RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780424|ref|YP_003064837.1| transcriptional regulator
protein [Candidatus Liberibacter asiaticus str. psy62]
(144 letters)
>3eus_A DNA-binding protein; structural genomics, PSI2,MCSG,
protein structure initiative, midwest center for
structural genomics; 1.80A {Silicibacter pomeroyi} (A:)
Length = 86
Score = 64.4 bits (157), Expect = 6e-12
Identities = 15/71 (21%), Positives = 24/71 (33%)
Query: 4 NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
K + P + + +R+R R+ G++Q L E L V K E R+
Sbjct: 4 TKTLRTPEHVYLCQRLRQARLDAGLTQADLAERLDKPQSFVAKVETRERRLDVIEFAKWM 63
Query: 64 EVLESPISFFF 74
E
Sbjct: 64 AACEGLDVVSE 74
>3f6w_A XRE-family like protein; helix-turn-helix, DNA binding
protein, xenobiotic response element family of
transcriptional regulators; HET: MSE BTB; 1.85A
{Pseudomonas syringae PV} (A:)
Length = 83
Score = 64.0 bits (156), Expect = 8e-12
Identities = 13/71 (18%), Positives = 22/71 (30%)
Query: 5 KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
K I N + + R G++Q++L LG V K E R+
Sbjct: 5 KTIHNARYQALLDLLLEARSAAGITQKELAARLGRPQSFVSKTENAERRLDVIEFXDFCR 64
Query: 65 VLESPISFFFD 75
+ +
Sbjct: 65 GIGTDPYALLS 75
>2p5t_A Putative transcriptional regulator PEZA; postsegregational
killing system, phosphoryltransferase, helix-turn-helix
motif, transcription regulator; 3.20A {Streptococcus
pneumoniae TIGR4} (A:)
Length = 158
Score = 62.9 bits (152), Expect = 2e-11
Identities = 20/125 (16%), Positives = 40/125 (32%), Gaps = 1/125 (0%)
Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
+GK I+ R ++Q + +GI+ + +YE G + V + I +
Sbjct: 2 IGKNIKSLRKTHDLTQLEFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVSYVDIV 61
Query: 75 DVSPTVCSDISSEENNVMDFISTPDGLQLNRYFIQIDDVKVRQKIIELVRSIVSSEKKYR 134
+ E ++ + G L + D + E I+ S+
Sbjct: 62 GEDKMLNPVEDYELTLKIEIVK-ERGANLLSRLYRYQDSQGISIDDESNPWILMSDDLSD 120
Query: 135 TIEEE 139
I
Sbjct: 121 LIHTN 125
>2jvl_A TRMBF1; coactivator, helix-turn-helix, protein binding,
transcription; NMR {Trichoderma reesei} (A:)
Length = 107
Score = 61.8 bits (150), Expect = 3e-11
Identities = 21/77 (27%), Positives = 30/77 (38%), Gaps = 2/77 (2%)
Query: 5 KKIPNPVDINVGKRIRLRRMIL--GMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHI 62
P V VGK I R M+Q +LG+ +G T V YE+G + L +
Sbjct: 25 IIKPKTVGKEVGKAIEQGRQKFEPTMTQAELGKEIGETAATVASYERGTATPDQNILSKM 84
Query: 63 SEVLESPISFFFDVSPT 79
VL + +P
Sbjct: 85 ERVLNVKLRGANIGAPR 101
>1y7y_A C.AHDI; helix-turn-helix, DNA-binding protein,
transcriptional regulator, transcription regulator;
1.69A {Aeromonas hydrophila} (A:)
Length = 74
Score = 61.7 bits (150), Expect = 3e-11
Identities = 16/71 (22%), Positives = 27/71 (38%)
Query: 4 NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
+ + G+R+R R G+SQE L G+ V E+G V + ++
Sbjct: 3 SHHDHYADLVKFGQRLRELRTAKGLSQETLAFLSGLDRSYVGGVERGQRNVSLVNILKLA 62
