Query 025458
Match_columns 252
No_of_seqs 102 out of 111
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 06:02:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025458.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025458hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12579 DUF3755: Protein of u 99.7 1E-17 2.2E-22 111.4 3.2 35 192-226 1-35 (35)
2 PF00249 Myb_DNA-binding: Myb- 98.3 2E-06 4.3E-11 59.0 5.5 44 60-107 2-46 (48)
3 smart00717 SANT SANT SWI3, AD 98.1 6.3E-06 1.4E-10 53.8 5.4 45 60-108 2-46 (49)
4 cd00167 SANT 'SWI3, ADA2, N-Co 98.0 1.2E-05 2.7E-10 51.7 5.0 42 61-106 1-42 (45)
5 PF13921 Myb_DNA-bind_6: Myb-l 97.5 0.00028 6E-09 49.8 5.5 41 62-107 1-41 (60)
6 PLN03212 Transcription repress 96.3 0.0051 1.1E-07 56.8 4.7 44 59-109 78-121 (249)
7 PLN03091 hypothetical protein; 95.3 0.024 5.2E-07 56.3 4.9 44 59-109 67-110 (459)
8 KOG4167 Predicted DNA-binding 94.7 0.056 1.2E-06 56.6 5.9 44 59-107 619-663 (907)
9 TIGR01557 myb_SHAQKYF myb-like 94.7 0.093 2E-06 38.2 5.4 48 59-110 3-55 (57)
10 PLN03091 hypothetical protein; 93.6 0.072 1.6E-06 53.0 3.9 44 59-108 14-58 (459)
11 PLN03212 Transcription repress 92.9 0.13 2.8E-06 47.8 4.1 44 59-108 25-69 (249)
12 KOG0048 Transcription factor, 92.6 0.16 3.4E-06 45.6 4.3 42 59-107 62-103 (238)
13 KOG0048 Transcription factor, 92.1 0.14 3.1E-06 46.0 3.3 45 59-109 9-54 (238)
14 COG5259 RSC8 RSC chromatin rem 90.6 0.38 8.3E-06 48.4 4.9 50 59-113 279-328 (531)
15 PF07011 DUF1313: Protein of u 85.3 2.4 5.3E-05 33.8 5.4 51 171-222 16-70 (87)
16 KOG0724 Zuotin and related mol 82.0 1.5 3.3E-05 40.7 3.6 48 60-107 32-83 (335)
17 KOG1279 Chromatin remodeling f 80.9 3.2 6.9E-05 42.1 5.6 58 55-117 249-306 (506)
18 KOG1194 Predicted DNA-binding 79.5 4.7 0.0001 40.8 6.2 43 56-103 184-226 (534)
19 PF00046 Homeobox: Homeobox do 78.4 7.9 0.00017 26.5 5.4 47 60-111 5-51 (57)
20 PF05030 SSXT: SSXT protein (N 77.5 4.7 0.0001 30.5 4.3 43 171-213 9-51 (65)
21 KOG3554 Histone deacetylase co 71.9 3.3 7.1E-05 42.2 2.9 41 60-104 286-326 (693)
22 KOG0049 Transcription factor, 70.9 4.5 9.7E-05 42.8 3.7 39 58-100 411-449 (939)
23 KOG0457 Histone acetyltransfer 66.3 7 0.00015 39.1 3.8 47 58-108 71-117 (438)
24 KOG3841 TEF-1 and related tran 65.8 22 0.00048 35.4 7.1 51 60-111 77-144 (455)
25 PF12579 DUF3755: Protein of u 59.7 8.3 0.00018 25.8 2.1 18 177-194 5-22 (35)
26 PF11626 Rap1_C: TRF2-interact 58.1 7 0.00015 30.1 1.8 40 60-110 48-87 (87)
27 KOG4329 DNA-binding protein [G 57.0 15 0.00032 36.5 4.2 46 58-107 276-322 (445)
28 PRK13923 putative spore coat p 56.8 1.4E+02 0.0031 26.4 11.7 44 61-107 7-52 (170)
29 PF13837 Myb_DNA-bind_4: Myb/S 46.4 48 0.001 24.3 4.7 50 60-109 2-64 (90)
30 PLN03142 Probable chromatin-re 43.5 33 0.00072 37.8 4.7 45 59-107 824-870 (1033)
31 cd01021 GEWL Goose Egg White L 39.0 33 0.00071 30.0 3.2 45 60-110 115-165 (166)
32 smart00389 HOX Homeodomain. DN 37.6 1E+02 0.0022 20.5 4.9 47 60-111 5-51 (56)
33 cd00086 homeodomain Homeodomai 36.1 1.2E+02 0.0026 20.2 5.0 48 59-111 4-51 (59)
34 KOG0050 mRNA splicing protein 33.6 46 0.001 34.5 3.6 42 60-105 8-49 (617)
35 PF10415 FumaraseC_C: Fumarase 32.9 19 0.00041 25.9 0.6 20 93-112 23-42 (55)
36 COG5118 BDP1 Transcription ini 32.3 78 0.0017 31.9 4.8 43 58-105 364-406 (507)
37 PF00831 Ribosomal_L29: Riboso 32.1 1.9E+02 0.0042 20.7 6.4 45 174-219 13-57 (58)
38 PF04504 DUF573: Protein of un 30.8 1E+02 0.0022 24.5 4.5 52 60-111 5-64 (98)
39 TIGR01801 CM_A chorismate muta 30.8 38 0.00081 27.1 2.0 65 167-242 14-78 (102)
40 KOG3208 SNARE protein GS28 [In 28.2 1.3E+02 0.0028 28.0 5.3 54 165-218 52-120 (231)
41 PF00763 THF_DHG_CYH: Tetrahyd 27.8 34 0.00074 27.6 1.4 56 183-244 53-112 (117)
42 PF06875 PRF: Plethodontid rec 27.7 3.9E+02 0.0085 24.7 8.2 55 170-227 94-157 (214)
43 PRK14176 bifunctional 5,10-met 27.1 46 0.001 31.5 2.3 61 181-247 60-124 (287)
44 PF07750 GcrA: GcrA cell cycle 26.3 93 0.002 26.9 3.8 44 60-109 1-44 (162)
45 PF08649 DASH_Dad1: DASH compl 25.7 2E+02 0.0042 21.4 4.9 48 177-226 4-51 (58)
46 PF08914 Myb_DNA-bind_2: Rap1 24.4 1.3E+02 0.0029 22.3 3.9 49 60-110 3-56 (65)
47 smart00426 TEA TEA domain. 24.0 1.3E+02 0.0029 23.0 3.8 21 60-80 4-24 (68)
48 PF11242 DUF2774: Protein of u 23.8 70 0.0015 24.2 2.3 21 84-105 14-34 (63)
49 KOG0049 Transcription factor, 23.8 70 0.0015 34.3 3.0 45 60-105 306-350 (939)
50 PRK14172 bifunctional 5,10-met 23.3 60 0.0013 30.6 2.3 49 192-246 65-117 (278)
51 KOG2857 Predicted MYND Zn-fing 23.2 1.6E+02 0.0035 25.9 4.6 47 170-220 96-142 (157)
52 cd04753 Commd5_HCaRG COMM_Doma 23.0 96 0.0021 25.3 3.1 25 197-221 77-101 (110)
53 PRK14188 bifunctional 5,10-met 22.2 54 0.0012 31.0 1.8 38 209-247 77-118 (296)
54 PF11229 DUF3028: Protein of u 21.6 1.2E+02 0.0026 31.6 4.1 61 51-113 304-367 (589)
55 COG4445 MiaE Hydroxylase for s 21.2 1.3E+02 0.0029 27.1 3.9 51 59-112 134-184 (203)
56 COG0255 RpmC Ribosomal protein 21.0 3.8E+02 0.0083 20.4 6.3 36 183-219 26-61 (69)
57 TIGR00601 rad23 UV excision re 20.7 1.7E+02 0.0037 28.7 4.8 45 172-220 259-303 (378)
58 PF12179 IKKbetaNEMObind: I-ka 20.7 1.1E+02 0.0024 21.0 2.6 19 174-192 2-20 (38)
59 PRK14168 bifunctional 5,10-met 20.5 64 0.0014 30.7 1.9 40 206-246 75-118 (297)
No 1
>PF12579 DUF3755: Protein of unknown function (DUF3755); InterPro: IPR022228 This domain family is found in eukaryotes, and is approximately 40 amino acids in length. There is a single completely conserved residue N that may be functionally important.
