Query 020267
Match_columns 328
No_of_seqs 197 out of 430
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 08:22:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020267.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020267hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03162 golden-2 like transcr 99.9 6.3E-24 1.4E-28 207.8 8.0 63 45-108 231-293 (526)
2 PF14379 Myb_CC_LHEQLE: MYB-CC 99.9 1.3E-22 2.7E-27 150.2 6.7 48 134-181 1-50 (51)
3 TIGR01557 myb_SHAQKYF myb-like 99.9 5.7E-22 1.2E-26 148.1 5.6 56 49-104 1-56 (57)
4 PF00249 Myb_DNA-binding: Myb- 97.4 0.00018 4E-09 50.6 3.8 48 51-102 1-48 (48)
5 smart00426 TEA TEA domain. 89.7 0.42 9E-06 38.1 3.5 46 53-100 5-67 (68)
6 smart00717 SANT SANT SWI3, AD 78.3 4.7 0.0001 26.3 4.1 43 52-100 2-45 (49)
7 TIGR02894 DNA_bind_RsfA transc 77.5 8.9 0.00019 35.0 6.8 51 46-102 43-93 (161)
8 PF01519 DUF16: Protein of unk 74.5 9.6 0.00021 32.6 5.8 28 157-184 70-97 (102)
9 cd00167 SANT 'SWI3, ADA2, N-Co 73.9 6.6 0.00014 25.3 3.9 43 53-101 1-44 (45)
10 PF14379 Myb_CC_LHEQLE: MYB-CC 67.9 8.8 0.00019 29.2 3.8 30 139-168 16-48 (51)
11 PF01285 TEA: TEA/ATTS domain 53.9 11 0.00025 38.6 3.0 54 47-101 45-112 (431)
12 PF12776 Myb_DNA-bind_3: Myb/S 53.9 26 0.00057 27.0 4.4 51 53-103 1-63 (96)
13 PRK10803 tol-pal system protei 53.3 32 0.00068 32.6 5.6 38 142-180 54-94 (263)
14 KOG2620 Prohibitins and stomat 47.7 43 0.00092 33.4 5.7 46 136-181 158-211 (301)
15 smart00501 BRIGHT BRIGHT, ARID 41.7 21 0.00045 28.3 2.1 46 57-103 33-85 (93)
16 PF08766 DEK_C: DEK C terminal 38.2 31 0.00067 25.2 2.4 29 148-176 23-51 (54)
17 KOG4709 Uncharacterized conser 37.9 3.3E+02 0.0071 26.3 9.6 43 141-183 48-91 (217)
18 PF07384 DUF1497: Protein of u 33.8 34 0.00074 26.5 2.1 21 52-72 36-56 (59)
19 KOG3841 TEF-1 and related tran 30.2 61 0.0013 33.8 3.8 21 50-70 75-95 (455)
20 PF08127 Propeptide_C1: Peptid 28.4 30 0.00064 24.8 1.0 36 58-100 1-36 (41)
21 KOG0156 Cytochrome P450 CYP2 s 28.4 54 0.0012 33.8 3.2 40 145-184 317-362 (489)
22 cd07646 I-BAR_IMD_IRSp53 Inver 28.1 1.9E+02 0.0041 28.1 6.5 43 135-177 66-119 (232)
23 cd07645 I-BAR_IMD_BAIAP2L1 Inv 26.9 2E+02 0.0044 27.8 6.4 42 135-176 64-116 (226)
24 KOG2008 BTK-associated SH3-dom 26.9 2.6E+02 0.0057 28.9 7.5 64 134-201 181-244 (426)
25 COG5665 NOT5 CCR4-NOT transcri 26.5 2.6E+02 0.0056 29.6 7.5 32 145-177 122-157 (548)
26 PF00517 GP41: Retroviral enve 24.6 1.5E+02 0.0032 27.4 5.0 35 137-171 23-63 (204)
27 PHA03185 UL14 tegument protein 22.2 2.5E+02 0.0055 27.0 6.1 25 141-166 57-84 (214)
28 PF00067 p450: Cytochrome P450 21.9 1.4E+02 0.0031 27.0 4.3 39 146-184 294-338 (463)
29 KOG0724 Zuotin and related mol 21.1 40 0.00087 32.2 0.7 47 50-102 52-98 (335)
30 PF11740 KfrA_N: Plasmid repli 20.7 4.5E+02 0.0098 21.1 10.5 32 73-106 18-49 (120)
No 1
>PLN03162 golden-2 like transcription factor; Provisional
Probab=99.89 E-value=6.3e-24 Score=207.80 Aligned_cols=63 Identities=48% Similarity=0.699 Sum_probs=59.2
Q ss_pred CCCCCCcccCCHHHHHHHHHHHHHhCCCCCCCccchhhhcCCCCccHHHHHHHhhhhhhhccCC
Q 020267 45 SLASKQRLRWTHELHERFVDAVAQLGGPDRATPKGVLRVMGVQGLTIYHVKSHLQKYRLAKYLP 108 (328)
Q Consensus 45 ~~~~KpRlrWT~ELH~rFV~AV~qLGG~dkAtPK~IL~lM~V~GLT~~hVKSHLQKYRl~k~~p 108 (328)
...+|+||+||+|||+|||+||++|| .++||||+||++|+|+|||++||||||||||+.+++.
