Query 021872
Match_columns 306
No_of_seqs 211 out of 399
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 06:19:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021872.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021872hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14379 Myb_CC_LHEQLE: MYB-CC 99.9 1.7E-25 3.6E-30 163.9 6.8 51 136-186 1-51 (51)
2 PLN03162 golden-2 like transcr 99.9 5.1E-24 1.1E-28 207.1 6.6 62 36-98 231-292 (526)
3 TIGR01557 myb_SHAQKYF myb-like 99.9 4.7E-22 1E-26 147.8 6.5 56 40-95 1-56 (57)
4 PF00249 Myb_DNA-binding: Myb- 97.4 0.00043 9.2E-09 48.6 5.4 48 42-93 1-48 (48)
5 smart00426 TEA TEA domain. 90.8 0.27 5.8E-06 38.7 3.2 46 44-91 5-67 (68)
6 PF14379 Myb_CC_LHEQLE: MYB-CC 89.9 0.85 1.8E-05 34.1 5.0 34 151-185 6-39 (51)
7 PF15235 GRIN_C: G protein-reg 78.0 1.7 3.6E-05 38.4 2.3 20 157-176 70-89 (137)
8 TIGR02894 DNA_bind_RsfA transc 68.5 27 0.00059 31.7 7.7 52 37-94 43-94 (161)
9 PF01519 DUF16: Protein of unk 66.7 26 0.00056 29.7 6.7 20 161-180 70-89 (102)
10 smart00501 BRIGHT BRIGHT, ARID 66.1 5.7 0.00012 31.3 2.7 47 47-94 32-85 (93)
11 PF12776 Myb_DNA-bind_3: Myb/S 64.2 9.4 0.0002 29.4 3.5 55 44-98 1-67 (96)
12 smart00717 SANT SANT SWI3, AD 62.0 38 0.00082 21.8 5.7 44 43-91 2-45 (49)
13 PF01285 TEA: TEA/ATTS domain 61.6 5.5 0.00012 40.6 2.2 55 38-92 45-112 (431)
14 cd00167 SANT 'SWI3, ADA2, N-Co 60.6 39 0.00084 21.5 5.5 44 44-92 1-44 (45)
15 cd07646 I-BAR_IMD_IRSp53 Inver 54.9 1.1E+02 0.0023 29.4 9.4 69 137-208 66-143 (232)
16 cd07644 I-BAR_IMD_BAIAP2L2 Inv 48.3 1.3E+02 0.0028 28.6 8.7 67 138-208 65-141 (215)
17 cd07645 I-BAR_IMD_BAIAP2L1 Inv 36.5 3E+02 0.0066 26.4 9.3 69 137-208 64-141 (226)
18 KOG2856 Adaptor protein PACSIN 36.3 1.7E+02 0.0036 30.5 7.9 13 283-295 398-410 (472)
19 cd08783 Death_MALT1 Death doma 34.5 66 0.0014 27.1 4.1 49 40-92 35-84 (97)
20 PF01388 ARID: ARID/BRIGHT DNA 30.1 29 0.00063 26.9 1.3 46 47-93 36-88 (92)
21 PF07384 DUF1497: Protein of u 29.4 45 0.00097 25.4 2.1 22 43-64 36-57 (59)
22 PF00435 Spectrin: Spectrin re 23.1 3E+02 0.0065 20.0 6.6 49 159-210 42-90 (105)
23 PRK10803 tol-pal system protei 22.5 2.5E+02 0.0053 26.6 6.2 40 144-184 54-94 (263)
24 PF08127 Propeptide_C1: Peptid 22.4 53 0.0012 23.2 1.3 35 49-90 1-35 (41)
25 PF09535 Gmx_para_CXXCG: Prote 21.6 44 0.00096 32.0 1.0 12 50-61 214-225 (237)
26 KOG3841 TEF-1 and related tran 20.3 67 0.0014 33.2 2.0 56 40-97 74-146 (455)
No 1
>PF14379 Myb_CC_LHEQLE: MYB-CC type transfactor, LHEQLE motif
Probab=99.92 E-value=1.7e-25 Score=163.86 Aligned_cols=51 Identities=88% Similarity=1.125 Sum_probs=48.9