Probab=99.69 E-value=1e-17 Score=111.36 Aligned_cols=35 Identities=63% Similarity=1.019 Sum_probs=33.9
Q ss_pred hhhcccccHHHHHHHHHHHHHHHHHHhhhHHhhcc
Q 025458 192 AAFQIQDNISLLCQTRDNILRILNEMNNTSAIMRQ 226 (252)
Q Consensus 192 ~t~k~qeNidLf~r~RdNI~~IL~~M~~mpgiM~q 226 (252)
++||+|||||||||+||||.+||++|++|||||+|
T Consensus 1 st~q~~eNidLf~~~R~NI~~il~~m~~mpgim~q 35 (35)
T PF12579_consen 1 STFQLQENIDLFCQTRDNILAILNDMNDMPGIMSQ 35 (35)
T ss_pred CCcchhhhHHHHHHHHHHHHHHHHHHHcchhhhcC
Confidence 58999999999999999999999999999999987
No 2
>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=98.28 E-value=2e-06 Score=59.02 Aligned_cols=44 Identities=30% Similarity=0.508 Sum_probs=38.9
Q ss_pred CCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcC-CccHHHHHHHHHh
Q 025458 60 SEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLN-NKTVRDVALRCRW 107 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp-~KTvrDVAlR~rw 107 (252)
..||.||..+|.+++.+|... +|.+||..+| +||..+|-.|++-
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~----~W~~Ia~~~~~~Rt~~qc~~~~~~ 46 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKD----NWKKIAKRMPGGRTAKQCRSRYQN 46 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTT----HHHHHHHHHSSSSTHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHhCCc----HHHHHHHHcCCCCCHHHHHHHHHh
Confidence 379999999999999999887 9999999999 9999999888753
No 3
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.14 E-value=6.3e-06 Score=53.76 Aligned_cols=45 Identities=31% Similarity=0.493 Sum_probs=40.0
Q ss_pred CCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHhh
Q 025458 60 SEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRWM 108 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm 108 (252)
..||.||..+|..++..|.. .+|-.||..||+||..||..|++-+
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~----~~w~~Ia~~~~~rt~~~~~~~~~~~ 46 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGK----NNWEKIAKELPGRTAEQCRERWNNL 46 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCc----CCHHHHHHHcCCCCHHHHHHHHHHH
Confidence 47999999999999999974 4599999999999999998887644
No 4
>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=98.02 E-value=1.2e-05 Score=51.74 Aligned_cols=42 Identities=33% Similarity=0.574 Sum_probs=38.0
Q ss_pred CCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHH
Q 025458 61 EWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCR 106 (252)
Q Consensus 61 ~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~r 106 (252)
.||.||...|..++..|.. .+|.+||..+|+||..||..|+.
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~----~~w~~Ia~~~~~rs~~~~~~~~~ 42 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGK----NNWEKIAKELPGRTPKQCRERWR 42 (45)
T ss_pred CCCHHHHHHHHHHHHHHCc----CCHHHHHhHcCCCCHHHHHHHHH
Confidence 5999999999999999974 56999999999999999987764
No 5
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=97.50 E-value=0.00028 Score=49.84 Aligned_cols=41 Identities=39% Similarity=0.604 Sum_probs=35.5
Q ss_pred CCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHh
Q 025458 62 WTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRW 107 (252)
Q Consensus 62 WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rw 107 (252)
||.||..+|.++...|.. .|.+||..|+++|..+|-.|++-
T Consensus 1 WT~eEd~~L~~~~~~~g~-----~W~~Ia~~l~~Rt~~~~~~r~~~ 41 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-----DWKKIAEHLGNRTPKQCRNRWRN 41 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS------HHHHHHHSTTS-HHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-----CHHHHHHHHCcCCHHHHHHHHHH
Confidence 999999999999999964 59999999988999999888888
No 6
>PLN03212 Transcription repressor MYB5; Provisional
Probab=96.32 E-value=0.0051 Score=56.77 Aligned_cols=44 Identities=20% Similarity=0.306 Sum_probs=37.8
Q ss_pred CCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHhhc
Q 025458 59 SSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRWMT 109 (252)
Q Consensus 59 ~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm~ 109 (252)
...||.||..+|.+.-..|. .||.+||..||++| |+++|=||..
T Consensus 78 kgpWT~EED~lLlel~~~~G-----nKWs~IAk~LpGRT--DnqIKNRWns 121 (249)
T PLN03212 78 RGGITSDEEDLILRLHRLLG-----NRWSLIAGRIPGRT--DNEIKNYWNT 121 (249)
T ss_pred cCCCChHHHHHHHHHHHhcc-----ccHHHHHhhcCCCC--HHHHHHHHHH
Confidence 35899999999998877776 37999999999999 6777888875
No 7
>PLN03091 hypothetical protein; Provisional
Probab=95.32 E-value=0.024 Score=56.26 Aligned_cols=44 Identities=16% Similarity=0.356 Sum_probs=36.8
Q ss_pred CCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHhhc
Q 025458 59 SSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRWMT 109 (252)
Q Consensus 59 ~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm~ 109 (252)
...||.||..+|-+.-.+|.. ||.+||..||++|- .++|=||..
T Consensus 67 KgpWT~EED~lLLeL~k~~Gn-----KWskIAk~LPGRTD--nqIKNRWns 110 (459)
T PLN03091 67 RGTFSQQEENLIIELHAVLGN-----RWSQIAAQLPGRTD--NEIKNLWNS 110 (459)
T ss_pred CCCCCHHHHHHHHHHHHHhCc-----chHHHHHhcCCCCH--HHHHHHHHH
Confidence 358999999999999999873 89999999999994 555666643
No 8
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=94.75 E-value=0.056 Score=56.65 Aligned_cols=44 Identities=27% Similarity=0.545 Sum_probs=38.5
Q ss_pred CCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHH-HHHHHHh
Q 025458 59 SSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRD-VALRCRW 107 (252)
Q Consensus 59 ~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrD-VAlR~rw 107 (252)
+..||+.|.+.|.++|..|..| |++|+.||++|||.. |-.=+-|
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KD-----F~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKD-----FIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhccc-----HHHHHHHhccccHHHHHHHHHHH
Confidence 6789999999999999999998 999999999999987 4444455
No 9
>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=94.71 E-value=0.093 Score=38.19 Aligned_cols=48 Identities=17% Similarity=0.168 Sum_probs=37.6
Q ss_pred CCCCCHHHHHHHHHHHhhhcCCchhhHH---HHHHHHc-CCc-cHHHHHHHHHhhcc
Q 025458 59 SSEWTLEEQAILEDGLQKYASDRTLTRY---AKIAVHL-NNK-TVRDVALRCRWMTK 110 (252)
Q Consensus 59 ~~~WT~eEq~iLe~~L~~y~~e~~v~Ry---~KIAa~L-p~K-TvrDVAlR~rwm~~ 110 (252)
...||.||...|.+|+..|... .| -+|+... ..+ |...|+-+.+-+.-
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g----~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGP----DWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCC----cccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 4689999999999999999872 14 5676654 345 99999999887654
No 10
>PLN03091 hypothetical protein; Provisional
Probab=93.61 E-value=0.072 Score=52.97 Aligned_cols=44 Identities=20% Similarity=0.447 Sum_probs=36.7
Q ss_pred CCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHc-CCccHHHHHHHHHhh
Q 025458 59 SSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHL-NNKTVRDVALRCRWM 108 (252)
Q Consensus 59 ~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~L-p~KTvrDVAlR~rwm 108 (252)
...||.||.++|.+++.+|.. ..|.+||..+ +++|.++. |-||.
T Consensus 14 Kg~WTpEEDe~L~~~V~kyG~----~nWs~IAk~~g~gRT~KQC--RERW~ 58 (459)
T PLN03091 14 KGLWSPEEDEKLLRHITKYGH----GCWSSVPKQAGLQRCGKSC--RLRWI 58 (459)
T ss_pred CCCCCHHHHHHHHHHHHHhCc----CCHHHHhhhhccCcCcchH--hHHHH
Confidence 347999999999999999965 4799999887 49999988 44565
No 11
>PLN03212 Transcription repressor MYB5; Provisional
Probab=92.86 E-value=0.13 Score=47.75 Aligned_cols=44 Identities=27% Similarity=0.485 Sum_probs=36.9
Q ss_pred CCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHc-CCccHHHHHHHHHhh
Q 025458 59 SSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHL-NNKTVRDVALRCRWM 108 (252)
Q Consensus 59 ~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~L-p~KTvrDVAlR~rwm 108 (252)
...||.||..+|.++..+|.. .+|.+||..+ +++|.++.-.| |.