T Consensus 231 ~g~KKpRLrWTpELH~rFVeAV~qLG-~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~l 293 (526)
T PLN03162 231 PGKKKAKVDWTPELHRRFVHAVEQLG-VEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRHL 293 (526)
T ss_pred CCCCCCcccCCHHHHHHHHHHHHHhC-cCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhcccc
Confidence 34789999999999999999999999 7999999999999999999999999999999987653
No 2
>PF14379 Myb_CC_LHEQLE: MYB-CC type transfactor, LHEQLE motif
Probab=99.87 E-value=1.3e-22 Score=150.20 Aligned_cols=48 Identities=75% Similarity=1.070 Sum_probs=45.9
Q ss_pred CCChHHHHHHHHHHhhhhHHHHH--HHHhHHHHHHhHHHHHHHHHHHHHc
Q 020267 134 GMQITEALKLQMEVQKRLHEQLE--RQLQLRIEAQGKYLKKIIEEQQRLS 181 (328)
Q Consensus 134 g~qItEALrlQmEVQrrLhEQLE--R~LQLRIEAQGKYLqsiLEkqq~l~ 181 (328)
|++|+|||++||||||||||||| |+||+|||||||||++|||+|++..
T Consensus 1 g~~i~EALr~QmEvQrrLhEQLEvQr~Lqlrieaqgkyl~~ilek~~~~~ 50 (51)
T PF14379_consen 1 GMQITEALRMQMEVQRRLHEQLEVQRHLQLRIEAQGKYLQSILEKAQKAL 50 (51)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence 68999999999999999999999 9999999999999999999998754
No 3
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=99.85 E-value=5.7e-22 Score=148.07 Aligned_cols=56 Identities=61% Similarity=0.981 Sum_probs=54.2
Q ss_pred CCcccCCHHHHHHHHHHHHHhCCCCCCCccchhhhcCCCCccHHHHHHHhhhhhhh
Q 020267 49 KQRLRWTHELHERFVDAVAQLGGPDRATPKGVLRVMGVQGLTIYHVKSHLQKYRLA 104 (328)
Q Consensus 49 KpRlrWT~ELH~rFV~AV~qLGG~dkAtPK~IL~lM~V~GLT~~hVKSHLQKYRl~ 104 (328)
|+|++||+|+|++|++||+.||+.+.||||.|+++|++++||+.||+|||||||+.
T Consensus 1 k~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k 56 (57)
T TIGR01557 1 KPRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK 56 (57)
T ss_pred CCCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHcc
Confidence 78999999999999999999998899999999999999999999999999999985
No 4
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=97.42 E-value=0.00018 Score=50.64 Aligned_cols=48 Identities=29% Similarity=0.391 Sum_probs=40.5
Q ss_pred cccCCHHHHHHHHHHHHHhCCCCCCCccchhhhcCCCCccHHHHHHHhhhhh
Q 020267 51 RLRWTHELHERFVDAVAQLGGPDRATPKGVLRVMGVQGLTIYHVKSHLQKYR 102 (328)
Q Consensus 51 RlrWT~ELH~rFV~AV~qLGG~dkAtPK~IL~lM~V~GLT~~hVKSHLQKYR 102 (328)
|..||++-+..|++||.++|.- .-+.|-+.|+ .+-|..++++|.++|+
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~---~W~~Ia~~~~-~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKD---NWKKIAKRMP-GGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTT---HHHHHHHHHS-SSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCc---HHHHHHHHcC-CCCCHHHHHHHHHhhC
Confidence 5689999999999999999932 4568888888 7899999999999985
No 5
>smart00426 TEA TEA domain.
Probab=89.73 E-value=0.42 Score=38.08 Aligned_cols=46 Identities=26% Similarity=0.343 Sum_probs=29.6
Q ss_pred cCCHHHHHHHHHHHHHhCCCCCCCcc-chhhh---cC-----------CCCc--cHHHHHHHhhh
Q 020267 53 RWTHELHERFVDAVAQLGGPDRATPK-GVLRV---MG-----------VQGL--TIYHVKSHLQK 100 (328)
Q Consensus 53 rWT~ELH~rFV~AV~qLGG~dkAtPK-~IL~l---M~-----------V~GL--T~~hVKSHLQK 100 (328)
.|.++|-..|++|+..+- ...+=| .+... .| ..|. |..+|.||||.
T Consensus 5 vWp~~lE~Af~~aL~~~~--~~g~~kik~~~r~k~~gRNelIs~YI~~~tGk~Rt~KQVsShIQv 67 (68)
T smart00426 5 VWSPDIEQAFQEALAIYP--PCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQV 67 (68)
T ss_pred cCcHHHHHHHHHHHHHcC--ccCcccchhhhcCcccchhHHHHHHHHHHhCCccchhhhcchhee
Confidence 699999999999998874 222222 22111 11 1443 67789999985
No 6
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=78.31 E-value=4.7 Score=26.30 Aligned_cols=43 Identities=19% Similarity=0.316 Sum_probs=33.1
Q ss_pred ccCCHHHHHHHHHHHHHhC-CCCCCCccchhhhcCCCCccHHHHHHHhhh
Q 020267 52 LRWTHELHERFVDAVAQLG-GPDRATPKGVLRVMGVQGLTIYHVKSHLQK 100 (328)
Q Consensus 52 lrWT~ELH~rFV~AV~qLG-G~dkAtPK~IL~lM~V~GLT~~hVKSHLQK 100 (328)
-.||++=...|+.+|.++| +-. +.|-+.|+ +-|..+|+.+...