Query: 64 EVLESPISFFF 74
L+ F
Sbjct: 63 TALDIEPRELF 73
>3ivp_A Putative transposon-related DNA-binding protein; APC62618,
structural genomics, PSI-2, protein structure
initiative; HET: PG4; 2.02A {Clostridium difficile 630}
(A:1-73)
Length = 73
Score = 61.6 bits (150), Expect = 4e-11
Identities = 14/71 (19%), Positives = 29/71 (40%), Gaps = 1/71 (1%)
Query: 5 KKIPNPVDI-NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
+K + D +G I+ R G+++E++G + I + + E L +
Sbjct: 2 RKKEDKYDFRALGLAIKEARKKQGLTREQVGAXIEIDPRYLTNIENKGQHPSLQVLYDLV 61
Query: 64 EVLESPISFFF 74
+L + FF
Sbjct: 62 SLLNVSVDEFF 72
>2ef8_A C.ECOT38IS, putative transcription factor;
helix-turn-helix, DNA binding protein, transcription
regulator; HET: CME; 1.95A {Enterobacteria phage P2}
(A:)
Length = 84
Score = 61.3 bits (149), Expect = 5e-11
Identities = 16/72 (22%), Positives = 30/72 (41%)
Query: 7 IPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVL 66
I + + + + R +SQ +L LG++ + K E R+ A L + EV+
Sbjct: 3 IHDHRYRXLVQLLTKLRKEASLSQSELAIFLGLSQSDISKIESFERRLDALELFELLEVV 62
Query: 67 ESPISFFFDVSP 78
S + D+
Sbjct: 63 ASRLGLPMDILL 74
>1x57_A Endothelial differentiation-related factor 1; HMBF1alpha,
helix-turn-helix, structural genomics, NPPSFA; NMR
{Homo sapiens} (A:)
Length = 91
Score = 61.0 bits (148), Expect = 6e-11
Identities = 16/71 (22%), Positives = 26/71 (36%)
Query: 8 PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
+ V + VGK I+ R G++Q+ L + Q + YE G L I +
Sbjct: 7 GDRVTLEVGKVIQQGRQSKGLTQKDLATKINEKPQVIADYESGRAIPNNQVLGKIERAIG 66
Query: 68 SPISFFFDVSP 78
+ P
Sbjct: 67 LKLRGKDIGKP 77
>3clc_A Regulatory protein; protein-DNA complex, transcriptional
regulator, helix-turn- helix, DNA-bending, plasmid,
transcription regulator/DNA complex; 2.80A
{Enterobacter SP} (A:)
Length = 82
Score = 60.9 bits (148), Expect = 7e-11
Identities = 15/73 (20%), Positives = 29/73 (39%)
Query: 6 KIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEV 65
+ + + V I+ R+ GM+QE L + + E+ + L+ I +
Sbjct: 3 HMESFLLSKVSFVIKKIRLEKGMTQEDLAYKSNLDRTYISGIERNSRNLTIKSLELIMKG 62
Query: 66 LESPISFFFDVSP 78
LE FF++
Sbjct: 63 LEVSDVVFFEMLI 75
>3g5g_A Regulatory protein; transcriptional regulator,
helix-turn-helix, restriction- modification,
transcription regulator; 2.80A {Enterobacter SP} PDB:
3fya_A (A:)
Length = 99
Score = 60.3 bits (146), Expect = 1e-10
Identities = 15/74 (20%), Positives = 29/74 (39%)
Query: 5 KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
+ + + V I+ R+ GM+QE L + + E+ + L+ I +
Sbjct: 19 SHMESFLLSKVSFVIKKIRLEKGMTQEDLAYKSNLDRTYISGIERNSRNLTIKSLELIMK 78
Query: 65 VLESPISFFFDVSP 78
LE FF++
Sbjct: 79 GLEVSDVVFFEMLI 92
>1lmb_3 Protein (lambda repressor); protein-DNA complex, double
helix, transcription/DNA complex; HET: DNA; 1.80A
{Enterobacteria phage lambda} (3:)
Length = 92
