRLTPEGQEKILEVTNERNTFAEAMMFMDTPNY 99
>2pqq_A Putative transcriptional regulator; APC7345, streptomyces
coelicolor structural genomics, PSI-2, protein structure
initiative; 2.00A {Streptomyces coelicolor A3}
Length = 149
Score = 56.9 bits (138), Expect = 9e-10
Identities = 22/89 (24%), Positives = 39/89 (43%), Gaps = 6/89 (6%)
Query: 303 EELLHLKPL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIY 361
+++L PL L + EL + +G+ LFH+GD G Y++ +G V +
Sbjct: 4 DDVLRRNPLFAALDDEQSAELRASMSEVTLA-RGDTLFHEGDPGDRLYVVTEGKVKLHRT 62
Query: 362 GKG----CVTSLYAGEDFGKLALVNNAPR 386
+ + E G+L+L + PR
Sbjct: 63 SPDGRENMLAVVGPSELIGELSLFDPGPR 91
Score = 40.7 bits (96), Expect = 4e-04
Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 4/53 (7%)
Query: 392 MVFHQGDEGKSWYIIIQGSVDVVIYGKG----CVTSLYAGEDFGKLALVNNAP 440
+FH+GD G Y++ +G V + + + E G+L+L + P
Sbjct: 38 TLFHEGDPGDRLYVVTEGKVKLHRTSPDGRENMLAVVGPSELIGELSLFDPGP 90
>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 = 53.5 bits (129), Expect = 5e-08
Identities = 25/115 (21%), Positives = 47/115 (40%), Gaps = 5/115 (4%)
Query: 276 EEKEEEEEERQIGKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKG 335
+E + ERQ D ++D ++ ++ + ++ +P
Sbjct: 19 KETAAAKFERQHMDSPDLGTDDDDKAMADIGSMVLGKPQTDPTLEWFLSHCHIHKYP-SK 77
Query: 336 EILFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPR 386
L HQG++ ++ Y I++GSV V+I GK + S G+ G+L L
Sbjct: 78 STLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQE 132
Score = 38.9 bits (91), Expect = 0.003
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 4/56 (7%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPSY 442
S + HQG++ ++ Y I++GSV V+I GK + S G+ G+L L
Sbjct: 78 STLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQER 133
>1v3f_A Pleckstrin 2; three-helix bundle, structural genomics, riken
structural genomics/proteomics initiative, RSGI, protein
binding; NMR {Mus musculus} SCOP: a.4.5.31
Length = 120
Score = 50.5 bits (120), Expect = 8e-08
Identities = 22/95 (23%), Positives = 34/95 (35%), Gaps = 15/95 (15%)
Query: 127 TIPMERIYYSLYSGGRTIA-----------RRCASGSELVDWLMSLAPSLAVSRQITTGM 175
+ + RI ++ I ++ GS LVDWL+S + A SR +
Sbjct: 5 SSGLHRIVDKMHDTSTGIRPSPNMEQGSTYKKTFLGSSLVDWLISS--NFAASRLEAVTL 62
Query: 176 WQALLEEGVIYHVNGE--QAFRDKCILYNFWQDKE 208
L+EE + V A R + F D
Sbjct: 63 ASMLMEENFLRPVGVRSMGAIRSGDLAEQFLDDST 97
Score = 47.8 bits (113), Expect = 8e-07
Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 2/62 (3%)
Query: 53 LNDESGTLRDRKTSGGRTIARRCASGSELVDWLMSLAPSLAVSRQITTGMWQALLEEGVI 112
++D S +R + ++ GS LVDWL+S + A SR + L+EE +
Sbjct: 15 MHDTSTGIRPSPNMEQGSTYKKTFLGSSLVDWLISS--NFAASRLEAVTLASMLMEENFL 72
Query: 113 YH 114
Sbjct: 73 RP 74
>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 = 52.6 bits (127), Expect = 8e-08
Identities = 21/88 (23%), Positives = 37/88 (42%), Gaps = 6/88 (6%)
Query: 304 ELLHLKPL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIY- 361
+ L PL ++ RE VV E++ Q EG++ +++ G V V
Sbjct: 6 DDLKRSPLFQNVPEDAMREALKVVTERNFQ-PDELVVEQDAEGEALHLVTTGVVRVSRVS 64
Query: 362 --GKGCVTS-LYAGEDFGKLALVNNAPR 386
G+ V +YA G+ A++ + R
Sbjct: 65 LGGRERVLGDIYAPGVVGETAVLAHQER 92
Score = 38.8 bits (91), Expect = 0.003
Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTS-LYAGEDFGKLALVNNAP 440
+V Q EG++ +++ G V V G+ V +YA G+ A++ +
Sbjct: 38 ELVVEQDAEGEALHLVTTGVVRVSRVSLGGRERVLGDIYAPGVVGETAVLAHQE 91
>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 = 52.3 bits (126), Expect = 1e-07
Identities = 14/108 (12%), Positives = 32/108 (29%), Gaps = 5/108 (4%)
Query: 288 GKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHP-RKGEILFHQGDEGK 346
+ +E +++ LL L L + + V + GE + G+
Sbjct: 3 SDKIHHHHHHMETMFDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCT 62
Query: 347 SWYIIIQGSVDVVIY---GKGCVTS-LYAGEDFGKLALVNNAPRLIIT 390
+++G + +V V + A +L +
Sbjct: 63 QLCFLLKGEISIVTNAKENIYTVIEQIEAPYLIEPQSLFGMNTNYASS 110
Score = 36.5 bits (85), Expect = 0.016
Identities = 7/56 (12%), Positives = 17/56 (30%), Gaps = 4/56 (7%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTS-LYAGEDFGKLALVNNAPSY 442
+ G+ +++G + +V V + A +L +Y
Sbjct: 52 ETIIKSGNPCTQLCFLLKGEISIVTNAKENIYTVIEQIEAPYLIEPQSLFGMNTNY 107
>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 = 54.7 bits (131), Expect = 1e-07
Identities = 67/467 (14%), Positives = 126/467 (26%), Gaps = 167/467 (35%)
Query: 27 VH-YTTTLQSSPSVPMARAGWVLRTLLLNDESGTLRDRKTSGGRTIARRCASGSELVDWL 85
+H L + + +++ + + R ++ S S L
Sbjct: 101 IHALAAKLLQENDTTLVKTKELIKNYI---------TARIMAKRPFDKK--SNSALFR-- 147
Query: 86 MSLAPSLAVSRQITT--------GMWQALLEE----GVIYHGKISCFFFSETETIPMERI 133
AV G EE YH + ET+
Sbjct: 148 -------AVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETL----- 195
Query: 134 YYSLYSGGRTIARRCASGSELVDWLM--SLAP------SLAVS------RQI-------- 171
L + G +++WL S P S+ +S Q+
Sbjct: 196 -SELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAK 254
Query: 172 ---------------TTGMWQALLEEGVIYHVNGEQAFRD---KCILYNFWQDKEGSSSQ 213
TG Q L+ I + ++F K I F+ G
Sbjct: 255 LLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFI---GVRCY 311
Query: 214 ATAQDIAEAEEHLEEALLALARRAPDAIL--RYILRKQLKKL---QNRYLPRE------- 261
+ + LE++L P +L + ++Q++ N +LP
Sbjct: 312 EAYPNTSLPPSILEDSL-ENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISL 370
Query: 262 ----------------YML--HLEREIEDKEEEEKEEEEEERQ---------IGKP---- 290
Y L L + ++ ER+ + P
Sbjct: 371 VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSH 430
Query: 291 -----LDRTSEDLEQIYEELLH--LK-PLHH---------LSNSVRRELAGVVM------ 327
D ++DL + ++ P++ LS S+ + ++
Sbjct: 431 LLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKW 490
Query: 328 -----FEA-H-----PRKGEI-----LFHQGDEGKSWYIIIQGSVDV 358
F+A H P G L H+ +G +I+ G++D+
Sbjct: 491 ETTTQFKATHILDFGP--GGASGLGVLTHRNKDGTGVRVIVAGTLDI 535
Score = 53.9 bits (129), Expect = 2e-07
Identities = 84/548 (15%), Positives = 150/548 (27%), Gaps = 213/548 (38%)
Query: 160 SLAPSLAVSRQITTGMWQALLEEGVIYHVNGEQAFRDKCILY------NFWQDKEGSSSQ 213
SL L V T + Q +++ F D E ++
Sbjct: 15 SLEHVLLVP----TASF-----------FIASQ-LQEQFNKILPEPTEGFAADDEPTT-- 56
Query: 214 ATAQDIAEAEEHLEEALLA-----LARRA-PDAILRY--ILRKQLKKLQNRYLPREYMLH 265
AE L+ ++ P + ++ +L L + +N YL +H
Sbjct: 57 -------PAE------LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYL-EGNDIH 102
Query: 266 -----LEREIEDKEEEEKE--------EEEEERQIGKP-----LDRTSEDLEQIY----- 302
L +E + + KE +R K E Q+
Sbjct: 103 ALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGG 162
Query: 303 --------EELLHL----KPL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSW- 348
EEL L L L L+ ++ E +F QG W
Sbjct: 163 QGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELI---RTTLDAEKVFTQGLNILEWL 219
Query: 349 -----------------------------YII---------------IQGSVDVVIYGKG 364
Y++ ++G + +G
Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG---ATGHSQG 276
Query: 365 CVTSLY-----AGEDFGKLALVNNAPRLIITSMVFHQGDEGKSWY-------IIIQGSVD 412
VT++ + E F R IT ++F G Y I++ S++
Sbjct: 277 LVTAVAIAETDSWESFFVSV------RKAIT-VLFFIGVRCYEAYPNTSLPPSILEDSLE 329
Query: 413 VVIYGKGCVTSLYA--GEDFGKL-------------------ALVNNA--------PS-- 441
+G + + + ++ +LVN A P
Sbjct: 330 N---NEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSL 386
Query: 442 YQLHMYLEQMAVYFTTTAPDIKGPRRYKF--RGP---NRFQQITANLDVFLRRFNEIQYW 496
Y L++ L + AP R F R NRF + + F+
Sbjct: 387 YGLNLTLRKAK------APSGLDQSRIPFSERKLKFSNRFLPVAS-------PFHS-HLL 432
Query: 497 VITEILLVTSLNKR-VQILRKMIKLAAYC----KEYRNINALFAVLMGLSNVAVSRLSLT 551
V L+ L K V K I++ Y + R ++ ++ + + + RL +
Sbjct: 433 VPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSG--SISERIVD-CIIRLPVK 489
Query: 552 WDKLPSKS 559
W+
Sbjct: 490 WETTTQFK 497
Score = 48.1 bits (114), Expect = 1e-05
Identities = 65/438 (14%), Positives = 128/438 (29%), Gaps = 127/438 (28%)
Query: 281 EEEERQIGKPLDRTSEDLEQIYEELLHLKPLHHLSNSV-------RRELAGVVM--FEAH 331
E+ + + +P + + D E L K L ++S+ V ++ + + FE
Sbjct: 35 EQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENC 94
Query: 332 PRKGEILFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPRLIITS 391
+ +G++ + + D + + Y + S
Sbjct: 95 -------YLEGNDIHALAAKLLQENDTTLVKTKELIKNY----ITARIMAKRPFDKKSNS 143
Query: 392 MVFHQGDEGKSWYIII---QGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPSYQLHMYL 448
+F EG + + I QG+ D Y F +L + + +
Sbjct: 144 ALFRAVGEGNAQLVAIFGGQGNTDD--Y-------------FEELRDLYQTYHVLVGDLI 188
Query: 449 EQMAVYFTTTAPDIKGPRRYKFRGPNRFQQITANLDV--FLRRFN---EIQYWVITEILL 503
+ A + + +G L++ +L + + Y L
Sbjct: 189 KFSAETLSELIRTTLDAEKVFTQG----------LNILEWLENPSNTPDKDY-------L 231
Query: 504 VTS-----LNKRVQILRKMIKLAAY---CKEY-RNINALFAVLMGLSN--------VAVS 546
++ L +Q LA Y K L + L G + VA++
Sbjct: 232 LSIPISCPLIGVIQ-------LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIA 284
Query: 547 RLSLTWDKLPSKSKKTYTEL-----EALIDPSKNHRAYRQAVSKLQSPVIPFMPLLLKDL 601
+ +W+ +K T L + AY P P +L+D
Sbjct: 285 -ETDSWESFFVSVRKAITVLFFIGVRC-------YEAY---------PNTSLPPSILEDS 327
Query: 602 AFTHDGNKT---VVDGLVNFEKMHMFAQTLRTLRYCRTRHLDHDKTVVDGLVN----F-- 652
++G + + L Q + + HL K V LVN
Sbjct: 328 LENNEGVPSPMLSISNL-------TQEQVQDYVNKTNS-HLPAGKQVEISLVNGAKNLVV 379
Query: 653 ----EKMHMFAQTLRTLR 666
+ ++ TLR +
Sbjct: 380 SGPPQSLYGLNLTLRKAK 397
Score = 47.7 bits (113), Expect = 1e-05