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~~w----~~Ia~~~~--~rt~~~~~~~~~~ 45 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKNNW----EKIAKELP--GRTAEQCRERWNN 45 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcCCH----HHHHHHcC--CCCHHHHHHHHHH
Confidence 4699999999999999999 443 35666664 6788888876554
No 7
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=77.51 E-value=8.9 Score=35.02 Aligned_cols=51 Identities=24% Similarity=0.345 Sum_probs=38.6
Q ss_pred CCCCCcccCCHHHHHHHHHHHHHhCCCCCCCccchhhhcCCCCccHHHHHHHhhhhh
Q 020267 46 LASKQRLRWTHELHERFVDAVAQLGGPDRATPKGVLRVMGVQGLTIYHVKSHLQKYR 102 (328)
Q Consensus 46 ~~~KpRlrWT~ELH~rFV~AV~qLGG~dkAtPK~IL~lM~V~GLT~~hVKSHLQKYR 102 (328)
+.....|||+..+...+.+||...- -.+-.++.. ...||+.+|-+-||.|.
T Consensus 43 TsAACGFRWNs~VRkqY~~~i~~AK-kqRk~~~~~-----~~~ltl~~vI~fLq~l~ 93 (161)
T TIGR02894 43 TAAACGFRWNAYVRKQYEEAIELAK-KQRKELKRE-----AGSLTLQDVISFLQNLK 93 (161)
T ss_pred cHHHhcchHHHHHHHHHHHHHHHHH-HHHhccccC-----cccCCHHHHHHHHHHHH
Confidence 4567899999999999999998753 122222221 25699999999999987
No 8
>PF01519 DUF16: Protein of unknown function DUF16; InterPro: IPR002862 Proteins that contain this domain are of unknown function. It appears to be confined to proteins from Mycoplasma pneumoniae [].; PDB: 2BA2_C.
Probab=74.53 E-value=9.6 Score=32.59 Aligned_cols=28 Identities=36% Similarity=0.506 Sum_probs=23.5
Q ss_pred HHHhHHHHHHhHHHHHHHHHHHHHcCcc
Q 020267 157 RQLQLRIEAQGKYLKKIIEEQQRLSGVL 184 (328)
Q Consensus 157 R~LQLRIEAQGKYLqsiLEkqq~l~g~~ 184 (328)
+.||.+|.+||+-|++|++.-+.+...|
T Consensus 70 kel~~e~k~qgktL~~I~~~L~~inkRL 97 (102)
T PF01519_consen 70 KELQVEQKAQGKTLQLILKTLQSINKRL 97 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7999999999999999998776655443
No 9
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=73.88 E-value=6.6 Score=25.29 Aligned_cols=43 Identities=21% Similarity=0.355 Sum_probs=33.0
Q ss_pred cCCHHHHHHHHHHHHHhC-CCCCCCccchhhhcCCCCccHHHHHHHhhhh
Q 020267 53 RWTHELHERFVDAVAQLG-GPDRATPKGVLRVMGVQGLTIYHVKSHLQKY 101 (328)
Q Consensus 53 rWT~ELH~rFV~AV~qLG-G~dkAtPK~IL~lM~V~GLT~~hVKSHLQKY 101 (328)
.||.+=+..|+.++.++| +.. +.|-+.|+ +=|..+|+.|..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w----~~Ia~~~~--~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNW----EKIAKELP--GRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCH----HHHHhHcC--CCCHHHHHHHHHHh
Confidence 499999999999999999 433 46666664 46888888776543
No 10
>PF14379 Myb_CC_LHEQLE: MYB-CC type transfactor, LHEQLE motif
Probab=67.90 E-value=8.8 Score=29.15 Aligned_cols=30 Identities=37% Similarity=0.463 Sum_probs=21.8
Q ss_pred HHHHHHHHHhhhhHHHHH---HHHhHHHHHHhH
Q 020267 139 EALKLQMEVQKRLHEQLE---RQLQLRIEAQGK 168 (328)
Q Consensus 139 EALrlQmEVQrrLhEQLE---R~LQLRIEAQGK 168 (328)
.-|.-|+||||.|.-++| |-|+-=+|.+.+
T Consensus 16 rrLhEQLEvQr~Lqlrieaqgkyl~~ilek~~~ 48 (51)
T PF14379_consen 16 RRLHEQLEVQRHLQLRIEAQGKYLQSILEKAQK 48 (51)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 356777888888888888 777777776644
No 11
>PF01285 TEA: TEA/ATTS domain family; InterPro: IPR000818 Transcriptional enhancer activators are nuclear proteins that contain a TEA/ATTSdomain, a DNA-binding region of 66-68 amino acids. The TEA/ATTS domain is found in the N-termini of certain gene regulatory proteins, such as the Simian virus 40 (SV40) enhancer factor TEF-1, yeast trans-acting factor TEC-1 (which is required for TY1 enhancer activity), and the Aspergillus abaA regulatory gene product. SV40 and retroviral enhancers, and those to which TEF-1, TEC-1 and abaA proteins bind, contain GT-IIC sites: the TEA/ATTS domain may therefore recognise and bind such sites. Secondary structure predictions suggest the presence of 3 helices, but have not confirmed the presence of the helix-turn-helix motif characteristic of many DNA-binding proteins: DNA-binding may therefore be effected by a different mechanism [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3L15_B 2HZD_A 3KYS_A 3JUA_C 4EAZ_B.
Probab=53.95 E-value=11 Score=38.56 Aligned_cols=54 Identities=22% Similarity=0.303 Sum_probs=28.8
Q ss_pred CCCCcccCCHHHHHHHHHHHHHhCCCCCCCccchh-hhcC----------C-CC--ccHHHHHHHhhhh
Q 020267 47 ASKQRLRWTHELHERFVDAVAQLGGPDRATPKGVL-RVMG----------V-QG--LTIYHVKSHLQKY 101 (328)
Q Consensus 47 ~~KpRlrWT~ELH~rFV~AV~qLGG~dkAtPK~IL-~lM~----------V-~G--LT~~hVKSHLQKY 101 (328)
..+..-+|.+++...|++|+...-=-.++. -.+. +..| . -| =|+.+|.||+|..
