Query 000336
Match_columns 1646
No_of_seqs 328 out of 885
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 04:51:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000336.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000336hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1886 BAH domain proteins [T 100.0 2.6E-39 5.6E-44 376.1 13.0 443 20-479 7-462 (464)
2 cd04713 BAH_plant_3 BAH, or Br 100.0 4.9E-31 1.1E-35 271.9 15.7 135 59-193 9-146 (146)
3 cd04716 BAH_plantDCM_I BAH, or 99.9 4E-24 8.7E-29 215.5 13.0 115 68-184 1-121 (122)
4 cd04717 BAH_polybromo BAH, or 99.9 4.9E-24 1.1E-28 212.5 12.0 114 68-183 1-119 (121)
5 cd04370 BAH BAH, or Bromo Adja 99.9 1.2E-23 2.7E-28 203.9 12.6 114 68-183 1-122 (123)
6 cd04714 BAH_BAHCC1 BAH, or Bro 99.9 8.7E-24 1.9E-28 212.0 10.5 109 68-178 1-117 (121)
7 smart00439 BAH Bromo adjacent 99.9 6.9E-23 1.5E-27 199.5 12.0 112 70-183 1-119 (120)
8 PF01426 BAH: BAH domain; Int 99.9 4.5E-23 9.7E-28 200.9 9.8 111 69-183 1-118 (119)
9 cd04715 BAH_Orc1p_like BAH, or 99.9 1.7E-22 3.7E-27 211.7 13.3 101 59-160 18-125 (159)
10 cd04721 BAH_plant_1 BAH, or Br 99.9 1.6E-22 3.5E-27 205.7 10.4 113 64-178 1-119 (130)
11 cd04709 BAH_MTA BAH, or Bromo 99.9 1.9E-22 4.2E-27 212.2 10.4 114 69-182 2-138 (164)
12 cd04710 BAH_fungalPHD BAH, or 99.9 1.2E-21 2.6E-26 200.6 10.8 115 63-181 4-134 (135)
13 cd04760 BAH_Dnmt1_I BAH, or Br 99.9 2.1E-21 4.6E-26 196.2 10.7 109 68-180 1-123 (124)
14 cd04712 BAH_DCM_I BAH, or Brom 99.8 1.2E-20 2.7E-25 192.0 13.3 113 67-184 2-129 (130)
15 cd04720 BAH_Orc1p_Yeast BAH, o 99.8 5.6E-21 1.2E-25 203.6 11.1 121 63-183 44-177 (179)
16 cd04708 BAH_plantDCM_II BAH, o 99.8 1.6E-20 3.5E-25 202.7 11.5 121 64-186 1-148 (202)
17 cd04718 BAH_plant_2 BAH, or Br 99.8 1.7E-19 3.7E-24 186.5 2.1 96 85-183 51-147 (148)
18 cd04719 BAH_Orc1p_animal BAH, 99.7 7.2E-18 1.6E-22 171.8 9.1 111 69-179 2-124 (128)
19 cd04711 BAH_Dnmt1_II BAH, or B 99.6 3E-16 6.5E-21 160.5 6.7 100 84-183 24-135 (137)
20 smart00509 TFS2N Domain in the 99.4 3.1E-13 6.7E-18 126.6 4.4 58 377-434 17-74 (75)
21 KOG1827 Chromatin remodeling c 99.3 6.8E-13 1.5E-17 161.5 6.2 122 60-184 179-307 (629)
22 cd00183 TFIIS_I N-terminal dom 99.3 1.6E-12 3.5E-17 121.9 5.6 58 377-434 19-76 (76)
23 TIGR01385 TFSII transcription 99.2 7.8E-11 1.7E-15 135.1 10.7 64 377-440 19-82 (299)
24 PF08711 Med26: TFIIS helical 99.1 2.1E-11 4.6E-16 106.7 2.5 52 383-434 1-53 (53)
25 KOG3554 Histone deacetylase co 98.8 4.7E-10 1E-14 131.0 -1.4 131 70-202 5-183 (693)
26 KOG1105 Transcription elongati 98.7 1.4E-08 3E-13 116.1 6.8 60 377-436 21-81 (296)
27 PLN02976 amine oxidase 97.4 0.0011 2.3E-08 89.1 13.3 109 321-442 1256-1365(1713)
28 KOG1793 Uncharacterized conser 96.1 0.012 2.7E-07 70.3 7.6 122 301-433 159-290 (417)
29 KOG2821 RNA polymerase II tran 94.7 0.0091 2E-07 72.3 0.3 58 378-437 24-81 (433)
30 PF11467 LEDGF: Lens epitheliu 91.6 0.15 3.3E-06 52.1 3.2 59 376-434 20-80 (106)
31 COG5139 Uncharacterized conser 87.4 0.6 1.3E-05 54.7 4.2 52 382-433 233-286 (397)
32 PTZ00112 origin recognition co 76.9 2.5 5.5E-05 56.3 4.4 125 59-183 441-610 (1164)
33 COG5076 Transcription factor i 76.5 0.37 8.1E-06 57.9 -2.8 94 62-158 268-363 (371)
34 KOG1984 Vesicle coat complex C 53.9 4.2E+02 0.0091 36.5 17.1 26 1370-1395 21-46 (1007)
35 PF09926 DUF2158: Uncharacteri 47.8 22 0.00048 32.8 3.5 41 71-114 1-41 (53)
36 cd05834 HDGF_related The PWWP 41.2 34 0.00075 33.7 4.0 44 70-114 2-45 (83)
37 KOG0260 RNA polymerase II, lar 34.7 3.6E+02 0.0077 38.2 12.5 13 1111-1123 1175-1187(1605)
38 KOG2133 Transcriptional corepr 34.1 25 0.00055 47.2 2.4 116 65-180 140-280 (1229)
39 COG4014 Uncharacterized protei 32.0 82 0.0018 32.2 4.9 40 72-116 10-53 (97)
40 cd06080 MUM1_like Mutated mela 31.8 59 0.0013 32.3 3.9 39 71-113 1-39 (80)
41 PF09871 DUF2098: Uncharacteri 29.9 76 0.0017 32.4 4.4 42 70-117 2-47 (91)
42 cd05835 Dnmt3b_related The PWW 29.9 55 0.0012 32.4 3.4 41 71-112 1-44 (87)
43 PF10383 Clr2: Transcription-s 29.9 1.7E+02 0.0037 31.5 7.3 39 60-98 2-51 (139)
44 cd05162 PWWP The PWWP domain, 25.8 77 0.0017 30.8 3.6 40 71-111 1-46 (87)
45 PHA02763 hypothetical protein; 25.2 59 0.0013 33.0 2.7 44 319-362 36-80 (102)
46 PF14726 RTTN_N: Rotatin, an a 21.5 81 0.0018 32.4 2.9 52 376-427 45-96 (98)
47 PF06371 Drf_GBD: Diaphanous G 20.6 1.7E+02 0.0036 31.4 5.3 93 328-426 88-182 (187)
48 PF11717 Tudor-knot: RNA bindi 20.6 1.6E+02 0.0035 26.9 4.3 37 71-109 1-37 (55)
49 cd05840 SPBC215_ISWI_like The 20.3 87 0.0019 31.6 2.8 40 71-111 1-49 (93)
No 1
>KOG1886 consensus BAH domain proteins [Transcription]
Probab=100.00 E-value=2.6e-39 Score=376.14 Aligned_cols=443 Identities=22% Similarity=0.212 Sum_probs=378.4
Q ss_pred cCcccccccCCCcccccccccccCCCC-CCCCCCCCCCCCCceEEEEECCEEEee-CCEEEEcCCC-CCCCeEEEEEEEe
Q 000336 20 EGRRRHMWTVPPRDSAILASVADGGSA-SPSSSSSLSSSPNSVTFFSQDGRKISV-GDCALFKPPQ-DSPPFIGIIRSLT 96 (1646)
Q Consensus 20 ~~k~k~~W~~~~~~~~Ig~s~~~~gk~-~~~~~~~~~~s~k~YeSf~iDGeeyrV-GDcVLVkped-d~pPyIArI~sIw 96 (1646)
.++-+..|++.+.+.++|++.+..|+. ..++ +|.+|.+.|..|.. +|+|++.+++ ..+||||||++||
T Consensus 7 ~~~~~~~~~~~~~a~~~g~a~~~qGv~~~k~~---------h~~t~~~~~g~~~~~~d~vllvped~~~pPyvaii~~i~ 77 (464)
T KOG1886|consen 7 EPKLKSELRPRDEASSMGDANKEQGVGGVKSL---------HFETFIYRGGRYINYGDSVLLVPEDPGKPPYVAIIEDIY 77 (464)
T ss_pred cccccccCCccchhhhhhhhhhhccccccccc---------cccceeeccCcccccCcceeecCCCCCCCCeeEEEeeee
Confidence 456788999999999999999999999 4555 57778888777777 9999999886 6899999999999
Q ss_pred ecCC-CcEEEEEEEEeccccccCCc-ccccCCCCCeeEecCCcCcCCccccccccEEEecCCCccCCC--CCCeEEEEEE
Q 000336 97 AGKE-NKLTLSVNWLYRPAEVKLGK-GFLLEAAPNEIFYSFHKDEIPAASLLHPCKVAFLPKGIELPS--GIGSFVCRKV 172 (1646)
Q Consensus 97 Ed~d-Ge~~VrVqWFYRPeET~lgk-g~~~eaDPNELFLSdh~D~nPLeSI~GKC~Vlsl~ey~elP~--g~dvFfCRr~ 172 (1646)
.+.. +.++++|+|||||+|+..+. ..|-..+++|||+++|+|++++++|.++|.|+|+..|.++++ +...|+||+.
T Consensus 78 a~~~g~~~k~ev~W~YrPee~~~~~~~~~~a~~~relF~SfH~De~~A~ti~~rC~V~fvp~~kqlp~~~~~~~f~~r~v 157 (464)
T KOG1886|consen 78 AQERGGNVKVEVQWFYRPEESEGGGSGKWGAKQPRELFLSFHEDEAFAETILHRCKVHFVPAYKQLPNRVGHESFICRRV 157 (464)
T ss_pred ccccCCCcceecccccCCCccCCCCCCCcccCCCccccccccccchhhhhhcccceeeeccccccccccCCCCCcccccc
Confidence 8766 58999999999999998744 445556788999999999999999999999999999999995 4799999999
Q ss_pred EeCCCCEEEecCcchhhhhhhhhhHHHHhhcccccccccCCCCCCCCCCCCCCccccCCCCCCCCCCCCCCCcccccccc
Q 000336 173 YDITNKCLWWLTDQDYINERQEEVDQLLYKTHIEMHATVPSGGRSPKPMNGPTSTSQLKPGSDGAQNSASFPSQVKGKKR 252 (1646)
Q Consensus 173 YD~~tkkF~~LtdedY~~e~qeEVD~LLdktk~emkAt~q~ggrsPkpv~~pss~~~~k~gsd~~qn~~sf~s~~kgkkr 252 (1646)
||..++.||++++.+|....+.++|.++.++..++.-..++...-...++-+-..|| +..++ +-+++.+..++
T Consensus 158 Yd~~~~~~~~~~~~~~~~~~k~e~d~~~~kt~~~~~~~~~p~~~~t~~~~~~~~~~~-~s~~~------~~~r~ss~~~~ 230 (464)
T KOG1886|consen 158 YDAVTSKLRKLRDGDFGDGQKLEIDMLVPKTGPRRGTLPDPKKVQTLNAAASKRSQQ-KSEIS------SLSRASSSVDG 230 (464)
T ss_pred cccccccccCccccchhcccccCCccchhhhcccCCCCCCccccccccccccceecc-ccccc------ccccccccccc
Confidence 999999999999999999889999999999999999888877776666554444444 44443 33566788999
Q ss_pred ccCcCCCCccccccCccccCCCCCCCccchhhHHHHhhhhccCCccchhhHHHHHHhhcccccccccccccchhhhHHHH
Q 000336 253 ERGDQSSEPVKRERSSKMEDGNSGHSRTETNLKTEIAKITEKGGLVDYDGVEKLVQLMVPERNDKKIDLVCRSLLAGVVA 332 (1646)
Q Consensus 253 er~~q~~~~~kr~~~~k~~d~~~~~~~~~~~lk~ei~~l~~~GGl~~~e~V~klV~LM~~~~~~kk~~L~~R~~l~~Vi~ 332 (1646)
++.+.....+.|.+..|+.+.-...+.-..-.-+++..-+++|++..-+.|..++.||+++....+.||.++..++.++.