Identities = 54/277 (19%), Positives = 89/277 (32%), Gaps = 92/277 (33%)
Query: 200 LYNFWQDKEGSSSQATAQDI-AEAEEHLEEAL----LALARRAPDAILRYILRKQLKKLQ 254
LY +S+A AQD+ A+ H ++ L + P + + ++ K+++
Sbjct: 1635 LYK--------TSKA-AQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIR 1685
Query: 255 NRYLPREYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYE---ELLHLK-- 309
Y + E + + + +I K ++ S + LL
Sbjct: 1686 ENYSAMIF------------ETIVDGKLKTEKIFKEINEHSTSY--TFRSEKGLLSATQF 1731
Query: 310 --P--LHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIYGKGC 365
P L FE L KS +I D G
Sbjct: 1732 TQPALT----------LMEKAAFED-------L-------KSKGLI---PADATFAGH-- 1762
Query: 366 VTSLYAGEDFGKLALVNNAPRLIITS---MVFHQG---------DE-GKSWYIII---QG 409
SL GE + AL + A + I S +VF++G DE G+S Y +I G
Sbjct: 1763 --SL--GE-YA--ALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPG 1815
Query: 410 SVDVVIYGKGC--VTSLYAGEDFGKLALVN-NAPSYQ 443
V + V + +VN N + Q
Sbjct: 1816 RVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQ 1852
Score = 44.7 bits (105), Expect = 1e-04
Identities = 54/312 (17%), Positives = 102/312 (32%), Gaps = 107/312 (34%)
Query: 405 IIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPSYQLHMYLEQMAVYFTTTAPDIKG 464
+ GS++ V+ LV P+ Q+ F P+
Sbjct: 10 TLSHGSLEHVL-------------------LV---PT-ASFFIASQLQEQFNKILPE--- 43
Query: 465 PRRYKFRGPNRFQQITANLDVFLRRFNEIQYWVITEILLVTSLNKRVQILRKMIKLAAYC 524
P F + + T ++ +F + Y ++ ++ + + + Q+L L +
Sbjct: 44 PTE-GFAADD---EPTTPAELVG-KF--LGY--VSSLVEPSKVGQFDQVLNLC--LTEFE 92
Query: 525 KEY---RNINALFAVLMGLSNVAVSRLSLTWDKLPSKSKKTYTELEALIDPSKNHRAYRQ 581
Y +I+AL A KL ++ T + + LI + Y
Sbjct: 93 NCYLEGNDIHALAA------------------KLLQENDTTLVKTKELI------KNYIT 128
Query: 582 AVSKLQSPVIPFMP-LLLKDLAFTHDGNKTVVD-----GLVN--FEKMHMFAQTLRTLRY 633
A + P L + + +GN +V G + FE+ LR L Y
Sbjct: 129 ARIMAKRPFDKKSNSALFRAVG---EGNAQLVAIFGGQGNTDDYFEE-------LRDL-Y 177
Query: 634 CRTRHLDHDKTVVDGLVNFEKMHMFAQTLRTL---------RYCRTRHLV--LDPP--TP 680
+V L+ F A+TL L + + +++ L+ P TP
Sbjct: 178 ------QTYHVLVGDLIKF-----SAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTP 226
Query: 681 KCESEVKSYVSC 692
+ + +SC
Sbjct: 227 DKDYLLSIPISC 238
Score = 31.6 bits (71), Expect = 1.1
Identities = 34/210 (16%), Positives = 67/210 (31%), Gaps = 74/210 (35%)
Query: 85 LMSLAPSLAVSRQITTGMWQALLEEGVIYHGKISCFF-------FS----ETETIPMERI 133
LM A ++ L +G+I F ++ + + +E +
Sbjct: 1738 LMEKA------------AFEDLKSKGLI---PADATFAGHSLGEYAALASLADVMSIESL 1782
Query: 134 YYSLYSGGRTIAR---RCASGSELVDWLMSLAPSLAVSRQITTGMWQALLEEGV--IYHV 188
++ G T+ R G ++++ P ++ Q L+ V +
Sbjct: 1783 VEVVFYRGMTMQVAVPRDELGRSNYG-MIAINPG-----RVAASFSQEALQYVVERVGKR 1836
Query: 189 NGEQAFRDKCIL----YNFWQDKEGSSSQ-ATAQDIAEAEEHLEEALLALARRAPDAILR 243
G ++ YN + Q A D+ AL + +L
Sbjct: 1837 TGW-------LVEIVNYNV------ENQQYVAAGDL--------RALDTVTN-----VLN 1870
Query: 244 YILRKQLKKLQNRYLPREYMLHLEREIEDK 273
+I +L+K+ L + L LE E+E
Sbjct: 1871 FI---KLQKIDIIELQK--SLSLE-EVEGH 1894
Score = 30.0 bits (67), Expect = 4.1
Identities = 37/210 (17%), Positives = 63/210 (30%), Gaps = 68/210 (32%)
Query: 353 QGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPRLIITSMVFHQGD----EGKSWYIIIQ 408
QGS + G G LY + V+++ D + + I+
Sbjct: 1624 QGSQEQ---GMGM--DLYKTSKAAQ--------------DVWNRADNHFKDTYGFSIL-- 1662
Query: 409 GSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPSYQLHMYLEQMAVYFTTTAPDIKG---- 464
D+VI +T + GE GK + N Y ++ E + T K
Sbjct: 1663 ---DIVINNPVNLTIHFGGEK-GK-RIREN---YSAMIF-ETIVDGKLKTEKIFKEINEH 1713
Query: 465 PRRYKFRGPNRFQQITANLDVFLRRFNEIQYWVITEI-LLVTSLNKRVQILRK--MIKLA 521
Y FR T T+ L + + L+ +I
Sbjct: 1714 STSYTFRSEKGLLSATQF----------------TQPALTLMEKA-AFEDLKSKGLIPAD 1756
Query: 522 AYCK-----EYRNINALFAV--LMGLSNVA 544
A EY AL ++ +M + ++
Sbjct: 1757 ATFAGHSLGEY---AALASLADVMSIESLV 1783
>3dkw_A DNR protein; CRP-FNR, HTH, beta barrel, dimerization helix,
homodimer, transcription regulator; 3.60A {Pseudomonas
aeruginosa}
Length = 227
Score = 51.9 bits (125), Expect = 1e-07
Identities = 19/95 (20%), Positives = 39/95 (41%), Gaps = 6/95 (6%)
Query: 297 DLEQIYEELLHLKPL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGS 355
+ ++++++LL L LS +EL KG +F QG+ ++Y +I G
Sbjct: 2 EFQRVHQQLLQSHHLFEPLSPVQLQELLASSDLVNLD-KGAYVFRQGEPAHAFYYLISGC 60
Query: 356 VDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPR 386
V + G+ + + F + + + P
Sbjct: 61 VKIYRLTPEGQEKILEVTNERNTFAEAMMFMDTPN 95
Score = 38.0 bits (89), Expect = 0.006
Identities = 12/55 (21%), Positives = 24/55 (43%), Gaps = 4/55 (7%)
Query: 392 MVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPSY 442
VF QG+ ++Y +I G V + G+ + + F + + + P+Y
Sbjct: 42 YVFRQGEPAHAFYYLISGCVKIYRLTPEGQEKILEVTNERNTFAEAMMFMDTPNY 96
>3d0s_A Transcriptional regulatory protein; CAMP receptor protein (CRP),
dimer, inactive(APO, unliganded allostery, DNA binding,
cyclic AMP; 2.00A {Mycobacterium tuberculosis} PDB:
3i54_A* 3i59_A* 3mzh_A* 3h3u_A* 3r6s_A*
Length = 227
Score = 51.9 bits (125), Expect = 2e-07
Identities = 21/89 (23%), Positives = 40/89 (44%), Gaps = 6/89 (6%)
Query: 303 EELLHLKPL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIY 361
+E+L + + S L + P +G +F +G+ G YIII G V +
Sbjct: 5 DEILARAGIFQGVEPSAIAALTKQLQPVDFP-RGHTVFAEGEPGDRLYIIISGKVKIGRR 63
Query: 362 ---GKGCVTSLY-AGEDFGKLALVNNAPR 386
G+ + ++ + FG+L++ + PR
Sbjct: 64 APDGRENLLTIMGPSDMFGELSIFDPGPR 92
Score = 36.8 bits (86), Expect = 0.014
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAP 440
VF +G+ G YIII G V + G+ + ++ + FG+L++ + P
Sbjct: 38 HTVFAEGEPGDRLYIIISGKVKIGRRAPDGRENLLTIMGPSDMFGELSIFDPGP 91
>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 = 50.7 bits (122), Expect = 2e-07
Identities = 31/156 (19%), Positives = 59/156 (37%), Gaps = 25/156 (16%)
Query: 239 DAILRYILRKQL-KKLQNRYLPREYMLHL-EREIEDKEEEEKEEEEEERQIGKPLDRTSE 296
+ Y+ ++L L+N+ +Y + ++ D ER I SE
Sbjct: 15 KQVEEYMQYRKLPSHLRNKI--LDYYEYRYRGKMFD-----------ERHI---FREVSE 58
Query: 297 DLEQ-----IYEELLHLKPL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYI 350
+ Q +L+ P ++ + ++ FE + + +G G +
Sbjct: 59 SIRQDVANYNCRDLVASVPFFVGADSNFVTRVVTLLEFEVFQ-PADYVIQEGTFGDRMFF 117
Query: 351 IIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPR 386
I QG VD+++ TSL G FG++ L+ R
Sbjct: 118 IQQGIVDIIMSDGVIATSLSDGSYFGEICLLTRERR 153
Score = 42.6 bits (101), Expect = 1e-04
Identities = 15/49 (30%), Positives = 23/49 (46%)
Query: 393 VFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPS 441
V +G G + I QG VD+++ TSL G FG++ L+
Sbjct: 105 VIQEGTFGDRMFFIQQGIVDIIMSDGVIATSLSDGSYFGEICLLTRERR 153
>1uhw_A Pleckstrin; three-helix bundle, beta-ARM, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, signaling protein; NMR {Mus musculus} SCOP:
a.4.5.31 PDB: 1w4m_A
Length = 109
Score = 48.4 bits (115), Expect = 3e-07
Identities = 20/95 (21%), Positives = 35/95 (36%), Gaps = 13/95 (13%)
Query: 127 TIPMERIYYSLYSGGRTIARR-----------CASGSELVDWLMSLAPSLAVSRQITTGM 175
+ + +Y S+ + I C +GS ++DWL+S L +RQ +
Sbjct: 5 SSGLGALYLSMKDPEKGIKELNLEKDKKVFNHCLTGSGVIDWLVS--NKLVRNRQEGLMI 62
Query: 176 WQALLEEGVIYHVNGEQAFRDKCILYNFWQDKEGS 210
+LL EG + I N + D +
Sbjct: 63 SASLLSEGYLQPAGDLSKNAADGIAENPFLDSPDA 97
Score = 46.1 bits (109), Expect = 2e-06
Identities = 19/87 (21%), Positives = 35/87 (40%), Gaps = 3/87 (3%)
Query: 53 LNDESGTLRDRKTSGGRTIARRCASGSELVDWLMSLAPSLAVSRQITTGMWQALLEEGVI 112
+ D +++ + + C +GS ++DWL+S L +RQ + +LL EG +
Sbjct: 15 MKDPEKGIKELNLEKDKKVFNHCLTGSGVIDWLVS--NKLVRNRQEGLMISASLLSEGYL 72
Query: 113 YH-GKISCFFFSETETIPMERIYYSLY 138
G +S P + Y
Sbjct: 73 QPAGDLSKNAADGIAENPFLDSPDAFY 99
>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 = 50.8 bits (122), Expect = 3e-07
Identities = 32/156 (20%), Positives = 57/156 (36%), Gaps = 26/156 (16%)
Query: 239 DAILRYILRKQL-KKLQNRYLPREYMLHL-EREIEDKEEEEKEEEEEERQIGKPLDRTSE 296
+ +Y+ +L + + +Y H + ++ D E I L +
Sbjct: 16 KQVEQYMSFHKLPADFRQKI--HDYYEHRYQGKMFD-----------EDSI---LGELNG 59
Query: 297 DL-EQI----YEELLHLKPL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYI 350
L E+I +L+ PL + + + + FE G+ + +G GK Y
Sbjct: 60 PLREKIVNFNCRKLVASMPLFANADPNFVTAMLTKLKFEVFQ-PGDYIIREGTIGKKMYF 118
Query: 351 IIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPR 386
I G V V+ G L G FG++ L+ R
Sbjct: 119 IQHGVVSVLTKG-NKEMKLSDGSYFGEICLLTRGRR 153
Score = 43.1 bits (102), Expect = 1e-04
Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 393 VFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPS 441
+ +G GK Y I G V V+ G L G FG++ L+
Sbjct: 106 IIREGTIGKKMYFIQHGVVSVLTKG-NKEMKLSDGSYFGEICLLTRGRR 153
>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 = 49.9 bits (120), Expect = 6e-07
Identities = 20/80 (25%), Positives = 38/80 (47%), Gaps = 5/80 (6%)
Query: 311 LHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIY---GKGCVT 367
H L+ +P +G+ +F+QGD G++ Y++ G V + G+
Sbjct: 7 FHGLAPEEVDLALSYFQRRLYP-QGKPIFYQGDLGQALYLVASGKVRLFRTHLGGQERTL 65
Query: 368 SLY-AGEDFGKLALVNNAPR 386
+L GE FG+++L++ R
Sbjct: 66 ALLGPGELFGEMSLLDEGER 85
Score = 37.6 bits (88), Expect = 0.008
Identities = 15/54 (27%), Positives = 29/54 (53%), Gaps = 4/54 (7%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAP 440
+F+QGD G++ Y++ G V + G+ +L GE FG+++L++
Sbjct: 31 KPIFYQGDLGQALYLVASGKVRLFRTHLGGQERTLALLGPGELFGEMSLLDEGE 84