Score = 59.5 bits (144), Expect = 2e-10
Identities = 14/75 (18%), Positives = 31/75 (41%), Gaps = 4/75 (5%)
Query: 5 KKIPNPVDI----NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
KK + + ++ LG+SQE + + +G+ V G+N + A
Sbjct: 4 KKPLTQEQLEDARRLKAIYEKKKNELGLSQESVADKMGMGQSGVGALFNGINALNAYNAA 63
Query: 61 HISEVLESPISFFFD 75
++++L+ + F
Sbjct: 64 LLAKILKVSVEEFSP 78
>2wiu_B HTH-type transcriptional regulator HIPB; transferase
transcription complex, bacterial persistence, serine
kinase, mercury derivative, SAD; 2.35A {Escherichia
coli} PDB: 3dnv_B* 3dnw_B* 3hzi_B* (B:)
Length = 88
Score = 59.2 bits (143), Expect = 2e-10
Identities = 16/88 (18%), Positives = 35/88 (39%), Gaps = 2/88 (2%)
Query: 1 MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQ 60
M+ +KI +P + ++L R G +Q +L + +GI + +E + +
Sbjct: 1 MMSFQKIYSPTQL--ANAMKLVRQQNGWTQSELAKKIGIKQATISNFENNPDNTTLTTFF 58
Query: 61 HISEVLESPISFFFDVSPTVCSDISSEE 88
I + LE ++ + + S
Sbjct: 59 KILQSLELSMTLCDAKNASPESTEQQNL 86
>1y9q_A Transcriptional regulator, HTH_3 family; transcriptional
regulaator, strucutral genomics, protein structure
initiative, PSI; 1.90A {Vibrio cholerae} (A:1-76)
Length = 76
Score = 59.0 bits (143), Expect = 3e-10
Identities = 14/68 (20%), Positives = 30/68 (44%)
Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPI 70
+ +++ R G+S + + G++ + + E+G + + L I+ LE+
Sbjct: 8 FKSQIANQLKNLRKSRGLSLDATAQLTGVSKAXLGQIERGESSPTIATLWKIASGLEASF 67
Query: 71 SFFFDVSP 78
S FF P
Sbjct: 68 SAFFANDP 75
>2b5a_A C.BCLI; helix-turn-helix motif, gene regulation; 1.54A
{Bacillus caldolyticus} (A:)
Length = 77
Score = 58.2 bits (141), Expect = 4e-10
Identities = 16/68 (23%), Positives = 30/68 (44%)
Query: 8 PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
+ G+ ++ R G+SQE+L + G+ + + E+G + + I L+
Sbjct: 4 EIEIKRKFGRTLKKIRTQKGVSQEELADLAGLHRTYISEVERGDRNISLINIHKICAALD 63
Query: 68 SPISFFFD 75
P S FF
Sbjct: 64 IPASTFFR 71
>1utx_A CYLR2; DNA-binding protein, transcriptional repressor,
regulation of cytolysin operon, helix-turn-helix; 1.90A
{Enterococcus faecalis} (A:)
Length = 66
Score = 58.1 bits (141), Expect = 4e-10
Identities = 14/64 (21%), Positives = 25/64 (39%)
Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFF 74
+ ++L R +SQ +L L ++ Q + EK I+ L +P+ F
Sbjct: 2 IINNLKLIREKKKISQSELAALLEVSRQTINGIEKNKYNPSLQLALKIAYYLNTPLEDIF 61
Query: 75 DVSP 78
P
Sbjct: 62 QWQP 65
>3f52_A CLP gene regulator (CLGR); helix-turn-helix motif,
transcriptional activator, human pathogen, transcription
activator; 1.75A {Corynebacterium glutamicum} PDB:
3f51_A (A:)
Length = 117
Score = 58.1 bits (140), Expect = 5e-10
Identities = 12/81 (14%), Positives = 33/81 (40%)
Query: 8 PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLE 67
+ +G +R R G++ +L E ++ + + E+G V + L + L
Sbjct: 22 EPLLREALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALG 81