T Consensus 25 Rg~WT~EEDe~L~~lV~kyG~----~nW~~IAk~~g~gRT~KQCReR--W~ 69 (249)
T PLN03212 25 RGPWTVEEDEILVSFIKKEGE----GRWRSLPKRAGLLRCGKSCRLR--WM 69 (249)
T ss_pred CCCCCHHHHHHHHHHHHHhCc----ccHHHHHHhhhcCCCcchHHHH--HH
Confidence 457999999999999999964 4799999988 69999988555 64
No 12
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=92.59 E-value=0.16 Score=45.65 Aligned_cols=42 Identities=21% Similarity=0.370 Sum_probs=36.3
Q ss_pred CCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHh
Q 025458 59 SSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRW 107 (252)
Q Consensus 59 ~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rw 107 (252)
.-.||.||..++-++=+.|.. ||.+||..||++|--+| +=-|
T Consensus 62 rg~fT~eEe~~Ii~lH~~~GN-----rWs~IA~~LPGRTDNeI--KN~W 103 (238)
T KOG0048|consen 62 RGNFSDEEEDLIIKLHALLGN-----RWSLIAGRLPGRTDNEV--KNHW 103 (238)
T ss_pred CCCCCHHHHHHHHHHHHHHCc-----HHHHHHhhCCCcCHHHH--HHHH
Confidence 468999999999999888865 59999999999998888 5456
No 13
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=92.09 E-value=0.14 Score=45.97 Aligned_cols=45 Identities=16% Similarity=0.345 Sum_probs=37.6
Q ss_pred CCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcC-CccHHHHHHHHHhhc
Q 025458 59 SSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLN-NKTVRDVALRCRWMT 109 (252)
Q Consensus 59 ~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp-~KTvrDVAlR~rwm~ 109 (252)
--.||+||..+|-+...+|... +|.-||..++ +++=+ ..|.||+.
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~----~W~~i~k~~gl~R~GK--SCRlRW~N 54 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKH----NGTALPKLAGLRRCGK--SCRLRWTN 54 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCC----CcchhhhhcCCCccch--HHHHHhhc
Confidence 3589999999999999999766 9999999999 44333 67999975
No 14
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=90.61 E-value=0.38 Score=48.38 Aligned_cols=50 Identities=26% Similarity=0.524 Sum_probs=45.2
Q ss_pred CCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHhhcccch
Q 025458 59 SSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRWMTKKEN 113 (252)
Q Consensus 59 ~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm~~Ke~ 113 (252)
...||.+|.-.|-+|...|.+| |.|||....+||+.+-++|.-.+.--++
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDd-----W~kVA~HVgtKt~EqCIl~FL~LPieD~ 328 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDD-----WDKVARHVGTKTKEQCILHFLQLPIEDN 328 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhh-----HHHHHHHhCCCCHHHHHHHHHcCCcchh
Confidence 3489999999999999999998 9999999999999999999988775544
No 15
>PF07011 DUF1313: Protein of unknown function (DUF1313); InterPro: IPR009741 This family consists of several hypothetical plant proteins of around 100 residues in length. The function of this family is unknown.
Probab=85.33 E-value=2.4 Score=33.80 Aligned_cols=51 Identities=24% Similarity=0.373 Sum_probs=40.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHhhhccc----ccHHHHHHHHHHHHHHHHHHhhhHH
Q 025458 171 GNIGDTLEKNARALNQISANLAAFQIQ----DNISLLCQTRDNILRILNEMNNTSA 222 (252)
Q Consensus 171 ~~~~~LLEqNaqlLnQI~aNL~t~k~q----eNidLf~r~RdNI~~IL~~M~~mpg 222 (252)
..++.+|+||--|++||..|=. .++- -|..|......||..+..--+++..
T Consensus 16 ~qVQ~iLDqNR~LI~eINqNHe-Sr~PdnL~RNV~LIrELN~NI~rVv~lY~dLs~ 70 (87)
T PF07011_consen 16 VQVQSILDQNRLLINEINQNHE-SRIPDNLSRNVGLIRELNGNISRVVDLYSDLSS 70 (87)
T ss_pred HHHHHHHHHhHHHHHHHhhccc-ccCCchhhHhHHHHHHHHhhHHHHHHHHHHHhH
Confidence 3568999999999999999986 3443 4669999999999999875555443
No 16
>KOG0724 consensus Zuotin and related molecular chaperones (DnaJ superfamily), contains DNA-binding domains [Posttranslational modification, protein turnover, chaperones]
Probab=81.96 E-value=1.5 Score=40.67 Aligned_cols=48 Identities=29% Similarity=0.241 Sum_probs=42.0
Q ss_pred CCCCHHHHHHHHHHHhhhcCC-c--hhhHHHHHHHHcCC-ccHHHHHHHHHh
Q 025458 60 SEWTLEEQAILEDGLQKYASD-R--TLTRYAKIAVHLNN-KTVRDVALRCRW 107 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e-~--~v~Ry~KIAa~Lp~-KTvrDVAlR~rw 107 (252)
..|+.++.+.++.+|+.|..+ + +..+|-+++++||. +++.|+.-++.-
T Consensus 32 ~~~~~~~~k~i~ka~~i~~~~~~~~t~~~~~~~~~~l~~~~~~~~~~~~~~~ 83 (335)
T KOG0724|consen 32 SLWTEEEFKKIEKALAILDDDEPRRTPDSWDKFAEALPLEKRLEDKIEEYIG 83 (335)
T ss_pred hhhHHHHHHHHHHHHHHHhccccccchhhhhHHHhcCccccccchhHHhhhh
Confidence 569999999999999999974 4 99999999999999 998888766544
No 17
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=80.93 E-value=3.2 Score=42.13 Aligned_cols=58 Identities=19% Similarity=0.394 Sum_probs=50.8
Q ss_pred CCCCCCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHhhcccchhhhh
Q 025458 55 NPGISSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRWMTKKENSKRR 117 (252)
Q Consensus 55 ~~~~~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm~~Ke~~kRR 117 (252)
.....-.||.+|.-.|.+++.+|.++ |.|||.....||.-|-.++...+.-++.-...
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~dd-----W~kVa~hVg~ks~eqCI~kFL~LPieD~~l~~ 306 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYGDD-----WNKVADHVGTKSQEQCILKFLRLPIEDPYLAK 306 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhccc-----HHHHHhccCCCCHHHHHHHHHhcCccchhhhh
Confidence 34466799999999999999999999 99999999999999999999998877654443
No 18
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=79.54 E-value=4.7 Score=40.83 Aligned_cols=43 Identities=23% Similarity=0.509 Sum_probs=37.7
Q ss_pred CCCCCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHH
Q 025458 56 PGISSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVAL 103 (252)
Q Consensus 56 ~~~~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAl 103 (252)
....-+||.||.-.||.+..-|..+ |.||=.+||.|++--+..
T Consensus 184 ~~~~d~WT~Ed~vlFe~aF~~~GK~-----F~kIrq~LP~rsLaSlvq 226 (534)
T KOG1194|consen 184 TEFPDEWTAEDIVLFEQAFQFFGKD-----FHKIRQALPHRSLASLVQ 226 (534)
T ss_pred CCCcccchHHHHHHHHHHHHHhccc-----HHHHHHHccCccHHHHHH
Confidence 4567799999999999999999876 999999999999876543
No 19
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=78.37 E-value=7.9 Score=26.52 Aligned_cols=47 Identities=23% Similarity=0.374 Sum_probs=39.9
Q ss_pred CCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHhhccc
Q 025458 60 SEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRWMTKK 111 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm~~K 111 (252)
..+|.+...+||+.... ...++......||..| +-|...| -.|+.++
T Consensus 5 ~~~t~~q~~~L~~~f~~-~~~p~~~~~~~la~~l-~l~~~~V---~~WF~nr 51 (57)
T PF00046_consen 5 TRFTKEQLKVLEEYFQE-NPYPSKEEREELAKEL-GLTERQV---KNWFQNR 51 (57)
T ss_dssp SSSSHHHHHHHHHHHHH-SSSCHHHHHHHHHHHH-TSSHHHH---HHHHHHH
T ss_pred CCCCHHHHHHHHHHHHH-hccccccccccccccc-ccccccc---ccCHHHh
Confidence 56899999999999987 6667999999999999 5888888 5688755
No 20
>PF05030 SSXT: SSXT protein (N-terminal region); InterPro: IPR007726 SSXT (also known as SYT or SS18) appears to function synergistically with RBM14 as a transcriptional coactivator []. The SSXT protein is involved in synovial sarcoma in humans. A SYT-SSX fusion gene resulting from the chromosomal translocation t(X;18) (p11;q11) is characteristic of synovial sarcomas. This translocation fuses the SSXT (SYT) gene from chromosome 18 to either of two homologous genes at Xp11, SSX1 or SSX2 []. This entry also includes SS18-like protein 1, a transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons [],[].
