Query 035950
Match_columns 320
No_of_seqs 206 out of 412
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 07:55:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035950.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035950hhsearch_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 1.1E-24 2.4E-29 160.5 6.4 51 242-292 1-51 (51)
2 PLN03162 golden-2 like transcr 99.9 3.2E-24 6.9E-29 209.5 6.9 65 155-220 230-294 (526)
3 TIGR01557 myb_SHAQKYF myb-like 99.9 3.1E-22 6.8E-27 149.4 6.0 56 160-215 1-56 (57)
4 PF00249 Myb_DNA-binding: Myb- 97.3 0.00048 1E-08 48.6 4.9 48 162-213 1-48 (48)
5 smart00426 TEA TEA domain. 91.2 0.21 4.5E-06 39.6 3.0 46 164-211 5-67 (68)
6 PF14379 Myb_CC_LHEQLE: MYB-CC 90.4 0.2 4.4E-06 37.7 2.1 39 257-296 6-44 (51)
7 PF15235 GRIN_C: G protein-reg 76.8 1.8 3.8E-05 38.5 2.1 26 264-289 71-96 (137)
8 PF12776 Myb_DNA-bind_3: Myb/S 66.6 7.5 0.00016 30.1 3.4 51 164-214 1-63 (96)
9 PF01285 TEA: TEA/ATTS domain 63.3 7.6 0.00016 39.8 3.6 54 158-212 45-112 (431)
10 cd00167 SANT 'SWI3, ADA2, N-Co 55.5 42 0.00092 21.5 5.0 43 164-211 1-43 (45)
11 smart00717 SANT SANT SWI3, AD 53.9 39 0.00084 21.9 4.7 43 163-211 2-45 (49)
12 smart00501 BRIGHT BRIGHT, ARID 52.6 14 0.00031 29.2 2.8 46 167-213 32-84 (93)
13 KOG3841 TEF-1 and related tran 47.7 8.3 0.00018 39.7 0.9 54 161-216 75-145 (455)
14 PF01519 DUF16: Protein of unk 47.4 68 0.0015 27.4 6.1 30 261-290 64-93 (102)
15 PF07384 DUF1497: Protein of u 39.7 23 0.0005 27.2 2.0 21 164-184 37-57 (59)
16 TIGR02894 DNA_bind_RsfA transc 32.3 34 0.00074 31.3 2.2 50 159-214 45-94 (161)
17 PF08127 Propeptide_C1: Peptid 23.7 58 0.0013 23.2 1.7 36 169-211 1-36 (41)
No 1
>PF14379 Myb_CC_LHEQLE: MYB-CC type transfactor, LHEQLE motif
Probab=99.91 E-value=1.1e-24 Score=160.49 Aligned_cols=51 Identities=55% Similarity=0.857 Sum_probs=48.9
Q ss_pred ccchhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCC
Q 035950 242 GMQLVETLKLQLDVQKRLHDQLEVQRNLQLQIEEQGKQLTQMLDQQLKPNK 292 (320)
Q Consensus 242 ~~qi~eaL~~QmEvQkrLhEQLEVQR~LQlRIEaQGKyLq~iLekaq~~~~ 292 (320)
|++|+|||++||||||||||||||||+||+|||||||||++|||+|+++++
T Consensus 1 g~~i~EALr~QmEvQrrLhEQLEvQr~Lqlrieaqgkyl~~ilek~~~~~s 51 (51)
T PF14379_consen 1 GMQITEALRMQMEVQRRLHEQLEVQRHLQLRIEAQGKYLQSILEKAQKALS 51 (51)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence 689999999999999999999999999999999999999999999999863
No 2
>PLN03162 golden-2 like transcription factor; Provisional
Probab=99.90 E-value=3.2e-24 Score=209.51 Aligned_cols=65 Identities=46% Similarity=0.725 Sum_probs=60.2
Q ss_pred CCCCCCCceecChHHHHHHHHHHHHhCCCCCcchhhhhhhcCCCCCcHHHHHHhhhhhhhccCCCC
Q 035950 155 MTSHSKTRIRWTQHLHNRFVECVEFLGGAEKATPKGILKLMDIDGLTIFHVKSHLQKYRTARHIPE 220 (320)
Q Consensus 155 ~~~~~K~RlrWT~ELH~rFV~AV~qLGG~~kAtPK~IL~lM~v~gLT~~hVkSHLQKYRl~~~~~~ 220 (320)
....+|+||+||+|||++||+||++|| .++||||+||++|+|+|||++||||||||||+.++...