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Q 021872 136 GYQVTEALRVQMEVQRRLHEQLEVQRRLQLRIEAQGKYLQSILEKACKALN 186 (306)
Q Consensus 136 ~~qi~EALr~QmEVQrrLhEQLEVQR~LQlRIEaQGKYLqsiLekaq~~L~ 186 (306)
+++|+||||+||||||||||||||||+||+|||||||||++|||||+++++
T Consensus 1 g~~i~EALr~QmEvQrrLhEQLEvQr~Lqlrieaqgkyl~~ilek~~~~~s 51 (51)
T PF14379_consen 1 GMQITEALRMQMEVQRRLHEQLEVQRHLQLRIEAQGKYLQSILEKAQKALS 51 (51)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence 578999999999999999999999999999999999999999999999863
No 2
>PLN03162 golden-2 like transcription factor; Provisional
Probab=99.89 E-value=5.1e-24 Score=207.11 Aligned_cols=62 Identities=48% Similarity=0.748 Sum_probs=58.9
Q ss_pred cCCCCCCcccCHHHHHHHHHHHHHhCCCCCCChhHHHHhhCCCCCCHHHHHHhhhhhhhcccc
Q 021872 36 TTDPKPRLRWTAELHDRFVDAVTQLGGPDKATPKTIMRTMGVKGLTLYHLKSHLQKYRLGKQA 98 (306)
Q Consensus 36 s~~~K~RlrWT~ELH~rFV~AV~qLGG~~kAtPK~Il~lM~v~gLT~~hVkSHLQKyRl~~~~ 98 (306)
...+|+||+||+|||++||+||++|| .++||||+||++|+|+|||++||||||||||+.+++
T Consensus 231 ~g~KKpRLrWTpELH~rFVeAV~qLG-~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~ 292 (526)
T PLN03162 231 PGKKKAKVDWTPELHRRFVHAVEQLG-VEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRH 292 (526)
T ss_pred CCCCCCcccCCHHHHHHHHHHHHHhC-cCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhccc
Confidence 34789999999999999999999999 799999999999999999999999999999998874
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=99.86 E-value=4.7e-22 Score=147.78 Aligned_cols=56 Identities=63% Similarity=0.997 Sum_probs=54.4
Q ss_pred CCCcccCHHHHHHHHHHHHHhCCCCCCChhHHHHhhCCCCCCHHHHHHhhhhhhhc
Q 021872 40 KPRLRWTAELHDRFVDAVTQLGGPDKATPKTIMRTMGVKGLTLYHLKSHLQKYRLG 95 (306)
Q Consensus 40 K~RlrWT~ELH~rFV~AV~qLGG~~kAtPK~Il~lM~v~gLT~~hVkSHLQKyRl~ 95 (306)
|+|++||+|+|++|++||+.||+.+.||||.|+++|++++||+.||+|||||||+.
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=97.39 E-value=0.00043 Score=48.62 Aligned_cols=48 Identities=31% Similarity=0.439 Sum_probs=41.5
Q ss_pred CcccCHHHHHHHHHHHHHhCCCCCCChhHHHHhhCCCCCCHHHHHHhhhhhh
Q 021872 42 RLRWTAELHDRFVDAVTQLGGPDKATPKTIMRTMGVKGLTLYHLKSHLQKYR 93 (306)
Q Consensus 42 RlrWT~ELH~rFV~AV~qLGG~~kAtPK~Il~lM~v~gLT~~hVkSHLQKyR 93 (306)
|-.||+|=++.|++||.++|. + .-+.|-+.|+ .+-|..++++|.++|+
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~-~--~W~~Ia~~~~-~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGK-D--NWKKIAKRMP-GGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTT-T--HHHHHHHHHS-SSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCC-c--HHHHHHHHcC-CCCCHHHHHHHHHhhC
Confidence 568999999999999999993 2 6899999998 8999999999999985
No 5
>smart00426 TEA TEA domain.