Probab=77.52 E-value=4.7 Score=30.53 Aligned_cols=43 Identities=14% Similarity=0.165 Sum_probs=38.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHHHHHHHH
Q 025458 171 GNIGDTLEKNARALNQISANLAAFQIQDNISLLCQTRDNILRI 213 (252)
Q Consensus 171 ~~~~~LLEqNaqlLnQI~aNL~t~k~qeNidLf~r~RdNI~~I 213 (252)
..++.+|++|.+|+.-|-.+....+.+|=+..+.+.-+|+.-+
T Consensus 9 ~~IQk~LdEN~~LI~~I~e~qn~Gr~~Ec~qyq~~LhrNL~yL 51 (65)
T PF05030_consen 9 EQIQKMLDENDQLIQCIQEYQNKGRAQECVQYQQILHRNLVYL 51 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence 3459999999999999999999999999999999999998653
No 21
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=71.85 E-value=3.3 Score=42.24 Aligned_cols=41 Identities=27% Similarity=0.443 Sum_probs=34.6
Q ss_pred CCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHH
Q 025458 60 SEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALR 104 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR 104 (252)
.+||.-|-..||++|.||..|=+=.| +..||=|+++|+.==
T Consensus 286 EEWSasEanLFEeALeKyGKDFndIr----qdfLPWKSl~sIvey 326 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKDFNDIR----QDFLPWKSLTSIVEY 326 (693)
T ss_pred hhccchhhHHHHHHHHHhcccHHHHH----HhhcchHHHHHHHHH
Confidence 68999999999999999999954444 478999999998643
No 22
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=70.94 E-value=4.5 Score=42.77 Aligned_cols=39 Identities=33% Similarity=0.426 Sum_probs=34.1
Q ss_pred CCCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHH
Q 025458 58 ISSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRD 100 (252)
Q Consensus 58 ~~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrD 100 (252)
..-.||..|...|-....+|. +--|+|||..||++|=|+
T Consensus 411 K~~rW~l~edeqL~~~V~~YG----~g~WakcA~~Lp~~t~~q 449 (939)
T KOG0049|consen 411 KVERWTLVEDEQLLYAVKVYG----KGNWAKCAMLLPKKTSRQ 449 (939)
T ss_pred ccCceeecchHHHHHHHHHHc----cchHHHHHHHccccchhH
Confidence 356899999999999999995 558999999999999854
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=66.31 E-value=7 Score=39.11 Aligned_cols=47 Identities=21% Similarity=0.405 Sum_probs=40.4
Q ss_pred CCCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHhh
Q 025458 58 ISSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRWM 108 (252)
Q Consensus 58 ~~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm 108 (252)
...+||++|--.|-+|+..| .+=-|.-||..+..||-.|+-=-+.-+
T Consensus 71 ~~~~WtadEEilLLea~~t~----G~GNW~dIA~hIGtKtkeeck~hy~k~ 117 (438)
T KOG0457|consen 71 LDPSWTADEEILLLEAAETY----GFGNWQDIADHIGTKTKEECKEHYLKH 117 (438)
T ss_pred CCCCCChHHHHHHHHHHHHh----CCCcHHHHHHHHcccchHHHHHHHHHH
Confidence 46799999999999999999 566899999999999999987665543
No 24
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=65.77 E-value=22 Score=35.44 Aligned_cols=51 Identities=16% Similarity=0.403 Sum_probs=41.4
Q ss_pred CCCCHHHHHHHHHHHhhhcCC-----------------chhhHHHHHHHHcCCccHHHHHHHHHhhccc
Q 025458 60 SEWTLEEQAILEDGLQKYASD-----------------RTLTRYAKIAVHLNNKTVRDVALRCRWMTKK 111 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e-----------------~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm~~K 111 (252)
-.||++=-..|.++|+.|+.- .=|.||||.-.. ..+|=++|...++=+.++
T Consensus 77 gvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtg-ktRTrKQVSSHIQVlarr 144 (455)
T KOG3841|consen 77 GVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTG-KTRTRKQVSSHIQVLARR 144 (455)
T ss_pred cccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHH
Confidence 379999888999999999872 258899998766 668888898888876544
No 25
>PF12579 DUF3755: Protein of unknown function (DUF3755); InterPro: IPR022228 This domain family is found in eukaryotes, and is approximately 40 amino acids in length. There is a single completely conserved residue N that may be functionally important.
Probab=59.70 E-value=8.3 Score=25.81 Aligned_cols=18 Identities=28% Similarity=0.353 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 025458 177 LEKNARALNQISANLAAF 194 (252)
Q Consensus 177 LEqNaqlLnQI~aNL~t~ 194 (252)
+++|..||-|++.||.+.
T Consensus 5 ~~eNidLf~~~R~NI~~i 22 (35)
T PF12579_consen 5 LQENIDLFCQTRDNILAI 22 (35)
T ss_pred hhhhHHHHHHHHHHHHHH
Confidence 789999999999999764
No 26
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=58.06 E-value=7 Score=30.09 Aligned_cols=40 Identities=18% Similarity=0.398 Sum_probs=20.8
Q ss_pred CCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHhhcc
Q 025458 60 SEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRWMTK 110 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm~~ 110 (252)
--||.||...|..+ ....+. ..+......-|+.|.+|+.|
T Consensus 48 GiWT~eDD~~L~~~-----~~~~~~------~L~~khG~~~i~~R~~FL~k 87 (87)
T PF11626_consen 48 GIWTPEDDEMLRSG-----DKDDIE------RLIKKHGEERIERRKEFLEK 87 (87)
T ss_dssp T---HHHHHHHTS-------HHHHH------HHHHHH-HHHHHHHHHHHT-
T ss_pred CCcCHHHHHHHHcC-----CHHHHH------HHHHHhCHHHHHHHHHHHhC
Confidence 46999999999554 111222 22233467788888888754
No 27
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=56.95 E-value=15 Score=36.54 Aligned_cols=46 Identities=33% Similarity=0.521 Sum_probs=36.4
Q ss_pred CCCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHH-HHHHHHh
Q 025458 58 ISSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRD-VALRCRW 107 (252)
Q Consensus 58 ~~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrD-VAlR~rw 107 (252)
-...||.+|-+.||++|..|..+=.++| |-.++.++|+. |+.=+.|
T Consensus 276 ~l~~wsEeEcr~FEegl~~yGKDF~lIr----~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 276 DLSGWSEEECRNFEEGLELYGKDFHLIR----ANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccccCCHHHHHHHHHHHHHhcccHHHHH----hcccccchHHHHHHHHHHh
Confidence 3468999999999999999999955555 45678899987 4555566
No 28
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=56.83 E-value=1.4e+02 Score=26.44 Aligned_cols=44 Identities=23% Similarity=0.501 Sum_probs=35.5
Q ss_pred CCCHHHHHHHHHHHhhhcCCc--hhhHHHHHHHHcCCccHHHHHHHHHh
Q 025458 61 EWTLEEQAILEDGLQKYASDR--TLTRYAKIAVHLNNKTVRDVALRCRW 107 (252)
Q Consensus 61 ~WT~eEq~iLe~~L~~y~~e~--~v~Ry~KIAa~Lp~KTvrDVAlR~rw 107 (252)
-||.||..+|.+.+.+|-.+- .+.-|-.+|..|- +|. .|.+.||
T Consensus 7 awt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~-rt~--aac~fRw 52 (170)
T PRK13923 7 AWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK-RTA--AACGFRW 52 (170)
T ss_pred hhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh-hhH--HHHHhHH
Confidence 599999999999999999984 7778888888887 444 3556666
No 29
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=46.40 E-value=48 Score=24.35 Aligned_cols=50 Identities=22% Similarity=0.309 Sum_probs=28.5
Q ss_pred CCCCHHHHHHHHHHHhh--hcC-------CchhhHHHHHHHHcC----CccHHHHHHHHHhhc
Q 025458 60 SEWTLEEQAILEDGLQK--YAS-------DRTLTRYAKIAVHLN----NKTVRDVALRCRWMT 109 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~--y~~-------e~~v~Ry~KIAa~Lp----~KTvrDVAlR~rwm~ 109 (252)
..||.+|-..|-+.... +.. -..-..|..||..|. .+|+.++--|+.=|.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 46999999999888877 221 123447889998875 344444443333343
No 30
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=43.51 E-value=33 Score=37.81 Aligned_cols=45 Identities=22% Similarity=0.422 Sum_probs=37.0
Q ss_pred CCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHH--HHHHh
Q 025458 59 SSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVA--LRCRW 107 (252)
Q Consensus 59 ~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVA--lR~rw 107 (252)
-.+||.-|-..|-.+..+|..+ -|.+||..+.+||+-+|. .++=|
T Consensus 824 f~~w~~~~f~~f~~~~~~~gr~----~~~~i~~~~~~k~~~ev~~y~~~f~ 870 (1033)
T PLN03142 824 FSTWSRRDFNAFIRACEKYGRN----DIKSIASEMEGKTEEEVERYAKVFW 870 (1033)
T ss_pred cCcccHHHHHHHHHHHHHhCHh----HHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 5678888888888888888554 789999999999999997 34445
No 31
>cd01021 GEWL Goose Egg White Lysozyme domain. Eukaryotic "goose-type" lysozymes (GEWL). These enzymes catalyze the cleavage of the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc). Members include tunicate, Japanese flounder, ostrich, and mouse.