T Consensus 231 ~~~e~~~~~t~~~~~~k~~g~~~~~v~~~~~~~s~~~~~~~~~~~~p~~~v~~~~~le~~s~~s~a~d~~~~~~~~~~l~ 310 (464)
T KOG1886|consen 231 EILESFDLLTGRSDRDKVLGKLLEVVWQNSCSTSEAKPAGDQGSLWPNPSVSPCGALEQPSHASLAKDLESYLGLRETLV 310 (464)
T ss_pred ccccCCCCCCCcccccccccccchhhccccccccccCCCcccccCCCCcccchhhhhhhhhhhhHhhhhhhhhhhhhHHH
Confidence 99999999999999999998777766555557778888899999999999999999999999998999999988888877
Q ss_pred hccchhhHHHHHHHhchhhHHHHHHHHhhcccCCCCCCCCCCCChHHHHHHHHHHhcCCCCcHhhhhhcCCCcccccccC
Q 000336 333 ATDKFDCLNWFVQLRGLLVFDEWLQEVHKGKIGDAGSPRDGDKSVEEFLLILLRALDKLPVNLNALQMCNIGKSVNHLRT 412 (1646)
Q Consensus 333 ~T~~qd~L~~Fvq~~Gl~vL~eWLqE~~K~k~gd~~sp~~~dks~ee~lLeLLraLk~LPITlelLk~T~IGktVnkLRK 412 (1646)
.+=.-.||-+|.+++|..+..+|.++++..+-.++.++.+.++-+.+..+.++..|..++..++++...++++-+++|+-
T Consensus 311 ~~~k~~~~l~~~~ln~~~~~~e~~~~l~~p~~p~~~~~~~~~~~~~d~~~~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 390 (464)
T KOG1886|consen 311 LLLKGQALLKPEPLNPGETKPEPKQELHPPSFPDGQSSPSSMKLNDDDYDGLCVGLELTAGSLYLYCGQEGLICAGHLPC 390 (464)
T ss_pred hhhcchhhhccccCCCcccCchhhhhccCCCCCCCccCccccccCchhHHHHHHhhhhhccchhhhcccccceeccccCC
Confidence 77778999999999999999999999999999999998888888899999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHhccCCC------CCcccCCCCCCCCCCcccccccccccCCCCCCCcccc
Q 000336 413 HKNVEIQKKARSLVDTWKKRVEAEMDARPR------LPEVPHSGNRQTGASTEVAIKSLVTQPASSKTGAVKL 479 (1646)
Q Consensus 413 H~n~eI~kLAk~LVkkWKk~V~~e~~~kp~------~~e~~~~g~~~~~~~~~~~~k~~~s~~s~sks~s~k~ 479 (1646)
|..++|..-++.+|..|+.++...+..++. .+|---.+.|+++.+.+ +.+.......+.+..++|.
T Consensus 391 ~~~~~v~~~~~a~~~~~~~~~~~~~~~~~~~~q~~~~~~k~~~~~ret~~~~e-a~~~~~~~~~a~~~~~~k~ 462 (464)
T KOG1886|consen 391 PMLPEVKLSPVAAVHREGLLLAPSSVPKGTPFQHPPWPEKRLCSPRETGVNGE-AICGVLPLLVAHAGTTCKG 462 (464)
T ss_pred CCCCCcCcccccccchhhhcccceeccCCCCccCCCChhhcccCccccCCchh-cccCCchhhhhcccccccC
Confidence 999999999999999999999988764443 45555555677777766 4454445555555555553
No 2
>cd04713 BAH_plant_3 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.97 E-value=4.9e-31 Score=271.89 Aligned_cols=135 Identities=51% Similarity=0.941 Sum_probs=121.8
Q ss_pred CceEEEEECCEEEeeCCEEEEcCCCCCCCeEEEEEEEeecCCCcEEEEEEEEeccccccCCc-ccccCCCCCeeEecCCc
Q 000336 59 NSVTFFSQDGRKISVGDCALFKPPQDSPPFIGIIRSLTAGKENKLTLSVNWLYRPAEVKLGK-GFLLEAAPNEIFYSFHK 137 (1646)
Q Consensus 59 k~YeSf~iDGeeyrVGDcVLVkpedd~pPyIArI~sIwEd~dGe~~VrVqWFYRPeET~lgk-g~~~eaDPNELFLSdh~ 137 (1646)
.+|++|+++|++|+|||||||+++++.+||||+|++||++.++.++|+|+|||||+||.... +.+...++||||+|+|.
T Consensus 9 ~~y~s~~~dg~~y~vgD~Vlv~~~~~~~pyI~~I~~i~~~~~~~~~v~V~WFyRpeEi~~~~~~~~~~~~~~ElF~S~~~ 88 (146)
T cd04713 9 CHYTSFEKDGNKYRLEDCVLLVPEDDQKPYIAIIKDIYKQEEGSLKLEVQWLYRPEEIEKKKGGNWKAEDPRELFYSFHR 88 (146)
T ss_pred eeeeeEEECCEEEECCCEEEEeCCCCCCCEEEEEEEEEEcCCCCEEEEEEeeECHHHhccccccccccCCCCeEEEeCCC
Confidence 48999999999999999999999877899999999999988899999999999999997532 33445578999999999
Q ss_pred CcCCccccccccEEEecCCCccCCC--CCCeEEEEEEEeCCCCEEEecCcchhhhhhh
Q 000336 138 DEIPAASLLHPCKVAFLPKGIELPS--GIGSFVCRKVYDITNKCLWWLTDQDYINERQ 193 (1646)
Q Consensus 138 D~nPLeSI~GKC~Vlsl~ey~elP~--g~dvFfCRr~YD~~tkkF~~LtdedY~~e~q 193 (1646)
|++++++|+|||+|++.+++.+++. ..++||||+.||..+++|||||+++|++++|
T Consensus 89 d~~~~~~I~gkc~V~~~~~~~~~~~~~~~~~F~cr~~yD~~~~~~~~~~~~~~~~~~~ 146 (146)
T cd04713 89 DEVPAESVLHPCKVAFVPKGKQIPLRKGHSGFIVRRVYDNVNKKLWKLTDQDYEDERQ 146 (146)
T ss_pred CcCCHHHCcceeEEEECCccccCCccCCCCeEEEEEEEcCCCCcEeeccccccccccC
Confidence 9999999999999999999987773 4689999999999999999999999998643
No 3
>cd04716 BAH_plantDCM_I BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases (DCM) from plants. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.91 E-value=4e-24 Score=215.49 Aligned_cols=115 Identities=21% Similarity=0.365 Sum_probs=103.1
Q ss_pred CEEEeeCCEEEEcCCCCCCCeEEEEEEEeecCCCcEEEEEEEEeccccccCCc-ccccCCCCCeeEecCCcCcCCccccc
Q 000336 68 GRKISVGDCALFKPPQDSPPFIGIIRSLTAGKENKLTLSVNWLYRPAEVKLGK-GFLLEAAPNEIFYSFHKDEIPAASLL 146 (1646)
Q Consensus 68 GeeyrVGDcVLVkpedd~pPyIArI~sIwEd~dGe~~VrVqWFYRPeET~lgk-g~~~eaDPNELFLSdh~D~nPLeSI~ 146 (1646)
|+.|++||+|||.+++..++|||+|++||++.+|..+++|+|||||+||..++ +.+ .+++|||+|+|+|++|+++|+
T Consensus 1 g~~~~lgD~V~v~~~~~~~~yi~rI~~i~e~~~g~~~~~v~WyyRpeet~~~r~~~~--~~~rEvFlS~~~D~~pl~~I~ 78 (122)
T cd04716 1 GITYNLGDDAYVQGGEGEEPFICKITEFFEGTDGKTYFTAQWFYRAEDTVIERQATN--HDKKRVFYSEIKNDNPLDCLI 78 (122)
T ss_pred CcEEEcCCEEEEECCCCCCCEEEEEEEEEEcCCCceEEEEEEEEcHHHhcccccccc--CCCceEEEecccCccchhhee
Confidence 67899999999999877899999999999998999999999999999998765 323 357999999999999999999
Q ss_pred cccEEEecCCCccCC-----CCCCeEEEEEEEeCCCCEEEecC
Q 000336 147 HPCKVAFLPKGIELP-----SGIGSFVCRKVYDITNKCLWWLT 184 (1646)
Q Consensus 147 GKC~Vlsl~ey~elP-----~g~dvFfCRr~YD~~tkkF~~Lt 184 (1646)
+||+|+++..+..++ .+.++|||++.|+....+|..|+
T Consensus 79 ~Kc~V~~~~~~~~~~~~~~~~~~~df~c~~~Y~~~~~tF~~~~ 121 (122)
T cd04716 79 SKVKILQVPPNVGTKRKKPNSEKCDYYYDMEYCVPYSTFQTLR 121 (122)
T ss_pred eeeEEEEeCCCCCcccccccCCCceEEEeeEeccchhheEeCC
Confidence 999999999888763 34799999999999999998874
No 4
>cd04717 BAH_polybromo BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional regulation. Saccharomyces cerevisiae RSC1 and RSC2 are part of the 15-subunit nucleosome remodeling RSC complex. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.90 E-value=4.9e-24 Score=212.54 Aligned_cols=114 Identities=25% Similarity=0.392 Sum_probs=100.5
Q ss_pred CEEEeeCCEEEEcCCCC-CCCeEEEEEEEeecCCCcEEEEEEEEeccccccCCcccccCCCCCeeEecCCcCcCCccccc
Q 000336 68 GRKISVGDCALFKPPQD-SPPFIGIIRSLTAGKENKLTLSVNWLYRPAEVKLGKGFLLEAAPNEIFYSFHKDEIPAASLL 146 (1646)
Q Consensus 68 GeeyrVGDcVLVkpedd-~pPyIArI~sIwEd~dGe~~VrVqWFYRPeET~lgkg~~~eaDPNELFLSdh~D~nPLeSI~ 146 (1646)
|..|++||||||.+++. .++|||+|.+||++.+|..+|+++|||||+||...... ...+||||+|.+.|++|+++|+