Query: 68 SPISFFFDVSPTVCSDISSEE 88
+ ++ + + +++E
Sbjct: 82 ASVADVLIEAAGSMALQAAQE 102
>3fmy_A HTH-type transcriptional regulator MQSA (YGIT/B3021);
helix-turn-helix, DNA-binding, transcription
regulation, DNA binding protein; HET: MEQ; 1.40A
{Escherichia coli k-12} (A:)
Length = 73
Score = 58.1 bits (141), Expect = 5e-10
Identities = 13/71 (18%), Positives = 25/71 (35%), Gaps = 1/71 (1%)
Query: 5 KKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISE 64
+ + I R L ++Q++ E G +YEKG S ++ +
Sbjct: 2 HMASVNAETVAPEFIVKVRKKLSLTQKEASEIFGGGVNAFSRYEKGNAXPHPSTIK-LLR 60
Query: 65 VLESPISFFFD 75
VL+ +
Sbjct: 61 VLDKHPELLNE 71
>3kz3_A Repressor protein CI; five helix bundle, DNA-binding,
transcription, transcription regulation; 1.64A
{Enterobacteria phage lambda} (A:)
Length = 80
Score = 58.2 bits (141), Expect = 5e-10
Identities = 11/62 (17%), Positives = 27/62 (43%)
Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
+ ++ LG+S E + + +G+ V G+N + A ++++L+ + F
Sbjct: 12 RLKAIWEKKKNELGLSYESVADKMGMGQSAVAALFNGINALNAYNAALLAKILKVSVEEF 71
Query: 74 FD 75
Sbjct: 72 SP 73
>2r1j_L Repressor protein C2; protein-DNA complex,
helix-turn-helix, DNA-binding, transcription,
transcription regulation; 1.53A {Enterobacteria phage
P22} (L:)
Length = 68
Score = 58.2 bits (141), Expect = 5e-10
Identities = 15/62 (24%), Positives = 30/62 (48%)
Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
+G+RIR RR L + Q LG+ +G++ + ++E+ L +S+ L+ +
Sbjct: 5 LMGERIRARRKKLKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALSKALQCSPDYL 64
Query: 74 FD 75
Sbjct: 65 LK 66
>1adr_A P22 C2 repressor; transcription regulation; NMR
{Bacteriophage P22} (A:)
Length = 76
Score = 57.8 bits (140), Expect = 5e-10
Identities = 15/62 (24%), Positives = 30/62 (48%)
Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
+G+RIR RR L + Q LG+ +G++ + ++E+ L +S+ L+ +
Sbjct: 5 LMGERIRARRKKLKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALSKALQCSPDYL 64
Query: 74 FD 75
Sbjct: 65 LK 66
>3bs3_A Putative DNA-binding protein; XRE-family, structural
genomics, PSI-2, protein structure initiative; HET:
MSE; 1.65A {Bacteroides fragilis nctc 9343} (A:)
Length = 76
Score = 57.0 bits (138), Expect = 1e-09
Identities = 8/60 (13%), Positives = 21/60 (35%)
Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
RI++ + L E G + + ++ ++ L ++E+L +
Sbjct: 12 LNRIKVVLAEKQRTNRWLAEQXGKSENTISRWCSNKSQPSLDXLVKVAELLNVDPRQLIN 71
>2kpj_A SOS-response transcriptional repressor, LEXA; NESG, GFT,
structural genomics, PSI-2, protein structure
initiative; NMR {Eubacterium rectale atcc 33656} (A:)
Length = 94
Score = 56.8 bits (137), Expect = 1e-09
Identities = 8/75 (10%), Positives = 26/75 (34%)
Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
+ + +Q ++ + +G++ Q + KG+ ++Q +++ S
Sbjct: 9 IFSENLNSYIAKSEKTQLEIAKSIGVSPQTFNTWCKGIAIPRMGKVQALADYFNINKSDL 68