>2cso_A Pleckstrin; DEP domain, platelet P47 protein, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: a.4.5.31
Length = 127
Score = 47.8 bits (113), Expect = 9e-07
Identities = 23/115 (20%), Positives = 37/115 (32%), Gaps = 24/115 (20%)
Query: 126 ETIPMERIYYSLYSGGRTIA-----------RRCASGSELVDWLMSLAPSLAVSRQITTG 174
ETI + +Y S+ + I C +G+ ++DWL+S +RQ
Sbjct: 14 ETIDLGALYLSMKDTEKGIKELNLEKDKKIFNHCFTGNCVIDWLVS--NQSVRNRQEGLM 71
Query: 175 MWQALLEEGVIYHV----------NGEQAFRD-KCILYNFWQDKEGSSSQATAQD 218
+ +LL EG + E F D Y F +
Sbjct: 72 IASSLLNEGYLQPAGDMSKSAVDGTAENPFLDNPDAFYYFPDSGFFCEENSGPSS 126
Score = 45.1 bits (106), Expect = 7e-06
Identities = 19/87 (21%), Positives = 35/87 (40%), Gaps = 3/87 (3%)
Query: 53 LNDESGTLRDRKTSGGRTIARRCASGSELVDWLMSLAPSLAVSRQITTGMWQALLEEGVI 112
+ D +++ + I C +G+ ++DWL+S +RQ + +LL EG +
Sbjct: 25 MKDTEKGIKELNLEKDKKIFNHCFTGNCVIDWLVS--NQSVRNRQEGLMIASSLLNEGYL 82
Query: 113 YH-GKISCFFFSETETIPMERIYYSLY 138
G +S T P + Y
Sbjct: 83 QPAGDMSKSAVDGTAENPFLDNPDAFY 109
>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 = 2e-06
Identities = 13/84 (15%), Positives = 32/84 (38%), Gaps = 6/84 (7%)
Query: 308 LKPL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIY---GK 363
L+ + L+ R L + +K +F +GD + + + +G + ++ G+
Sbjct: 14 LRDVWSLLNEEERELLDKEIQ-PFPCKKASTVFSEGDIPNNLFYLYEGKIKILREGVYGR 72
Query: 364 GCVTSLY-AGEDFGKLALVNNAPR 386
++ + G+ FG
Sbjct: 73 FHISRIVKPGQFFGMRPYFAEETC 96
Score = 36.1 bits (84), Expect = 0.027
Identities = 10/54 (18%), Positives = 23/54 (42%), Gaps = 4/54 (7%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAP 440
S VF +GD + + + +G + ++ G+ ++ + G+ FG
Sbjct: 42 STVFSEGDIPNNLFYLYEGKIKILREGVYGRFHISRIVKPGQFFGMRPYFAEET 95
>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 = 48.0 bits (115), Expect = 3e-06
Identities = 20/89 (22%), Positives = 39/89 (43%), Gaps = 6/89 (6%)
Query: 303 EELLHLKPL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIY 361
+ + L L L ++ ++ +GE LF Q ++ ++ +++I G V +
Sbjct: 10 KAIARNSLLIRSLPEQHVDALLSQAVWRSYD-RGETLFLQEEKAQAIHVVIDGWVKLFRM 68
Query: 362 ---GKGCVTSLY-AGEDFGKLALVNNAPR 386
G V S++ GE FG+ + N P
Sbjct: 69 TPTGSEAVVSVFTRGESFGEAVALRNTPY 97
Score = 35.7 bits (83), Expect = 0.029
Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 392 MVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAP 440
+F Q ++ ++ +++I G V + G V S++ GE FG+ + N P
Sbjct: 44 TLFLQEEKAQAIHVVIDGWVKLFRMTPTGSEAVVSVFTRGESFGEAVALRNTP 96
>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 = 45.6 bits (108), Expect = 6e-06
Identities = 14/83 (16%), Positives = 26/83 (31%), Gaps = 7/83 (8%)
Query: 310 PL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIYGKGC--- 365
PL ++ + + + + L +GD II+G ++ V G
Sbjct: 12 PLFENMDERLLDAICERLKPCLFT-EKSYLVREGDPVNEMLFIIRGRLESVTTDGGRSGF 70
Query: 366 --VTSLYAGEDFGKLALVNNAPR 386
+ L G+ G L
Sbjct: 71 YNRSLLKEGDFCGDELLTWALDP 93
Score = 37.9 bits (88), Expect = 0.002
Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 5/53 (9%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIYGKGC-----VTSLYAGEDFGKLALVNN 438
S + +GD II+G ++ V G + L G+ G L
Sbjct: 38 SYLVREGDPVNEMLFIIRGRLESVTTDGGRSGFYNRSLLKEGDFCGDELLTWA 90
>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 = 46.1 bits (110), Expect = 1e-05
Identities = 14/58 (24%), Positives = 27/58 (46%), Gaps = 4/58 (6%)
Query: 333 RKGEILFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPR 386
+ + GD ++ + II+GSV ++I G+ + +G+ FG+L L
Sbjct: 19 TAKSTIIYAGDRCETLFFIIKGSVTILIEDDDGREMIIGYLNSGDFFGELGLFEKEGS 76
Score = 40.3 bits (95), Expect = 0.001
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 4/59 (6%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPSYQLH 445
S + + GD ++ + II+GSV ++I G+ + +G+ FG+L L S Q
Sbjct: 22 STIIYAGDRCETLFFIIKGSVTILIEDDDGREMIIGYLNSGDFFGELGLFEKEGSEQER 80
>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 = 45.7 bits (109), Expect = 1e-05
Identities = 19/78 (24%), Positives = 32/78 (41%), Gaps = 5/78 (6%)
Query: 313 HLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSL 369
++ +P L HQG++ ++ Y I++GSV V+I GK + S
Sbjct: 6 PQTDPTLEWFLSHCHIHKYP-SKSTLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSY 64
Query: 370 Y-AGEDFGKLALVNNAPR 386
G+ G+L L
Sbjct: 65 LNQGDFIGELGLFEEGQE 82
Score = 38.4 bits (90), Expect = 0.003
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 4/56 (7%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPSY 442
S + HQG++ ++ Y I++GSV V+I GK + S G+ G+L L
Sbjct: 28 STLIHQGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQER 83
>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 = 45.4 bits (108), Expect = 2e-05
Identities = 29/146 (19%), Positives = 50/146 (34%), Gaps = 12/146 (8%)
Query: 239 DAILRYILRKQL-KKLQNRYLPREYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSED 297
+ +I +L K L R E + E P + ++
Sbjct: 19 KDLKDFIRVHRLPKALAQRM--LECFQT-------TWSVNNGIDVSELLKDFPDELRADI 69
Query: 298 LEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVD 357
+ +ELL L S R L+ ++ GE L QGD ++ Y + GS++
Sbjct: 70 AMHLNKELLQLPLFESASRGCLRSLSLIIKTSFCA-PGEFLIRQGDALQAIYFVCSGSME 128
Query: 358 VVIYGKGCVTSLYAGEDFGKLALVNN 383
V+ + L G+ G +L
Sbjct: 129 VL-KDNTVLAILGKGDLIGSDSLTKE 153
Score = 36.2 bits (84), Expect = 0.022
Identities = 11/48 (22%), Positives = 21/48 (43%), Gaps = 1/48 (2%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNN 438
+ QGD ++ Y + GS++V+ + L G+ G +L
Sbjct: 107 EFLIRQGDALQAIYFVCSGSMEVL-KDNTVLAILGKGDLIGSDSLTKE 153
>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 = 45.8 bits (109), Expect = 2e-05
Identities = 13/80 (16%), Positives = 25/80 (31%), Gaps = 5/80 (6%)
Query: 305 LLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIY--- 361
+ P + R + + KG + G+E S +++G + + I
Sbjct: 11 CGAIIPDNFFPIEKLRNYTQMGLIRDFA-KGSAVIMPGEEITSMIFLVEGKIKLDIIFED 69
Query: 362 GKGCVTSLY-AGEDFGKLAL 380
G + GKL
Sbjct: 70 GSEKLLYYAGGNSLIGKLYP 89
Score = 31.9 bits (73), Expect = 0.51
Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 4/49 (8%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLAL 435
S V G+E S +++G + + I G + GKL
Sbjct: 41 SAVIMPGEEITSMIFLVEGKIKLDIIFEDGSEKLLYYAGGNSLIGKLYP 89
>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 = 45.0 bits (107), Expect = 3e-05
Identities = 15/89 (16%), Positives = 28/89 (31%), Gaps = 6/89 (6%)
Query: 303 EELLHLKPL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIY 361
+ L +P +F GD + Y +I GSV ++
Sbjct: 10 TTTVRNATPSLTLDAGTIERFLAHSHRRRYP-TRTDVFRPGDPAGTLYYVISGSVSIIAE 68
Query: 362 ---GKGCVTSLY-AGEDFGKLALVNNAPR 386
+ V + +GE G++ L +
Sbjct: 69 EDDDRELVLGYFGSGEFVGEMGLFIESDT 97
Score = 38.0 bits (89), Expect = 0.006
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 4/55 (7%)
Query: 392 MVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPSY 442
VF GD + Y +I GSV ++ + V + +GE G++ L + +
Sbjct: 44 DVFRPGDPAGTLYYVISGSVSIIAEEDDDRELVLGYFGSGEFVGEMGLFIESDTR 98
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 44.4 bits (104), Expect = 3e-05
Identities = 19/88 (21%), Positives = 34/88 (38%), Gaps = 37/88 (42%)
Query: 219 IAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLPREYMLHLER--EIEDKEEE 276
IA+A+ +E P++I RK RE E+ +++ +
Sbjct: 74 IAQADRLTQE---------PESI-----RKW----------RE-----EQRKRLQELDAA 104
Query: 277 EKEEEEEERQIGKPLDRTSEDLEQIYEE 304
K E+E R+ K +DLE+ +
Sbjct: 105 SKVMEQEWREKAK------KDLEEWNQR 126
Score = 35.9 bits (82), Expect = 0.025
Identities = 13/81 (16%), Positives = 31/81 (38%), Gaps = 9/81 (11%)
Query: 214 ATAQDIAEAEEHL----EEALLALARR-APDAILRYILRKQLKK-LQNRYLPREYMLHLE 267
A A + + E + EE L A ++ R++ KK L+ + +E
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWN--QRQSEQVE 132
Query: 268 REI-EDKEEEEKEEEEEERQI 287
+ ++ ++ ++ + I
Sbjct: 133 KNKINNRIADKAFYQQPDADI 153
Score = 34.7 bits (79), Expect = 0.060
Identities = 13/94 (13%), Positives = 29/94 (30%), Gaps = 34/94 (36%)
Query: 191 EQAFRDKCILYNFWQDKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQL 250
EQ R Q+ + +S + +A++ LEE R + +
Sbjct: 93 EQRKR--------LQELDAASKVMEQEWREKAKKDLEEWN-----------QRQSEQVEK 133
Query: 251 KKLQNRYLPREYMLHLEREIEDKEEEEKEEEEEE 284
K+ NR ++ ++ + +
Sbjct: 134 NKINNR---------------IADKAFYQQPDAD 152
>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 = 44.1 bits (105), Expect = 4e-05
Identities = 14/62 (22%), Positives = 26/62 (41%), Gaps = 4/62 (6%)
Query: 333 RKGEILFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPRLI 388
RKGEI+ HQ D + I+++G++ GK + + ++ PR
Sbjct: 28 RKGEIVKHQDDPIEDVLILLEGTLKTEHVSENGKTLEIDEIKPVQIIASGFIFSSEPRFP 87
Query: 389 IT 390
+
Sbjct: 88 VN 89
Score = 36.8 bits (86), Expect = 0.014
Identities = 9/56 (16%), Positives = 21/56 (37%), Gaps = 4/56 (7%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPSY 442
+V HQ D + I+++G++ GK + + ++ P +
Sbjct: 31 EIVKHQDDPIEDVLILLEGTLKTEHVSENGKTLEIDEIKPVQIIASGFIFSSEPRF 86
>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 = 43.5 bits (103), Expect = 5e-05
Identities = 17/87 (19%), Positives = 33/87 (37%), Gaps = 3/87 (3%)
Query: 301 IYEELLHLKPL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVV 359
+ ++ P S+ R LA G++++H G+ S ++ GS++V+
Sbjct: 24 LNRKVFKEHPAFRLASDGCLRALAMEFQTVHCA-PGDLIYHAGESVDSLCFVVSGSLEVI 82