T Consensus 45 ~~~~~~vw~~~~e~af~~al~~~~~~g~~k-~~~~~~~~grn~li~~yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 45 DGDGEGVWPPDIEQAFQEALAIYPPCGRRK-LSDEGKMYGRNELISDYIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp -GGGS--S-HHHHHHHHHHHHHS-SSS----HHHH-----THHHHHHHHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHHHHHhCCCCCCcc-cccccccccchhHHHHHHHHHhCcccchhHHHHHHHHH
Confidence 456788999999999999998763111222 1111 1111 1 23 3677999999998
No 12
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=53.87 E-value=26 Score=26.96 Aligned_cols=51 Identities=16% Similarity=0.250 Sum_probs=33.1
Q ss_pred cCCHHHHHHHHHHHHHh---CCC-CCCCccc-----hhhhcCC---CCccHHHHHHHhhhhhh
Q 020267 53 RWTHELHERFVDAVAQL---GGP-DRATPKG-----VLRVMGV---QGLTIYHVKSHLQKYRL 103 (328)
Q Consensus 53 rWT~ELH~rFV~AV~qL---GG~-dkAtPK~-----IL~lM~V---~GLT~~hVKSHLQKYRl 103 (328)
+||++..+-||+.+-+. |.- .....|. |.+.|+- -.+|..||++|+...|.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~ 63 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKK 63 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHH
Confidence 59999999999988433 433 2334443 3444442 44688999999875543
No 13
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=53.27 E-value=32 Score=32.61 Aligned_cols=38 Identities=21% Similarity=0.396 Sum_probs=29.5
Q ss_pred HHHHHHhhhhHHHHH---HHHhHHHHHHhHHHHHHHHHHHHH
Q 020267 142 KLQMEVQKRLHEQLE---RQLQLRIEAQGKYLKKIIEEQQRL 180 (328)
Q Consensus 142 rlQmEVQrrLhEQLE---R~LQLRIEAQGKYLqsiLEkqq~l 180 (328)
++|+|+|.+|. +|. +.|.=.||.+..-|+.|.++|+.+
T Consensus 54 ~~~~~l~~ql~-~lq~ev~~LrG~~E~~~~~l~~~~~rq~~~ 94 (263)
T PRK10803 54 QLLTQLQQQLS-DNQSDIDSLRGQIQENQYQLNQVVERQKQI 94 (263)
T ss_pred HHHHHHHHHHH-HHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 55667777773 333 888888999999999999988753
No 14
>KOG2620 consensus Prohibitins and stomatins of the PID superfamily [Energy production and conversion]
Probab=47.74 E-value=43 Score=33.37 Aligned_cols=46 Identities=22% Similarity=0.238 Sum_probs=37.4
Q ss_pred ChHHHHHHHHHHhhhhHHHHH-----HHHhHHH---HHHhHHHHHHHHHHHHHc
Q 020267 136 QITEALKLQMEVQKRLHEQLE-----RQLQLRI---EAQGKYLKKIIEEQQRLS 181 (328)
Q Consensus 136 qItEALrlQmEVQrrLhEQLE-----R~LQLRI---EAQGKYLqsiLEkqq~l~ 181 (328)
.+.+|..||-|.+|+=.-+++ |.+|+.+ |++.|||-+.-.+.++.+
T Consensus 158 ~V~~AM~~q~~AeR~krAailesEger~~~InrAEGek~s~iL~seg~~~qr~n 211 (301)
T KOG2620|consen 158 SVKRAMNMQNEAERMKRAAILESEGERIAQINRAEGEKESKILASEGIARQRQN 211 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhHHhhhhhcchhhhHHhhhHHHHHHHHH
Confidence 468999999999987776655 9999988 678999999887666544
No 15
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=41.75 E-value=21 Score=28.26 Aligned_cols=46 Identities=26% Similarity=0.480 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHhCCCCCCCc----cchhhhcCCCCc---cHHHHHHHhhhhhh
Q 020267 57 ELHERFVDAVAQLGGPDRATP----KGVLRVMGVQGL---TIYHVKSHLQKYRL 103 (328)
Q Consensus 57 ELH~rFV~AV~qLGG~dkAtP----K~IL~lM~V~GL---T~~hVKSHLQKYRl 103 (328)
+|++-|. +|..+||.+..+= +.|.+.||++.- ...++++|-+||=+
T Consensus 33 dL~~Ly~-~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~ 85 (93)
T smart00501 33 DLYRLYR-LVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLL 85 (93)
T ss_pred cHHHHHH-HHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhH
Confidence 6899998 5999999875442 457788888742 34568888888743
No 16
>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.
Probab=38.18 E-value=31 Score=25.19 Aligned_cols=29 Identities=31% Similarity=0.690 Sum_probs=22.4
Q ss_pred hhhhHHHHHHHHhHHHHHHhHHHHHHHHH
Q 020267 148 QKRLHEQLERQLQLRIEAQGKYLKKIIEE 176 (328)
Q Consensus 148 QrrLhEQLER~LQLRIEAQGKYLqsiLEk 176 (328)
-|.++++||.++++-+..+-+|+..++++
T Consensus 23 ~k~vr~~Le~~~~~dL~~~K~~I~~~I~~ 51 (54)
T PF08766_consen 23 KKQVREQLEERFGVDLSSRKKFIKELIDE 51 (54)
T ss_dssp HHHHHHHHHHH-SS--SHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCcHHHHHHHHHHHHH
Confidence 36789999989999999999999988864
No 17
>KOG4709 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.88 E-value=3.3e+02 Score=26.26 Aligned_cols=43 Identities=19% Similarity=0.302 Sum_probs=25.2
Q ss_pred HHHHHHHhhhhHHHHH-HHHhHHHHHHhHHHHHHHHHHHHHcCc
Q 020267 141 LKLQMEVQKRLHEQLE-RQLQLRIEAQGKYLKKIIEEQQRLSGV 183 (328)
Q Consensus 141 LrlQmEVQrrLhEQLE-R~LQLRIEAQGKYLqsiLEkqq~l~g~ 183 (328)
+.-|-+.|..+.||+- +++-+|-+-...|+.+|-|.-..+.+.