Query: 74 FDVSPTVCSDISSEE 88
+ + E
Sbjct: 69 IEDKKLNIDTVPIES 83
>3gn5_A HTH-type transcriptional regulator MQSA (YGIT/B3021);
Zn-binding protein, HTH-XRE DNA binding motif,
DNA-binding, transcription regulation; HET: MEQ; 2.15A
{Escherichia coli k-12} PDB: 3gn5_B* (A:72-133)
Length = 62
Score = 56.5 bits (137), Expect = 1e-09
Identities = 13/60 (21%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 16 GKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFFFD 75
+ I R L ++Q++ E G +YEKG + S ++ + VL+ +
Sbjct: 2 PEFIVKVRKKLSLTQKEASEIFGGGVNAFSRYEKGNAQPHPSTIK-LLRVLDKHPELLNE 60
>1r69_A Repressor protein CI; gene regulating protein; 2.00A
{Phage 434} (A:)
Length = 69
Score = 56.2 bits (136), Expect = 2e-09
Identities = 13/62 (20%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
++ R++ +R+ LG++Q +L + +G T Q +++ E G L ++ L + +
Sbjct: 1 SISSRVKSKRIQLGLNQAELAQKVGTTQQSIEQLENGKT-KRPRFLPELASALGVSVDWL 59
Query: 74 FD 75
+
Sbjct: 60 LN 61
>1zug_A Phage 434 CRO protein; gene regulating protein,
transcription regulation; NMR {Phage 434} (A:)
Length = 71
Score = 55.9 bits (135), Expect = 2e-09
Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 1/62 (1%)
Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
+ +R++ RR+ L M+Q +L G+ Q +Q E G L I+ L +
Sbjct: 3 TLSERLKKRRIALKMTQTELATKAGVKQQSIQLIEAG-VTKRPRFLFEIAMALNCDPVWL 61
Query: 74 FD 75
Sbjct: 62 QY 63
>1b0n_A Protein (SINR protein); transcription regulator,
antagonist, sporulation; 1.90A {Bacillus subtilis}
(A:1-65)
Length = 65
Score = 55.0 bits (133), Expect = 4e-09
Identities = 15/62 (24%), Positives = 27/62 (43%), Gaps = 1/62 (1%)
Query: 15 VGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESPISFF 73
+G+RI+ R G S +L E G+ + E+ + L+ +S VL+ +
Sbjct: 2 IGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQTNPSIQFLEKVSAVLDVSVHTL 61
Query: 74 FD 75
D
Sbjct: 62 LD 63
>2ewt_A BLDD, putative DNA-binding protein; the DNA-binding domain
of BLDD; 1.81A {Streptomyces coelicolor A3} (A:)
Length = 71
Score = 54.4 bits (131), Expect = 6e-09
Identities = 14/68 (20%), Positives = 25/68 (36%), Gaps = 2/68 (2%)
Query: 8 PNPVDINVGKRIRLRRMILGMSQEKLGECLG--ITFQQVQKYEKGVNRVGASRLQHISEV 65
+ +G ++R R G+S + E V YE+G V RL +++
Sbjct: 2 SSEYAKQLGAKLRAIRTQQGLSLHGVEEKSQGRWKAVVVGSYERGDRAVTVQRLAELADF 61
Query: 66 LESPISFF 73
P+
Sbjct: 62 YGVPVQEL 69
>2o38_A Hypothetical protein; alpha-beta, helix-turn-helix,
structural genomics, PSI-2, protein structure
initiative; 1.83A {Rhodopseudomonas palustris CGA009}
(A:)
Length = 120
Score = 54.5 bits (131), Expect = 6e-09
Identities = 10/70 (14%), Positives = 19/70 (27%), Gaps = 1/70 (1%)
Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESP 69
+ + + +SQ LGI +V + RL + L+
Sbjct: 37 TKLRLAYALNAVIDRARLSQAAAAARLGINQPKVSALRNYKLEGFSVERLXTLLNALDQD 96
Query: 70 ISFFFDVSPT 79
+ P
Sbjct: 97 VEIVIRKKPR 106