Probab=90.77 E-value=0.27 Score=38.69 Aligned_cols=46 Identities=22% Similarity=0.375 Sum_probs=29.9
Q ss_pred ccCHHHHHHHHHHHHHhCCCCCCChh-HHHHh---hC-----------CCCC--CHHHHHHhhhh
Q 021872 44 RWTAELHDRFVDAVTQLGGPDKATPK-TIMRT---MG-----------VKGL--TLYHLKSHLQK 91 (306)
Q Consensus 44 rWT~ELH~rFV~AV~qLGG~~kAtPK-~Il~l---M~-----------v~gL--T~~hVkSHLQK 91 (306)
.|.++|-..|++|+...- ...+-| .+... .| ..|. |..+|.||+|.
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 699999999999998775 222222 22211 01 2454 77899999984
No 6
>PF14379 Myb_CC_LHEQLE: MYB-CC type transfactor, LHEQLE motif
Probab=89.90 E-value=0.85 Score=34.11 Aligned_cols=34 Identities=44% Similarity=0.507 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Q 021872 151 RRLHEQLEVQRRLQLRIEAQGKYLQSILEKACKAL 185 (306)
Q Consensus 151 rrLhEQLEVQR~LQlRIEaQGKYLqsiLekaq~~L 185 (306)
--|..|+||||+|.=.+|.| |-||.-+|...+-|
T Consensus 6 EALr~QmEvQrrLhEQLEvQ-r~Lqlrieaqgkyl 39 (51)
T PF14379_consen 6 EALRMQMEVQRRLHEQLEVQ-RHLQLRIEAQGKYL 39 (51)
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhHHH
Confidence 56889999999999999999 67887777665655
No 7
>PF15235 GRIN_C: G protein-regulated inducer of neurite outgrowth C-terminus
Probab=77.95 E-value=1.7 Score=38.40 Aligned_cols=20 Identities=20% Similarity=0.400 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHhhHHHHH
Q 021872 157 LEVQRRLQLRIEAQGKYLQS 176 (306)
Q Consensus 157 LEVQR~LQlRIEaQGKYLqs 176 (306)
+.||+||+++||+|++....
T Consensus 70 ~AIQkHLE~qi~e~~~q~~~ 89 (137)
T PF15235_consen 70 MAIQKHLERQIEEHERQRAP 89 (137)
T ss_pred HHHHHHHHHHHHHhhhcccc
Confidence 34999999999999987754
No 8
>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=68.47 E-value=27 Score=31.67 Aligned_cols=52 Identities=23% Similarity=0.326 Sum_probs=37.5
Q ss_pred CCCCCCcccCHHHHHHHHHHHHHhCCCCCCChhHHHHhhCCCCCCHHHHHHhhhhhhh
Q 021872 37 TDPKPRLRWTAELHDRFVDAVTQLGGPDKATPKTIMRTMGVKGLTLYHLKSHLQKYRL 94 (306)
Q Consensus 37 ~~~K~RlrWT~ELH~rFV~AV~qLGG~~kAtPK~Il~lM~v~gLT~~hVkSHLQKyRl 94 (306)
|..-..|||+..+-..+.+||..-- -.+-.++.. ...||+.+|-+-||.|..
T Consensus 43 TsAACGFRWNs~VRkqY~~~i~~AK-kqRk~~~~~-----~~~ltl~~vI~fLq~l~~ 94 (161)
T TIGR02894 43 TAAACGFRWNAYVRKQYEEAIELAK-KQRKELKRE-----AGSLTLQDVISFLQNLKT 94 (161)
T ss_pred cHHHhcchHHHHHHHHHHHHHHHHH-HHHhccccC-----cccCCHHHHHHHHHHHHh
Confidence 4567899999999999999997532 111111111 266999999999998863
No 9
>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=66.70 E-value=26 Score=29.72 Aligned_cols=20 Identities=50% Similarity=0.637 Sum_probs=18.0
Q ss_pred HHHHHHHHHhhHHHHHHHHH
Q 021872 161 RRLQLRIEAQGKYLQSILEK 180 (306)
Q Consensus 161 R~LQlRIEaQGKYLqsiLek 180 (306)
+.||.+|.+||+-|++|++.