Probab=39.03 E-value=33 Score=30.04 Aligned_cols=45 Identities=27% Similarity=0.574 Sum_probs=32.3
Q ss_pred CCCCHHHHHHHHHHHhhhcCCc-hhhHHHHHHHHcCCcc-----HHHHHHHHHhhcc
Q 025458 60 SEWTLEEQAILEDGLQKYASDR-TLTRYAKIAVHLNNKT-----VRDVALRCRWMTK 110 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e~-~v~Ry~KIAa~Lp~KT-----vrDVAlR~rwm~~ 110 (252)
-+|+.+++ |+-+|+-|..-+ .|.||-. +|--| |+||.-|.+|+..
T Consensus 115 ~~w~~~~~--l~~aLAAYNAG~g~V~~y~g----ipp~~et~~Yv~~Vlar~~~~~~ 165 (166)
T cd01021 115 PTWTKEQQ--LKGGISAYNAGAGNVRSYEG----MDIGTTGNDYSNDVVARAQYYKR 165 (166)
T ss_pred CCCchhhh--hhhHHHHhccCHHHHhhcCC----CCCCcchHHHHHHHHHHHHHHhc
Confidence 46777644 444889998875 8888843 45433 8899999999863
No 32
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=37.63 E-value=1e+02 Score=20.51 Aligned_cols=47 Identities=23% Similarity=0.353 Sum_probs=36.1
Q ss_pred CCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHhhccc
Q 025458 60 SEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRWMTKK 111 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm~~K 111 (252)
..+|.+...+|++...+-+ .|+-.....||..|. -|.+.|. .|+..+
T Consensus 5 ~~~~~~~~~~L~~~f~~~~-~P~~~~~~~la~~~~-l~~~qV~---~WF~nr 51 (56)
T smart00389 5 TSFTPEQLEELEKEFQKNP-YPSREEREELAAKLG-LSERQVK---VWFQNR 51 (56)
T ss_pred CcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHC-cCHHHHH---HhHHHH
Confidence 3589999999999988766 567888888998874 7766664 476654
No 33
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=36.10 E-value=1.2e+02 Score=20.22 Aligned_cols=48 Identities=23% Similarity=0.330 Sum_probs=38.1
Q ss_pred CCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHhhccc
Q 025458 59 SSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRWMTKK 111 (252)
Q Consensus 59 ~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm~~K 111 (252)
...+|.+...+||+..... ..|+-.....||+.+. -|.+.|. .|+..+
T Consensus 4 r~~~~~~~~~~Le~~f~~~-~~P~~~~~~~la~~~~-l~~~qV~---~WF~nr 51 (59)
T cd00086 4 RTRFTPEQLEELEKEFEKN-PYPSREEREELAKELG-LTERQVK---IWFQNR 51 (59)
T ss_pred CCcCCHHHHHHHHHHHHhC-CCCCHHHHHHHHHHHC-cCHHHHH---HHHHHH
Confidence 4578999999999999993 3678888999999985 7777775 576655
No 34
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=33.55 E-value=46 Score=34.54 Aligned_cols=42 Identities=31% Similarity=0.568 Sum_probs=37.0
Q ss_pred CCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHH
Q 025458 60 SEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRC 105 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~ 105 (252)
-.|+.-|..||.-+.-+|... .|.+||..|+-||.|.--.|.
T Consensus 8 gvwrntEdeilkaav~kyg~n----qws~i~sll~~kt~rqC~~rw 49 (617)
T KOG0050|consen 8 GVWRNTEDEVLKAAVMKYGKN----QWSRIASLLNRKTARQCKARW 49 (617)
T ss_pred ceecccHHHHHHHHHHHcchH----HHHHHHHHHhhcchhHHHHHH
Confidence 469999999999999999765 799999999999999875553
No 35
>PF10415 FumaraseC_C: Fumarase C C-terminus; InterPro: IPR018951 Fumarase C catalyses the stereo-specific interconversion of fumarate to L-malate as part of the Krebs cycle. The full-length protein forms a tetramer with visible globular shape. FumaraseC_C is the C-terminal 65 residues referred to as domain 3. The core of the molecule consists of a bundle of 20 alpha-helices from the five-helix bundle of domain 2. The projections from the core of the tetramer are generated from domains 1 and 3 of each subunit []. This entry does not appear to be part of either the active site or the activation site but is helical in structure forming a little bundle. ; GO: 0016829 lyase activity, 0006099 tricarboxylic acid cycle; PDB: 3RRP_A 3OCE_D 3OCF_D 3E04_B 3GTD_A 3R6V_F 3R6Q_F 1J3U_B 1FUR_A 1YFE_A ....
Probab=32.89 E-value=19 Score=25.93 Aligned_cols=20 Identities=30% Similarity=0.494 Sum_probs=14.4
Q ss_pred cCCccHHHHHHHHHhhcccc
Q 025458 93 LNNKTVRDVALRCRWMTKKE 112 (252)
Q Consensus 93 Lp~KTvrDVAlR~rwm~~Ke 112 (252)
--++|||||++...||+..+
T Consensus 23 ~~g~svre~v~~~g~lt~ee 42 (55)
T PF10415_consen 23 AEGRSVREVVLEEGLLTEEE 42 (55)
T ss_dssp HHT--HHHHHHHTTSS-HHH
T ss_pred HcCCCHHHHHHHcCCCCHHH
Confidence 37899999999999997654
No 36
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=32.31 E-value=78 Score=31.89 Aligned_cols=43 Identities=14% Similarity=0.322 Sum_probs=37.2
Q ss_pred CCCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHH
Q 025458 58 ISSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRC 105 (252)
Q Consensus 58 ~~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~ 105 (252)
.+..||.+|-..|-.+|..+.-| |.-|+.++|++.-+.|-+.+
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGtd-----F~LIs~lfP~R~RkqIKaKf 406 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGTD-----FSLISSLFPNRERKQIKAKF 406 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcch-----HHHHHHhcCchhHHHHHHHH
Confidence 36789999999999999999888 88999999999877775543
No 37
>PF00831 Ribosomal_L29: Ribosomal L29 protein; InterPro: IPR001854 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L29 is one of the proteins from the large ribosomal subunit. L29 belongs to a family of ribosomal proteins of 63 to 138 amino-acid residues which, on the basis of sequence similarities [], groups: Red algal L29. Bacterial L29. Mammalian L35 Caenorhabditis elegans L35 (ZK652.4). Yeast L35. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1VSP_W 3MS1_Y 3MRZ_Y 3F1H_2 3PYT_Y 3PYO_Y 3D5D_2 3D5B_2 3PYR_Y 1VSA_W ....