T Consensus 48 veRrK~Aqeqikeq~ReerielRk~~rqerkr~LeErl~af~ee 91 (217)
T KOG4709|consen 48 VERRKAAQEQIKEQLREERIELRKERRQERKRMLEERLEAFEEE 91 (217)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 3344444444445544 788888888888877665533334443
No 18
>PF07384 DUF1497: Protein of unknown function (DUF1497); InterPro: IPR009972 This entry is represented by Bacteriophage r1t, Orf17. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage and bacterial proteins of around 59 residues in length. Members of this family seem to be found exclusively in Lactococcus lactis and the bacteriophages that infect this organism. The function of this family is unknown.
Probab=33.82 E-value=34 Score=26.52 Aligned_cols=21 Identities=24% Similarity=0.649 Sum_probs=18.7
Q ss_pred ccCCHHHHHHHHHHHHHhCCC
Q 020267 52 LRWTHELHERFVDAVAQLGGP 72 (328)
Q Consensus 52 lrWT~ELH~rFV~AV~qLGG~ 72 (328)
-.+..|+|..|-+-|..|||-
T Consensus 36 ~kfnqem~aefheri~klggk 56 (59)
T PF07384_consen 36 NKFNQEMQAEFHERIKKLGGK 56 (59)
T ss_pred hHhhHHHHHHHHHHHHHhccc
Confidence 357899999999999999984
No 19
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=30.17 E-value=61 Score=33.76 Aligned_cols=21 Identities=19% Similarity=0.431 Sum_probs=17.9
Q ss_pred CcccCCHHHHHHHHHHHHHhC
Q 020267 50 QRLRWTHELHERFVDAVAQLG 70 (328)
Q Consensus 50 pRlrWT~ELH~rFV~AV~qLG 70 (328)
..=+|.++.-+.|.||+..+-
T Consensus 75 aegvWSpdIEqsFqEALaiyp 95 (455)
T KOG3841|consen 75 AEGVWSPDIEQSFQEALAIYP 95 (455)
T ss_pred cccccChhHHHHHHHHHhhcC
Confidence 345899999999999998874
No 20
>PF08127 Propeptide_C1: Peptidase family C1 propeptide; InterPro: IPR012599 This domain is found at the N-terminal of cathepsin B and cathepsin B-like peptidases that belong to MEROPS peptidase subfamily C1A. Cathepsin B are lysosomal cysteine proteinases belonging to the papain superfamily and are unique in their ability to act as both an endo- and an exopeptidases. They are synthesized as inactive zymogens. Activation of the peptidases occurs with the removal of the propeptide [, ]. ; GO: 0004197 cysteine-type endopeptidase activity, 0050790 regulation of catalytic activity; PDB: 1MIR_A 1PBH_A 2PBH_A 3PBH_A.
Probab=28.44 E-value=30 Score=24.82 Aligned_cols=36 Identities=19% Similarity=0.238 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHhCCCCCCCccchhhhcCCCCccHHHHHHHhhh
Q 020267 58 LHERFVDAVAQLGGPDRATPKGVLRVMGVQGLTIYHVKSHLQK 100 (328)
Q Consensus 58 LH~rFV~AV~qLGG~dkAtPK~IL~lM~V~GLT~~hVKSHLQK 100 (328)
|-+.||+-|+...-.++|..- .++.|+.+|+..|-.
T Consensus 1 Lsde~I~~IN~~~~tWkAG~N-------F~~~~~~~ik~LlGv 36 (41)
T PF08127_consen 1 LSDEFIDYINSKNTTWKAGRN-------FENTSIEYIKRLLGV 36 (41)
T ss_dssp S-HHHHHHHHHCT-SEEE-----------SSB-HHHHHHCS-B
T ss_pred CCHHHHHHHHcCCCcccCCCC-------CCCCCHHHHHHHcCC
Confidence 457899999998766777443 477888888776643
No 21
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=28.39 E-value=54 Score=33.84 Aligned_cols=40 Identities=38% Similarity=0.463 Sum_probs=29.8
Q ss_pred HHHhhhhHHHHH------HHHhHHHHHHhHHHHHHHHHHHHHcCcc
Q 020267 145 MEVQKRLHEQLE------RQLQLRIEAQGKYLKKIIEEQQRLSGVL 184 (328)
Q Consensus 145 mEVQrrLhEQLE------R~LQLRIEAQGKYLqsiLEkqq~l~g~~ 184 (328)
=|||+|++|.|. |.+++.=-++=-||+.++.+.+++....