>2eby_A Putative HTH-type transcriptional regulator YBAQ;
hypothetical protein, JW0472, structural genomics,
NPPSFA; 2.25A {Escherichia coli} (A:1-96)
Length = 96
Score = 54.5 bits (131), Expect = 6e-09
Identities = 8/72 (11%), Positives = 23/72 (31%), Gaps = 1/72 (1%)
Query: 4 NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHIS 63
+ P + L + +L E L + V ++ ++
Sbjct: 2 KQATRKPTTP-GDILLYEYLEPLDLKINELAELLHVHRNSVSALINNNRKLTTEMAFRLA 60
Query: 64 EVLESPISFFFD 75
+V ++ + F+ +
Sbjct: 61 KVFDTTVDFWLN 72
>3b7h_A Prophage LP1 protein 11; structural genomics, PSI2, MCSG,
protein structure initiative, midwest center for
structural genomics; 2.00A {Lactobacillus plantarum
WCFS1} (A:)
Length = 78
Score = 54.0 bits (130), Expect = 8e-09
Identities = 9/70 (12%), Positives = 24/70 (34%), Gaps = 1/70 (1%)
Query: 11 VDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISEVLESP 69
V + + ++ ++ G+ V +G ++ + ++ + L
Sbjct: 4 DGEFVSEHLMELITQQNLTINRVATLAGLNQSTVNAMFEGRSKRPTITTIRKVCGTLGIS 63
Query: 70 ISFFFDVSPT 79
+ FFD P
Sbjct: 64 VHDFFDFPPY 73
>2fjr_A Repressor protein CI; genetic switch, regulation,
cooperativity, transcription regulator; 1.95A
{Enterobacteria phage 186} PDB: 2fkd_A (A:1-70)
Length = 70
Score = 53.5 bits (129), Expect = 1e-08
Identities = 4/65 (6%), Positives = 15/65 (23%), Gaps = 2/65 (3%)
Query: 11 VDINVGKRIRLRRMILGM-SQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESP 69
+ + + G + +L I + + H + +
Sbjct: 3 LGWSNVDVLDRICEAYGFSQKIQLANHFDIASSSLSNRYTR-GAISYDFAAHCALETGAN 61
Query: 70 ISFFF 74
+ +
Sbjct: 62 LQWLL 66
>3fym_A Putative uncharacterized protein; HTH DNA binding, DNA
binding protein; 1.00A {Staphylococcus aureus subsp}
(A:)
Length = 130
Score = 53.2 bits (127), Expect = 1e-08
Identities = 13/81 (16%), Positives = 27/81 (33%), Gaps = 6/81 (7%)
Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGV------NRVGASRLQHISEVLE 67
VG+ ++ RR LGM+ +L + GI + + E ++ + V+
Sbjct: 3 TVGEALKGRRERLGMTLTELEQRTGIKREMLVHIENNEFDQLPNKNYSEGFIRKYASVVN 62
Query: 68 SPISFFFDVSPTVCSDISSEE 88
+ +E
Sbjct: 63 IEPNQLIQAHQDEIPSNQAEW 83
>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A
{Bacillus thuringiensis serovarisraelensis atcc 35646}
(A:1-89)
Length = 89
Score = 53.3 bits (128), Expect = 1e-08
Identities = 18/66 (27%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKGVNRVGASRLQHISEVLESPISFF 73
+G I+ R++ G++Q++L E +V + E G LQ I+ L+ PI F
Sbjct: 5 KLGSEIKKIRVLRGLTQKQLSE-NICHQSEVSRIESGAVYPSMDILQGIAAKLQIPIIHF 63
Query: 74 FDVSPT 79
++V
Sbjct: 64 YEVLIY 69
>2ofy_A Putative XRE-family transcriptional regulator;
transcription regulator, structural genomics, PSI,
protein structure initiative; 1.70A {Rhodococcus SP}
(A:)
Length = 86
Score = 52.8 bits (127), Expect = 2e-08
Identities = 13/75 (17%), Positives = 27/75 (36%), Gaps = 3/75 (4%)