T Consensus 70 kel~~e~k~qgktL~~I~~~ 89 (102)
T PF01519_consen 70 KELQVEQKAQGKTLQLILKT 89 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999843
No 10
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=66.10 E-value=5.7 Score=31.29 Aligned_cols=47 Identities=30% Similarity=0.464 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHhCCCCCCC----hhHHHHhhCCCCC---CHHHHHHhhhhhhh
Q 021872 47 AELHDRFVDAVTQLGGPDKAT----PKTIMRTMGVKGL---TLYHLKSHLQKYRL 94 (306)
Q Consensus 47 ~ELH~rFV~AV~qLGG~~kAt----PK~Il~lM~v~gL---T~~hVkSHLQKyRl 94 (306)
-+|++.|. +|..+||.+..+ =+.|.+.||++.- ...++|+|.+||=+
T Consensus 32 vdL~~Ly~-~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~ 85 (93)
T smart00501 32 LDLYRLYR-LVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLL 85 (93)
T ss_pred CcHHHHHH-HHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhH
Confidence 38999998 588999987544 3678899998752 35689999998844
No 11
>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=64.18 E-value=9.4 Score=29.39 Aligned_cols=55 Identities=16% Similarity=0.257 Sum_probs=36.7
Q ss_pred ccCHHHHHHHHHHHHHh---CCC-CCCCh-----hHHHHhhCC---CCCCHHHHHHhhhhhhhcccc
Q 021872 44 RWTAELHDRFVDAVTQL---GGP-DKATP-----KTIMRTMGV---KGLTLYHLKSHLQKYRLGKQA 98 (306)
Q Consensus 44 rWT~ELH~rFV~AV~qL---GG~-~kAtP-----K~Il~lM~v---~gLT~~hVkSHLQKyRl~~~~ 98 (306)
+||++..+-||+.+-+. |.- ....+ ..|.+.++- -.+|..||++|+...|..-+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y~~ 67 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDYRI 67 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHHHH
Confidence 69999999999988443 433 13333 446665552 346889999998876664443
No 12
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=61.99 E-value=38 Score=21.83 Aligned_cols=44 Identities=18% Similarity=0.324 Sum_probs=33.6
Q ss_pred cccCHHHHHHHHHHHHHhCCCCCCChhHHHHhhCCCCCCHHHHHHhhhh
Q 021872 43 LRWTAELHDRFVDAVTQLGGPDKATPKTIMRTMGVKGLTLYHLKSHLQK 91 (306)
Q Consensus 43 lrWT~ELH~rFV~AV~qLGG~~kAtPK~Il~lM~v~gLT~~hVkSHLQK 91 (306)
-.||++=...|+.+|.++| . ..-+.|-+.|+ +=|..+|+.+...
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g-~--~~w~~Ia~~~~--~rt~~~~~~~~~~ 45 (49)
T smart00717 2 GEWTEEEDELLIELVKKYG-K--NNWEKIAKELP--GRTAEQCRERWNN 45 (49)
T ss_pred CCCCHHHHHHHHHHHHHHC-c--CCHHHHHHHcC--CCCHHHHHHHHHH
Confidence 4699999999999999999 1 23566766664 7788888877654
No 13
>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=61.55 E-value=5.5 Score=40.61 Aligned_cols=55 Identities=18% Similarity=0.255 Sum_probs=29.4
Q ss_pred CCCCCcccCHHHHHHHHHHHHHhCCCCCCChh----------HHHHhhCC-CC--CCHHHHHHhhhhh
Q 021872 38 DPKPRLRWTAELHDRFVDAVTQLGGPDKATPK----------TIMRTMGV-KG--LTLYHLKSHLQKY 92 (306)
Q Consensus 38 ~~K~RlrWT~ELH~rFV~AV~qLGG~~kAtPK----------~Il~lM~v-~g--LT~~hVkSHLQKy 92 (306)
+.+..-+|++|+...|++|+...---...+-+ -|-+-+.. .| =|+.+|.||+|..