T Consensus 317 Pev~~K~qeEId~vvG~~r~v~e~D~~~lpYL~Avi~E~~Rl~p~~ 362 (489)
T KOG0156|consen 317 PEVQKKLQEEIDEVVGKGRLVSESDLPKLPYLKAVIKETLRLHPPL 362 (489)
T ss_pred HHHHHHHHHHHHHHhCCCCCCChhhhccCHHHHHHHHHHHhcCCCc
Confidence 399999999998 3234333344569999999999987644
No 22
>cd07646 I-BAR_IMD_IRSp53 Inverse (I)-BAR, also known as the IRSp53/MIM homology Domain (IMD), of Insulin Receptor tyrosine kinase Substrate p53. The IMD domain, also called Inverse-Bin/Amphiphysin/Rvs (I-BAR) domain, is a dimerization and lipid-binding module that bends membranes and induces membrane protrusions. IRSp53 (Insulin Receptor tyrosine kinase Substrate p53) is also known as BAIAP2 (Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2). It is a scaffolding protein that takes part in many signaling pathways including Cdc42-induced filopodia formation, Rac-mediated lamellipodia extension, and spine morphogenesis. IRSp53 exists as multiple splicing variants that differ mainly at the C-termini. One variant (T-form) is expressed exclusively in human breast cancer cells. The gene encoding IRSp53 is a putative susceptibility gene for Gilles de la Tourette syndrome. IRSp53 contains an N-terminal IMD, a CRIB (Cdc42 and Rac interactive binding motif), an SH3 domain, and a WASP
Probab=28.07 E-value=1.9e+02 Score=28.09 Aligned_cols=43 Identities=26% Similarity=0.488 Sum_probs=31.9
Q ss_pred CChHHHHHHHHHHhhhhHHHHH-----------HHHhHHHHHHhHHHHHHHHHH
Q 020267 135 MQITEALKLQMEVQKRLHEQLE-----------RQLQLRIEAQGKYLKKIIEEQ 177 (328)
Q Consensus 135 ~qItEALrlQmEVQrrLhEQLE-----------R~LQLRIEAQGKYLqsiLEkq 177 (328)
..|-.||.-=-+|+|.++.+|| .+|+-++|..-|||...+++-
T Consensus 66 keLG~~L~~m~~~hr~i~~~le~~lk~Fh~eli~pLE~k~E~D~k~i~a~~Kky 119 (232)
T cd07646 66 KELGDVLFQMAEVHRQIQNQLEEMLKSFHNELLTQLEQKVELDSRYLTAALKKY 119 (232)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666444477777777777 789999999999999766543
No 23
>cd07645 I-BAR_IMD_BAIAP2L1 Inverse (I)-BAR, also known as the IRSp53/MIM homology Domain (IMD), of Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2-Like 1. The IMD domain, also called Inverse-Bin/Amphiphysin/Rvs (I-BAR) domain, is a dimerization and lipid-binding module that bends membranes and induces membrane protrusions. BAIAP2L1 (Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2-Like 1) is also known as IRTKS (Insulin Receptor Tyrosine Kinase Substrate). It is widely expressed, serves as a substrate for the insulin receptor, and binds the small GTPase Rac. It plays a role in regulating the actin cytoskeleton and colocalizes with F-actin, cortactin, VASP, and vinculin. BAIAP2L1 expression leads to the formation of short actin bundles, distinct from filopodia-like protrusions induced by the expression of the related protein IRSp53. It contains an N-terminal IMD, an SH3 domain, and a WASP homology 2 (WH2) actin-binding motif at the C-terminus. The IMD domain of
Probab=26.87 E-value=2e+02 Score=27.82 Aligned_cols=42 Identities=21% Similarity=0.406 Sum_probs=33.2
Q ss_pred CChHHHHHHHHHHhhhhHHHHH-----------HHHhHHHHHHhHHHHHHHHH
Q 020267 135 MQITEALKLQMEVQKRLHEQLE-----------RQLQLRIEAQGKYLKKIIEE 176 (328)
Q Consensus 135 ~qItEALrlQmEVQrrLhEQLE-----------R~LQLRIEAQGKYLqsiLEk 176 (328)
..|-++|.-=-||+|+++.||| .+|.-.+|..-|||...+++
T Consensus 64 keLG~~L~qi~ev~r~i~~~le~~lK~Fh~Ell~~LE~k~elD~kyi~a~~Kk 116 (226)
T cd07645 64 KELGHVLMEISDVHKKLNDSLEENFKKFHREIIAELERKTDLDVKYMTATLKR 116 (226)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777555589999999888 67888999999999976654
No 24
>KOG2008 consensus BTK-associated SH3-domain binding protein SAB [Signal transduction mechanisms]
Probab=26.86 E-value=2.6e+02 Score=28.88 Aligned_cols=64 Identities=22% Similarity=0.347 Sum_probs=37.9
Q ss_pred CCChHHHHHHHHHHhhhhHHHHHHHHhHHHHHHhHHHHHHHHHHHHHcCcccCCCCCCCCCCCCCCCC
Q 020267 134 GMQITEALKLQMEVQKRLHEQLERQLQLRIEAQGKYLKKIIEEQQRLSGVLTEAPGSGGSAPASGDNC 201 (328)
Q Consensus 134 g~qItEALrlQmEVQrrLhEQLER~LQLRIEAQGKYLqsiLEkqq~l~g~~~~~p~~~~~~~~~~~~~ 201 (328)
-+...+.+-.|||-|+++-.-||-.+++| -|.|--+| ..-..++..+.+-.++..+.++++|+.