Probab=32.08 E-value=1.9e+02 Score=20.69 Aligned_cols=45 Identities=24% Similarity=0.310 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHHhh
Q 025458 174 GDTLEKNARALNQISANLAAFQIQDNISLLCQTRDNILRILNEMNN 219 (252)
Q Consensus 174 ~~LLEqNaqlLnQI~aNL~t~k~qeNidLf~r~RdNI~~IL~~M~~ 219 (252)
.+.|++--.-|-.++...++.++ +|...|..+|.+|-.|+.-+++
T Consensus 13 ~~~l~elk~eL~~Lr~q~~~~~l-~n~~~ir~~Rr~IARi~Tvl~e 57 (58)
T PF00831_consen 13 QEKLEELKKELFNLRFQKATGQL-ENPHRIREIRRDIARILTVLRE 57 (58)
T ss_dssp HHHHHHHHHHHHHHHHHHHHSSS-SCCHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhccc-ccccHHHHHHHHHHHHHHHHhc
Confidence 34444445555566777778777 9999999999999999876653
No 38
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=30.80 E-value=1e+02 Score=24.47 Aligned_cols=52 Identities=17% Similarity=0.284 Sum_probs=35.1
Q ss_pred CCCCHHHHHHHHHHHhhhcCCc-------hhhHHHHHHHHcCC-ccHHHHHHHHHhhccc
Q 025458 60 SEWTLEEQAILEDGLQKYASDR-------TLTRYAKIAVHLNN-KTVRDVALRCRWMTKK 111 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e~-------~v~Ry~KIAa~Lp~-KTvrDVAlR~rwm~~K 111 (252)
-.||.||--.|-+||+.|..+. .-.=|-.|...|.. -|..+|.=.+|.+.+|
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 3599999999999999996542 12334444444433 3667888888888665
No 39
>TIGR01801 CM_A chorismate mutase domain of gram positive AroA protein. This model represents a small clade of chorismate mutase domains N-terminally fused to the first enzyme in the chorismate pathway, 2-dehydro-3-deoxyphosphoheptanoate aldolase (DAHP synthetase, AroA) which are found in some gram positive species and Deinococcus. Only in Deinococcus, where this domain is the sole CM domain in the genome can a trusted assignment of function be made. In the other species there is at least one other trusted CM domain present. The similarity between the Deinococcus gene and the others in this clade is sufficiently strong (~44% identity), that the whole clade can be trusted to be functional. The possibility exists, however, that in the gram positive species the fusion to the first enzyme in the pathway has evolved a separate, regulatory role.
Probab=30.76 E-value=38 Score=27.13 Aligned_cols=65 Identities=15% Similarity=0.239 Sum_probs=50.0
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHHhhhHHhhccCCCCccccchHhhhcc
Q 025458 167 KAIGGNIGDTLEKNARALNQISANLAAFQIQDNISLLCQTRDNILRILNEMNNTSAIMRQMPPLPVHLNEELSNTI 242 (252)
Q Consensus 167 ~~I~~~~~~LLEqNaqlLnQI~aNL~t~k~qeNidLf~r~RdNI~~IL~~M~~mpgiM~qMPPLPVklNe~La~si 242 (252)
+.||...-+||++-..+..+| ..+|...+...|...|+. .+|+.+.+. ...|||...=+.++..|
T Consensus 14 D~ID~eIl~LL~eR~~~~~~I----g~~K~~~~~~i~dp~RE~--~vl~~~~~~-----~~g~l~~~~i~~If~~I 78 (102)
T TIGR01801 14 DQLNRQILALISRRGEVVAQI----GHAKSAQGPNHYDPAREE--QMLNELIKI-----NPGPFPTATIKGIFKEI 78 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHH----HHHHHHCCCCCCChHHHH--HHHHHHHHh-----cCCCCCHHHHHHHHHHH
Confidence 478999999999999888877 668888889999999986 777777652 13677776666666544
No 40
>KOG3208 consensus SNARE protein GS28 [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.20 E-value=1.3e+02 Score=28.02 Aligned_cols=54 Identities=20% Similarity=0.254 Sum_probs=42.9
Q ss_pred ccccccchHHHHHHHHHHHHHHHHH---H-------Hhhhc-----ccccHHHHHHHHHHHHHHHHHHh
Q 025458 165 SLKAIGGNIGDTLEKNARALNQISA---N-------LAAFQ-----IQDNISLLCQTRDNILRILNEMN 218 (252)
Q Consensus 165 s~~~I~~~~~~LLEqNaqlLnQI~a---N-------L~t~k-----~qeNidLf~r~RdNI~~IL~~M~ 218 (252)
+++.+.-.+..||||=-++.+++.+ + +.|++ +||=.-.|.++|.||.++.+..+
T Consensus 52 s~ks~~~eie~LLeql~~vndsm~~~~~s~a~~aa~~htL~RHrEILqdy~qef~rir~n~~a~~e~~~ 120 (231)
T KOG3208|consen 52 SFKSLENEIEGLLEQLQDVNDSMNDCASSPANSAAVMHTLQRHREILQDYTQEFRRIRSNIDAKRERES 120 (231)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHhhccCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667778889999999999999887 1 11222 67888999999999999988754
No 41
>PF00763 THF_DHG_CYH: Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; InterPro: IPR020630 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the N-terminal catalytic domain of these enzymes. ; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 2C2X_B 2C2Y_A 1EDZ_A 1EE9_A 4A26_B 3NGL_C 3NGX_A 1B0A_A 1DIA_A 1A4I_B ....
Probab=27.85 E-value=34 Score=27.56 Aligned_cols=56 Identities=25% Similarity=0.589 Sum_probs=30.1
Q ss_pred HHHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHHh---hhHHhhccCCCCccccchHhh-hccCC
Q 025458 183 ALNQISANLAAFQIQDNISLLCQTRDNILRILNEMN---NTSAIMRQMPPLPVHLNEELS-NTILP 244 (252)
Q Consensus 183 lLnQI~aNL~t~k~qeNidLf~r~RdNI~~IL~~M~---~mpgiM~qMPPLPVklNe~La-~siLp 244 (252)
....+--+...+.+.+++. -.-+.+.+..++ ++-|||-|+| ||-.+|+.-+ +.|-|
T Consensus 53 ~~~~~Gi~~~~~~l~~~~~-----~~el~~~i~~lN~D~~V~GIlvq~P-LP~~i~~~~i~~~I~p 112 (117)
T PF00763_consen 53 AAEKLGIEFELIELPEDIS-----EEELLELIEKLNEDPSVHGILVQLP-LPKHIDERKILEAIDP 112 (117)
T ss_dssp HHHHHT-EEEEEEE-TTSS-----HHHHHHHHHHHHH-TT-SEEEEESS-SSTTSHHHHHHHTS-G
T ss_pred HHHHcCCceEEEECCCCcC-----HHHHHHHHHHHhCCCCCCEEEEcCC-CCCCccHHHHHhccCc
Confidence 3334433444455545443 123444444554 5679999995 7999998755 44444
No 42
>PF06875 PRF: Plethodontid receptivity factor PRF; InterPro: IPR010681 This family consists of several plethodontid receptivity factor (PRF) proteins which seem to be specific to Plethodon jordani (Jordan's salamander). PRF is a courtship pheromone produced by males increase female receptivity [].
Probab=27.68 E-value=3.9e+02 Score=24.67 Aligned_cols=55 Identities=22% Similarity=0.200 Sum_probs=39.6
Q ss_pred cchHHHHHHHHHHHHHHHHHHHhhh---cccccH------HHHHHHHHHHHHHHHHHhhhHHhhccC
Q 025458 170 GGNIGDTLEKNARALNQISANLAAF---QIQDNI------SLLCQTRDNILRILNEMNNTSAIMRQM 227 (252)
Q Consensus 170 ~~~~~~LLEqNaqlLnQI~aNL~t~---k~qeNi------dLf~r~RdNI~~IL~~M~~mpgiM~qM 227 (252)
+-.-..-|.+|.++++-|..=|..- |..=|. ..|..++-|+.+++..+ .+||.+|
T Consensus 94 ~l~D~~RL~~n~~AySal~~~L~~v~~~Q~dLNP~~~~L~~~Le~a~~~~qgL~sni---aaIMtaL 157 (214)
T PF06875_consen 94 SLSDEERLKNNYYAYSALLEFLQLVMDDQADLNPFAPELLRQLEEARASAQGLLSNI---AAIMTAL 157 (214)
T ss_pred cCChHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHH---HHHHHHc
Confidence 3345678999999999987777433 222244 56788999999998654 4889885
No 43
>PRK14176 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=27.12 E-value=46 Score=31.51 Aligned_cols=61 Identities=20% Similarity=0.469 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHHh---hhHHhhccCCCCccccchH-hhhccCCCCC
Q 025458 181 ARALNQISANLAAFQIQDNISLLCQTRDNILRILNEMN---NTSAIMRQMPPLPVHLNEE-LSNTILPPPN 247 (252)
Q Consensus 181 aqlLnQI~aNL~t~k~qeNidLf~r~RdNI~~IL~~M~---~mpgiM~qMPPLPVklNe~-La~siLp~~~ 247 (252)
......+-=+..-+++.+++. .+-+.++++.++ ++-|||-|+| ||-.+|++ +++.|-|...