T Consensus 45 ~~~~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~yi~~~tg~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 45 DGDGEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISDYIKLKTGKTRTRKQVSSHIQVL 112 (431)
T ss_dssp -GGGS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHHHHHHHHS----SHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHHHHHHHhCcccchhHHHHHHHHH
Confidence 45678899999999999999776411122211 11111110 23 3778999999988
No 14
>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=60.57 E-value=39 Score=21.53 Aligned_cols=44 Identities=20% Similarity=0.363 Sum_probs=33.6
Q ss_pred ccCHHHHHHHHHHHHHhCCCCCCChhHHHHhhCCCCCCHHHHHHhhhhh
Q 021872 44 RWTAELHDRFVDAVTQLGGPDKATPKTIMRTMGVKGLTLYHLKSHLQKY 92 (306)
Q Consensus 44 rWT~ELH~rFV~AV~qLGG~~kAtPK~Il~lM~v~gLT~~hVkSHLQKy 92 (306)
.||++=+..|+.++.++|- ..-+.|-+.|+ +=|..+|+.|..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~---~~w~~Ia~~~~--~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGK---NNWEKIAKELP--GRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCc---CCHHHHHhHcC--CCCHHHHHHHHHHh
Confidence 4999999999999999992 24567777764 46778888876543
No 15
>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=54.92 E-value=1.1e+02 Score=29.40 Aligned_cols=69 Identities=28% Similarity=0.414 Sum_probs=50.4
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHhhHHHHHHHHHHHHHhhHHHHhhhcHHHHHHHHHHHHh
Q 021872 137 YQVTEALRVQMEVQRRLHEQLEVQ---------RRLQLRIEAQGKYLQSILEKACKALNDQAIVAAGLEAAREELSELAI 207 (306)
Q Consensus 137 ~qi~EALr~QmEVQrrLhEQLEVQ---------R~LQlRIEaQGKYLqsiLekaq~~L~~~~~~~~gle~a~~eLs~l~~ 207 (306)
-.|..||.-=-+|+|.++.+||++ ..|+-++|..-||+...+.+= ...+-....++|-+++||-.+--
T Consensus 66 keLG~~L~~m~~~hr~i~~~le~~lk~Fh~eli~pLE~k~E~D~k~i~a~~Kky---~~e~k~k~~sleK~qseLKKlRr 142 (232)
T cd07646 66 KELGDVLFQMAEVHRQIQNQLEEMLKSFHNELLTQLEQKVELDSRYLTAALKKY---QTEHRSKGESLEKCQAELKKLRK 142 (232)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666644347777777777644 368899999999999877543 33466777899999999988765
Q ss_pred h
Q 021872 208 K 208 (306)
Q Consensus 208 ~ 208 (306)
+
T Consensus 143 K 143 (232)
T cd07646 143 K 143 (232)
T ss_pred h
Confidence 5
No 16
>cd07644 I-BAR_IMD_BAIAP2L2 Inverse (I)-BAR, also known as the IRSp53/MIM homology Domain (IMD), of Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2-Like 2. 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. This group is composed of uncharacterized proteins known as BAIAP2L2 (Brain-specific Angiogenesis Inhibitor 1-Associated Protein 2-Like 2). They contain an N-terminal IMD, an SH3 domain, and a WASP homology 2 (WH2) actin-binding motif at the C-terminus. The related proteins, BAIAP2L1 and IRSp53, function as regulators of membrane dynamics and the actin cytoskeleton. The IMD domain binds and bundles actin filaments, binds membranes and produces membrane protrusions, and interacts with the small GTPase Rac.