Query: 360 IYGKGCVTSLYAGEDFGKLALVNNAPR 386
V L G+ FG +
Sbjct: 83 QDD-EVVAILGKGDVFGDVFWKEATLA 108
Score = 39.2 bits (92), Expect = 0.001
Identities = 11/52 (21%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 392 MVFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAPSYQ 443
+++H G+ S ++ GS++V+ V L G+ FG + +
Sbjct: 60 LIYHAGESVDSLCFVVSGSLEVIQDD-EVVAILGKGDVFGDVFWKEATLAQS 110
>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 = 44.3 bits (105), Expect = 5e-05
Identities = 8/58 (13%), Positives = 15/58 (25%), Gaps = 4/58 (6%)
Query: 333 RKGEILFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPR 386
K E++F+Q D + + G + G Y +
Sbjct: 24 HKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYYKGAFVIMSGFIDTETSV 81
Score = 35.8 bits (83), Expect = 0.033
Identities = 6/56 (10%), Positives = 13/56 (23%), Gaps = 4/56 (7%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPSY 442
++F+Q D + + G + G Y +
Sbjct: 27 ELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYYKGAFVIMSGFIDTETSVG 82
>3dv8_A Transcriptional regulator, CRP/FNR family; cyclic
nucleotide-binding domain, structural genomics, joint
for structural genomics; 2.55A {Eubacterium rectale atcc
33656}
Length = 220
Score = 43.8 bits (104), Expect = 6e-05
Identities = 10/90 (11%), Positives = 33/90 (36%), Gaps = 8/90 (8%)
Query: 304 ELLHLKPL-HHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIY- 361
+ PL + L+ + ++ ++ ++ + KG I+ + + ++ G + I
Sbjct: 3 SFENYFPLWNDLNTAQKKLISDNLITQHVK-KGTIIHNGNMDCTGLLLVKSGQLRTYILS 61
Query: 362 --GKGCVTS-LYAGED--FGKLALVNNAPR 386
G+ L+ + ++ +
Sbjct: 62 DEGREITLYRLFDMDMCLLSASCIMRSIQF 91
Score = 29.1 bits (66), Expect = 3.9
Identities = 4/55 (7%), Positives = 17/55 (30%), Gaps = 6/55 (10%)
Query: 392 MVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTS-LYAGED--FGKLALVNNAP 440
++ + + ++ G + I G+ L+ + ++ +
Sbjct: 36 IIHNGNMDCTGLLLVKSGQLRTYILSDEGREITLYRLFDMDMCLLSASCIMRSIQ 90
>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 = 43.0 bits (102), Expect = 1e-04
Identities = 10/73 (13%), Positives = 27/73 (36%), Gaps = 4/73 (5%)
Query: 311 LHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIYGKG---CVT 367
+ L + + H KG ++ + ++++ G + V + G+ +
Sbjct: 8 ANVLLSPDGETFFRGFRSKIHA-KGSLVCTGEGDENGVFVVVDGRLRVYLVGEEREISLF 66
Query: 368 SLYAGEDFGKLAL 380
L +G+ F +
Sbjct: 67 YLTSGDMFCMHSG 79
Score = 33.0 bits (76), Expect = 0.21
Identities = 8/48 (16%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIYGKG---CVTSLYAGEDFGKLAL 435
S+V + ++++ G + V + G+ + L +G+ F +
Sbjct: 32 SLVCTGEGDENGVFVVVDGRLRVYLVGEEREISLFYLTSGDMFCMHSG 79
>3b02_A Transcriptional regulator, CRP family; structural genomics, riken
structural genomics/proteomics in RSGI; 1.92A {Thermus
thermophilus} PDB: 2zdb_A
Length = 195
Score = 42.2 bits (100), Expect = 2e-04
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 333 RKGEILFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPR 386
+ E ++ +G+E ++ Y + +G V VV G+ G+ FG+ AL A R
Sbjct: 5 ARKETIYLRGEEARTLYRLEEGLVRVVELLPDGRLITLRHVLPGDYFGEEALEGKAYR 62
Score = 35.6 bits (83), Expect = 0.030
Identities = 15/56 (26%), Positives = 26/56 (46%), Gaps = 4/56 (7%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPSY 442
++ +G+E ++ Y + +G V VV G+ G+ FG+ AL A Y
Sbjct: 8 ETIYLRGEEARTLYRLEEGLVRVVELLPDGRLITLRHVLPGDYFGEEALEGKAYRY 63
>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 = 42.7 bits (101), Expect = 2e-04
Identities = 12/58 (20%), Positives = 25/58 (43%), Gaps = 4/58 (6%)
Query: 333 RKGEILFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPR 386
+ + +F GD + Y +++G+V + G+ +L FG L+L+
Sbjct: 49 ERNKTIFFPGDPAERVYFLLKGAVKLSRVYEAGEEITVALLRENSVFGVLSLLTGNKS 106
Score = 35.0 bits (81), Expect = 0.057
Identities = 13/55 (23%), Positives = 24/55 (43%), Gaps = 4/55 (7%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNNAPS 441
+F GD + Y +++G+V + G+ +L FG L+L+ S
Sbjct: 52 KTIFFPGDPAERVYFLLKGAVKLSRVYEAGEEITVALLRENSVFGVLSLLTGNKS 106
>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA;
3.10A {Mesorhizobium loti} PDB: 2zd9_A*
Length = 355
Score = 42.9 bits (101), Expect = 3e-04
Identities = 19/91 (20%), Positives = 38/91 (41%), Gaps = 4/91 (4%)
Query: 296 EDLEQIYEELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGS 355
D + ++ + + L +V E+ + G ++ G+ G + +++GS
Sbjct: 221 GDFVRNWQLVAAVPLFQKLGPAVLVEIV-RALRARTVPAGAVICRIGEPGDRMFFVVEGS 279
Query: 356 VDVVIYGKGCVTSLYAGEDFGKLALVNNAPR 386
V V L G FG++AL++ PR
Sbjct: 280 VSVATPNP---VELGPGAFFGEMALISGEPR 307
Score = 36.0 bits (83), Expect = 0.041
Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNNAP 440
+++ G+ G + +++GSV V L G FG++AL++ P
Sbjct: 260 AVICRIGEPGDRMFFVVEGSVSVATPNP---VELGPGAFFGEMALISGEP 306
>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 = 41.9 bits (99), Expect = 3e-04
Identities = 14/83 (16%), Positives = 27/83 (32%), Gaps = 4/83 (4%)
Query: 303 EELLHLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSVDVVIYG 362
L L L++ + + + K IL+ E +++ G V V +
Sbjct: 4 MRLTDTNLLEVLNSEEYSGVLKEFREQRYS-KKAILYTPNTERNLVFLVKSGRVRVYLAY 62
Query: 363 KG---CVTSLYAGEDFGKLALVN 382
+ + L AG+ F
Sbjct: 63 EDKEFTLAILEAGDIFCTHTRAF 85
Score = 31.1 bits (71), Expect = 0.90
Identities = 8/50 (16%), Positives = 19/50 (38%), Gaps = 3/50 (6%)
Query: 391 SMVFHQGDEGKSWYIIIQGSVDVVIYGKG---CVTSLYAGEDFGKLALVN 437
++++ E +++ G V V + + + L AG+ F
Sbjct: 36 AILYTPNTERNLVFLVKSGRVRVYLAYEDKEFTLAILEAGDIFCTHTRAF 85
>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary
phase, DNA-binding, transcription regulation; 1.50A
{Thermus thermophilus}
Length = 202
Score = 38.8 bits (91), Expect = 0.003
Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 6/57 (10%)
Query: 333 RKGEILFHQGDEGK--SWYIIIQGSVDVVIY---GKGCVTSLY-AGEDFGKLALVNN 383
+ G+++ + G G Y +++G V + G L G FG+ AL
Sbjct: 11 KAGDVILYPGVPGPRDRAYRVLEGLVRLEAVDEEGNALTLRLVRPGGFFGEEALFGQ 67
>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing
cluster, hydrophobic core, contractIle protein; 1.80A
{Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A
Length = 155
Score = 36.5 bits (84), Expect = 0.010
Identities = 21/105 (20%), Positives = 48/105 (45%), Gaps = 14/105 (13%)
Query: 206 DKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLPREYMLH 265
S +A A+ ++ E+ EE + +L +LK+ + R E +
Sbjct: 55 TNNLKSLEAQAEKYSQKEDKYEEEIK-------------VLSDKLKEAETRAEFAERSVT 101
Query: 266 -LEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEELLHLK 309
LE+ I+D E+E ++ + + I + + + + +E++ + HL+
Sbjct: 102 KLEKSIDDLEDELYAQKLKYKAISEEMKQLEDKVEELLSKNYHLE 146
>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 = 36.1 bits (82), Expect = 0.013
Identities = 8/29 (27%), Positives = 13/29 (44%), Gaps = 4/29 (13%)
Query: 247 RKQLKKLQNR---YLPREY-MLHLEREIE 271
++ LKKLQ Y L ++ +E
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKATME 47
Score = 36.1 bits (82), Expect = 0.016
Identities = 9/36 (25%), Positives = 15/36 (41%), Gaps = 12/36 (33%)
Query: 580 RQAVSKLQSPVIPFMPLLLKD----LAFTHDGNKTV 611
+QA+ KLQ+ + + D LA T+
Sbjct: 19 KQALKKLQASLKLYAD----DSAPALAI----KATM 46
Score = 31.5 bits (70), Expect = 0.49
Identities = 10/50 (20%), Positives = 18/50 (36%), Gaps = 23/50 (46%)
Query: 124 ETETIPMERIYYSL--YSGGRTIARRCASGSELVDWLMSLAPSLAVSRQI 171
E + + +++ SL Y A S AP+LA+ +
Sbjct: 18 EKQAL--KKLQASLKLY----------ADDS---------APALAIKATM 46
>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1
PDB: 2tma_A 2w49_A 2w4u_A
Length = 284
Score = 36.6 bits (84), Expect = 0.022
Identities = 18/97 (18%), Positives = 37/97 (38%), Gaps = 7/97 (7%)
Query: 206 DKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLPREYMLH 265
++E + + + E + L +LK+ + R E +
Sbjct: 194 EEEIKTVTNNLKSLEAQAEKYSQKEDKYEEEIKV------LSDKLKEAETRAEFAERSVT 247
Query: 266 -LEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQI 301
LE+ I+D E+E ++ + + I + LD D+ I
Sbjct: 248 KLEKSIDDLEDELYAQKLKYKAISEELDHALNDMTSI 284
Score = 29.6 bits (66), Expect = 3.7
Identities = 11/44 (25%), Positives = 22/44 (50%)
Query: 266 LEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEELLHLK 309
E + + E+ K+ E+E + K L T ++L++ E L +
Sbjct: 25 AEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEALKDAQ 68
Score = 28.8 bits (64), Expect = 6.0
Identities = 20/106 (18%), Positives = 40/106 (37%), Gaps = 7/106 (6%)
Query: 206 DKEGSSSQATAQDIAEAEEHLEEALLAL----ARRAPDAILRYILRKQLKKLQNRY--LP 259
D+ Q + EAE+ +E+ + +R D I QLK+ ++
Sbjct: 100 DRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDAD 159
Query: 260 REYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEEL 305
R+Y + R++ E + + EE E+++ + L
Sbjct: 160 RKYE-EVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNL 204
>3cx5_F Cytochrome B-C1 complex subunit 6; complex III, electron transfer
complex, cytochrome BC1 complex,
mitochondrialtransmembrane complex; HET: M3L SUC 6PH UMQ
HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces
cerevisiae} SCOP: f.28.1.1 PDB: 3cxh_F* 1ezv_H* 1kb9_F*
1p84_F* 2ibz_H* 1kyo_F*
Length = 146
Score = 34.9 bits (79), Expect = 0.034
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 267 EREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRR 320
E E ED ++++ E+EEEE ++ L+ E + EE L HH R
Sbjct: 53 EDEDEDDDDDDDEDEEEEEEVTDQLEDLREHFKNT-EEGKALV--HHYEECAER 103