T Consensus 230 ~~g~KKpRLrWTpELH~rFVeAV~qLG-~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~rk~l~ 294 (526)
T PLN03162 230 APGKKKAKVDWTPELHRRFVHAVEQLG-VEKAFPSRILELMGVQCLTRHNIASHLQKYRSHRRHLA 294 (526)
T ss_pred CCCCCCCcccCCHHHHHHHHHHHHHhC-cCccchHHHHHHcCCCCcCHHHHHHHHHHHHHhccccc
Confidence 345789999999999999999999998 79999999999999999999999999999999987543
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=3.1e-22 Score=149.42 Aligned_cols=56 Identities=57% Similarity=0.897 Sum_probs=54.4
Q ss_pred CCceecChHHHHHHHHHHHHhCCCCCcchhhhhhhcCCCCCcHHHHHHhhhhhhhc
Q 035950 160 KTRIRWTQHLHNRFVECVEFLGGAEKATPKGILKLMDIDGLTIFHVKSHLQKYRTA 215 (320)
Q Consensus 160 K~RlrWT~ELH~rFV~AV~qLGG~~kAtPK~IL~lM~v~gLT~~hVkSHLQKYRl~ 215 (320)
|+|++||+|+|++|++||+.||+.+.||||.|+++|++++||+.||+|||||||+.
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=97.31 E-value=0.00048 Score=48.60 Aligned_cols=48 Identities=29% Similarity=0.367 Sum_probs=41.2
Q ss_pred ceecChHHHHHHHHHHHHhCCCCCcchhhhhhhcCCCCCcHHHHHHhhhhhh
Q 035950 162 RIRWTQHLHNRFVECVEFLGGAEKATPKGILKLMDIDGLTIFHVKSHLQKYR 213 (320)
Q Consensus 162 RlrWT~ELH~rFV~AV~qLGG~~kAtPK~IL~lM~v~gLT~~hVkSHLQKYR 213 (320)
|..||+|=+.+|++||.++|. + .-+.|.+.|+ .|-|..++++|.++|+
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 568999999999999999992 2 6888999998 8999999999999985
No 5
>smart00426 TEA TEA domain.
Probab=91.24 E-value=0.21 Score=39.57 Aligned_cols=46 Identities=24% Similarity=0.270 Sum_probs=30.6
Q ss_pred ecChHHHHHHHHHHHHhCCCCCcchh-hhhhh--c------------CCCCC--cHHHHHHhhhh
Q 035950 164 RWTQHLHNRFVECVEFLGGAEKATPK-GILKL--M------------DIDGL--TIFHVKSHLQK 211 (320)
Q Consensus 164 rWT~ELH~rFV~AV~qLGG~~kAtPK-~IL~l--M------------~v~gL--T~~hVkSHLQK 211 (320)
.|.++|-..|++|+...- ...+-| .+... | ...|. |..+|.||||.
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 333333 22211 1 12444 77899999985
No 6
>PF14379 Myb_CC_LHEQLE: MYB-CC type transfactor, LHEQLE motif
Probab=90.37 E-value=0.2 Score=37.65 Aligned_cols=39 Identities=36% Similarity=0.437 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCC
Q 035950 257 KRLHDQLEVQRNLQLQIEEQGKQLTQMLDQQLKPNKSLVD 296 (320)
Q Consensus 257 krLhEQLEVQR~LQlRIEaQGKyLq~iLekaq~~~~s~~~ 296 (320)
.-|+.|+||||.|.=.+|.| |-||.-+|.+.+-+.+.++
T Consensus 6 EALr~QmEvQrrLhEQLEvQ-r~Lqlrieaqgkyl~~ile 44 (51)
T PF14379_consen 6 EALRMQMEVQRRLHEQLEVQ-RHLQLRIEAQGKYLQSILE 44 (51)
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhHHHHHHHH
Confidence 56889999999999999998 6688778877776655443
No 7
>PF15235 GRIN_C: G protein-regulated inducer of neurite outgrowth C-terminus
Probab=76.78 E-value=1.8 Score=38.49 Aligned_cols=26 Identities=35% Similarity=0.411 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc
Q 035950 264 EVQRNLQLQIEEQGKQLTQMLDQQLK 289 (320)
Q Consensus 264 EVQR~LQlRIEaQGKyLq~iLekaq~ 289 (320)
-||+||+++||+|++.+..--.++.+
T Consensus 71 AIQkHLE~qi~e~~~q~~~~~~~~~~ 96 (137)
T PF15235_consen 71 AIQKHLERQIEEHERQRAPQKKQARK 96 (137)
T ss_pred HHHHHHHHHHHHhhhccccccccccc
Confidence 58999999999999987764444433
No 8
>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=66.56 E-value=7.5 Score=30.07 Aligned_cols=51 Identities=12% Similarity=0.172 Sum_probs=33.4
Q ss_pred ecChHHHHHHHHHHHHh---CCC-CCcch-----hhhhhhcCC---CCCcHHHHHHhhhhhhh
Q 035950 164 RWTQHLHNRFVECVEFL---GGA-EKATP-----KGILKLMDI---DGLTIFHVKSHLQKYRT 214 (320)
Q Consensus 164 rWT~ELH~rFV~AV~qL---GG~-~kAtP-----K~IL~lM~v---~gLT~~hVkSHLQKYRl 214 (320)
+||++..+.||+.+-+. |+- ..... ..|.+.++- -.+|..||++|+...|.