T Consensus 60 ~k~~~~~Gi~~~~~~l~~~~~-----~~el~~~I~~LN~D~~V~GIlvqlP-LP~~i~~~~i~~~I~p~KD 124 (287)
T PRK14176 60 HKACERVGIRAEDQFLPADTT-----QEELLELIDSLNKRKDVHGILLQLP-LPKHLDPQEAMEAIDPAKD 124 (287)
T ss_pred HHHHHHcCCEEEEEECCCCCC-----HHHHHHHHHHHhCCCCCCeEEEcCC-CCCCCCHHHHHhccCcccc
Confidence 334444433334445555532 334556666666 4559999997 79999987 5566666543
No 44
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=26.34 E-value=93 Score=26.89 Aligned_cols=44 Identities=18% Similarity=0.136 Sum_probs=33.4
Q ss_pred CCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHhhc
Q 025458 60 SEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRWMT 109 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm~ 109 (252)
++||+|+...|.+....= .-+..||..|.+-|---|.=++.-+.
T Consensus 1 M~Wtde~~~~L~~lw~~G------~SasqIA~~lg~vsRnAViGk~hRlg 44 (162)
T PF07750_consen 1 MSWTDERVERLRKLWAEG------LSASQIARQLGGVSRNAVIGKAHRLG 44 (162)
T ss_pred CCCCHHHHHHHHHHHHcC------CCHHHHHHHhCCcchhhhhhhhhccc
Confidence 589999999888877432 23678999999787777777776654
No 45
>PF08649 DASH_Dad1: DASH complex subunit Dad1; InterPro: IPR013958 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules []. Throughout the cell cycle Dad1 remains bound to kinetochores and its association is dependent on the Mis6 and Mal2 [].
Probab=25.74 E-value=2e+02 Score=21.41 Aligned_cols=48 Identities=17% Similarity=0.385 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHHhhhHHhhcc
Q 025458 177 LEKNARALNQISANLAAFQIQDNISLLCQTRDNILRILNEMNNTSAIMRQ 226 (252)
Q Consensus 177 LEqNaqlLnQI~aNL~t~k~qeNidLf~r~RdNI~~IL~~M~~mpgiM~q 226 (252)
-+|-.+|+.+|+.++.. +..|++-|+|-=+++..+=+.-.++...|++
T Consensus 4 e~qR~~Li~eI~~~~e~--vl~nlN~LNRsLE~~i~VGkEF~~V~~LW~~ 51 (58)
T PF08649_consen 4 ERQRDRLIQEISESMES--VLNNLNALNRSLESVISVGKEFESVSSLWSQ 51 (58)
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHHHhHHHHHHHhhhHHHHHHHHHH
Confidence 46778999999999974 4578888888888888888887777777764
No 46
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=24.44 E-value=1.3e+02 Score=22.28 Aligned_cols=49 Identities=16% Similarity=0.201 Sum_probs=30.8
Q ss_pred CCCCHHHHHHHHHHHhhhcCC----chhhHHHHHHHHcC-CccHHHHHHHHHhhcc
Q 025458 60 SEWTLEEQAILEDGLQKYASD----RTLTRYAKIAVHLN-NKTVRDVALRCRWMTK 110 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e----~~v~Ry~KIAa~Lp-~KTvrDVAlR~rwm~~ 110 (252)
+..|.||..+|-+-+..+... ..-.-|...|..-| .-|- =++|.||..+
T Consensus 3 ~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~Htw--QSwR~Ry~K~ 56 (65)
T PF08914_consen 3 TPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTW--QSWRDRYLKH 56 (65)
T ss_dssp ----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--S--HHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCH--HHHHHHHHHH
Confidence 467999999999999877654 36677888888765 2222 2789999764
No 47
>smart00426 TEA TEA domain.
Probab=24.01 E-value=1.3e+02 Score=23.04 Aligned_cols=21 Identities=14% Similarity=0.422 Sum_probs=18.8
Q ss_pred CCCCHHHHHHHHHHHhhhcCC
Q 025458 60 SEWTLEEQAILEDGLQKYASD 80 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e 80 (252)
.-|+++=-..|.++|..|+..
T Consensus 4 ~vWp~~lE~Af~~aL~~~~~~ 24 (68)
T smart00426 4 GVWSPDIEQAFQEALAIYPPC 24 (68)
T ss_pred CcCcHHHHHHHHHHHHHcCcc
Confidence 469999899999999999976
No 48
>PF11242 DUF2774: Protein of unknown function (DUF2774); InterPro: IPR021404 This entry is represented by Bacteriophage T4, Gp24.3; it is a family of uncharacterised viral proteins.
Probab=23.80 E-value=70 Score=24.24 Aligned_cols=21 Identities=24% Similarity=0.336 Sum_probs=17.9
Q ss_pred hHHHHHHHHcCCccHHHHHHHH
Q 025458 84 TRYAKIAVHLNNKTVRDVALRC 105 (252)
Q Consensus 84 ~Ry~KIAa~Lp~KTvrDVAlR~ 105 (252)
.-|+.||.++ |.|..|||.=.
T Consensus 14 ~~FveIAr~~-~i~a~e~a~~w 34 (63)
T PF11242_consen 14 LSFVEIARKI-GITAKEVAKAW 34 (63)
T ss_pred CcHHHHHHHh-CCCHHHHHHHH
Confidence 4589999999 89999999743
No 49
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=23.78 E-value=70 Score=34.34 Aligned_cols=45 Identities=18% Similarity=0.291 Sum_probs=37.7
Q ss_pred CCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHH
Q 025458 60 SEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRC 105 (252)
Q Consensus 60 ~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~ 105 (252)
-+||.||...|-....+-... +++-|-||-.-+|+||-...+-|.
T Consensus 306 keWsEEed~kL~alV~~~~~n-ShI~w~kVV~Ympgr~~~qLI~R~ 350 (939)
T KOG0049|consen 306 KEWSEEEDTKLIALVKITSIN-SHIQWDKVVQYMPGRTRQQLITRF 350 (939)
T ss_pred hhcchhhhHHHHHHHHHhhcc-CccchHHHHHhcCCcchhhhhhhh
Confidence 699999999998766665555 889999999999999988777664
No 50
>PRK14172 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=23.26 E-value=60 Score=30.59 Aligned_cols=49 Identities=33% Similarity=0.645 Sum_probs=31.4
Q ss_pred hhhcccccHHHHHHHHHHHHHHHHHHh---hhHHhhccCCCCccccchH-hhhccCCCC
Q 025458 192 AAFQIQDNISLLCQTRDNILRILNEMN---NTSAIMRQMPPLPVHLNEE-LSNTILPPP 246 (252)
Q Consensus 192 ~t~k~qeNidLf~r~RdNI~~IL~~M~---~mpgiM~qMPPLPVklNe~-La~siLp~~ 246 (252)
.-+++.+++. .+-+.+.+++++ ++-|||-|+| ||-.+|++ +.+.|-|..
T Consensus 65 ~~~~l~~~~~-----~~el~~~I~~lN~d~~V~GIlvqlP-LP~~~~~~~i~~~I~p~K 117 (278)
T PRK14172 65 KKIKLDESIS-----EEDLINEIEELNKDNNVHGIMLQLP-LPKHLDEKKITNKIDANK 117 (278)
T ss_pred EEEECCCCCC-----HHHHHHHHHHHhCCCCCCeEEEcCC-CCCCCCHHHHHhccCccc
Confidence 3445555542 133555666666 4569999997 79999987 556666654
No 51
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=23.16 E-value=1.6e+02 Score=25.86 Aligned_cols=47 Identities=21% Similarity=0.270 Sum_probs=34.4
Q ss_pred cchHHHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHHhhh
Q 025458 170 GGNIGDTLEKNARALNQISANLAAFQIQDNISLLCQTRDNILRILNEMNNT 220 (252)
Q Consensus 170 ~~~~~~LLEqNaqlLnQI~aNL~t~k~qeNidLf~r~RdNI~~IL~~M~~m 220 (252)
+-...+|++++.+++|-..+=.+++| +.||..|-|=|+.+..-+.+-
T Consensus 96 dp~Lr~Li~sid~~~n~~kel~aamq----eelfvefadailq~ve~s~de 142 (157)
T KOG2857|consen 96 DPHLRNLIESIDELLNIMKELVAAMQ----EELFVEFADAILQQVEPSPDE 142 (157)
T ss_pred CHHHHHHHHHHHHHhhHHHHHHHHhc----chHHHHHHHHHHHhhcCCCcH
Confidence 45678888999998888777666665 349999988887776555443
No 52
>cd04753 Commd5_HCaRG COMM_Domain containing protein 5, also called HCaRG (hypertension-related, calcium-regulated gene). HCaRG is a nuclear protein that might be involved in cell proliferation; it is negatively regulated by extracellular calcium concentration, and its basal mRNA levels are higher in hypertensive animals. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=23.05 E-value=96 Score=25.33 Aligned_cols=25 Identities=28% Similarity=0.376 Sum_probs=21.0
Q ss_pred cccHHHHHHHHHHHHHHHHHHhhhH
Q 025458 197 QDNISLLCQTRDNILRILNEMNNTS 221 (252)
Q Consensus 197 qeNidLf~r~RdNI~~IL~~M~~mp 221 (252)
.=-++-|++.|.||-.+|++|.++-
T Consensus 77 e~~~~kF~~Lry~~a~~l~em~~le 101 (110)
T cd04753 77 EVPVAKFHELRYNVALILKEMNDLE 101 (110)
T ss_pred EeeHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457889999999999999998753
No 53
>PRK14188 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=22.23 E-value=54 Score=31.01 Aligned_cols=38 Identities=32% Similarity=0.637 Sum_probs=26.8
Q ss_pred HHHHHHHHHh---hhHHhhccCCCCccccchH-hhhccCCCCC
Q 025458 209 NILRILNEMN---NTSAIMRQMPPLPVHLNEE-LSNTILPPPN 247 (252)
Q Consensus 209 NI~~IL~~M~---~mpgiM~qMPPLPVklNe~-La~siLp~~~ 247 (252)
-+.+++.+++ ++-|||-|+| ||-.+|++ +.+.|-|...