>3dn7_A Cyclic nucleotide binding regulatory protein; structural genomics,
APC88869, cyclic nucleotide binding REG protein, PSI-2;
1.80A {Cytophaga hutchinsonii}
Length = 194
Score = 34.3 bits (79), Expect = 0.073
Identities = 11/56 (19%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 302 YEELL-HLKPLHHLSNSVRRELAGVVMFEAHPRKGEILFHQGDEGKSWYIIIQGSV 356
+ L+ H++ L++ L+ RK E L G+ + Y +++G +
Sbjct: 5 HTALINHIRKFIFLTDEDAGTLSAF-FQLKKVRKKETLLKTGEICRINYFVVKGCL 59
>3n3u_A Ampylator IBPA, adenosine monophosphate-protein transferase IBPA;
FIC domain; 1.85A {Histophilus somni} PDB: 3n3v_A*
Length = 299
Score = 34.6 bits (79), Expect = 0.093
Identities = 21/100 (21%), Positives = 36/100 (36%), Gaps = 10/100 (10%)
Query: 218 DIAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLPREYMLHLEREIEDKEEEE 277
+ E ++ L E + R AI ++ ++Q+ L + IED +
Sbjct: 58 HLPEFDDILTEGAKKVESRINKAITFRPSVEEFSEIQDLV----KTLPKTKVIEDLSTKT 113
Query: 278 KEEEEEERQIGKPLDRTSEDLE------QIYEELLHLKPL 311
E E K + RT E E + + + KPL
Sbjct: 114 NEITEALAATSKTIQRTPELKEQLKTAIEDFLQNSQGKPL 153
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 35.2 bits (81), Expect = 0.093
Identities = 20/92 (21%), Positives = 44/92 (47%), Gaps = 7/92 (7%)
Query: 219 IAEAEEHLEEALLALARRAPDAILRY-ILRKQLKKLQNRYLPREYMLHLEREIEDKEEEE 277
+A ++ LEE L + R + R L+ + KK+Q + ML LE ++E++E
Sbjct: 918 LAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQ------MLDLEEQLEEEEAAR 971
Query: 278 KEEEEEERQIGKPLDRTSEDLEQIYEELLHLK 309
++ + E+ + + +D+ + ++ L
Sbjct: 972 QKLQLEKVTADGKIKKMEDDILIMEDQNNKLT 1003
Score = 33.3 bits (76), Expect = 0.35
Identities = 15/132 (11%), Positives = 45/132 (34%), Gaps = 2/132 (1%)
Query: 192 QAFRDKCILYNFWQDKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQLK 251
+K ++K S + + E+ +E + ++ + +L+
Sbjct: 1021 AEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQ 1080
Query: 252 KLQNRYLPREYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEELLHLKPL 311
+ + E E++ ++E ++ K + + + E+L K
Sbjct: 1081 AQIAEL--KAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAA 1138
Query: 312 HHLSNSVRRELA 323
+ + +R+L+
Sbjct: 1139 RNKAEKQKRDLS 1150
Score = 31.3 bits (71), Expect = 1.3
Identities = 17/97 (17%), Positives = 41/97 (42%), Gaps = 7/97 (7%)
Query: 210 SSSQATAQDIAEAEEHLEEALLALARRAPDAILRY-ILRKQLKKLQNRYLPREYMLHLER 268
+ QA ++ EE L A R D + K++++L++ L+
Sbjct: 1077 AELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHIS------DLQE 1130
Query: 269 EIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEEL 305
++E ++ + E+++R + + L+ +LE +
Sbjct: 1131 DLESEKAARNKAEKQKRDLSEELEALKTELEDTLDTT 1167
Score = 31.0 bits (70), Expect = 1.8
Identities = 15/80 (18%), Positives = 33/80 (41%), Gaps = 2/80 (2%)
Query: 226 LEEALLALARRAPDAILRYILRKQLKKLQNRYLPREYMLHLEREIEDKEEEEKEEEEEER 285
LE+ L +L+ L+ + + R + ++E+E+ E + EEE
Sbjct: 883 LEQKHTQLCEEK--NLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEE 940
Query: 286 QIGKPLDRTSEDLEQIYEEL 305
+ + L + ++Q +L
Sbjct: 941 ERSQQLQAEKKKMQQQMLDL 960
Score = 30.6 bits (69), Expect = 2.2
Identities = 19/80 (23%), Positives = 38/80 (47%), Gaps = 6/80 (7%)
Query: 227 EEALLALARRAPDAILRYILRKQLKKLQNRYLPREYMLH-LEREIEDKEEEEKEEEEEER 285
E+ LL +A + + +L + E +LH +E IE++EE ++ + E++
Sbjct: 893 EKNLLQEKLQAETELYAE-AEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKK 951
Query: 286 QIGKPLDRTSEDLEQIYEEL 305
+ + + DLE+ EE
Sbjct: 952 K----MQQQMLDLEEQLEEE 967
Score = 30.6 bits (69), Expect = 2.3
Identities = 22/93 (23%), Positives = 38/93 (40%), Gaps = 7/93 (7%)
Query: 217 QDIAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLPREYML-HLEREIEDKEE 275
Q + + EE LEE A + + + ++KK+++ L E L +E + EE
Sbjct: 955 QQMLDLEEQLEEEEAARQKLQLE---KVTADGKIKKMEDDILIMEDQNNKLTKERKLLEE 1011
Query: 276 EEKEEEE---EERQIGKPLDRTSEDLEQIYEEL 305
+ EE + K L + E + EL
Sbjct: 1012 RVSDLTTNLAEEEEKAKNLTKLKNKHESMISEL 1044
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 34.3 bits (79), Expect = 0.15
Identities = 19/90 (21%), Positives = 38/90 (42%), Gaps = 7/90 (7%)
Query: 217 QDIAEAEEHLEEALLALARRAPDAILRY-ILRKQLKKLQNRYLPREYMLHLEREIEDKEE 275
+ + E +LE + + R + ++ K NR +L L+ EI +
Sbjct: 945 KSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNR------VLSLQEEIAKLRK 998
Query: 276 EEKEEEEEERQIGKPLDRTSEDLEQIYEEL 305
E + + E++ I + D+ + EQ+ EL
Sbjct: 999 ELHQTQTEKKTIEEWADKYKHETEQLVSEL 1028
Score = 33.9 bits (78), Expect = 0.24
Identities = 16/103 (15%), Positives = 43/103 (41%), Gaps = 5/103 (4%)
Query: 220 AEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLPREYMLHLEREIEDKEEEEKE 279
A + E ++ + L + I++ + + + + L E M +LE + E+ +
Sbjct: 913 ARSVERYKKLHIGLENK----IMQLQRKIDEQNKEYKSL-LEKMNNLEITYSTETEKLRS 967
Query: 280 EEEEERQIGKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRREL 322
+ E R + + + + EE+ L+ H + + ++ +
Sbjct: 968 DVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTI 1010
>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil,
alanine, axial stagger, radius, SIDE-chain packing,
crystal packing; 2.30A {Rattus norvegicus} SCOP: h.1.5.1
Length = 147
Score = 32.7 bits (74), Expect = 0.17
Identities = 19/92 (20%), Positives = 42/92 (45%), Gaps = 8/92 (8%)
Query: 217 QDIAEAEEHLEEAL--LALARRAPDAILRYILRKQLKKLQNRYLPREY-MLHLEREIEDK 273
+++ A+E L AL L A +A D + +K +++R E M E ++++
Sbjct: 10 EELDRAQERLATALQKLEEAEKAADES-----ERGMKVIESRAQKDEEKMEIQEIQLKEA 64
Query: 274 EEEEKEEEEEERQIGKPLDRTSEDLEQIYEEL 305
+ ++ + + ++ + L DLE+ E
Sbjct: 65 KHIAEDADRKYEEVARKLVIIESDLERAEERA 96
>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle
protein; 2.50A {Gallus gallus}
Length = 101
Score = 31.4 bits (71), Expect = 0.21
Identities = 11/40 (27%), Positives = 23/40 (57%)
Query: 266 LEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEEL 305
E + + E+ K+ EEE++ + K L T +++E+ E +
Sbjct: 28 AEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESV 67
Score = 29.5 bits (66), Expect = 0.96
Identities = 8/41 (19%), Positives = 22/41 (53%)
Query: 266 LEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEELL 306
E + EEE++ +++ + +++ SE +++ E+L
Sbjct: 35 AEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEKLE 75
>1cii_A Colicin IA; bacteriocin, ION channel formation, transmembrane
protein; 3.00A {Escherichia coli} SCOP: f.1.1.1 h.4.3.1
Length = 602
Score = 33.9 bits (76), Expect = 0.22
Identities = 13/102 (12%), Positives = 35/102 (34%), Gaps = 1/102 (0%)
Query: 205 QDKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRY-LPREYM 263
+ ++ T Q+ + L E DA+ + + L + +
Sbjct: 98 RAGNADAADITRQEFRLLQAELREYGFRTEIAGYDALRLHTESRMLFADADSLRISPREA 157
Query: 264 LHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEEL 305
L + E ++++ + +++ + +R L+ EL
Sbjct: 158 RSLIEQAEKRQKDAQNADKKAADMLAEYERRKGILDTRLSEL 199
>1u7l_A Vacuolar ATP synthase subunit C; hydrolase, structural protein;
HET: TLA; 1.75A {Saccharomyces cerevisiae} SCOP:
e.57.1.1
Length = 392
Score = 33.5 bits (76), Expect = 0.23
Identities = 10/58 (17%), Positives = 24/58 (41%)
Query: 254 QNRYLPREYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEELLHLKPL 311
+ +++PRE+ E + K+E + E+ + + ++ H+K L
Sbjct: 252 EKKFIPREFNYSEELIDQLKKEHDSAASLEQSLRVQLVRLAKTAYVDVFINWFHIKAL 309
>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled
coil, alanine, symmetry, axial stagger, BEND,
contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1
Length = 81
Score = 30.6 bits (69), Expect = 0.28
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 266 LEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEEL 305
E + + EE K+ E+E + K L T ++L++ E L
Sbjct: 25 AEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESL 64
>2ras_A Transcriptional regulator, TETR family; bacterial regulatory
proteins, DNA-binding, DNA binding 3-helical bundle
fold; 1.80A {Novosphingobium aromaticivorans}
Length = 212
Score = 32.6 bits (74), Expect = 0.30
Identities = 9/88 (10%), Positives = 24/88 (27%), Gaps = 1/88 (1%)
Query: 200 LYNFWQDKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLP 259
L +++ +E E +E+ LA + + R+ + +
Sbjct: 48 LSRYFETREDLMEAIADYWFHPMVEIMEDV-LASDLPPRRKMYEFFARRFVVMRRKWEAD 106
Query: 260 REYMLHLEREIEDKEEEEKEEEEEERQI 287
+ D E+ + +
Sbjct: 107 PVKLQTYIEVGNDYFEQVRSYIDLADHY 134
>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle
protein; 1.80A {Gallus gallus} PDB: 3u1a_A
Length = 101
Score = 31.0 bits (70), Expect = 0.38
Identities = 13/40 (32%), Positives = 22/40 (55%)
Query: 266 LEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEEL 305
E + + EE K+ E++ Q+ K L T + +Q+ EEL
Sbjct: 28 AEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEEL 67
>3lu0_A DNA-directed RNA polymerase subunit alpha; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_A
Length = 329
Score = 32.4 bits (75), Expect = 0.44
Identities = 10/35 (28%), Positives = 19/35 (54%)
Query: 265 HLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLE 299
LE ++ ++ + E +EE+ + L R +DLE
Sbjct: 227 QLEAFVDLRDVRQPEVKEEKPEFDPILLRPVDDLE 261
>2a6h_A DNA-directed RNA polymerase alpha chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: d.74.3.1
d.181.1.1 PDB: 1smy_A* 1zyr_A* 1iw7_A* 2a69_A* 2a6e_A
2a68_A* 2be5_A* 2cw0_A 2o5i_A 2o5j_A* 2ppb_A* 3aoh_A*
3aoi_A* 3dxj_A* 3eql_A* 1i6v_A* 1ynj_A* 1l9z_A 1l9u_A*
1ynn_A* ...