Probab=48.33 E-value=1.3e+02 Score=28.63 Aligned_cols=67 Identities=25% Similarity=0.295 Sum_probs=44.4
Q ss_pred chHHHHHHHH-HHHHHHHHHHHHH---------HHHHHHHHHhhHHHHHHHHHHHHHhhHHHHhhhcHHHHHHHHHHHHh
Q 021872 138 QVTEALRVQM-EVQRRLHEQLEVQ---------RRLQLRIEAQGKYLQSILEKACKALNDQAIVAAGLEAAREELSELAI 207 (306)
Q Consensus 138 qi~EALr~Qm-EVQrrLhEQLEVQ---------R~LQlRIEaQGKYLqsiLekaq~~L~~~~~~~~gle~a~~eLs~l~~ 207 (306)
.+.++| ||| ||+|+|+.|||+. .+|.-..|---||++.-+.+= ...|-.-+.+||-+.+||-.+--
T Consensus 65 ~LG~vL-mqisev~r~i~~~le~~lk~FH~ell~~LEkk~elD~kyi~~s~KkY---q~E~r~k~dsleK~~selkk~rr 140 (215)
T cd07644 65 SLGEIL-IQMSETQRKLSADLEVVFQTFHVDLLQHMDKNTKLDMQFIEDSRRVY---ELEYRHRAANLEKCMSELWRMER 140 (215)
T ss_pred HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH---HHHHHHhhhhHHHHHHHHHHHHH
Confidence 355555 555 9999999999854 345556666778887766443 33456666778877776666544
Q ss_pred h
Q 021872 208 K 208 (306)
Q Consensus 208 ~ 208 (306)
+
T Consensus 141 k 141 (215)
T cd07644 141 Q 141 (215)
T ss_pred h
Confidence 4
No 17
>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=36.54 E-value=3e+02 Score=26.38 Aligned_cols=69 Identities=19% Similarity=0.326 Sum_probs=52.0
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHhhHHHHHHHHHHHHHhhHHHHhhhcHHHHHHHHHHHHh
Q 021872 137 YQVTEALRVQMEVQRRLHEQLEVQ---------RRLQLRIEAQGKYLQSILEKACKALNDQAIVAAGLEAAREELSELAI 207 (306)
Q Consensus 137 ~qi~EALr~QmEVQrrLhEQLEVQ---------R~LQlRIEaQGKYLqsiLekaq~~L~~~~~~~~gle~a~~eLs~l~~ 207 (306)
..|.++|--=-||+|+++.|||.. ..|.-.+|..-||+...+.+= ...+-.-..+||-+.++|--+--
T Consensus 64 keLG~~L~qi~ev~r~i~~~le~~lK~Fh~Ell~~LE~k~elD~kyi~a~~Kky---q~E~k~k~dsLeK~~seLKK~RR 140 (226)
T cd07645 64 KELGHVLMEISDVHKKLNDSLEENFKKFHREIIAELERKTDLDVKYMTATLKRY---QTEHKNKLDSLEKSQADLKKIRR 140 (226)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHh
Confidence 345666643348999998887733 467889999999999999763 33466777899999999888876
Q ss_pred h
Q 021872 208 K 208 (306)
Q Consensus 208 ~ 208 (306)
+
T Consensus 141 K 141 (226)
T cd07645 141 K 141 (226)
T ss_pred c
Confidence 6
No 18
>KOG2856 consensus Adaptor protein PACSIN [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=36.32 E-value=1.7e+02 Score=30.46 Aligned_cols=13 Identities=31% Similarity=0.751 Sum_probs=10.0
Q ss_pred CCCCCCCCCcccc
Q 021872 283 GNGESLPLEGNMR 295 (306)
Q Consensus 283 ~~~~~~~~~~~~r 295 (306)
+|||+.|++|+-.