Query: 8 PNPVDINVGKRI--RLRRMILGMSQEKLGECLGITFQQVQKYEKGVNR-VGASRLQHISE 64
++ G+R+ LR S + GI+ + ++K E G + ++
Sbjct: 6 LTAEELERGQRLGELLRSARGDXSXVTVAFDAGISVETLRKIETGRIATPAFFTIAAVAR 65
Query: 65 VLESPISFFFDVSPT 79
VL+ + V
Sbjct: 66 VLDLSLDDVAAVVTF 80
>2a6c_A Helix-turn-helix motif; NP_841403.1, , structural
genomics, joint center for structural genomics, JCSG,
protein structure initiative, PSI; HET: CIT; 1.90A
{Nitrosomonas europaea} (A:)
Length = 83
Score = 52.8 bits (127), Expect = 2e-08
Identities = 10/63 (15%), Positives = 22/63 (34%), Gaps = 1/63 (1%)
Query: 14 NVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG-VNRVGASRLQHISEVLESPISF 72
+ ++ G++Q K E LG+T +V +G ++ L + +
Sbjct: 18 QLLIVLQEHLRNSGLTQFKAAELLGVTQPRVSDLXRGKIDLFSLESLIDXITSIGLKVEI 77
Query: 73 FFD 75
Sbjct: 78 NIK 80
>2ppx_A AGR_C_3184P, uncharacterized protein ATU1735; HTH-motif,
XRE-family, structural genomics, PSI-2, protein
structure initiative; 2.00A {Agrobacterium tumefaciens
str} (A:1-68)
Length = 68
Score = 43.3 bits (102), Expect = 1e-05
Identities = 9/43 (20%), Positives = 18/43 (41%)
Query: 8 PNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50
RI++ R L ++QE+ I ++ +E+G
Sbjct: 24 EQLASAPRXPRIKIIRRALKLTQEEFSARYHIPLGTLRDWEQG 66
>2auw_A Hypothetical protein NE0471; alpha-beta structure,
structural genomics, PSI, protein structure initiative;
1.85A {Nitrosomonas europaea} (A:90-170)
Length = 81
Score = 28.4 bits (63), Expect = 0.44
Identities = 7/25 (28%), Positives = 10/25 (40%)
Query: 26 LGMSQEKLGECLGITFQQVQKYEKG 50
+S E LGI+ + V Y
Sbjct: 13 NNLSLTTAAEALGISRRXVSYYRTA 37
>1sr3_A APO-CCME; OB fold, beta barrel, flexible C-terminal
domain, chaperone; NMR {Escherichia coli} (A:)
Length = 136
Score = 27.5 bits (61), Expect = 0.69
Identities = 10/39 (25%), Positives = 18/39 (46%)
Query: 4 NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQ 42
K VG+R+R+ M++ S ++ L +TF
Sbjct: 16 YGKRETQQMPEVGQRLRVGGMVMPGSVQRDPNSLKVTFT 54
>1j6q_A Cytochrome C maturation protein E; all-beta protein, heme
delivery,cytochrome C maturation, OB- (oligonucleotide
binding)fold; NMR {Shewanella putrefaciens} (A:)
Length = 136
Score = 25.9 bits (57), Expect = 2.2
Identities = 11/39 (28%), Positives = 16/39 (41%)
Query: 4 NKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQ 42
N K V G+RIR+ M+ S + L + F
Sbjct: 20 NGKTDTGVKPEAGQRIRVGGMVTVGSMVRDPNSLHVQFA 58
>1zpu_A Iron transport multicopper oxidase FET3; ferroxidase,
oxidoreductase; HET: NAG BMA MAN NDG; 2.80A
{Saccharomyces cerevisiae} (A:129-297)
Length = 169
Score = 25.1 bits (54), Expect = 3.6
Identities = 5/44 (11%), Positives = 13/44 (29%)
Query: 1 MVGNKKIPNPVDINVGKRIRLRRMILGMSQEKLGECLGITFQQV 44
++ N + ++ LR + +G + V
Sbjct: 42 LIVNNTMNLTWEVQPDTTYLLRIVNVGGFVSQYFWIEDHEMTVV 85
>2ae8_A IGPD, imidazoleglycerol-phosphate dehydratase;
beta-alpha-beta sandwich, duplication of A half-domain;