T Consensus 1 g~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~~~~Wf~rP~et~~~~~~--~~~~~Evfls~~~d~~~~~~I~ 78 (121)
T cd04717 1 GLQYRVGDCVYVANPEDPSKPIIFRIERLWKDEDGEKFFFGCWFYRPEETFHEPTR--KFYKNEVFKSPLYETVPVEEIV 78 (121)
T ss_pred CCEEECCCEEEEeCCCCCCCCEEEEEeEEEECCCCCEEEEEEEEeChHHccCCCcc--ccccCceEEcCccccccHHHhc
Confidence 57899999999998765 88999999999999889999999999999999764432 2346999999999999999999
Q ss_pred cccEEEecCCCccCC-C---CCCeEEEEEEEeCCCCEEEec
Q 000336 147 HPCKVAFLPKGIELP-S---GIGSFVCRKVYDITNKCLWWL 183 (1646)
Q Consensus 147 GKC~Vlsl~ey~elP-~---g~dvFfCRr~YD~~tkkF~~L 183 (1646)
|||.||+..+|.+.. . ..++||||+.||...+.|++|
T Consensus 79 ~kc~Vl~~~~y~~~~p~~~~~~dvy~ce~~y~~~~~~~~~~ 119 (121)
T cd04717 79 GKCAVMDVKDYIKGRPTEISEEDVYVCESRYNESAKSFKKI 119 (121)
T ss_pred CeeEEEehHHHhcCCCCCCCCCCEEEEeEEECcccccEecc
Confidence 999999999998654 2 358999999999999999876
No 5
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=99.90 E-value=1.2e-23 Score=203.93 Aligned_cols=114 Identities=35% Similarity=0.559 Sum_probs=101.7
Q ss_pred CEEEeeCCEEEEcCCCC---CCCeEEEEEEEeecCCCcEEEEEEEEeccccccCCcccccCCCCCeeEecCCcCcCCccc
Q 000336 68 GRKISVGDCALFKPPQD---SPPFIGIIRSLTAGKENKLTLSVNWLYRPAEVKLGKGFLLEAAPNEIFYSFHKDEIPAAS 144 (1646)
Q Consensus 68 GeeyrVGDcVLVkpedd---~pPyIArI~sIwEd~dGe~~VrVqWFYRPeET~lgkg~~~eaDPNELFLSdh~D~nPLeS 144 (1646)
|.+|++||||||.+++. .++|||+|.+||++.++.++++|+|||||+||..+... ...+||||+|+++|++++++
T Consensus 1 g~~y~vgd~V~v~~~~~~~~~~~~i~~I~~i~~~~~~~~~~~v~wf~rp~e~~~~~~~--~~~~~Elf~s~~~~~i~v~~ 78 (123)
T cd04370 1 GITYEVGDSVYVEPDDSIKSDPPYIARIEELWEDTNGSKQVKVRWFYRPEETPKGLSP--FALRRELFLSDHLDEIPVES 78 (123)
T ss_pred CCEEecCCEEEEecCCcCCCCCCEEEEEeeeeECCCCCEEEEEEEEEchhHhcccccc--ccccceeEEecCccccCHHH
Confidence 67899999999999865 78999999999999889999999999999999875432 34679999999999999999
Q ss_pred cccccEEEecCCCccCC-----CCCCeEEEEEEEeCCCCEEEec
Q 000336 145 LLHPCKVAFLPKGIELP-----SGIGSFVCRKVYDITNKCLWWL 183 (1646)
Q Consensus 145 I~GKC~Vlsl~ey~elP-----~g~dvFfCRr~YD~~tkkF~~L 183 (1646)
|+|||.|++..+|.+.. ...++||||+.||..+++|++|
T Consensus 79 I~gkc~V~~~~~~~~~~~~~~~~~~~~f~~r~~yd~~~~~fk~~ 122 (123)
T cd04370 79 IIGKCKVLFVSEFEGLKQRPNKIDTDDFFCRLAYDPTTKEFKAL 122 (123)
T ss_pred hccccEEEechHhhccccccccCCCCeEEEEEEECcCcceEEeC
Confidence 99999999999887652 2468999999999999999886
No 6
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.90 E-value=8.7e-24 Score=212.01 Aligned_cols=109 Identities=33% Similarity=0.576 Sum_probs=96.9
Q ss_pred CEEEeeCCEEEEcCCCC-CCCeEEEEEEEeecCCCcEEEEEEEEeccccccCCcccccCCCCCeeEecCCcCcCCccccc
Q 000336 68 GRKISVGDCALFKPPQD-SPPFIGIIRSLTAGKENKLTLSVNWLYRPAEVKLGKGFLLEAAPNEIFYSFHKDEIPAASLL 146 (1646)
Q Consensus 68 GeeyrVGDcVLVkpedd-~pPyIArI~sIwEd~dGe~~VrVqWFYRPeET~lgkg~~~eaDPNELFLSdh~D~nPLeSI~ 146 (1646)
|+.|+|||||||+++++ .+||||+|.+||++.+|.++|+|+|||||+||..+++.. .+++|||+|+|.|++++++|+
T Consensus 1 ~~~~~vGD~V~v~~~~~~~~pyIgrI~~i~e~~~g~~~~~v~WfyrPeEt~~~~~~~--~~~~EvF~S~~~d~~~~~~I~ 78 (121)
T cd04714 1 KEIIRVGDCVLFKSPGRPSLPYVARIESLWEDPEGNMVVRVKWYYRPEETKGGRKPN--HGEKELFASDHQDENSVQTIE 78 (121)
T ss_pred CCEEEcCCEEEEeCCCCCCCCEEEEEEEEEEcCCCCEEEEEEEEEcHHHccCccccc--CCCCceEecCCcccccHHHhC
Confidence 57899999999998764 789999999999998899999999999999998765432 467999999999999999999
Q ss_pred cccEEEecCCCccCC-------CCCCeEEEEEEEeCCCC
Q 000336 147 HPCKVAFLPKGIELP-------SGIGSFVCRKVYDITNK 178 (1646)
Q Consensus 147 GKC~Vlsl~ey~elP-------~g~dvFfCRr~YD~~tk 178 (1646)
|||.|+++.+|.++. ...++|+|++.||+...
T Consensus 79 gkc~V~~~~ey~~~~~~~~~~~~~~d~~~Ce~~yn~~~~ 117 (121)
T cd04714 79 HKCYVLTFAEYERLARVKKKPQDGVDFYYCAGTYNPDTG 117 (121)
T ss_pred cccEEEehhHheecccccCCCCcCCCEEEEeccCCCCcC
Confidence 999999999988654 34799999999999864
No 7
>smart00439 BAH Bromo adjacent homology domain.
Probab=99.89 E-value=6.9e-23 Score=199.47 Aligned_cols=112 Identities=31% Similarity=0.508 Sum_probs=98.9
Q ss_pred EEeeCCEEEEcCCC-CCCCeEEEEEEEeecCCCc-EEEEEEEEeccccccCCcccccCCCCCeeEecCCcCcCCcccccc
Q 000336 70 KISVGDCALFKPPQ-DSPPFIGIIRSLTAGKENK-LTLSVNWLYRPAEVKLGKGFLLEAAPNEIFYSFHKDEIPAASLLH 147 (1646)
Q Consensus 70 eyrVGDcVLVkped-d~pPyIArI~sIwEd~dGe-~~VrVqWFYRPeET~lgkg~~~eaDPNELFLSdh~D~nPLeSI~G 147 (1646)
.|++||||||.+++ ..++|||+|.+||++.++. ++++|+|||||+||...... ..++||||+|++++++++++|+|
T Consensus 1 ~~~vgd~V~v~~~~~~~~~~i~~I~~i~~~~~~~~~~~~v~Wf~rp~e~~~~~~~--~~~~~Elf~s~~~~~i~~~~I~~ 78 (120)
T smart00439 1 TIRVGDFVLVEPDDADEPYYIGRIEEIFETKKNSEKMVRVRWFYRPEETVLEKAA--LFDKNEVFLSDEYDTVPLSDIIG 78 (120)
T ss_pred CcccCCEEEEeCCCCCCCCEEEEEEEEEECCCCCEEEEEEEEEEChhhccccccc--cCCCcceEEEccCccCChHHeee
Confidence 37999999999886 5689999999999998888 89999999999999875543 23579999999999999999999
Q ss_pred ccEEEecCCCccCCC-----CCCeEEEEEEEeCCCCEEEec
Q 000336 148 PCKVAFLPKGIELPS-----GIGSFVCRKVYDITNKCLWWL 183 (1646)
Q Consensus 148 KC~Vlsl~ey~elP~-----g~dvFfCRr~YD~~tkkF~~L 183 (1646)
||+|++..+|.+.+. ..++||||+.||..+++|++|
T Consensus 79 kc~V~~~~~~~~~~~~~~~~~~~~f~cr~~yd~~~~~f~~~ 119 (120)
T smart00439 79 KCNVLSKSDYPGLRPEGKIGEPDVFFCESLYDPEKGAFKKL 119 (120)
T ss_pred EEEEEEcchhcccccccCCCCCCeEEEEEEEccccCcccCC
Confidence 999999999886542 368999999999999999775
No 8
>PF01426 BAH: BAH domain; InterPro: IPR001025 The BAH (bromo-adjacent homology) family contains proteins such as eukaryotic DNA (cytosine-5) methyltransferases IPR001525 from INTERPRO, the origin recognition complex 1 (Orc1) proteins, as well as several proteins involved in transcriptional regulation. The BAH domain appears to act as a protein-protein interaction module specialised in gene silencing, as suggested for example by its interaction within yeast Orc1p with the silent information regulator Sir1p. The BAH module might therefore play an important role by linking DNA methylation, replication and transcriptional regulation [].; GO: 0003677 DNA binding; PDB: 4DA4_A 3PT6_B 3AV6_A 3AV5_A 3AV4_A 3PT9_A 3SWR_A 3PTA_A 1M4Z_A 1ZBX_A ....