Length = 315
Score = 32.5 bits (75), Expect = 0.46
Identities = 13/55 (23%), Positives = 19/55 (34%), Gaps = 11/55 (20%)
Query: 245 ILRKQLKKLQNRYLPREYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLE 299
ILR+ L N + EE +E E + + LD E+L
Sbjct: 217 ILREHLTYFSN-----------PQAAAVAAPEEAKEPEAPPEQEEELDLPLEELG 260
>1jos_A RBFA, ribosome-binding factor A; RNA binding protein, structure 2
function project, S2F, structural genomics; 1.70A
{Haemophilus influenzae} SCOP: d.52.7.1 PDB: 1kkg_A
Length = 128
Score = 31.1 bits (71), Expect = 0.47
Identities = 12/74 (16%), Positives = 29/74 (39%), Gaps = 16/74 (21%)
Query: 221 EAEEHLEEALLALARRAPDAILRYILRKQL-KKLQNRYLPR---------EYMLHLEREI 270
E +E+ + L + +P +R L K ++ R +P + + +
Sbjct: 59 HDEMAIEQGMKGLEKASP------YIRSLLGKAMRLRIVPEIRFIYDQSLVEGMRMSNLV 112
Query: 271 EDKEEEEKEEEEEE 284
+ E++++ EE
Sbjct: 113 TNVVREDEKKHVEE 126
>1coo_A RNA polymerase alpha subunit; transcription regulation, nucleotidyl
transferase; NMR {Escherichia coli} SCOP: a.60.3.1 PDB:
2jzb_A
Length = 98
Score = 29.6 bits (67), Expect = 0.90
Identities = 9/30 (30%), Positives = 17/30 (56%)
Query: 270 IEDKEEEEKEEEEEERQIGKPLDRTSEDLE 299
++ ++ E E +EE+ + L R +DLE
Sbjct: 1 MDLRDVREPEVKEEKPEFDPILLRPVDDLE 30
>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP:
h.1.3.1
Length = 63
Score = 28.5 bits (64), Expect = 0.99
Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 7/66 (10%)
Query: 246 LRKQLKKLQNRYLPREYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEEL 305
++K K QN+ Y E E E KE E++ L ++ L +E+
Sbjct: 1 MKKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEA----LKERADSLA---KEI 53
Query: 306 LHLKPL 311
+LK L
Sbjct: 54 QYLKDL 59
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 9.00A {Bos
taurus}
Length = 205
Score = 31.0 bits (69), Expect = 1.1
Identities = 8/38 (21%), Positives = 18/38 (47%), Gaps = 6/38 (15%)
Query: 267 EREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEE 304
+ +++ + K E+E R+ K +DLE+ +
Sbjct: 110 RKRLQELDAASKVMEQEWREKAK------KDLEEWNQR 141
>1ytz_I Troponin I; muscle, THIN filament, actin binding, calcium,
contractIle protein; HET: DR6; 3.00A {Gallus gallus}
SCOP: h.1.25.2 PDB: 2w49_2 2w4u_2 1yv0_I 1vdi_A 1vdj_A
Length = 182
Score = 30.7 bits (69), Expect = 1.1
Identities = 15/64 (23%), Positives = 27/64 (42%), Gaps = 15/64 (23%)
Query: 247 RKQLKKLQNRYLPREYMLH-----LEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQI 301
R+ LK ML +E+E KE E K+ E L + ++L+++
Sbjct: 14 RQHLKSA---------MLQLAVTEIEKEAAAKEVE-KQNYLAEHSPPLSLPGSMQELQEL 63
Query: 302 YEEL 305
++L
Sbjct: 64 SKKL 67
>1z23_A CRK-associated substrate; four-helix bundle, cell adhesion; NMR
{Rattus norvegicus}
Length = 163
Score = 30.3 bits (68), Expect = 1.3
Identities = 17/88 (19%), Positives = 31/88 (35%), Gaps = 11/88 (12%)
Query: 180 LEEGVIYHVNGEQAFRDKCILYNFWQDKEGSSSQATAQDIAEAEEHLEEAL--------- 230
L++GV V W+ + QD+ A + A+
Sbjct: 19 LQQGVSTTVAHLLDLVGSASGPGGWRS-TSEPQEPPVQDLKAAVAAVHGAVHELLEFARS 77
Query: 231 -LALARRAPDAILRYILRKQLKKLQNRY 257
++ A D L L +QL+K+++ Y
Sbjct: 78 AVSSATHTSDRTLHAKLSRQLQKMEDVY 105
>3vp5_A Transcriptional regulator; heme, sensor protein, TETR superf
transcription; HET: HEM; 1.90A {Lactococcus lactis} PDB:
3vox_A 3vok_A*
Length = 189
Score = 30.4 bits (68), Expect = 1.3
Identities = 13/99 (13%), Positives = 34/99 (34%)
Query: 200 LYNFWQDKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLP 259
Y +++D + + +Q+ E + L + +Y+L + L L
Sbjct: 49 FYQYFEDLKDAYFYVLSQETLEIHDLFFNLLKDNSIEESLDKYKYLLLENLIDSPQYKLY 108
Query: 260 REYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDL 298
+ L E+E + + + P+ + + +
Sbjct: 109 KYRFLDWTYELERDWKPQSSATVPASENDNPISQVLKSV 147
>2gyq_A YCFI, putative structural protein; structural genomics, APC6105,
iron-binding, PSI, protein STR initiative; 1.40A
{Rhodopseudomonas palustris} SCOP: a.25.1.4
Length = 173
Score = 30.3 bits (68), Expect = 1.3
Identities = 10/35 (28%), Positives = 18/35 (51%)
Query: 217 QDIAEAEEHLEEALLALARRAPDAILRYILRKQLK 251
+DI AE+ + +AL + +A + L L L+
Sbjct: 22 RDIYYAEQQITKALPKMIEQATNRDLSQGLTSHLE 56
>3lkd_A Type I restriction-modification system methyltransferase subunit;
Q5M500_STRT2, STU0711, NESG, SUR80, structural genomics,
PSI-2; 2.25A {Streptococcus thermophilus}
Length = 542
Score = 31.1 bits (71), Expect = 1.6
Identities = 17/113 (15%), Positives = 41/113 (36%), Gaps = 16/113 (14%)
Query: 201 YNFWQDKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLPR 260
Y +D + + A+ ++I E + +L I RY+ + ++++
Sbjct: 444 YKSREDIDKFAHLASFEEIVENDYNL-------------NIPRYVDTFEEEEVEP---LT 487
Query: 261 EYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEELLHLKPLHH 313
E + + + E + + Q+ E+L+ + L+ HH
Sbjct: 488 EIVAKINQTNATIESQTASLLDMLGQLHGTTPEADEELKAFVKAFKGLEHHHH 540
>2pms_C Pneumococcal surface protein A (PSPA); lactoferrin, protein-protein
metal transport, hydrolase; HET: NAG; 2.91A
{Streptococcus pneumoniae} SCOP: h.4.19.1
Length = 125
Score = 29.4 bits (65), Expect = 1.6
Identities = 13/63 (20%), Positives = 25/63 (39%), Gaps = 3/63 (4%)
Query: 266 LEREIEDKEEEEKE---EEEEERQIGKPLDRTSEDLEQIYEELLHLKPLHHLSNSVRREL 322
LE+E+++ +E E E +E + LD L ++ E + L + +L
Sbjct: 25 LEQELKEIDESESEDYAKEGFRAPLQSKLDAKKAKLSKLEELSDKIDELDAEIAKLEDQL 84
Query: 323 AGV 325
Sbjct: 85 KAA 87
Score = 29.4 bits (65), Expect = 1.9
Identities = 11/59 (18%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 248 KQLKKLQNRYLPREYMLH-LEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEEL 305
+L++L ++ + + LE +++ EE E+ + + K + +LE+ +L
Sbjct: 61 SKLEELSDKIDELDAEIAKLEDQLKAAEENNNVEDYFKEGLEKTIAAKKAELEKTEADL 119
>1pyi_A Protein (pyrimidine pathway regulator 1); protein-DNA complex,
transcription/DNA complex, GAL4, zinc finger, Zn2Cys6,
binuclear cluster; HET: DNA; 3.20A {Saccharomyces
cerevisiae} SCOP: g.38.1.1 h.1.3.1
Length = 96
Score = 28.8 bits (64), Expect = 1.8
Identities = 11/46 (23%), Positives = 19/46 (41%)
Query: 252 KLQNRYLPREYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSED 297
+ +PR Y+ LE + KE + +I + TS+D
Sbjct: 39 PATGKDVPRSYVFFLEDRLAVMMRVLKEYGVDPTKIRGNIPATSDD 84
>3s9g_A Protein hexim1; cyclin T-binding domain (TBD), cyclin T1/P-TEFB/7SK
snRNA, N transcription; 2.10A {Homo sapiens} PDB: 2gd7_A
Length = 104
Score = 29.0 bits (64), Expect = 1.9
Identities = 17/66 (25%), Positives = 30/66 (45%), Gaps = 4/66 (6%)
Query: 247 RKQLKKLQNRY---LPREYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYE 303
R + LQN L +EY L LE+ + E+E E +++ + +L+++
Sbjct: 21 RYHTESLQNMSKQELIKEY-LELEKSLSRMEDENNRLRLESKRLDARVRELELELDRLRA 79
Query: 304 ELLHLK 309
E L L
Sbjct: 80 ENLQLL 85
>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon,
coiled post-transcriptional, gene regulation, chaperone;
HET: EPE; 2.20A {Helicobacter pylori}
Length = 256
Score = 30.1 bits (67), Expect = 2.1
Identities = 16/101 (15%), Positives = 36/101 (35%), Gaps = 9/101 (8%)
Query: 217 QDIAEAEEHLEEALLALARRAPD-AILRYILRKQLKKLQNRYLPREYMLHLEREIEDKEE 275
+ I EE L +++ + KK+ RE L E + +E
Sbjct: 46 KAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEIKSEREL-RSLNIEEDIAKE 104
Query: 276 E----EKEEEEEERQI---GKPLDRTSEDLEQIYEELLHLK 309
+E E + +I + + +++ ++ + L L+
Sbjct: 105 RSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALELE 145
>2v0p_A TAP42, type 2A phosphatase-associated protein 42; phosphorylation,
signal transduction inhibitor, hydrolase in; 1.80A
{Saccharomyces cerevisiae}
Length = 234
Score = 30.2 bits (67), Expect = 2.2
Identities = 14/107 (13%), Positives = 34/107 (31%), Gaps = 15/107 (14%)
Query: 204 WQDKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLPREYM 263
+ A+ + L + + I + K++ +
Sbjct: 130 EKLGNFKDRYNPQLSELYAQPKNNKDLSGAQLKRKEKIELFQRNKEIS---------TKL 180
Query: 264 LHLEREIEDKEEEEKEEEEEER-----QIGKPLDRTSEDLEQIYEEL 305
LE E+++ +E+ + +E R ++ T ++EQ E
Sbjct: 181 HCLELELKNNDEDH-DHDELLRELYLMRLHHFSLDTINNIEQNLFEC 226
>3iyk_A VP5; icosahedral virus; HET: MNA; 7.00A {Bluetongue virus}
Length = 526
Score = 30.3 bits (68), Expect = 2.2
Identities = 7/40 (17%), Positives = 24/40 (60%)
Query: 266 LEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEEL 305
++ ++++ E+E++ E + K ++ ++LE++Y +
Sbjct: 95 IQAKLKELEDEQRNELVRLKYNDKIKEKFGKELEEVYNFM 134
>1z68_A Fibroblast activation protein, alpha subunit; seprase, fibroblast
activation protein alpha,fapalpha,
dipeptidylpeptidase,S9B; HET: NAG NDG; 2.60A {Homo
sapiens}
Length = 719
Score = 30.6 bits (69), Expect = 2.5
Identities = 13/55 (23%), Positives = 23/55 (41%), Gaps = 2/55 (3%)
Query: 96 RQITTGMWQALLEEGVIYHGKISCFFFSETETIPMERIYYSLYSGGRTIARRCAS 150
QIT+G W+A+ + +E E P R Y + G +++C +
Sbjct: 350 IQITSGKWEAI--NIFRVTQDSLFYSSNEFEEYPGRRNIYRISIGSYPPSKKCVT 402
>2gs4_A Protein YCIF; stress proteins, rubrerythrin, metal binding protein;