T Consensus 77 el~~~i~~lN~d~~V~GIlvq~P-lp~~~~~~~i~~~I~p~KD 118 (296)
T PRK14188 77 ELLALIARLNADPAIHGILVQLP-LPKHLDSEAVIQAIDPEKD 118 (296)
T ss_pred HHHHHHHHHhCCCCCcEEEEeCC-CCCCCCHHHHHhccCcccc
Confidence 3445566665 4559999997 89999985 6677777543
No 54
>PF11229 DUF3028: Protein of unknown function (DUF3028); InterPro: IPR021392 This eukaryotic family of proteins has no known function.
Probab=21.64 E-value=1.2e+02 Score=31.61 Aligned_cols=61 Identities=18% Similarity=0.163 Sum_probs=44.7
Q ss_pred ccccCCCCCCCCCHHHHHHHHHHHhhhcCC---chhhHHHHHHHHcCCccHHHHHHHHHhhcccch
Q 025458 51 ILKHNPGISSEWTLEEQAILEDGLQKYASD---RTLTRYAKIAVHLNNKTVRDVALRCRWMTKKEN 113 (252)
Q Consensus 51 ~lk~~~~~~~~WT~eEq~iLe~~L~~y~~e---~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm~~Ke~ 113 (252)
++|.-....--|+.= -...|..+..|+.+ ..+.-|+.+|.+|...|--+ +-|+.||+|..-
T Consensus 304 AMKlP~P~~h~Ws~L-c~ttekIF~lLPn~i~~~eveLYi~vAkCLSEMtd~e-idrItqitK~ni 367 (589)
T PF11229_consen 304 AMKLPSPAQHCWSLL-CETTEKIFDLLPNKIQRNEVELYIGVAKCLSEMTDTE-IDRITQITKDNI 367 (589)
T ss_pred HhcCCChhhHHHHHH-HHHHHHHHHhCcccccHHHHHHHHHHHHHHhhcCHHH-HHHHHHhhhccc
Confidence 444444444566632 23456667778776 49999999999999999988 899999987754
No 55
>COG4445 MiaE Hydroxylase for synthesis of 2-methylthio-cis-ribozeatin in tRNA [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=21.15 E-value=1.3e+02 Score=27.12 Aligned_cols=51 Identities=22% Similarity=0.234 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHHHHhhhcCCchhhHHHHHHHHcCCccHHHHHHHHHhhcccc
Q 025458 59 SSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCRWMTKKE 112 (252)
Q Consensus 59 ~~~WT~eEq~iLe~~L~~y~~e~~v~Ry~KIAa~Lp~KTvrDVAlR~rwm~~Ke 112 (252)
-+.|-+||.+.|=-+|-+.-+- .+.-|.++|.+.-+. .||.-|++.+..+|
T Consensus 134 LaphldeelakFY~gLl~SEaR-HfqdYl~LA~qy~d~--~dvs~rv~~~~~vE 184 (203)
T COG4445 134 LAPHLDEELAKFYKGLLRSEAR-HFQDYLVLADQYFDE--EDVSQRVDYFGIVE 184 (203)
T ss_pred hcccchHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhH--HHHHHHHHHHHHHH
Confidence 3689999999999999875544 899999999998764 49999999887665
No 56
>COG0255 RpmC Ribosomal protein L29 [Translation, ribosomal structure and biogenesis]
Probab=21.03 E-value=3.8e+02 Score=20.37 Aligned_cols=36 Identities=28% Similarity=0.348 Sum_probs=27.9
Q ss_pred HHHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHHhh
Q 025458 183 ALNQISANLAAFQIQDNISLLCQTRDNILRILNEMNN 219 (252)
Q Consensus 183 lLnQI~aNL~t~k~qeNidLf~r~RdNI~~IL~~M~~ 219 (252)
-|=..+.=.++.++. |+..|.++|.||-.|+.-+++
T Consensus 26 ELf~LR~q~a~g~l~-n~~~ir~vRr~IARi~Tv~~E 61 (69)
T COG0255 26 ELFNLRFQLATGQLE-NPHRIREVRRDIARILTVLRE 61 (69)
T ss_pred HHHHHHHHHHhCCCC-CcHHHHHHHHHHHHHHHHHHH
Confidence 333455556778888 999999999999998876664
No 57
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.74 E-value=1.7e+02 Score=28.72 Aligned_cols=45 Identities=20% Similarity=0.327 Sum_probs=39.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHHhhh
Q 025458 172 NIGDTLEKNARALNQISANLAAFQIQDNISLLCQTRDNILRILNEMNNT 220 (252)
Q Consensus 172 ~~~~LLEqNaqlLnQI~aNL~t~k~qeNidLf~r~RdNI~~IL~~M~~m 220 (252)
.+.+++.+|=++|.+|-..|. +.|..||..++.|--..|.-|++-
T Consensus 259 ~lR~~vq~NP~~L~~lLqql~----~~nP~l~q~I~~n~e~Fl~ll~~~ 303 (378)
T TIGR00601 259 QLRQVVQQNPQLLPPLLQQIG----QENPQLLQQISQHPEQFLQMLNEP 303 (378)
T ss_pred HHHHHHHHCHHHHHHHHHHHH----hhCHHHHHHHHHCHHHHHHHhcCc
Confidence 468899999999999988875 689999999999999999888754
No 58
>PF12179 IKKbetaNEMObind: I-kappa-kinase-beta NEMO binding domain; InterPro: IPR022007 This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with PF00069 from PFAM. These proteins are involved in inflammatory reactions. They cause release of NF-kappa-B into the nucleus of inflammatory cells and upregulation of transcription of proinflammatory cytokines. They perform this function by phosphorylating I-kappa-B proteins which are targeted for degradation to release NF-kappa-B. This kinase (I-kappa-kinase-beta) is found in association with IKK-alpha and NEMO (NF-kappa-B essential modulator). This domain is the binding site of IKK-beta for NEMO. ; GO: 0008384 IkappaB kinase activity; PDB: 3BRT_C 3BRV_C.
Probab=20.70 E-value=1.1e+02 Score=21.04 Aligned_cols=19 Identities=21% Similarity=0.324 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 025458 174 GDTLEKNARALNQISANLA 192 (252)
Q Consensus 174 ~~LLEqNaqlLnQI~aNL~ 192 (252)
.+|+++|-.++.|+..=|.
T Consensus 2 ~~lv~En~~~lsqL~s~mq 20 (38)
T PF12179_consen 2 EQLVEENQNYLSQLESLMQ 20 (38)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 5899999999999976653
No 59
>PRK14168 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.54 E-value=64 Score=30.68 Aligned_cols=40 Identities=35% Similarity=0.679 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHh---hhHHhhccCCCCccccchH-hhhccCCCC
Q 025458 206 TRDNILRILNEMN---NTSAIMRQMPPLPVHLNEE-LSNTILPPP 246 (252)
Q Consensus 206 ~RdNI~~IL~~M~---~mpgiM~qMPPLPVklNe~-La~siLp~~ 246 (252)
+.+-+.+++.+++ ++-|||-|+| ||-.+|++ +.+.|-|..
T Consensus 75 t~~el~~~I~~lN~D~~V~GIivqlP-lP~~i~~~~i~~~I~p~K 118 (297)
T PRK14168 75 TEEELLALIDKYNNDDSIHGILVQLP-LPKHINEKKVLNAIDPDK 118 (297)
T ss_pred CHHHHHHHHHHHhCCCCCCEEEEeCC-CCCCCCHHHHHhccCccc
Confidence 3445566666666 4569999997 89999987 445555543
Done!