Probab=99.88 E-value=4.5e-23 Score=200.90 Aligned_cols=111 Identities=32% Similarity=0.581 Sum_probs=96.3
Q ss_pred EEEeeCCEEEEcCCC-CCCCeEEEEEEEeecCCCc--EEEEEEEEeccccccCCcccccCCCCCeeEecCCcCcCCcccc
Q 000336 69 RKISVGDCALFKPPQ-DSPPFIGIIRSLTAGKENK--LTLSVNWLYRPAEVKLGKGFLLEAAPNEIFYSFHKDEIPAASL 145 (1646)
Q Consensus 69 eeyrVGDcVLVkped-d~pPyIArI~sIwEd~dGe--~~VrVqWFYRPeET~lgkg~~~eaDPNELFLSdh~D~nPLeSI 145 (1646)
++|++||||||.+++ ..++|||+|.+||++.++. ++++|+|||||+||...+ ...+||||+|++++++++++|
T Consensus 1 ~~~~vGD~V~v~~~~~~~~~~v~~I~~i~~~~~~~~~~~~~v~Wf~rp~d~~~~~----~~~~~Elf~s~~~~~~~~~~I 76 (119)
T PF01426_consen 1 VTYKVGDFVYVKPDDPPEPPYVARIEEIWEDKDGNKEKMVKVRWFYRPEDTSLGK----TFSPRELFLSDHCDDIPVESI 76 (119)
T ss_dssp EEEETTSEEEEECTSTTSEEEEEEEEEEEEETTTSEEEEEEEEEEEEGGGSTTGG----HSCTTEEEEEEEEEEEEGGGE
T ss_pred CEEeCCCEEEEeCCCCCCCCEEEEEEEEEcCCCCCEEEEEEEEEeECcccccccc----cCCCCEEEEECcEeEEehhhE
Confidence 479999999999986 5788999999999988777 999999999999993222 234599999999999999999
Q ss_pred ccccEEEecCCCccCC--C--CCCeEEEEEEEeCCCCEEEec
Q 000336 146 LHPCKVAFLPKGIELP--S--GIGSFVCRKVYDITNKCLWWL 183 (1646)
Q Consensus 146 ~GKC~Vlsl~ey~elP--~--g~dvFfCRr~YD~~tkkF~~L 183 (1646)
+|||.|++..+|.+.. . ..++||||+.||...++|..|
T Consensus 77 ~gkc~V~~~~~~~~~~~~~~~~~~~F~cr~~yd~~~~~f~~~ 118 (119)
T PF01426_consen 77 RGKCNVLHLEDYEQARPYGKEEPDTFFCRYAYDPQKKRFKKL 118 (119)
T ss_dssp EEEEEEEEHHHHTTGCCHCHHTTTEEEEEEEEETTTTEEEE-
T ss_pred EeeeEEEECCccccccccccCCCCEEEEEEEEeCCcCEEeCC
Confidence 9999999998877544 2 579999999999999999876
No 9
>cd04715 BAH_Orc1p_like BAH, or Bromo Adjacent Homology domain, as present in the Schizosaccharomyces pombe homolog of Saccharomyces cerevisiae Orc1p and similar proteins. Orc1 is part of the Yeast Sir1-origin recognition complex, the Orc1p BAH doman functions in epigenetic silencing. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.88 E-value=1.7e-22 Score=211.68 Aligned_cols=101 Identities=21% Similarity=0.331 Sum_probs=86.8
Q ss_pred CceEEEEECCEEEeeCCEEEEcCCCCCCCeEEEEEEEeecCC--CcEEEEEEEEeccccccCCcccccCCCCCeeEecCC
Q 000336 59 NSVTFFSQDGRKISVGDCALFKPPQDSPPFIGIIRSLTAGKE--NKLTLSVNWLYRPAEVKLGKGFLLEAAPNEIFYSFH 136 (1646)
Q Consensus 59 k~YeSf~iDGeeyrVGDcVLVkpedd~pPyIArI~sIwEd~d--Ge~~VrVqWFYRPeET~lgkg~~~eaDPNELFLSdh 136 (1646)
+||++|+++|++|+|||||||++++ .+||||+|++||++.+ +.++++|+|||||+||....+......+||||+|+|
T Consensus 18 ~~Y~s~~~~g~~y~lGD~Vlv~s~~-~~~yIgkI~~iwe~~~~~g~~~~~v~WfyRp~E~~~~~~~~~~~~~nEvFlS~~ 96 (159)
T cd04715 18 QFYRSFTYDGVEYRLYDDVYVHNGD-SEPYIGKIIKIYETAIDSGKKKVKVIWFFRPSEIRMELKGEPKRHINEVFLACG 96 (159)
T ss_pred eEEEEEEECCEEEeCCCEEEEeCCC-CCCEEEEEEEEEEcCCcCCceEEEEEeeeCHHHhccccccCcccCCCcEEEecC
Confidence 3999999999999999999999854 8999999999999865 889999999999999975321112345799999998
Q ss_pred c-----CcCCccccccccEEEecCCCccC
Q 000336 137 K-----DEIPAASLLHPCKVAFLPKGIEL 160 (1646)
Q Consensus 137 ~-----D~nPLeSI~GKC~Vlsl~ey~el 160 (1646)
+ ++||+++|+|||.|+++.+|..-
T Consensus 97 ~d~~~~~~n~l~sI~gKC~Vl~~~ey~~~ 125 (159)
T cd04715 97 RGEGLANINLLESIIGKCNVVCISEDFRN 125 (159)
T ss_pred cCccccccCcHHHccceeEEEEehHhhhC
Confidence 6 56899999999999999998743
No 10
>cd04721 BAH_plant_1 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.87 E-value=1.6e-22 Score=205.74 Aligned_cols=113 Identities=20% Similarity=0.273 Sum_probs=98.1
Q ss_pred EEECCEEEeeCCEEEEcCCCCCCCeEEEEEEEeecCCCcEEEEEEEEeccccccCCcccccCCCCCeeEecCCcCcCCcc
Q 000336 64 FSQDGRKISVGDCALFKPPQDSPPFIGIIRSLTAGKENKLTLSVNWLYRPAEVKLGKGFLLEAAPNEIFYSFHKDEIPAA 143 (1646)
Q Consensus 64 f~iDGeeyrVGDcVLVkpedd~pPyIArI~sIwEd~dGe~~VrVqWFYRPeET~lgkg~~~eaDPNELFLSdh~D~nPLe 143 (1646)
|+-+|.+|+|||||||++++ ..+|||+|++||++.+|.++|+|+|||||+||..+.+.. ...+||||+|++.|+++++
T Consensus 1 ~~r~~~~i~vGD~V~v~~~~-~~~~va~Ie~i~ed~~g~~~v~v~WF~~p~E~~~~~~~~-~~~~~EvFlS~~~d~i~~~ 78 (130)
T cd04721 1 FCRNGVTISVHDFVYVLSEE-EDRYVAYIEDLYEDKKGSKMVKVRWFHTTDEVGAALSPD-SVNPREIFLSPNLQVISVE 78 (130)
T ss_pred CccCCEEEECCCEEEEeCCC-CCcEEEEEEEEEEcCCCCEEEEEEEecCHHHhccccCCC-CCCCCeEEEcCCccccchH
Confidence 46789999999999999876 788999999999998899999999999999997743322 1457999999999999999
Q ss_pred ccccccEEEecCCCccCCC-C-----CCeEEEEEEEeCCCC
Q 000336 144 SLLHPCKVAFLPKGIELPS-G-----IGSFVCRKVYDITNK 178 (1646)
Q Consensus 144 SI~GKC~Vlsl~ey~elP~-g-----~dvFfCRr~YD~~tk 178 (1646)
+|+|||+||+.++|.++.. . .++|+||+.||....
T Consensus 79 ~I~gk~~Vls~~~y~k~~~~~~~~~~~~~f~C~~~~d~~~~ 119 (130)
T cd04721 79 CIDGLATVLTREHYEKFQSVPKNSSELQAYFCYRQIDNNKV 119 (130)
T ss_pred HeeeeeEECCHHHHhhhhccccCccccccEEEEEEecCCCC
Confidence 9999999999999987642 1 469999999998754
No 11
>cd04709 BAH_MTA BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.87 E-value=1.9e-22 Score=212.18 Aligned_cols=114 Identities=22% Similarity=0.316 Sum_probs=97.8
Q ss_pred EEEeeCCEEEEcCCCCCCCeEEEEEEEeecCCCcEEEEEEEEeccccccCC------c--c------------cccCCCC
Q 000336 69 RKISVGDCALFKPPQDSPPFIGIIRSLTAGKENKLTLSVNWLYRPAEVKLG------K--G------------FLLEAAP 128 (1646)
Q Consensus 69 eeyrVGDcVLVkpedd~pPyIArI~sIwEd~dGe~~VrVqWFYRPeET~lg------k--g------------~~~eaDP 128 (1646)
..|+|||||||.++.+.++|||+|++||+...+.++|+|+|||||+||... + + ..+..+.
T Consensus 2 ~~yrvGD~Vy~~~~~~~Py~I~rI~e~~~~~~~~~~vkV~wfYRp~DI~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~~~ 81 (164)
T cd04709 2 NMYRVGDYVYFESSPNNPYLIRRIEELNKTARGHVEAKVVCYYRRRDIPDSLYQLADQHRRELEEKSDDLTPKQRHQLRH 81 (164)
T ss_pred cEEecCCEEEEECCCCCCCEEEEEEEEEeCCCCCEEEEEEEEEChhHccchhhhhcccccccccccccccchhhhhccCc
Confidence 579999999999875556779999999999999999999999999998431 1 1 1233478
Q ss_pred CeeEecCCcCcCCccccccccEEEecCCCccCC---CCCCeEEEEEEEeCCCCEEEe
Q 000336 129 NEIFYSFHKDEIPAASLLHPCKVAFLPKGIELP---SGIGSFVCRKVYDITNKCLWW 182 (1646)
Q Consensus 129 NELFLSdh~D~nPLeSI~GKC~Vlsl~ey~elP---~g~dvFfCRr~YD~~tkkF~~ 182 (1646)
+|||+|+|.|.+|+++|+|||.|+++.+|..+. ...++|||+..||+.+++|..
T Consensus 82 rELF~S~~~d~~p~~~IrGKC~V~~~~d~~~l~~~~~~~d~Ff~~~~YDP~~k~l~~ 138 (164)
T cd04709 82 RELFLSRQVETLPATHIRGKCSVTLLNDTESARSYLAREDTFFYSLVYDPEQKTLLA 138 (164)
T ss_pred ceeEEecccccccHHHeeeeEEEEEehhhhhhhhccCCCCEEEEEEEECCCCCeecc
Confidence 999999999999999999999999999988765 347999999999999999944
No 12
>cd04710 BAH_fungalPHD BAH, or Bromo Adjacent Homology domain, as present in fungal proteins containing PHD domains. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.86 E-value=1.2e-21 Score=200.65 Aligned_cols=115 Identities=21% Similarity=0.373 Sum_probs=97.8
Q ss_pred EEEECCEEEeeCCEEEEcCCCC-CCCeEEEEEEEeecCC------------CcEEEEEEEEeccccccCCcccccCCCCC
Q 000336 63 FFSQDGRKISVGDCALFKPPQD-SPPFIGIIRSLTAGKE------------NKLTLSVNWLYRPAEVKLGKGFLLEAAPN 129 (1646)
Q Consensus 63 Sf~iDGeeyrVGDcVLVkpedd-~pPyIArI~sIwEd~d------------Ge~~VrVqWFYRPeET~lgkg~~~eaDPN 129 (1646)
-+..+|..|++||||||.+++. .|+|||||++|+...+ +..+|+|+|||||+||.... .+|++
T Consensus 4 ~~~~~g~~~~vgD~Vyv~~~~~~ePyyIgrI~e~~~~~~~~~~~~~~~~~~~~~~vrV~wfYRp~Di~~~~----~~d~r 79 (135)
T cd04710 4 LVLKNGELLKVNDHIYMSSEPPGEPYYIGRIMEFVPKHEFPSGIHARVFPASYFQVRLNWYYRPRDISRRV----VADSR 79 (135)
T ss_pred EEccCCeEEeCCCEEEEecCCCCCCCEEEEEEEEEecCCCCccccccccCCCcEEEEEEEEeCHHHcCCcc----cCCce
Confidence 3557899999999999999764 5667999999998532 33689999999999995443 45889
Q ss_pred eeEecCCcCcCCccccccccEEEecCCCccCC---CCCCeEEEEEEEeCCCCEEE
Q 000336 130 EIFYSFHKDEIPAASLLHPCKVAFLPKGIELP---SGIGSFVCRKVYDITNKCLW 181 (1646)
Q Consensus 130 ELFLSdh~D~nPLeSI~GKC~Vlsl~ey~elP---~g~dvFfCRr~YD~~tkkF~ 181 (1646)
|||+|+|.|.+|+++|+|||+|++..++..+. ..+++|||.++||+..++|+
T Consensus 80 elf~S~h~d~~p~~si~gKC~V~~~~di~~l~~~~~~~~~Fyf~~lyD~~~~r~~ 134 (135)
T cd04710 80 LLYASMHSDICPIGSVRGKCTVRHRDQIPDLEEYKKRPNHFYFDQLFDRYILRYY 134 (135)
T ss_pred EEEEEeeEeeechHHEEeEEEEEEecccchhhhhccCCCEEEEEeeeCcchhhcc
Confidence 99999999999999999999999998876544 35799999999999999886
No 13
>cd04760 BAH_Dnmt1_I BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.85 E-value=2.1e-21 Score=196.21 Aligned_cols=109 Identities=19% Similarity=0.385 Sum_probs=95.5
Q ss_pred CEEEeeCCEEEEcCCC-CCCCeEEEEEEEeecCCCcEEEEEEEEeccccccCCcccccCCCCCeeEecCCcCcCCccccc
Q 000336 68 GRKISVGDCALFKPPQ-DSPPFIGIIRSLTAGKENKLTLSVNWLYRPAEVKLGKGFLLEAAPNEIFYSFHKDEIPAASLL 146 (1646)
Q Consensus 68 GeeyrVGDcVLVkped-d~pPyIArI~sIwEd~dGe~~VrVqWFYRPeET~lgkg~~~eaDPNELFLSdh~D~nPLeSI~ 146 (1646)
|.+|++||||+|++++ ..+||||+|..||++.++.+|||++||||++||.+++. .+++|||||++|+++++.+|.