2.00A {Escherichia coli} SCOP: a.25.1.4
Length = 166
Score = 29.2 bits (65), Expect = 2.7
Identities = 11/35 (31%), Positives = 14/35 (40%)
Query: 217 QDIAEAEEHLEEALLALARRAPDAILRYILRKQLK 251
D AE+ L AL LAR + L L+
Sbjct: 15 SDTYSAEKQLTRALAKLARATSNEKLSQAFHAHLE 49
>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 = 30.2 bits (69), Expect = 2.8
Identities = 6/32 (18%), Positives = 10/32 (31%), Gaps = 5/32 (15%)
Query: 299 EQIYEELLHLKPLHHLSNSVRRELAGVVMFEA 330
+ + L K H SN L ++
Sbjct: 90 GLMIKTLKSGKNGEHASN-----LGAIIAHRF 116
>3s99_A Basic membrane lipoprotein; ssgcid, structural genomics, SEA
structural genomics center for infectious disease,
adenine; HET: ADE; 2.05A {Brucella melitensis biovar
abortus}
Length = 356
Score = 30.1 bits (68), Expect = 2.8
Identities = 12/51 (23%), Positives = 19/51 (37%), Gaps = 7/51 (13%)
Query: 351 IIQGSVDVVIYGKGCVTSLYAGEDFGKLALVNN------APRLIITSMVFH 395
I QG VD++ ++ D G A AP +T++V
Sbjct: 205 IDQG-VDIITQHTDSTAAIQVAHDRGIKAFGQASDMIKFAPDTQLTAVVDE 254
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 29.9 bits (67), Expect = 3.1
Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 3/53 (5%)
Query: 235 RRAPDA-ILRYILRKQLKKLQNRYLPREYMLHLEREI--EDKEEEEKEEEEEE 284
R +A +L YI +L ++ + L + E + E +K +E +E
Sbjct: 470 RHCTNAYMLVYIRESKLSEVLQAVTDHDIPQQLVERLQEEKRIEAQKRKERQE 522
>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET:
MSE; 2.33A {Homo sapiens}
Length = 168
Score = 28.9 bits (64), Expect = 3.4
Identities = 10/51 (19%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 258 LPREYMLHLEREIEDKEEEEKEEEEEE---RQIGKPLDRTSEDLEQIYEEL 305
L E + L++++E+ + + E + R+ + ++ LE + EL
Sbjct: 3 LANEKLSQLQKQLEEANDLLRTESDTAVRLRKSHTEMSKSISQLESLNREL 53
>4f61_I Stathmin-like domain R4; alpha-tubulin, beta-tubulin, GTPase,
microtubule, RB3, stath tubulin, cell cycle; HET: GTP
GDP; 4.17A {Artificial gene}
Length = 240
Score = 29.5 bits (65), Expect = 3.6
Identities = 16/95 (16%), Positives = 34/95 (35%), Gaps = 6/95 (6%)
Query: 213 QATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLPREYMLHLEREIED 272
A + + E ++H EE R+ ++ +KL + + +
Sbjct: 114 AAMLERLQEKDKHAEEV-----RQRAIEENNNWIKMAKEKLAQKMESNKENRKYQEAELL 168
Query: 273 KEEEEKEEEEEERQIGKPLDRTSEDLEQIYEELLH 307
K EK E E E + ++ + ++ E+L
Sbjct: 169 KHLAEKREHEREVI-QRAIEENNNWIKMAKEKLAQ 202
>3hjc_A Heat shock protein 83-1; sleeping sickness, structura genomics,
stress response protein, chaperone, structural GE
consortium, SGC; 2.50A {Leishmania major}
Length = 444
Score = 29.6 bits (67), Expect = 3.8
Identities = 12/57 (21%), Positives = 17/57 (29%), Gaps = 8/57 (14%)
Query: 270 IEDKEEEEKEEEEEERQIGKPL------DRTSEDLEQIYEELLH--LKPLHHLSNSV 318
+ E Q KPL D T E+ Y+ + + P SV
Sbjct: 1 MHHHHHHSSGRENLYFQGHKPLWTRDPKDVTKEEYAAFYKAISNDWEDPAATKHFSV 57
>3qc1_A Immunoglobulin-binding protein 1; PP2A, signaling protein; 2.35A
{Mus musculus}
Length = 243
Score = 29.3 bits (65), Expect = 4.1
Identities = 23/144 (15%), Positives = 56/144 (38%), Gaps = 22/144 (15%)
Query: 167 VSRQITTGMWQALLEEGVIYHVNGEQAFRDKCILYNFWQDKEGSSSQATAQDIAEAEEHL 226
+Q+ L+ + V+ F +C Y+ + + + +A++ +
Sbjct: 110 TMKQVNPSKRLDHLQRAREHFVH----FLTQCHCYHVAEFQLPQTKTNSAENNTASSSMA 165
Query: 227 EEALLALARRAPDAILRYILRKQLKKLQNRYLPREYMLHLEREIEDKEEEEKEEEEEER- 285
L+A+A + I RY +K+++ H ++ E + ++E R
Sbjct: 166 YPNLVAMASQRQAKIERYKQKKEVE-------------HRLSALKSAVESGQADDERVRE 212
Query: 286 ----QIGKPLDRTSEDLEQIYEEL 305
+ + + + E+LE I +E+
Sbjct: 213 YHLLHLRRWIAVSLEELESIDQEI 236
>4a5s_A Dipeptidyl peptidase 4 soluble form; hydrolase, type 2 diabetes,
novartis compound NVP-BIV988; HET: N7F NAG MAN; 1.62A
{Homo sapiens} PDB: 2qjr_A* 3f8s_A* 2qt9_A* 2qtb_A*
2rip_A* 1tk3_A* 1n1m_A* 1nu8_A* 1rwq_A* 1nu6_A* 1tkr_A*
1w1i_A* 2ajl_I* 2bgn_A* 2bub_A* 2ogz_A* 2ole_A* 2oqi_A*
3bjm_A* 3eio_A* ...
Length = 740
Score = 29.8 bits (67), Expect = 4.1
Identities = 9/41 (21%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 96 RQITTGMWQALLEEGVIYHGKISCFFFSETETIPMERIYYS 136
IT G W+ + E + + +E + +P R Y
Sbjct: 357 TFITKGTWEVIGIEALTSDYLY--YISNEYKGMPGGRNLYK 395
>2l81_A Enhancer of filamentation 1; structural genomics, northeast
structural genomics consortiu PSI-2, protein structure
initiative, cell adhesion; NMR {Homo sapiens}
Length = 176
Score = 28.7 bits (64), Expect = 4.2
Identities = 11/64 (17%), Positives = 28/64 (43%), Gaps = 12/64 (18%)
Query: 204 WQDKEGSSSQATAQDIAEAEEHLEEAL----------LALARRAPDAILRYILRKQLKKL 253
W+ + +I A + +E L +A A P+ IL ++++L+++
Sbjct: 48 WRCYG--YMERHINEIRTAVDKVELFLKEYLHFVKGAVANAACLPELILHNKMKRELQRV 105
Query: 254 QNRY 257
++ +
Sbjct: 106 EDSH 109
>1lfw_A PEPV; hydrolase, dipeptidase; HET: AEP; 1.80A {Bacteria} SCOP:
c.56.5.4 d.58.19.1
Length = 470
Score = 29.5 bits (66), Expect = 4.2
Identities = 15/94 (15%), Positives = 31/94 (32%), Gaps = 5/94 (5%)
Query: 256 RYLPREYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSE---DLEQIYEELLHLKPLH 312
RY + +++ DK + + + + L ++YE+
Sbjct: 350 RYPQGTDPDTMIKQVLDKFSGILDVTYNGFEEPHYVPGSDPMVQTLLKVYEKQTGKPGHE 409
Query: 313 HLSN--SVRRELAGVVMFEAHPRKGEILFHQGDE 344
+ + R V F A P G ++ H +E
Sbjct: 410 VVIGGGTYGRLFERGVAFGAQPENGPMVMHAANE 443
>1y63_A LMAJ004144AAA protein; structural genomics, protein structure
initiative, PSI, SGPP structural genomics of pathogenic
protozoa consortium; HET: ADP; 1.70A {Leishmania major}
SCOP: c.37.1.1
Length = 184
Score = 28.9 bits (64), Expect = 4.5
Identities = 22/138 (15%), Positives = 46/138 (33%), Gaps = 18/138 (13%)
Query: 185 IYHVNGEQAFRDKCILYNFWQDKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRY 244
H+ + ++ + D E + +D + +E +++ D
Sbjct: 37 FQHLEVGKLVKENHFYTEY--DTELDTHIIEEKDEDRLLDFMEPIMVSRGNHVVDYHSSE 94
Query: 245 I-----------LRKQLKKLQNRYLPREYML-----HLEREIEDKEEEEKEEEEEERQIG 288
+ L + L R R+Y ++E EI+ EEE + E+ +
Sbjct: 95 LFPERWFHMVVVLHTSTEVLFERLTKRQYSEAKRAENMEAEIQCICEEEARDAYEDDIVL 154
Query: 289 KPLDRTSEDLEQIYEELL 306
+ T E + EE+
Sbjct: 155 VRENDTLEQMAATVEEIR 172
>3dee_A Putative regulatory protein; structural genomics, joint CENT
structural genomics, JCSG, protein structure initiative;
2.10A {Neisseria gonorrhoeae fa 1090}
Length = 249
Score = 29.1 bits (65), Expect = 4.8
Identities = 9/44 (20%), Positives = 15/44 (34%)
Query: 76 ASGSELVDWLMSLAPSLAVSRQITTGMWQALLEEGVIYHGKISC 119
S L L+ P + I G W +E+ +I +
Sbjct: 190 LSFDTLAQTLVEFMPKADNWKNILLGKWSGWIEQRIIIPSLSAI 233
Score = 28.8 bits (64), Expect = 5.6
Identities = 9/39 (23%), Positives = 14/39 (35%)
Query: 149 ASGSELVDWLMSLAPSLAVSRQITTGMWQALLEEGVIYH 187
S L L+ P + I G W +E+ +I
Sbjct: 190 LSFDTLAQTLVEFMPKADNWKNILLGKWSGWIEQRIIIP 228
>1nb8_A Ubiquitin carboxyl-terminal hydrolase 7; UBP, deubiquitination,
hausp, P53 binding; 2.30A {Homo sapiens} SCOP: d.3.1.9
PDB: 1nbf_A
Length = 353
Score = 29.1 bits (65), Expect = 4.8
Identities = 12/53 (22%), Positives = 23/53 (43%), Gaps = 3/53 (5%)
Query: 235 RRAPDA-ILRYILRKQLKKLQNRYLPREYMLHLEREI--EDKEEEEKEEEEEE 284
R +A +L YI +L ++ + L + E + E +K +E +E
Sbjct: 301 RHCTNAYMLVYIRESKLSEVLQAVTDHDIPQQLVERLQEEKRIEAQKRKERQE 353
>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP
hydrolysis, GDP, GMP, dynamin related, large GTPase
family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens}
SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A*
2bc9_A* 2d4h_A*
Length = 592
Score = 29.5 bits (65), Expect = 4.9
Identities = 16/118 (13%), Positives = 41/118 (34%), Gaps = 8/118 (6%)
Query: 191 EQAFRDKCILYNFWQDKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQL 250
+ IL E + AE+ + + L + R+ ++ ++
Sbjct: 467 SKESMTDAILQTDQTLTEKEKEIEVERVKAESAQASAKMLHEMQRK-----NEQMMEQKE 521
Query: 251 KKLQNRYLPREYMLHLEREIEDKEEEEKEE---EEEERQIGKPLDRTSEDLEQIYEEL 305
+ Q + +R KE+E +E+E+ + + + S ++ ++L
Sbjct: 522 RSYQEHLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKEGFQKESRIMKNEIQDL 579
>2e3d_A UTP--glucose-1-phosphate uridylyltransferase; UDP-glucose,
carbohydrate, pyrophosphorylase; 1.95A {Escherichia
coli}
Length = 302
Score = 29.0 bits (66), Expect = 5.0
Identities = 12/25 (48%), Positives = 14/25 (56%), Gaps = 7/25 (28%)
Query: 493 IQYWV-------ITEILLVTSLNKR 510
IQY V ITEI+LVT +K
Sbjct: 42 IQYVVNECIAAGITEIVLVTHSSKN 66
>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition,
kinase-INH complex, rubredoxin fold, TPR domain,
transferase; HET: AXX; 2.40A {Mycobacterium
tuberculosis}
Length = 681
Score = 29.4 bits (66), Expect = 5.1
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 226 LEEALLALARRAPDAILRYIL 246
+E +L +LAR AP RY L
Sbjct: 648 VEASLRSLARVAPTQRHRYTL 668
>3bni_A Putative TETR-family transcriptional regulator; structural
genomics, APC7281; HET: PG4; 2.30A {Streptomyces
coelicolor A3}
Length = 229
Score = 28.7 bits (64), Expect = 5.4