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 59999999999988443 432 12332 235555543 45688999999876443
No 9
>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=63.30 E-value=7.6 Score=39.82 Aligned_cols=54 Identities=17% Similarity=0.154 Sum_probs=29.2
Q ss_pred CCCCceecChHHHHHHHHHHHHhCCCCCcchh--------------hhhhhcCCCCCcHHHHHHhhhhh
Q 035950 158 HSKTRIRWTQHLHNRFVECVEFLGGAEKATPK--------------GILKLMDIDGLTIFHVKSHLQKY 212 (320)
Q Consensus 158 ~~K~RlrWT~ELH~rFV~AV~qLGG~~kAtPK--------------~IL~lM~v~gLT~~hVkSHLQKY 212 (320)
+.+..-+|.+++...|++|+...-=..+.+-+ .|...-| .-=|+.+|.||+|..
T Consensus 45 ~~~~~~vw~~~~e~af~~al~~~~~~g~~k~~~~~~~~grn~li~~yi~~~tg-~~rt~kqvsshiqvl 112 (431)
T PF01285_consen 45 DGDGEGVWPPDIEQAFQEALAIYPPCGRRKLSDEGKMYGRNELISDYIKLKTG-KTRTRKQVSSHIQVL 112 (431)
T ss_dssp -GGGS--S-HHHHHHHHHHHHHS-SSS---HHHH-----THHHHHHHHHHHHS-----SHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHHHHHhCCCCCCcccccccccccchhHHHHHHHHHhC-cccchhHHHHHHHHH
Confidence 36788899999999999999876311122211 1111111 224779999999998
No 10
>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=55.50 E-value=42 Score=21.46 Aligned_cols=43 Identities=21% Similarity=0.287 Sum_probs=32.5
Q ss_pred ecChHHHHHHHHHHHHhCCCCCcchhhhhhhcCCCCCcHHHHHHhhhh
Q 035950 164 RWTQHLHNRFVECVEFLGGAEKATPKGILKLMDIDGLTIFHVKSHLQK 211 (320)
Q Consensus 164 rWT~ELH~rFV~AV~qLGG~~kAtPK~IL~lM~v~gLT~~hVkSHLQK 211 (320)
.||++=+..|+.++.++|- ..=+.|-+.|+ +=|..+|+.|..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~---~~w~~Ia~~~~--~rs~~~~~~~~~~ 43 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGK---NNWEKIAKELP--GRTPKQCRERWRN 43 (45)
T ss_pred CCCHHHHHHHHHHHHHHCc---CCHHHHHhHcC--CCCHHHHHHHHHH
Confidence 4999999999999999992 23456666664 4677888877654
No 11
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=53.89 E-value=39 Score=21.89 Aligned_cols=43 Identities=21% Similarity=0.268 Sum_probs=32.6
Q ss_pred eecChHHHHHHHHHHHHhC-CCCCcchhhhhhhcCCCCCcHHHHHHhhhh
Q 035950 163 IRWTQHLHNRFVECVEFLG-GAEKATPKGILKLMDIDGLTIFHVKSHLQK 211 (320)
Q Consensus 163 lrWT~ELH~rFV~AV~qLG-G~~kAtPK~IL~lM~v~gLT~~hVkSHLQK 211 (320)
-.||++=...|+.+|.++| +- =+.|-+.|+ +=|...|+.+...