T Consensus 1 g~~i~vGD~V~v~~~~~~~p~~I~rV~~mfe~~~g~k~~h~rWf~Rg~dTVlG~~----~~~kEvFlsd~c~d~~l~~I~ 76 (124)
T cd04760 1 GEELEAGDCVSVKPDDPTKPLYIARVTYMWKDSIGGKMFHAHWFCRGSDTVLGET----SDPLELFLVDECEDMALSSIH 76 (124)
T ss_pred CCEEecCCEEEEecCCCCCCcEEEEEhhheecCCCCcEEEEEEEEECCccccccc----CCCcEEEeecccCCcchHHhe
Confidence 5789999999999864 57889999999999999999999999999999999873 678999999999999999999
Q ss_pred cccEEEecCCC--------ccCC-----CCCCeEEEEEEEeCCCCEE
Q 000336 147 HPCKVAFLPKG--------IELP-----SGIGSFVCRKVYDITNKCL 180 (1646)
Q Consensus 147 GKC~Vlsl~ey--------~elP-----~g~dvFfCRr~YD~~tkkF 180 (1646)
+||+|+....- .+.+ .+.++|||+++||+..++|
T Consensus 77 ~Kv~V~~~~p~~~w~~~~g~~~~~~~~~ddg~tffyq~~yd~~~arf 123 (124)
T cd04760 77 GKVNVIYKAPSENWSMEGGMDEEDEIFEDDGKTFFYQKWYDPECARF 123 (124)
T ss_pred eeeEEEEeCCCcchhhhcCCCCccccccCCCCeEEEEEeeChhhhcc
Confidence 99999987632 2222 3469999999999987776
No 14
>cd04712 BAH_DCM_I BAH, or Bromo Adjacent Homology domain, as present in DNA (Cytosine-5)-methyltransferases (DCM) 1. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.84 E-value=1.2e-20 Score=192.03 Aligned_cols=113 Identities=19% Similarity=0.252 Sum_probs=97.1
Q ss_pred CCEEEeeCCEEEEcCCCCC-----------CCeEEEEEEEeecCCCcEEEEEEEEeccccccCCcccccCCCCCeeEecC
Q 000336 67 DGRKISVGDCALFKPPQDS-----------PPFIGIIRSLTAGKENKLTLSVNWLYRPAEVKLGKGFLLEAAPNEIFYSF 135 (1646)
Q Consensus 67 DGeeyrVGDcVLVkpedd~-----------pPyIArI~sIwEd~dGe~~VrVqWFYRPeET~lgkg~~~eaDPNELFLSd 135 (1646)
+|..|+|||+|+|.+++.. +|||++|..||++.+|.+|||++|||||+||.++. .+++||||||+
T Consensus 2 ~~~~i~vGD~V~v~~d~~~~~~~~~~~~~~~~~i~~V~~~~e~~~g~~~~h~~W~yrp~eTv~g~----~~~~~ElFLSd 77 (130)
T cd04712 2 HGLTIRVGDVVSVERDDADSTTKWNDDHRWLPLVQFVEYMKKGSDGSKMFHGRWLYRGCDTVLGN----YANERELFLTN 77 (130)
T ss_pred CCCEEeCCCEEEEcCCCCCccccccccccccceEEEEEEeeecCCCceEEEEEEEEcchhccccc----cCCCceEEEec
Confidence 5788999999999998643 78999999999999999999999999999999987 35679999999
Q ss_pred CcCcCCcc----ccccccEEEecCCCccCCCCCCeEEEEEEEeCCCCEEEecC
Q 000336 136 HKDEIPAA----SLLHPCKVAFLPKGIELPSGIGSFVCRKVYDITNKCLWWLT 184 (1646)
Q Consensus 136 h~D~nPLe----SI~GKC~Vlsl~ey~elP~g~dvFfCRr~YD~~tkkF~~Lt 184 (1646)
||+.++++ .|++||.|++...+... ...+.|||+..|+++.+.|..|+
T Consensus 78 ~c~~~~~~~~~~~I~~k~~V~~~~~~~~~-~~~~~F~r~syy~~e~~~F~~l~ 129 (130)
T cd04712 78 ECTCLELDLLSTEIKGVHKVDWSGTPWGK-GLPEFFVRQSYYWPERGAFTSLK 129 (130)
T ss_pred cccccccccccceeEEEEEEEEecCcCCc-CCCCEEEEEEEECccCCceEcCC
Confidence 99999999 99999999988766531 12456777777777999998775
No 15
>cd04720 BAH_Orc1p_Yeast BAH, or Bromo Adjacent Homology domain, as present in Orc1p, which again is part of the Saccharomyces cerevisiae Sir1-origin recognition complex, and as present in Sir3p. The Orc1p BAH doman functions in epigenetic silencing. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.84 E-value=5.6e-21 Score=203.57 Aligned_cols=121 Identities=23% Similarity=0.374 Sum_probs=102.8
Q ss_pred EEEE-CCEEEeeCCEEEEcCCCCCCCeEEEEEEEeecCC-CcEEEEEEEEeccccccCCcc--ccc-----CCCCCeeEe
Q 000336 63 FFSQ-DGRKISVGDCALFKPPQDSPPFIGIIRSLTAGKE-NKLTLSVNWLYRPAEVKLGKG--FLL-----EAAPNEIFY 133 (1646)
Q Consensus 63 Sf~i-DGeeyrVGDcVLVkpedd~pPyIArI~sIwEd~d-Ge~~VrVqWFYRPeET~lgkg--~~~-----eaDPNELFL 133 (1646)
.... +|.+|+|||||+|++++..++|||+|++|+.+.. +.+.++|+|||||.|+...+. .+. ...+|||||
T Consensus 44 l~R~~d~~~~~vGD~Vlik~~~~~~~~V~iI~ei~~~~~~~~v~i~v~Wy~r~~Ei~~~~~~~~~~~~~~~~~~~nElfl 123 (179)
T cd04720 44 LARDSDGLELSVGDTILVKDDVANSPSVYLIHEIRLNTLNNEVELWVMWFLRWFEINPARYYKQFDPEFRSESNKNELYL 123 (179)
T ss_pred EEEccCCeEEeCCCEEEEeCCCCCCCEEEEEEEEEeCCCCCEEEEEEEEcCCHHHcccccccccccchhcccCCCceEEE
Confidence 3444 8999999999999998778999999999998754 668999999999999966442 222 234799999
Q ss_pred cCCcCcCCccccccccEEEecCCCccCC----CCCCeEEEEEEEeCCCCEEEec
Q 000336 134 SFHKDEIPAASLLHPCKVAFLPKGIELP----SGIGSFVCRKVYDITNKCLWWL 183 (1646)
Q Consensus 134 Sdh~D~nPLeSI~GKC~Vlsl~ey~elP----~g~dvFfCRr~YD~~tkkF~~L 183 (1646)
|+|+|++++.+|++||+||+..+|.++. .+..+||||++||+.++.|.|+
T Consensus 124 T~~~d~i~l~~Ii~k~~Vls~~ef~~~~~~~~~~~~~F~cR~~~d~~~~~F~~~ 177 (179)
T cd04720 124 TAELSEIKLKDIIDKANVLSESEFNDLSTDDKNGERTFFCRYACEPDGEEFVWI 177 (179)
T ss_pred ecccceEEhhheeeeEEEecHHHhhhhcccccCCCceEEEEEEEeCCCCeEccc
Confidence 9999999999999999999999988654 2478999999999999999884
No 16
>cd04708 BAH_plantDCM_II BAH, or Bromo Adjacent Homology domain, second copy present in DNA (Cytosine-5)-methyltransferases (DCM) from plants. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.83 E-value=1.6e-20 Score=202.66 Aligned_cols=121 Identities=22% Similarity=0.302 Sum_probs=101.3
Q ss_pred EEECCEEEeeCCEEEEcCC------------------CCCCCeEEEEEEEeecCCC------cEEEEEEEEeccccccCC
Q 000336 64 FSQDGRKISVGDCALFKPP------------------QDSPPFIGIIRSLTAGKEN------KLTLSVNWLYRPAEVKLG 119 (1646)
Q Consensus 64 f~iDGeeyrVGDcVLVkpe------------------dd~pPyIArI~sIwEd~dG------e~~VrVqWFYRPeET~lg 119 (1646)
|+++|++|+|||+|||.++ +..+.+||+|.+|+..++. ..+|+|+|||||+||..
T Consensus 1 f~~~Gv~Y~vgD~VYv~p~~f~~~~~~~~~~~~G~N~~~~p~~I~qI~ei~~~k~~~~~~~~~~~vrVrwFYRPEdt~~- 79 (202)
T cd04708 1 FVYDGVTYSVGDFLYVSPDAFAEEERERATFKAGRNVGLKAFVVCQVLEIVVEKESKQADVASTQVKVRRFYRPEDVSP- 79 (202)
T ss_pred CcCCCEEEecCCeEEECcccccccccccccccccccCCCCCcEEEEEEEEEecccCCCCCCcceEEEEEEEechhhcCc-
Confidence 5789999999999999998 2234569999999875443 67999999999999854
Q ss_pred cccccCCCCCeeEecCCcCcCCccccccccEEEecCCCccCC---CCCCeEEEEEEEeCCCCEEEecCcc
Q 000336 120 KGFLLEAAPNEIFYSFHKDEIPAASLLHPCKVAFLPKGIELP---SGIGSFVCRKVYDITNKCLWWLTDQ 186 (1646)
Q Consensus 120 kg~~~eaDPNELFLSdh~D~nPLeSI~GKC~Vlsl~ey~elP---~g~dvFfCRr~YD~~tkkF~~Ltde 186 (1646)
+. .+.++.+|||||++.+++++++|.|||+|++..++.++. ...++|||++.||+.++.|..|+..