T Consensus 181 YfE~k~~~t~~le~qk~tv~~Leaev~~~---K~~Y~~sl-rnLE~ISd~IHeeRssqs~~apssd~e 244 (426)
T KOG2008|consen 181 YFELKAKYTVQLEQQKKTVDDLEAEVTLA---KGEYKMSL-RNLEMISDEIHEERSSQSAMAPSSDGE 244 (426)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh---hccHHHHH-HHHHHHHHHHHHhhhhhhccCCCcccc
Confidence 35677889999999999999999878774 45564333 122223333333223333334445554
No 25
>COG5665 NOT5 CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
Probab=26.49 E-value=2.6e+02 Score=29.63 Aligned_cols=32 Identities=31% Similarity=0.406 Sum_probs=19.8
Q ss_pred HHHhhhhHHHHH-HHHhHHHHHHh---HHHHHHHHHH
Q 020267 145 MEVQKRLHEQLE-RQLQLRIEAQG---KYLKKIIEEQ 177 (328)
Q Consensus 145 mEVQrrLhEQLE-R~LQLRIEAQG---KYLqsiLEkq 177 (328)
-|+||.| ||+| ..|.-|||.|- .-|..||.+-
T Consensus 122 ~el~~q~-e~~ea~e~e~~~erh~~h~~~le~i~~~l 157 (548)
T COG5665 122 DELQKQL-EQYEAQENEEQTERHEFHIANLENILKKL 157 (548)
T ss_pred HHHHHHH-HHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 3666665 6777 77888888763 2344555443
No 26
>PF00517 GP41: Retroviral envelope protein; InterPro: IPR000328 This entry represents envelope proteins from a variety of retroviruses. It includes the GP41 subunit of the envelope protein complex from Human immunodeficiency virus (HIV) and Simian-Human immunodeficiency virus (SIV), which mediate membrane fusion during viral entry []. It has a core composed of a six-helix bundle and is folded by its trimeric N- and C-terminal heptad-repeats (NHR and CHR) []. Derivatives of this protein prevent HIV-1 from entering cell lines and primary human CD4+ cells in vitro [], making it an attractive subject of gene therapy studies against HIV and related retroviruses. The entry also represents envelop proteins from Bovine immunodeficiency virus, Feline immunodeficiency virus and Equine infectious anemia virus (EIAV) [, ], as well as the Gp36 protein from Mouse mammary tumor virus (MMTV) and Human endogenous retrovirus (HERV).; GO: 0005198 structural molecule activity, 0019031 viral envelope; PDB: 2EZO_B 2EZQ_B 2EZR_A 2JNR_B 1F23_D 2EZP_A 1JEK_A 2Q7C_A 2Q5U_A 2Q3I_A ....
Probab=24.60 E-value=1.5e+02 Score=27.38 Aligned_cols=35 Identities=34% Similarity=0.369 Sum_probs=27.5
Q ss_pred hHHHHHHHHHHhhhhHHHHH--HH----HhHHHHHHhHHHH
Q 020267 137 ITEALKLQMEVQKRLHEQLE--RQ----LQLRIEAQGKYLK 171 (328)
Q Consensus 137 ItEALrlQmEVQrrLhEQLE--R~----LQLRIEAQGKYLq 171 (328)
.+.+|++|-..|..|.-++- ++ ||-|+.|=.+||+
T Consensus 23 ~~~ll~~~e~~~~lL~l~v~gik~~V~~L~aRV~alE~~l~ 63 (204)
T PF00517_consen 23 QSNLLRAQEAQQHLLQLTVWGIKQGVKQLQARVLALERYLK 63 (204)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhHHHHHHHhh
Confidence 46788888888888887766 55 9999988777764
No 27
>PHA03185 UL14 tegument protein; Provisional
Probab=22.23 E-value=2.5e+02 Score=26.97 Aligned_cols=25 Identities=32% Similarity=0.567 Sum_probs=13.2
Q ss_pred HHHHHHHhhhhHHHHH---HHHhHHHHHH
Q 020267 141 LKLQMEVQKRLHEQLE---RQLQLRIEAQ 166 (328)
Q Consensus 141 LrlQmEVQrrLhEQLE---R~LQLRIEAQ 166 (328)
|..||-.+.|| |.+| |.+|.|||+|
T Consensus 57 l~aqLrS~aRv-e~VeQKar~Iq~rVEeQ 84 (214)
T PHA03185 57 LEARLKSRARL-EMLRQHAACVKIRVEEQ 84 (214)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence 33344333333 3444 6677777766
No 28
>PF00067 p450: Cytochrome P450 p450 superfamily signature b-class p450 signature mitochondrial p450 signature E-class p450 group I signature E-class p450 group II signature E-class p450 group IV signature; InterPro: IPR001128 Cytochrome P450 enzymes are a superfamily of haem-containing mono-oxygenases that are found in all kingdoms of life, and which show extraordinary diversity in their reaction chemistry. In mammals, these proteins are found primarily in microsomes of hepatocytes and other cell types, where they oxidise steroids, fatty acids and xenobiotics, and are important for the detoxification and clearance of various compounds, as well as for hormone synthesis and breakdown, cholesterol synthesis and vitamin D metabolism. In plants, these proteins are important for the biosynthesis of several compounds such as hormones, defensive compounds and fatty acids. In bacteria, they are important for several metabolic processes, such as the biosynthesis of antibiotic erythromycin in Saccharopolyspora erythraea (Streptomyces erythraeus). Cytochrome P450 enzymes use haem to oxidise their substrates, using protons derived from NADH or NADPH to split the oxygen so a single atom can be added to a substrate. They also require electrons, which they receive from a variety of redox partners. In certain cases, cytochrome P450 can be fused to its redox partner to produce a bi-functional protein, such as with P450BM-3 from Bacillus megaterium [], which has haem and flavin domains. Organisms produce many different cytochrome P450 enzymes (at least 58 in humans), which together with alternative splicing can provide a wide array of enzymes with different substrate and tissue specificities. Individual cytochrome P450 proteins follow the nomenclature: CYP, followed by a number (family), then a letter (subfamily), and another number (protein); e.g. CYP3A4 is the fourth protein in family 3, subfamily A. In general, family members should share >40% identity, while subfamily members should share >55% identity. Cytochrome P450 proteins can also be grouped by two different schemes. One scheme was based on a taxonomic split: class I (prokaryotic/mitochondrial) and class II (eukaryotic microsomes). The other scheme was based on the number of components in the system: class B (3-components) and class E (2-components). These classes merge to a certain degree. Most prokaryotes and mitochondria (and fungal CYP55) have 3-component systems (class I/class B) - a FAD-containing flavoprotein (NAD(P)H-dependent reductase), an iron-sulphur protein and P450. Most eukaryotic microsomes have 2-component systems (class II/class E) - NADPH:P450 reductase (FAD and FMN-containing flavoprotein) and P450. There are exceptions to this scheme, such as 1-component systems that resemble class E enzymes [, , ]. The class E enzymes can be further subdivided into five sequence clusters, groups I-V, each of which may contain more than one cytochrome P450 family (eg, CYP1 and CYP2 are both found in group I). The divergence of the cytochrome P450 superfamily into B- and E-classes, and further divergence into stable clusters within the E-class, appears to be very ancient, occurring before the appearance of eukaryotes. More information about these proteins can be found at Protein of the Month: Cytochrome P450 [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0016705 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 0020037 heme binding, 0055114 oxidation-reduction process; PDB: 2RFC_B 2RFB_A 3EJB_H 3EJE_H 3EJD_H 1N6B_A 1NR6_A 1DT6_A 3EL3_A 3DBG_B ....