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~~----w~~Ia~~~~--~rt~~~~~~~~~~ 45 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKNN----WEKIAKELP--GRTAEQCRERWNN 45 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcCC----HHHHHHHcC--CCCHHHHHHHHHH
Confidence 4699999999999999998 32 355666654 7788888776554
No 12
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=52.63 E-value=14 Score=29.19 Aligned_cols=46 Identities=22% Similarity=0.288 Sum_probs=33.7
Q ss_pred hHHHHHHHHHHHHhCCCCCcc----hhhhhhhcCCCCC---cHHHHHHhhhhhh
Q 035950 167 QHLHNRFVECVEFLGGAEKAT----PKGILKLMDIDGL---TIFHVKSHLQKYR 213 (320)
Q Consensus 167 ~ELH~rFV~AV~qLGG~~kAt----PK~IL~lM~v~gL---T~~hVkSHLQKYR 213 (320)
-+|+..|. +|..+||.++.+ =+.|.+.||++.- ...++|+|-.||=
T Consensus 32 vdL~~Ly~-~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L 84 (93)
T smart00501 32 LDLYRLYR-LVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYL 84 (93)
T ss_pred CcHHHHHH-HHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHh
Confidence 38999998 599999987544 3567888998752 2466788877763
No 13
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=47.71 E-value=8.3 Score=39.68 Aligned_cols=54 Identities=20% Similarity=0.228 Sum_probs=36.3
Q ss_pred CceecChHHHHHHHHHHHHhCCCCCcchhhhhhhcC--------------C---CCCcHHHHHHhhhhhhhcc
Q 035950 161 TRIRWTQHLHNRFVECVEFLGGAEKATPKGILKLMD--------------I---DGLTIFHVKSHLQKYRTAR 216 (320)
Q Consensus 161 ~RlrWT~ELH~rFV~AV~qLGG~~kAtPK~IL~lM~--------------v---~gLT~~hVkSHLQKYRl~~ 216 (320)
..=+|.++..+.|.||+...- .--+-|-||.-=| . +-=|+.+|.||.|..-..+
T Consensus 75 aegvWSpdIEqsFqEALaiyp--pcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk 145 (455)
T KOG3841|consen 75 AEGVWSPDIEQSFQEALAIYP--PCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRK 145 (455)
T ss_pred cccccChhHHHHHHHHHhhcC--CCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHH
Confidence 344799999999999998763 2233444443211 1 3357899999999865444
No 14
>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=47.43 E-value=68 Score=27.44 Aligned_cols=30 Identities=30% Similarity=0.316 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 035950 261 DQLEVQRNLQLQIEEQGKQLTQMLDQQLKP 290 (320)
Q Consensus 261 EQLEVQR~LQlRIEaQGKyLq~iLekaq~~ 290 (320)
.|=|.-+.||.+|.+||+-|++|++.-+..
T Consensus 64 ~QGEqIkel~~e~k~qgktL~~I~~~L~~i 93 (102)
T PF01519_consen 64 KQGEQIKELQVEQKAQGKTLQLILKTLQSI 93 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556899999999999999999876544
No 15
>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=39.74 E-value=23 Score=27.20 Aligned_cols=21 Identities=29% Similarity=0.621 Sum_probs=18.8
Q ss_pred ecChHHHHHHHHHHHHhCCCC
Q 035950 164 RWTQHLHNRFVECVEFLGGAE 184 (320)
Q Consensus 164 rWT~ELH~rFV~AV~qLGG~~ 184 (320)
++..|+|..|-+-|.+|||-+
T Consensus 37 kfnqem~aefheri~klggk~ 57 (59)
T PF07384_consen 37 KFNQEMQAEFHERIKKLGGKN 57 (59)
T ss_pred HhhHHHHHHHHHHHHHhcccc
Confidence 578999999999999999853
No 16
>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=32.34 E-value=34 Score=31.27 Aligned_cols=50 Identities=24% Similarity=0.396 Sum_probs=37.4
Q ss_pred CCCceecChHHHHHHHHHHHHhCCCCCcchhhhhhhcCCCCCcHHHHHHhhhhhhh
Q 035950 159 SKTRIRWTQHLHNRFVECVEFLGGAEKATPKGILKLMDIDGLTIFHVKSHLQKYRT 214 (320)
Q Consensus 159 ~K~RlrWT~ELH~rFV~AV~qLGG~~kAtPK~IL~lM~v~gLT~~hVkSHLQKYRl 214 (320)
....+||...+-..+.+||...- -.+-.+++. ...||+..|=+-||.|..
T Consensus 45 AACGFRWNs~VRkqY~~~i~~AK-kqRk~~~~~-----~~~ltl~~vI~fLq~l~~ 94 (161)
T TIGR02894 45 AACGFRWNAYVRKQYEEAIELAK-KQRKELKRE-----AGSLTLQDVISFLQNLKT 94 (161)
T ss_pred HHhcchHHHHHHHHHHHHHHHHH-HHHhccccC-----cccCCHHHHHHHHHHHHh
Confidence 46789999999999999998753 122222221 367999999999999873
No 17
>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=23.73 E-value=58 Score=23.21 Aligned_cols=36 Identities=19% Similarity=0.238 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHhCCCCCcchhhhhhhcCCCCCcHHHHHHhhhh
Q 035950 169 LHNRFVECVEFLGGAEKATPKGILKLMDIDGLTIFHVKSHLQK 211 (320)
Q Consensus 169 LH~rFV~AV~qLGG~~kAtPK~IL~lM~v~gLT~~hVkSHLQK 211 (320)
|-+.||+-|+...-..+|-.- .++.|+.+|+..|-.
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 457899999998766666543 477777777776654
Done!