2.01A {Staphylococcus aureus subsp} (A:)
Length = 221
Score = 24.7 bits (54), Expect = 4.9
Identities = 7/25 (28%), Positives = 11/25 (44%)
Query: 31 EKLGECLGITFQQVQKYEKGVNRVG 55
E +G +G + K +K R G
Sbjct: 95 EDIGIVIGQLLLEXIKDKKHFVRYG 119
>1r71_A Transcriptional repressor protein KORB; INCP, plasmid
partitioning, protein-DNA complex, heilx-turn- helix
motif, transcription factor; HET: BRU; 2.20A
{Escherichia coli} (A:1-76)
Length = 76
Score = 24.6 bits (54), Expect = 5.7
Identities = 5/41 (12%), Positives = 16/41 (39%), Gaps = 5/41 (12%)
Query: 8 PNPVDINVGKRIRLRRMI-LGMSQEKLGECLGITFQQVQKY 47
P +I + R + G + + + +G + + ++
Sbjct: 36 LTPREIADF----IGRELAKGKKKGDIAKEIGKSPAFITQH 72
>1l0o_C Sigma factor; bergerat fold, helix-turn-helix, protein
binding; HET: ADP; 2.90A {Geobacillus
stearothermophilus} (C:)
Length = 243
Score = 24.5 bits (52), Expect = 5.8
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEK 49
+ LR +Q ++ LGI+ Q+ + EK
Sbjct: 205 LIVYLRYYK-DQTQSEVASRLGISQVQMSRLEK 236
>2kfn_A Klenow fragment of DNA polymerase I; complex
(polymerase/DNA), exonuclease, transferase,
transferase/DNA complex; HET: US1; 2.03A {Escherichia
coli} (A:397-472)
Length = 76
Score = 24.3 bits (53), Expect = 6.7
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 24 MILGMSQEKLGECLGITFQQVQKY 47
+I GMS L L I ++ QKY
Sbjct: 45 LIYGMSAFGLARQLNIPRKEAQKY 68
>2hhv_A DNA polymerase I; DNA replication, klenow fragment,
protein- DNA complex, O6-methyl-guanine,
transferase/DNA complex; HET: DNA 6OG SUC; 1.55A
{Geobacillus stearothermophilus} (A:372-447)
Length = 76
Score = 24.3 bits (53), Expect = 7.1
Identities = 5/24 (20%), Positives = 14/24 (58%)
Query: 24 MILGMSQEKLGECLGITFQQVQKY 47
++ G+S L + L I+ ++ ++
Sbjct: 45 IVYGISDYGLAQNLNISRKEAAEF 68
>2vgl_A Adaptor protein complex AP-2, alpha 2 subunit; cytoplasmic
vesicle, alternative splicing, endocytosis,
lipid-binding, golgi apparatus, adaptor, membrane,
transport; HET: IHP; 2.59A {Rattus norvegicus} PDB:
2jkr_A 2jkt_A (A:221-322)
Length = 102
Score = 24.0 bits (52), Expect = 9.2
Identities = 7/29 (24%), Positives = 17/29 (58%)
Query: 101 LQLNRYFIQIDDVKVRQKIIELVRSIVSS 129
L+L + + +D VR ++ E + +I++
Sbjct: 42 LRLLQCYPPPEDPAVRGRLTECLETILNK 70
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.319 0.137 0.378
Gapped
Lambda K H
0.267 0.0659 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,062,951
Number of extensions: 43976
Number of successful extensions: 194
Number of sequences better than 10.0: 1
Number of HSP's gapped: 191
Number of HSP's successfully gapped: 60
Length of query: 144
Length of database: 4,956,049
Length adjustment: 80
Effective length of query: 64
Effective length of database: 2,251,649
Effective search space: 144105536
Effective search space used: 144105536
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.2 bits)