Identities = 11/88 (12%), Positives = 28/88 (31%), Gaps = 2/88 (2%)
Query: 200 LYNFWQDKEGSSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLP 259
+Y F+ +K + +++ E + E L L +L + L + P
Sbjct: 80 VYRFFGNKRQMADALAQRNLERYAERVTERLTEAGDGGWRGALDTVLDEYLAMKRTA--P 137
Query: 260 REYMLHLEREIEDKEEEEKEEEEEERQI 287
++ +I + ++
Sbjct: 138 GFSLIDFGNQIPVGDRHAVPNHRVAERL 165
>1s7o_A Hypothetical UPF0122 protein
SPY1201/SPYM3_0842/SPS1042/SPYM18_1152; putative DNA
binding protein, structural genomics; 2.31A
{Streptococcus pyogenes serotype M3} SCOP: a.4.13.3
Length = 113
Score = 27.5 bits (61), Expect = 5.6
Identities = 15/74 (20%), Positives = 25/74 (33%), Gaps = 8/74 (10%)
Query: 206 DKEGSSSQATAQDIAEAEEHLE--EALLALARRAPDAILRYILRKQLKKLQNRYLPREYM 263
D+ G S QA +I E+ LE E L + + + + Y EY+
Sbjct: 46 DEFGVSRQAVYDNIKRTEKILETYEMKLHMYSD------YVVRSEIFDDMIAHYPHDEYL 99
Query: 264 LHLEREIEDKEEEE 277
+ + E
Sbjct: 100 QEKISILTSIDNRE 113
>1nv8_A HEMK protein; class I adoMet-dependent methyltransferase; HET: SAM
MEQ; 2.20A {Thermotoga maritima} SCOP: c.66.1.30 PDB:
1nv9_A* 1vq1_A* 1sg9_A*
Length = 284
Score = 29.0 bits (66), Expect = 5.7
Identities = 14/81 (17%), Positives = 27/81 (33%), Gaps = 11/81 (13%)
Query: 213 QATAQDIAEAEEHLEEALLALARRAPDAIL--RYILRKQLKKLQNRYLPREYMLHLEREI 270
+ I + + L ++L I+ + L +E + + +
Sbjct: 10 SGAERKIWSL---IRDCSGKLEGVTETSVLEVLLIVSRVLGI------RKEDLFLKDLGV 60
Query: 271 EDKEEEEKEEEEEERQIGKPL 291
EE+ E E+R G PL
Sbjct: 61 SPTEEKRILELVEKRASGYPL 81
>3cdl_A Transcriptional regulator AEFR; APC88582, TETR, pseudomonas
syringae PV. tomato STR. DC3000, structural genomics,
PSI-2; HET: MSE; 2.36A {Pseudomonas syringae PV}
Length = 203
Score = 28.4 bits (64), Expect = 6.0
Identities = 10/58 (17%), Positives = 19/58 (32%), Gaps = 14/58 (24%)
Query: 200 LYNFWQDKEG----------SSSQATAQDIAEAEEHLEEALLALARRAPDAILRYILR 247
+YN + KE + + ++ + L E LL L +R +
Sbjct: 46 VYNHFPSKEELFAEMLQRLWNCAPPQSEVVYRPLVSLREQLLELLWG----KMRNLTD 99
>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein,
nuclear protein, neurogenesis, cytosk LIS1 binding,
differentiation; 2.24A {Rattus norvegicus}
Length = 189
Score = 28.5 bits (63), Expect = 6.2
Identities = 12/60 (20%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 246 LRKQLKKLQNRYLPREYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEEL 305
R +L + Q RE LE ++ E+ ++ + + +++ ++ E LE Y +
Sbjct: 29 ARDELVEFQEGS--RELEAELEAQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQYAQS 86
>2ux8_A Glucose-1-phosphate uridylyltransferase; UGPG, GALU
pyrophosphorylase, nucleotidyltransferase; HET: G1P;
2.65A {Sphingomonas elodea}
Length = 297
Score = 28.6 bits (65), Expect = 6.2
Identities = 8/25 (32%), Positives = 11/25 (44%), Gaps = 7/25 (28%)
Query: 493 IQYWV-------ITEILLVTSLNKR 510
IQY V I +++ VT K
Sbjct: 48 IQYAVDEAVEAGIEQMIFVTGRGKS 72
>3ix1_A N-formyl-4-amino-5-aminomethyl-2-methylpyrimidine protein;
periplasmic
N-formyl-4-amino-5-aminomethyl-2-methylpyrimidin
protein; HET: NFM; 2.40A {Bacillus halodurans c-125}
Length = 302
Score = 28.9 bits (65), Expect = 6.4
Identities = 8/52 (15%), Positives = 19/52 (36%), Gaps = 3/52 (5%)
Query: 213 QATAQDIAEAEEHLEEALLALARRAPD---AILRYILRKQLKKLQNRYLPRE 261
+A + E+ +EAL L + +++ + + L L +
Sbjct: 212 RAALKGYEWMVENPDEALNVLLTNQDEANFPLIQEVEEESLSILLEKMENPN 263
>3ck6_A Putative membrane transport protein; APC91421.1, ZNTB, cytoplasmic
domain, PSI-2, protein structure initiative; HET: MSE;
1.90A {Vibrio parahaemolyticus rimd 2210633} PDB:
3bhc_A*
Length = 252
Score = 28.4 bits (63), Expect = 6.9
Identities = 11/86 (12%), Positives = 23/86 (26%), Gaps = 4/86 (4%)
Query: 219 IAEAEEHLEEALLALARRAPDAILRYILRKQLKKLQNRYLP-REYMLHLEREIEDKEEEE 277
I + +EE L +K L ++ P + + L +
Sbjct: 149 IDLYLDTIEETLNEFDVNDESTYNHIAAQKALISIKRFIRPQQYAIRDLIESESELVTSR 208
Query: 278 KEEEEEERQIGKPLDRTSEDLEQIYE 303
+ + R +E +E
Sbjct: 209 PHQYRFAHNN---ITRINETIEFYLG 231
>1j1d_C Troponin I, TNI; THIN filament, muscle regulation, Ca2+ binding
protein, EF- hand, coiled-coil, contractIle protein;
2.61A {Homo sapiens} SCOP: h.1.25.2
Length = 133
Score = 27.6 bits (61), Expect = 7.0
Identities = 16/65 (24%), Positives = 23/65 (35%), Gaps = 16/65 (24%)
Query: 247 RKQLKKLQNRYLPREYMLH-----LEREIEDKEEEEKEEEEEERQIGKPLDRTSED-LEQ 300
+ QLK L +L LERE E++ EK R L L+
Sbjct: 16 KLQLKTL---------LLQIAKQELEREAEER-RGEKGRALSTRAQPLELAGLGFAELQD 65
Query: 301 IYEEL 305
+ +L
Sbjct: 66 LARQL 70
>3juk_A UDP-glucose pyrophosphorylase (GALU); transfer; HET: UPG; 2.30A
{Helicobacter pylori} PDB: 3juj_A*
Length = 281
Score = 28.6 bits (65), Expect = 7.1
Identities = 9/25 (36%), Positives = 11/25 (44%), Gaps = 7/25 (28%)
Query: 493 IQYWV-------ITEILLVTSLNKR 510
IQY V + +VT NKR
Sbjct: 36 IQYAVEEAMEAGCEVMAIVTGRNKR 60
>2pa4_A UTP-glucose-1-phosphate uridylyltransferase; phosphorylase,
nucleotidyltransferase, metabolism; HET: GUD; 2.00A
{Corynebacterium glutamicum atcc 13032}
Length = 323
Score = 28.7 bits (65), Expect = 7.2
Identities = 5/25 (20%), Positives = 10/25 (40%), Gaps = 7/25 (28%)
Query: 493 IQYWV-------ITEILLVTSLNKR 510
I+ T + ++T+ NK
Sbjct: 46 IELIAAEAAELGATRLAIITAPNKA 70
>1dkg_A Nucleotide exchange factor GRPE; HSP70, GRPE, nucleotide exchange
factor, coiled-coil, complex (HSP24/HSP70); 2.80A
{Escherichia coli} SCOP: b.73.1.1 h.1.9.1
Length = 197
Score = 28.1 bits (63), Expect = 7.3
Identities = 11/40 (27%), Positives = 15/40 (37%)
Query: 267 EREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEELL 306
E ++ EE E E E + P D +LE E
Sbjct: 16 EIIMDQHEEIEAVEPEASAEQVDPRDEKVANLEAQLAEAQ 55
>1j1e_C Troponin I, TNI; THIN filament, muscle regulation, Ca2+ binding
protein, EF- hand, coiled-coil, contractIle protein;
3.30A {Homo sapiens} SCOP: h.1.25.2
Length = 180
Score = 28.0 bits (62), Expect = 8.1
Identities = 16/65 (24%), Positives = 23/65 (35%), Gaps = 16/65 (24%)
Query: 247 RKQLKKLQNRYLPREYMLH-----LEREIEDKEEEEKEEEEEERQIGKPLDRTSED-LEQ 300
+ QLK L +L LERE E++ EK R L L+
Sbjct: 16 KLQLKTL---------LLQIAKQELEREAEER-RGEKGRALSTRAQPLELAGLGFAELQD 65
Query: 301 IYEEL 305
+ +L
Sbjct: 66 LARQL 70
>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral
twinning, leucine-rich repeat protein, LRR, merohedral
twinning; 2.2A {Schizosaccharomyces pombe} SCOP:
c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A
Length = 386
Score = 28.5 bits (64), Expect = 8.1
Identities = 13/55 (23%), Positives = 25/55 (45%)
Query: 251 KKLQNRYLPREYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEEL 305
+ R L E+ D+EEE++EEE E + ++ +++ +EL
Sbjct: 327 EVFSTRGRGELDELDDMEELTDEEEEDEEEEAESQSPEPETSEEEKEDKELADEL 381
>1rq0_A RF-1, peptide chain release factor 1; X-RAY, crystal, peptide
release factor 1, ribosome, structural genomics, BSGC
structure funded by NIH; 2.65A {Thermotoga maritima}
SCOP: e.38.1.1 PDB: 2fvo_A
Length = 342
Score = 28.3 bits (64), Expect = 8.3
Identities = 14/63 (22%), Positives = 30/63 (47%), Gaps = 11/63 (17%)
Query: 247 RKQLKKLQNRYLPREYMLHLEREIEDKEEEEKEEEEEERQIGKPLDRTSEDLEQIYEELL 306
++++++N + IE EE + E E +++ ++L+Q+Y+ELL
Sbjct: 29 YAKIEEIENIT--NRI-KETQEFIELLREEGENELE--------IEKYEKELDQLYQELL 77
Query: 307 HLK 309
L
Sbjct: 78 FLL 80
>3cwr_A Transcriptional regulator, TETR family; YP_425770.1,
transcriptional regulator of TETR family, bacterial
regulatory proteins; 1.50A {Rhodospirillum rubrum atcc
11170}
Length = 208
Score = 28.1 bits (63), Expect = 8.5
Identities = 8/51 (15%), Positives = 12/51 (23%), Gaps = 7/51 (13%)
Query: 200 LYNFWQDKEG-------SSSQATAQDIAEAEEHLEEALLALARRAPDAILR 243
LY F + S + AL + A+L
Sbjct: 54 LYRFASGRADLIGLLVESWIAPIFPGFEADPQDAAAALERIVYDIAQAVLS 104
>1ni5_A Putative cell cycle protein MESJ; structural genomics, ATPase,
PP-type, putative cell cycle PR PSI, protein structure
initiative; 2.65A {Escherichia coli} SCOP: b.153.1.2
c.26.2.5 d.229.1.1
Length = 433
Score = 28.5 bits (64), Expect = 9.4
Identities = 14/73 (19%), Positives = 24/73 (32%), Gaps = 15/73 (20%)
Query: 213 QATAQDIAEAEEHLEEALLALARRA---------------PDAILRYILRKQLKKLQNRY 257
+A AE E L+E L DA I+R+ L
Sbjct: 211 ARSAALCAEQESLLDELLADDLAHCQSPQGTLQIVPMLAMSDARRAAIIRRWLAGQNAPM 270
Query: 258 LPREYMLHLEREI 270
R+ ++ + +E+
Sbjct: 271 PSRDALVRIWQEV 283
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.321 0.135 0.398
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: 11,134,323
Number of extensions: 710320
Number of successful extensions: 2895
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2654
Number of HSP's successfully gapped: 275
Length of query: 714
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 614
Effective length of database: 3,909,693
Effective search space: 2400551502
Effective search space used: 2400551502
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: 61 (27.3 bits)