T Consensus 80 ~~-~y~sd~rely~Sde~~~~~~~~I~GKC~V~~~~d~~~~~~~~~~~~~Ffc~~~Yd~~tg~f~~lP~~ 148 (202)
T cd04708 80 EK-AYASDIREVYYSEDTLTVPVEAVEGKCEVRKKSDLPDSDAPVIFEHVFFCELLYDPAKGSLKQLPPN 148 (202)
T ss_pred cc-ceecCceeEEEeccceeechhHcceEEEEEecCcchhhhccccCCCceEEEEEEcCCCCccCCCCch
Confidence 22 334588999999999999999999999999998876543 3479999999999999999887643
No 17
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.75 E-value=1.7e-19 Score=186.53 Aligned_cols=96 Identities=18% Similarity=0.295 Sum_probs=87.1
Q ss_pred CCCeEEEEEEEeecCCCcEEEEEEEEeccccccCCcccccCCCCCeeEecCCcCcCCccccccccEEEecCCCccCC-CC
Q 000336 85 SPPFIGIIRSLTAGKENKLTLSVNWLYRPAEVKLGKGFLLEAAPNEIFYSFHKDEIPAASLLHPCKVAFLPKGIELP-SG 163 (1646)
Q Consensus 85 ~pPyIArI~sIwEd~dGe~~VrVqWFYRPeET~lgkg~~~eaDPNELFLSdh~D~nPLeSI~GKC~Vlsl~ey~elP-~g 163 (1646)
..+|||+|+.||++. |..+|+++|||||+||..++..++. .+|||+|+|+|++++++|+|||.||+..+|.++. .+
T Consensus 51 ~~~~vArIekiW~~~-G~~~~~grWy~rPEET~~gr~~~~~--~kEvFlS~~~d~~~~~~I~gkC~V~~~keY~k~e~~g 127 (148)
T cd04718 51 GDLWLARIEKLWEEN-GTYWYAARWYTLPEETHMGRQPHNL--RRELYLTNDFADIEMECILRHCSVKCPKEFRDASNDG 127 (148)
T ss_pred CchHHHHHHHHHhcc-CceEEEEEEEeCchhccCccccccc--cceeeeccccccccHHHHhcccEEcCHHHcccccCCC
Confidence 579999999999986 8999999999999999987755443 3999999999999999999999999999998765 56
Q ss_pred CCeEEEEEEEeCCCCEEEec
Q 000336 164 IGSFVCRKVYDITNKCLWWL 183 (1646)
Q Consensus 164 ~dvFfCRr~YD~~tkkF~~L 183 (1646)
.++|||++.||..++.|+.|
T Consensus 128 ~Dvy~Ce~~Yd~~~~~Fkr~ 147 (148)
T cd04718 128 DDVFLCEYEYDVHWQSFKRL 147 (148)
T ss_pred CceEEEEEEEhhhcCceeec
Confidence 89999999999999999876
No 18
>cd04719 BAH_Orc1p_animal BAH, or Bromo Adjacent Homology domain, as present in animal homologs of Saccharomyces cerevisiae Orc1p. Orc1 is part of the Yeast Sir1-origin recognition complex. The Orc1p BAH doman functions in epigenetic silencing. In vertebrates, a similar ORC protein complex exists, which has been shown essential for DNA replication in Xenopus laevis. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.73 E-value=7.2e-18 Score=171.77 Aligned_cols=111 Identities=24% Similarity=0.384 Sum_probs=90.7
Q ss_pred EEEeeCCEEEEcCCCCCCCeEEEEEEEeecCCC---cEEEEEEEEeccccccCCccccc--CCCCCeeEecCCc---CcC
Q 000336 69 RKISVGDCALFKPPQDSPPFIGIIRSLTAGKEN---KLTLSVNWLYRPAEVKLGKGFLL--EAAPNEIFYSFHK---DEI 140 (1646)
Q Consensus 69 eeyrVGDcVLVkpedd~pPyIArI~sIwEd~dG---e~~VrVqWFYRPeET~lgkg~~~--eaDPNELFLSdh~---D~n 140 (1646)
.+|+|||||||.+++..+||||+|++||++.++ ..+++|||||||+|+........ ...++|||+++|. +++
T Consensus 2 ~~i~vGd~VlI~~~d~~~~yVAkI~~i~e~~~~~~~~~~~~VqWy~R~~Ev~~~~~~~~~~~~~~~EvF~~~~~~~~~~i 81 (128)
T cd04719 2 LTIEVGDFVLIEGEDADGPDVARILHLYEDGNEDDDPKRAIVQWFSRPSEVPKNKRKLLGREPHSQEVFFYSRSSCDNDI 81 (128)
T ss_pred eEEecCCEEEEECCCCCCCcEeeehhhhccccCCcccceEEEEcccChHHccccchhhccCCCCCcEEEEecCccccCcE
Confidence 379999999999987688999999999998665 56999999999999964221111 2357999999987 489
Q ss_pred CccccccccEEEecCCCccCC--C--CCCeEEEEEEEeCCCCE
Q 000336 141 PAASLLHPCKVAFLPKGIELP--S--GIGSFVCRKVYDITNKC 179 (1646)
Q Consensus 141 PLeSI~GKC~Vlsl~ey~elP--~--g~dvFfCRr~YD~~tkk 179 (1646)
.+++|.|||.|+.+..|.+++ . ....||.|+.||....+
T Consensus 82 ~~etI~gkc~V~~~~~y~~l~~~~~~~~~~~F~r~~~~~k~~~ 124 (128)
T cd04719 82 DAETIIGKVRVEPVEPKTDLPETKKKTGGPLFVKRYWDTKTFR 124 (128)
T ss_pred eHHHcccEEEEEEcCCccchhhhccccCceEEEEEEecccccc
Confidence 999999999999999999887 2 35788888888865543
No 19
>cd04711 BAH_Dnmt1_II BAH, or Bromo Adjacent Homology domain, second copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.63 E-value=3e-16 Score=160.53 Aligned_cols=100 Identities=21% Similarity=0.305 Sum_probs=81.7
Q ss_pred CCCCeEEEEEEEeecCCC-------cEEEEEEEEeccccccCCcccccCCCCCeeEecCCcCcCCccccccccEEEecCC
Q 000336 84 DSPPFIGIIRSLTAGKEN-------KLTLSVNWLYRPAEVKLGKGFLLEAAPNEIFYSFHKDEIPAASLLHPCKVAFLPK 156 (1646)
Q Consensus 84 d~pPyIArI~sIwEd~dG-------e~~VrVqWFYRPeET~lgkg~~~eaDPNELFLSdh~D~nPLeSI~GKC~Vlsl~e 156 (1646)
+.+++||||++|...+++ .++|+|+|||||+||..+...-+..|.||||+|+|.+++++.+|.|||+|++..+
T Consensus 24 ~ePy~VgrI~eI~~~k~~~~k~~~~~ikvrV~~fYRPEdi~~g~~~ayhsDirevy~Sd~~~~~~~~~I~GKC~V~~~~d 103 (137)
T cd04711 24 PEPFRIGRIKEIFCAKRSNGKPNESDIKLRINKFYRPENTHKGFKATYHADINMLYWSDEEATVDFSAVQGRCTVEYGED 103 (137)
T ss_pred CCCcEEEEEEEEecCCCCCCCCCccceEEEEEEEecccccccccccccccceeeEEeecceeecChhhccceEEEEeccc
Confidence 456779999999875432 4689999999999998865544456899999999999999999999999996654
Q ss_pred Ccc-C---C-CCCCeEEEEEEEeCCCCEEEec
Q 000336 157 GIE-L---P-SGIGSFVCRKVYDITNKCLWWL 183 (1646)
Q Consensus 157 y~e-l---P-~g~dvFfCRr~YD~~tkkF~~L 183 (1646)
..+ + . .+.+.|||+..||..++.|..+
T Consensus 104 i~~s~~~y~~~gpd~Fyf~~~Y~a~t~~F~d~ 135 (137)
T cd04711 104 LPESVQEYSGGGPDRFYFLEAYNAKTKSFEDP 135 (137)
T ss_pred cchhHHHHhcCCCcceEEhhhhccccCcccCC
Confidence 331 2 2 4579999999999999998654
No 20
>smart00509 TFS2N Domain in the N-terminus of transcription elongation factor S-II (and elsewhere).
Probab=99.37 E-value=3.1e-13 Score=126.63 Aligned_cols=58 Identities=45% Similarity=0.652 Sum_probs=56.1
Q ss_pred hHHHHHHHHHHhcCCCCcHhhhhhcCCCcccccccCCCCHHHHHHHHHHHHHHHHHHH
Q 000336 377 VEEFLLILLRALDKLPVNLNALQMCNIGKSVNHLRTHKNVEIQKKARSLVDTWKKRVE 434 (1646)
Q Consensus 377 ~ee~lLeLLraLk~LPITlelLk~T~IGktVnkLRKH~n~eI~kLAk~LVkkWKk~V~ 434 (1646)
.++.|+++|++|+.+|||+++|+.|+||++||+||||+|++|+.+|+.||+.||++|+
T Consensus 17 ~~~~~l~~L~~L~~~~~t~~~L~~T~iG~~v~~Lrkh~~~~I~~~A~~Li~~WK~~v~ 74 (75)
T smart00509 17 EVSRCLDILKKLKKLPITVDLLEETRIGKKVNGLRKHKNEEIRKLAKKLIKSWKKLVY 74 (75)
T ss_pred CHHHHHHHHHHHhcCCCCHHHHHHCcHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhc
Confidence 4789999999999999999999999999999999999999999999999999999985
No 21
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=99.34 E-value=6.8e-13 Score=161.53 Aligned_cols=122 Identities=24% Similarity=0.272 Sum_probs=107.4
Q ss_pred ceEE-EEECCEEEeeCCEEEEcCCCC-CCCeEEEEEEEeecCCCcEEEEEEEEeccccccC-CcccccCCCCCeeEecCC
Q 000336 60 SVTF-FSQDGRKISVGDCALFKPPQD-SPPFIGIIRSLTAGKENKLTLSVNWLYRPAEVKL-GKGFLLEAAPNEIFYSFH 136 (1646)
Q Consensus 60 ~YeS-f~iDGeeyrVGDcVLVkpedd-~pPyIArI~sIwEd~dGe~~VrVqWFYRPeET~l-gkg~~~eaDPNELFLSdh 136 (1646)
++.. +.++|..|.+||+||+....+ ..|.|++|..+|+..+|++|+.++|||||++|.+ ..+.|+. +|+|.+..
T Consensus 179 ~~~~~~~i~~~~~~~gd~vlv~~~~d~~~p~v~~Ier~w~~~dg~k~~~~~w~~rP~~T~H~a~r~F~k---~Evfkt~~ 255 (629)
T KOG1827|consen 179 HELGPVEIDGTKYIVGDYVLVQNPADNLKPIVAQIERLWKLPDGEKWPQGCWIYRPEETVHRADRKFYK---QEVFKTSL 255 (629)
T ss_pred ccCCCccccCcccccCceeeecCcccccCCceeeecccccCcccccccceeEeeCCccCccccccchhc---ccceeccc
Confidence 3344 789999999999999998754 8899999999999999999999999999999965 5566776 99999999
Q ss_pred cCcCCccccccccEEEecCCCccCC----CCCCeEEEEEEEeCCCCEEEecC
Q 000336 137 KDEIPAASLLHPCKVAFLPKGIELP----SGIGSFVCRKVYDITNKCLWWLT 184 (1646)
Q Consensus 137 ~D~nPLeSI~GKC~Vlsl~ey~elP----~g~dvFfCRr~YD~~tkkF~~Lt 184 (1646)
+.+.++..|+|+|.|+++.+|.... ...++|+|.+.|+...+.|-++.