T Consensus 398 ~nGdsnPfdd~a~ 410 (472)
T KOG2856|consen 398 SNGDSNPFDDDAK 410 (472)
T ss_pred CCCCCCCCccccc
Confidence 5789999987743
No 19
>cd08783 Death_MALT1 Death domain similar to that found in Mucosa-associated lymphoid tissue-lymphoma-translocation gene 1. Death domain (DD) similar to that found in Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1). Malt1, together with Bcl10 (B-cell lymphoma 10), are the integral components of the CBM signalosome. They associate with CARD9 to form M-CBM (CBM complex in myeloid immune cells) and with CARMA1 to form L-CBM (CBM complex in lymphoid immune cells), to mediate activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins
Probab=34.46 E-value=66 Score=27.12 Aligned_cols=49 Identities=20% Similarity=0.448 Sum_probs=39.7
Q ss_pred CCCcccCH-HHHHHHHHHHHHhCCCCCCChhHHHHhhCCCCCCHHHHHHhhhhh
Q 021872 40 KPRLRWTA-ELHDRFVDAVTQLGGPDKATPKTIMRTMGVKGLTLYHLKSHLQKY 92 (306)
Q Consensus 40 K~RlrWT~-ELH~rFV~AV~qLGG~~kAtPK~Il~lM~v~gLT~~hVkSHLQKy 92 (306)
.+|||-++ ||+++-...+..-| .--|..|+.|++.|=|+.++-.-||+-
T Consensus 35 ~~~fr~S~~el~~cslkvl~p~g----SPsk~LL~~~~~rg~Tv~~Ll~~L~~M 84 (97)
T cd08783 35 RGRFRLSCLDLEQCSLKVLEPEG----SPSRSLLKLLGERGCTVTELSEFLQAM 84 (97)
T ss_pred CCccccCHHHHHHHHHHHhcCCC----CchHHHHHHHHHcCCcHHHHHHHHHHh
Confidence 34888888 88888887776555 234889999999999999999998864
No 20
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=30.07 E-value=29 Score=26.87 Aligned_cols=46 Identities=33% Similarity=0.503 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHhCCCCCCCh----hHHHHhhCCCCC-C--HHHHHHhhhhhh
Q 021872 47 AELHDRFVDAVTQLGGPDKATP----KTIMRTMGVKGL-T--LYHLKSHLQKYR 93 (306)
Q Consensus 47 ~ELH~rFV~AV~qLGG~~kAtP----K~Il~lM~v~gL-T--~~hVkSHLQKyR 93 (306)
-+|+..|. +|...||.++.+- ..|-+.||++.- + ...++.|..+|=
T Consensus 36 vDL~~Ly~-~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L 88 (92)
T PF01388_consen 36 VDLYKLYK-AVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYL 88 (92)
T ss_dssp -SHHHHHH-HHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHT
T ss_pred CcHHHHHH-HHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHh
Confidence 37888886 5668999876554 468888998653 2 257888888774
No 21
>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=29.41 E-value=45 Score=25.41 Aligned_cols=22 Identities=23% Similarity=0.635 Sum_probs=19.1
Q ss_pred cccCHHHHHHHHHHHHHhCCCC
Q 021872 43 LRWTAELHDRFVDAVTQLGGPD 64 (306)
Q Consensus 43 lrWT~ELH~rFV~AV~qLGG~~ 64 (306)
-++..|+|..|-+-|..|||-+
T Consensus 36 ~kfnqem~aefheri~klggk~ 57 (59)
T PF07384_consen 36 NKFNQEMQAEFHERIKKLGGKN 57 (59)
T ss_pred hHhhHHHHHHHHHHHHHhcccc
Confidence 3578999999999999999854
No 22
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=23.13 E-value=3e+02 Score=19.97 Aligned_cols=49 Identities=24% Similarity=0.338 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHhhHHHHhhhcHHHHHHHHHHHHhhhh
Q 021872 159 VQRRLQLRIEAQGKYLQSILEKACKALNDQAIVAAGLEAAREELSELAIKVS 210 (306)
Q Consensus 159 VQR~LQlRIEaQGKYLqsiLekaq~~L~~~~~~~~gle~a~~eLs~l~~~~~ 210 (306)
-.+.++--|..+..-+..|.+.++.-.... +..-...+..+.+|.....