Probab=21.93 E-value=1.4e+02 Score=27.03 Aligned_cols=39 Identities=28% Similarity=0.463 Sum_probs=30.9
Q ss_pred HHhhhhHHHHHH------HHhHHHHHHhHHHHHHHHHHHHHcCcc
Q 020267 146 EVQKRLHEQLER------QLQLRIEAQGKYLKKIIEEQQRLSGVL 184 (328)
Q Consensus 146 EVQrrLhEQLER------~LQLRIEAQGKYLqsiLEkqq~l~g~~ 184 (328)
|||.||++.|+. .+..-.-.+=.||++++.+..++....
T Consensus 294 ~~~~kl~~Ei~~~~~~~~~~~~~~l~~l~yl~a~i~EtlRl~p~~ 338 (463)
T PF00067_consen 294 EVQEKLREEIDSVLGDGREITFEDLSKLPYLDAVIKETLRLYPPV 338 (463)
T ss_dssp HHHHHHHHHHHHHTTTSSSHHHHHHGTGHHHHHHHHHHHHHSTSS
T ss_pred ccccccccccccccccccccccccccccccccccccccccccccc
Confidence 899999999883 345555567789999999999987644
No 29
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=21.12 E-value=40 Score=32.17 Aligned_cols=47 Identities=15% Similarity=0.184 Sum_probs=30.7
Q ss_pred CcccCCHHHHHHHHHHHHHhCCCCCCCccchhhhcCCCCccHHHHHHHhhhhh
Q 020267 50 QRLRWTHELHERFVDAVAQLGGPDRATPKGVLRVMGVQGLTIYHVKSHLQKYR 102 (328)
Q Consensus 50 pRlrWT~ELH~rFV~AV~qLGG~dkAtPK~IL~lM~V~GLT~~hVKSHLQKYR 102 (328)
..-+||++-|.+|.+||-.. +..+..|.+..+. .+..++.+|-|+|-
T Consensus 52 ~~~~~t~~~~~~~~~~l~~~----~~~~~~~~~~~~~--~~~v~~~~~~~~~~ 98 (335)
T KOG0724|consen 52 DEPRRTPDSWDKFAEALPLE----KRLEDKIEEYIGL--VFDVNIRESGQKPF 98 (335)
T ss_pred cccccchhhhhHHHhcCccc----cccchhHHhhhhh--HHHHhhhhccCCCc
Confidence 44569999999888876442 4556677666665 45556666666653
No 30
>PF11740 KfrA_N: Plasmid replication region DNA-binding N-term; InterPro: IPR021104 The KfrA family of protiens are encoded on plasmids, generally in or near gene clusters invloved in stable inheritance functions. These proteins are thought to form an all-helical structure, consisting of an N-terminal helix-turn-helix DNA binding domain and an extended coiled-coil tail. The best-characterised KfrA protein, encoded on the broad host-range Plasmid RK2, is a site-specific DNA-binding protein whose operator overlaps its own promoter. The DNA-binding domain is essential for function, while the coiled-coil domain is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning []. This entry represents the N-terminal DNA-binding domain.
Probab=20.66 E-value=4.5e+02 Score=21.11 Aligned_cols=32 Identities=22% Similarity=0.443 Sum_probs=27.5
Q ss_pred CCCCccchhhhcCCCCccHHHHHHHhhhhhhhcc
Q 020267 73 DRATPKGVLRVMGVQGLTIYHVKSHLQKYRLAKY 106 (328)
Q Consensus 73 dkAtPK~IL~lM~V~GLT~~hVKSHLQKYRl~k~ 106 (328)
.+.|...|...+| +=....|..||+-||....
T Consensus 18 ~~pT~~~Vr~~lG--~GS~~ti~~~l~~w~~~~~ 49 (120)
T PF11740_consen 18 KKPTVRAVRERLG--GGSMSTISKHLKEWREERE 49 (120)
T ss_pred CCCCHHHHHHHHC--CCCHHHHHHHHHHHHHhhh
Confidence 5899999999999 6788889999999997654
Done!