T Consensus 256 ~~~~~~q~l~g~c~v~~~~~yi~~~p~~ls~~dv~lcesRyn~~~K~f~kir 307 (629)
T KOG1827|consen 256 YRDDLVQRLLGKCYVMKPTEYISGDPENLSEEDVFLCESRYNEQLKKFNKIR 307 (629)
T ss_pred ccccHHHHhhcceEEeehhHhhhcCcccccccceeeEEeeeccchhhhcccc
Confidence 9999999999999999999988543 23699999999999999886653
No 22
>cd00183 TFIIS_I N-terminal domain (domain I) of transcription elongation factor S-II (TFIIS); similar to a domain found in elongin A and CRSP70; likely to be involved in transcription; domain I from TFIIS interacts with RNA polymerase II holoenzyme
Probab=99.32 E-value=1.6e-12 Score=121.86 Aligned_cols=58 Identities=47% Similarity=0.696 Sum_probs=55.9
Q ss_pred hHHHHHHHHHHhcCCCCcHhhhhhcCCCcccccccCCCCHHHHHHHHHHHHHHHHHHH
Q 000336 377 VEEFLLILLRALDKLPVNLNALQMCNIGKSVNHLRTHKNVEIQKKARSLVDTWKKRVE 434 (1646)
Q Consensus 377 ~ee~lLeLLraLk~LPITlelLk~T~IGktVnkLRKH~n~eI~kLAk~LVkkWKk~V~ 434 (1646)
..+.|+++|++|+.+|||+++|++|+||+.||+||||.+++|+.+|+.||++||++|+
T Consensus 19 ~~~~~~~~L~~L~~~~it~~~L~~T~iG~~V~~Lrkh~~~~i~~~A~~Lv~~Wk~~v~ 76 (76)
T cd00183 19 EVSRLLDLLRLLKKLPLTVEILKETRIGKKVNSLRKHSNEKIRKLAKALIKSWKKLVD 76 (76)
T ss_pred CHHHHHHHHHHHhcCCCCHHHHHHCCHHHHHHHHHcCCcHHHHHHHHHHHHHHHHhcC
Confidence 5789999999999999999999999999999999999999999999999999999873
No 23
>TIGR01385 TFSII transcription elongation factor S-II. This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end.
Probab=99.17 E-value=7.8e-11 Score=135.09 Aligned_cols=64 Identities=33% Similarity=0.503 Sum_probs=59.7
Q ss_pred hHHHHHHHHHHhcCCCCcHhhhhhcCCCcccccccCCCCHHHHHHHHHHHHHHHHHHHHHhccC
Q 000336 377 VEEFLLILLRALDKLPVNLNALQMCNIGKSVNHLRTHKNVEIQKKARSLVDTWKKRVEAEMDAR 440 (1646)
Q Consensus 377 ~ee~lLeLLraLk~LPITlelLk~T~IGktVnkLRKH~n~eI~kLAk~LVkkWKk~V~~e~~~k 440 (1646)
.++.||++|++|+.++||+++|++|+||++||+||||.+++|++||+.||++||++|+.++..+
T Consensus 19 ~~~~~l~~L~~L~~~~~t~~lL~~T~IG~~Vn~lrkh~~~~I~~lAk~li~~WK~~v~~~k~~~ 82 (299)
T TIGR01385 19 NVEQCLDILHQLKEFPPTEELLQETKVGVKVNKLRKHPNEDISKLAKKIIKSWKKVVDKNKSDH 82 (299)
T ss_pred CHHHHHHHHHHHhcCCCcHHHHhhCchhHHHHHHHcCCcHHHHHHHHHHHHHHHHHHhhhcccC
Confidence 3678999999999999999999999999999999999999999999999999999999875443
No 24
>PF08711 Med26: TFIIS helical bundle-like domain; InterPro: IPR017923 Transcription factor IIS (TFIIS) is a transcription elongation factor that increases the overall transcription rate of RNA polymerase II by reactivating transcription elongation complexes that have arrested transcription. The three structural domains of TFIIS are conserved from yeast to human. The 80 or so N-terminal residues form a protein interaction domain containing a conserved motif, which has been called the LW motif because of the invariant leucine and tryptophan residues it contains. Although the N-terminal domain is not needed for transcriptional activity, a similar sequence has been identified in other transcription factors and proteins that are predominantly nuclear localized [, ]: MED26 (also known as CRSP70 and ARC70), a subunit of the Mediator complex, which is required for the activity of the enhancer-binding protein Sp1. Elongin A, a subunit of a transcription elongation factor previously known as SIII. It increases the rate of transcription by suppressing transient pausing of the elongation complex. PPP1R10, a nuclear regulatory subunit of protein phosphatase 1 that was previously known as p99, FB19 or PNUTS. PIBP, a small hypothetical protein that could be a phosphoinositide binding protein. IWS1, which is thought to function in both transcription initiation and elongation. The TFIIS N-terminal domain is a compact four-helix bundle. The hydrophobic core residues of helices 2, 3, and 4 are well conserved among TFIIS domains, although helix 1 is less conserved []. ; GO: 0003677 DNA binding, 0006351 transcription, DNA-dependent, 0005634 nucleus; PDB: 1EO0_A 3OAK_A 3NFQ_B 3O8Z_A 1WJT_A 2XPL_A 2XPO_A 2XPP_A 2XPN_A.
Probab=99.12 E-value=2.1e-11 Score=106.68 Aligned_cols=52 Identities=44% Similarity=0.802 Sum_probs=47.8
Q ss_pred HHHHHhcCCCCcHhhhhhcCCCcccccccCC-CCHHHHHHHHHHHHHHHHHHH
Q 000336 383 ILLRALDKLPVNLNALQMCNIGKSVNHLRTH-KNVEIQKKARSLVDTWKKRVE 434 (1646)
Q Consensus 383 eLLraLk~LPITlelLk~T~IGktVnkLRKH-~n~eI~kLAk~LVkkWKk~V~ 434 (1646)
++|+.|+.+|||.++|++|+||++|+.|||| .+++|+++|+.||++||++|+
T Consensus 1 ~iL~~L~~l~it~~~L~~T~IGk~V~~l~k~~~~~~i~~~A~~Li~~Wk~~v~ 53 (53)
T PF08711_consen 1 EILKVLEKLPITVELLKSTGIGKAVNKLRKHSENPEIRKLAKELIKKWKRIVD 53 (53)
T ss_dssp HHHHHHHCSS-SHHHHHHHSHHHHHHHHHHCTS-HHHHHHHHHHHHHHHHHH-
T ss_pred CHHHHhhcCCCCHHHHHhCChhHHHHHHHcCCCCHHHHHHHHHHHHHHhHhcC
Confidence 5899999999999999999999999999999 899999999999999999985
No 25
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=98.81 E-value=4.7e-10 Score=131.04 Aligned_cols=131 Identities=23% Similarity=0.349 Sum_probs=102.9
Q ss_pred EEeeCCEEEEcCCCCCCCeEEEEEEEeecCCCcEEEEEEEEeccccccC--------Ccc-----------------cc-
Q 000336 70 KISVGDCALFKPPQDSPPFIGIIRSLTAGKENKLTLSVNWLYRPAEVKL--------GKG-----------------FL- 123 (1646)
Q Consensus 70 eyrVGDcVLVkpedd~pPyIArI~sIwEd~dGe~~VrVqWFYRPeET~l--------gkg-----------------~~- 123 (1646)
.|+|||+|||.....+++.|-+|+++.+..+|.+..+|..|||..||.. ..+ .+
T Consensus 5 ~y~vgd~vYf~~sss~PYliRrIEELnKTa~GnVeAkvVc~~RRRDIs~~L~~lAD~~ar~~~~y~a~~~a~~~~e~e~E 84 (693)
T KOG3554|consen 5 MYRVGDYVYFENSSSNPYLIRRIEELNKTANGNVEAKVVCYLRRRDISSHLLKLADKHARRFDNYAAPEAAPEATEAEIE 84 (693)
T ss_pred cceecceEEEecCCCChHHHHHHHHHhccccCCcceEEEEEEEccchHHHHHHHHHHHhhhcccccCcccCcccchhhhh
Confidence 7999999999987556555999999999999999999999999999841 001 00
Q ss_pred ----------------cCCCCCeeEecCCcCcCCccccccccEEEecCCCccCC---CCCCeEEEEEEEeCCCCEEEecC
Q 000336 124 ----------------LEAAPNEIFYSFHKDEIPAASLLHPCKVAFLPKGIELP---SGIGSFVCRKVYDITNKCLWWLT 184 (1646)
Q Consensus 124 ----------------~eaDPNELFLSdh~D~nPLeSI~GKC~Vlsl~ey~elP---~g~dvFfCRr~YD~~tkkF~~Lt 184 (1646)
+....+|||+|...+..|+..|.|||.|.-+.+.+.+. ...++||+..+||+..++| |.
T Consensus 85 Ee~e~p~~vdlt~~qrhqLrhrElFlsRQ~EsLPAthIRGKCsV~LLnete~~~~YL~~eDtFfySLVyDP~~kTL--LA 162 (693)
T KOG3554|consen 85 EESECPAPVDLTEKQRHQLRHRELFLSRQSESLPATHIRGKCSVTLLNETESLQSYLEKEDTFFYSLVYDPNQKTL--LA 162 (693)
T ss_pred hhccCCCcCCCCHHHHHHHHHHHHHHhhhhccCchhhhccceeEEEecChHHHHhhccccceeEEEeeeccchhhh--hc
Confidence 11236899999999999999999999998887655432 3468999999999999988 55
Q ss_pred cchhh---hhhhhhhHHHHhh
Q 000336 185 DQDYI---NERQEEVDQLLYK 202 (1646)
Q Consensus 185 dedY~---~e~qeEVD~LLdk 202 (1646)
|+.-+ +..|.+|+..|.+
T Consensus 163 DkGeIRVG~kYQA~i~e~l~E 183 (693)
T KOG3554|consen 163 DKGEIRVGEKYQADIPEWLEE 183 (693)
T ss_pred cCcceeecccccccchHHHHh
Confidence 66443 3357788887774
No 26
>KOG1105 consensus Transcription elongation factor TFIIS/Cofactor of enhancer-binding protein Sp1 [Transcription]
Probab=98.73 E-value=1.4e-08 Score=116.10 Aligned_cols=60 Identities=42% Similarity=0.608 Sum_probs=56.3
Q ss_pred hHHHHHHHHHHhcCCCCcHhhhhhcCCCcccc-cccCCCCHHHHHHHHHHHHHHHHHHHHH
Q 000336 377 VEEFLLILLRALDKLPVNLNALQMCNIGKSVN-HLRTHKNVEIQKKARSLVDTWKKRVEAE 436 (1646)
Q Consensus 377 ~ee~lLeLLraLk~LPITlelLk~T~IGktVn-kLRKH~n~eI~kLAk~LVkkWKk~V~~e 436 (1646)
+.+.+|++|.+|+++|||+++|++|+||+.|| .|++|.|++|.++|+.||+.||++|++.