T Consensus 42 ~~~~~~~ei~~~~~~l~~l~~~~~~L~~~~---~~~~~~i~~~~~~l~~~w~ 90 (105)
T PF00435_consen 42 KHKELQEEIESRQERLESLNEQAQQLIDSG---PEDSDEIQEKLEELNQRWE 90 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT---HTTHHHHHHHHHHHHHHHH
T ss_pred HHhhhhhHHHHHHHHHHHHHHHHHHHHHcC---CCcHHHHHHHHHHHHHHHH
Confidence 334445556666677777777776653322 3333445555666555433
No 23
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=22.45 E-value=2.5e+02 Score=26.58 Aligned_cols=40 Identities=18% Similarity=0.341 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Q 021872 144 RVQMEVQRRLHE-QLEVQRRLQLRIEAQGKYLQSILEKACKA 184 (306)
Q Consensus 144 r~QmEVQrrLhE-QLEVQR~LQlRIEaQGKYLqsiLekaq~~ 184 (306)
+.+.|+|.+|.+ |-|| +.|.=.||.+.--|+.|.+++.+-
T Consensus 54 ~~~~~l~~ql~~lq~ev-~~LrG~~E~~~~~l~~~~~rq~~~ 94 (263)
T PRK10803 54 QLLTQLQQQLSDNQSDI-DSLRGQIQENQYQLNQVVERQKQI 94 (263)
T ss_pred HHHHHHHHHHHHHHHHH-HHHhhHHHHHHHHHHHHHHHHHHH
Confidence 456788888866 4445 357788999999999999988774
No 24
>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=22.39 E-value=53 Score=23.23 Aligned_cols=35 Identities=23% Similarity=0.273 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHhCCCCCCChhHHHHhhCCCCCCHHHHHHhhh
Q 021872 49 LHDRFVDAVTQLGGPDKATPKTIMRTMGVKGLTLYHLKSHLQ 90 (306)
Q Consensus 49 LH~rFV~AV~qLGG~~kAtPK~Il~lM~v~gLT~~hVkSHLQ 90 (306)
|-+.||+-||...-..+|-.- .++.|..+|++.|-
T Consensus 1 Lsde~I~~IN~~~~tWkAG~N-------F~~~~~~~ik~LlG 35 (41)
T PF08127_consen 1 LSDEFIDYINSKNTTWKAGRN-------FENTSIEYIKRLLG 35 (41)
T ss_dssp S-HHHHHHHHHCT-SEEE-----------SSB-HHHHHHCS-
T ss_pred CCHHHHHHHHcCCCcccCCCC-------CCCCCHHHHHHHcC
Confidence 457899999998766666543 46777777776654
No 25
>PF09535 Gmx_para_CXXCG: Protein of unknown function (Gmx_para_CXXCG); InterPro: IPR011750 This entry consists of at least 10 paralogous proteins from Myxococcus xanthus that lack detectable sequence similarity to any other protein family. An imperfectly conserved CXXCG motif, a probable binding site, appears twice in the multiple sequence alignment.
Probab=21.58 E-value=44 Score=32.05 Aligned_cols=12 Identities=58% Similarity=1.057 Sum_probs=11.0
Q ss_pred HHHHHHHHHHhC
Q 021872 50 HDRFVDAVTQLG 61 (306)
Q Consensus 50 H~rFV~AV~qLG 61 (306)
-+|||+||++||
T Consensus 214 TERFVeAv~rL~ 225 (237)
T PF09535_consen 214 TERFVEAVQRLG 225 (237)
T ss_pred eHHHHHHHHhcC
Confidence 479999999999
No 26
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=20.32 E-value=67 Score=33.18 Aligned_cols=56 Identities=20% Similarity=0.265 Sum_probs=36.0
Q ss_pred CCCcccCHHHHHHHHHHHHHhCCCCCCChhHHHH--------------hhCC---CCCCHHHHHHhhhhhhhccc
Q 021872 40 KPRLRWTAELHDRFVDAVTQLGGPDKATPKTIMR--------------TMGV---KGLTLYHLKSHLQKYRLGKQ 97 (306)
Q Consensus 40 K~RlrWT~ELH~rFV~AV~qLGG~~kAtPK~Il~--------------lM~v---~gLT~~hVkSHLQKyRl~~~ 97 (306)
-.-=+|+++.-+.|.+|+...- .--+-|-|+. -+.. +-=|+.+|.||.|..-..+.
T Consensus 74 daegvWSpdIEqsFqEALaiyp--pcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~ 146 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYP--PCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKL 146 (455)
T ss_pred ccccccChhHHHHHHHHHhhcC--CCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHH
Confidence 3445899999999999997653 1123333332 2222 33478999999997654443
Done!