T Consensus 21 n~~~~ld~l~~L~~~pvt~ell~~Tr~g~~vn~~~Kk~~n~ev~~~ak~Lik~Wkk~~~~~ 81 (296)
T KOG1105|consen 21 NVEAALDLLKRLKKIPVTLELLQETRTGMGVNEVLKKHKNEEVRSLAKKLIKSWKKLVDKS 81 (296)
T ss_pred cHHHHHHHHHHHHhcccHHHHHHHhhHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhcc
Confidence 47899999999999999999999999999999 5567899999999999999999999875
No 27
>PLN02976 amine oxidase
Probab=97.40 E-value=0.0011 Score=89.13 Aligned_cols=109 Identities=22% Similarity=0.298 Sum_probs=86.5
Q ss_pred cccchhhhHHHHhccchhhHHHHHHHhchhhHHHHHHHHhhcccCCCCCCCCCCCChHHHHHHHHHHhcCCCCcHhhhhh
Q 000336 321 LVCRSLLAGVVAATDKFDCLNWFVQLRGLLVFDEWLQEVHKGKIGDAGSPRDGDKSVEEFLLILLRALDKLPVNLNALQM 400 (1646)
Q Consensus 321 L~~R~~l~~Vi~~T~~qd~L~~Fvq~~Gl~vL~eWLqE~~K~k~gd~~sp~~~dks~ee~lLeLLraLk~LPITlelLk~ 400 (1646)
.+||.-|++-+..--...+-..-++..||.+||+|+-+.. +| .-..++...|+.|-.++.++.+|+.
T Consensus 1256 ~~gr~~~~~~~~~~~~~~~~~~a~~~~gl~~l~~w~~~~~-~~------------~~~~l~~~~~~ll~~~~~d~~a~r~ 1322 (1713)
T PLN02976 1256 TAGRLHLAKELLNLPVETLKSFAGTKEGLATLNSWILDSM-GK------------DGTQLLRHCVRLLVLVSTDLLAVRL 1322 (1713)
T ss_pred cccHHHHHHHHHhCCHHHHHHHhcccchHHHHHHHHHHHh-cc------------cHHHHHHHHHHHHhhcchhHHHHHh
Confidence 5888666666544343344444477999999999998774 32 2357888889999999999999999
Q ss_pred cCCCcccc-cccCCCCHHHHHHHHHHHHHHHHHHHHHhccCCC
Q 000336 401 CNIGKSVN-HLRTHKNVEIQKKARSLVDTWKKRVEAEMDARPR 442 (1646)
Q Consensus 401 T~IGktVn-kLRKH~n~eI~kLAk~LVkkWKk~V~~e~~~kp~ 442 (1646)
..|||+|+ ++.-|.+.+|+.+|+.|+..|.+++..++....+
T Consensus 1323 sg~~~~~k~~~~~h~~~~~r~~a~~~~~~w~~~~~~~~~~~~~ 1365 (1713)
T PLN02976 1323 SGIGKTVKEKVCVHTSRDIRAIASQLVSVWLEVFRREKASNGG 1365 (1713)
T ss_pred ccchHHHHhhhhhcccHHHHHHHHHHHHHHHHHHHHhhhcccc
Confidence 99999996 5668999999999999999999999998864443
No 28
>KOG1793 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.12 E-value=0.012 Score=70.27 Aligned_cols=122 Identities=25% Similarity=0.383 Sum_probs=86.8
Q ss_pred hhHHHHHHhhccccccc-ccccccc------hhhhHHHHhccchhhHHHHHHHhchhhHHHHHHHHhhcccCCCCCCCCC
Q 000336 301 DGVEKLVQLMVPERNDK-KIDLVCR------SLLAGVVAATDKFDCLNWFVQLRGLLVFDEWLQEVHKGKIGDAGSPRDG 373 (1646)
Q Consensus 301 e~V~klV~LM~~~~~~k-k~~L~~R------~~l~~Vi~~T~~qd~L~~Fvq~~Gl~vL~eWLqE~~K~k~gd~~sp~~~ 373 (1646)
+.|..|+..|...-++. -.+.-++ -+|-.|..--.++.+...||-.+=|.+|.+||.=+- |++-|.
T Consensus 159 ~~v~~l~~~m~~aa~~D~~~N~e~kPA~~Klk~Lp~v~~vL~k~~L~et~LDngvL~~lk~WLePLP-----D~SLPa-- 231 (417)
T KOG1793|consen 159 DEVSRLMERMEDAAEKDRELNREGKPATQKLKLLPLVVAVLSKKALQETFLDNGVLDSLKEWLEPLP-----DGSLPA-- 231 (417)
T ss_pred HHHHHHHHHHHHHHHHHHhhccccCchHHHHhccHHHHHHHhhhhHHHHHHhhhHHHHHHHHhccCC-----CCCCcc--
Confidence 67888888887543221 0111111 122233333346788899999999999999994333 333342
Q ss_pred CCChHHHHHHHHHHhcCCCCcH-hhhhhcCCCcccccccCCC--CHHHHHHHHHHHHHHHHHH
Q 000336 374 DKSVEEFLLILLRALDKLPVNL-NALQMCNIGKSVNHLRTHK--NVEIQKKARSLVDTWKKRV 433 (1646)
Q Consensus 374 dks~ee~lLeLLraLk~LPITl-elLk~T~IGktVnkLRKH~--n~eI~kLAk~LVkkWKk~V 433 (1646)
-.-=..||..|..|||.. ++|++..||+.|=-|.||. ..+++.+|..||..|-.-|
T Consensus 232 ----l~Ir~~ll~iL~dlpi~~~E~Lk~SGlGkvVmflsks~ket~~nkrlA~kLI~eWsRpI 290 (417)
T KOG1793|consen 232 ----LNIRKSLLDILNDLPIDKREHLKESGLGKVVMFLSKSPKETKENKRLANKLINEWSRPI 290 (417)
T ss_pred ----hHHHHHHHHHHhcCCcchHHHHHhcCCCeEEEEEecCCccchHHHHHHHHHHHHhhccc
Confidence 233456888889999999 9999999999999999996 5689999999999997654
No 29
>KOG2821 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin A [Transcription]
Probab=94.74 E-value=0.0091 Score=72.34 Aligned_cols=58 Identities=31% Similarity=0.406 Sum_probs=53.2
Q ss_pred HHHHHHHHHHhcCCCCcHhhhhhcCCCcccccccCCCCHHHHHHHHHHHHHHHHHHHHHh
Q 000336 378 EEFLLILLRALDKLPVNLNALQMCNIGKSVNHLRTHKNVEIQKKARSLVDTWKKRVEAEM 437 (1646)
Q Consensus 378 ee~lLeLLraLk~LPITlelLk~T~IGktVnkLRKH~n~eI~kLAk~LVkkWKk~V~~e~ 437 (1646)
...++..|..|-++|+++++|.+|.+|++|+.||||. .|..+|..|+..||+.|...-
T Consensus 24 pkR~lk~I~~ls~lP~~~k~l~Et~~~k~l~~L~k~~--~~g~~~~Dl~~~WK~~v~~d~ 81 (433)
T KOG2821|consen 24 PKRLLKRIQKLSNLPHLFKHLLETGKGKTLNSLRKIS--HVGKLAFDLVALWKDLVLVDF 81 (433)
T ss_pred HHHHHHHHHHhccchHHHHHHHHhhhhHHHHHHHHhh--cccccccchHHHHHHhccccc
Confidence 5788999999999999999999999999999999998 689999999999999985433
No 30
>PF11467 LEDGF: Lens epithelium-derived growth factor (LEDGF) ; InterPro: IPR021567 LEDGF is a chromatin-associated protein that protects cells from stress-induced apoptosis. It is the binding partner of HIV-1 integrase in human cells. The integrase binding domain (IBD) of LEDGF is a compact right-handed bundle composed of five alpha-helices. The residues essential for the interaction with the integrase are present in the inter-helical loop regions of the bundle structure. ; PDB: 3F9K_K 3HPG_G 3U88_C 3HPH_H 2B4J_D 1Z9E_A.
Probab=91.57 E-value=0.15 Score=52.06 Aligned_cols=59 Identities=27% Similarity=0.218 Sum_probs=47.6
Q ss_pred ChHHHHHHHHHHhcCCCCcHhhhhh-cCCCcccccccCC-CCHHHHHHHHHHHHHHHHHHH
Q 000336 376 SVEEFLLILLRALDKLPVNLNALQM-CNIGKSVNHLRTH-KNVEIQKKARSLVDTWKKRVE 434 (1646)
Q Consensus 376 s~ee~lLeLLraLk~LPITlelLk~-T~IGktVnkLRKH-~n~eI~kLAk~LVkkWKk~V~ 434 (1646)
...+.+|++|..|..|+||-.+|+. +.+=.++.+||++ .|..|++.|..|+.+.|.++-
T Consensus 20 ~Dv~kcL~~LdeL~~l~vT~~mL~kn~e~V~TlkklRrY~gn~~Ir~KA~~lYnkfK~~f~ 80 (106)
T PF11467_consen 20 PDVKKCLKALDELKSLQVTSLMLQKNPECVETLKKLRRYKGNQQIRKKATELYNKFKSLFL 80 (106)
T ss_dssp E-HHHHHHHHHHHHTS---HHHHTTTHHHHHHHHHHTT-TT-HHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHhccCCCHHHHHhCHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhC
Confidence 4578999999999999999998866 4588889999998 489999999999999999995
No 31
>COG5139 Uncharacterized conserved protein [Function unknown]
Probab=87.45 E-value=0.6 Score=54.68 Aligned_cols=52 Identities=25% Similarity=0.528 Sum_probs=44.7
Q ss_pred HHHHHHhcCCCCcHhhhhhcCCCccccccc--CCCCHHHHHHHHHHHHHHHHHH
Q 000336 382 LILLRALDKLPVNLNALQMCNIGKSVNHLR--THKNVEIQKKARSLVDTWKKRV 433 (1646)
Q Consensus 382 LeLLraLk~LPITlelLk~T~IGktVnkLR--KH~n~eI~kLAk~LVkkWKk~V 433 (1646)
-.||-.|+.|||-.++|++.+||+.|==.. |....+|+.+|+.||..|-.-|
T Consensus 233 ksL~dvL~~lpI~tEHL~eSgvGrIV~FYtiskk~e~~v~r~A~~LV~eWtrpI 286 (397)
T COG5139 233 KSLLDVLKTLPIHTEHLVESGVGRIVYFYTISKKEEKEVRRSAKALVQEWTRPI 286 (397)
T ss_pred HHHHHHHhhCCchHHHhhhcCCceEEEEEecCCcccHHHHHHHHHHHHHhhccc
Confidence 456777888999999999999999997666 4567899999999999998766
No 32
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=76.88 E-value=2.5 Score=56.31 Aligned_cols=125 Identities=15% Similarity=0.169 Sum_probs=83.5
Q ss_pred CceEEEEECCEEEeeCCEEEEcCCCCC-----------------------CCeEEEEEEEeecC-CCcEEEEEEEEeccc
Q 000336 59 NSVTFFSQDGRKISVGDCALFKPPQDS-----------------------PPFIGIIRSLTAGK-ENKLTLSVNWLYRPA 114 (1646)
Q Consensus 59 k~YeSf~iDGeeyrVGDcVLVkpedd~-----------------------pPyIArI~sIwEd~-dGe~~VrVqWFYRPe 114 (1646)
..|+++++++++|.+||-|+|.-+.+. ..--|+|-.|++.. ...+.+.||.||-..
T Consensus 441 ~iye~~~in~~~ys~g~dv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~l~kg~is~fy~~~~~~~~~~e~c~y~d~~ 520 (1164)
T PTZ00112 441 VIYESIQINDVEYSIGDDVLIFCTGNGNTYNGKSGTKKNQNNKNIKENIYQLRKGKISSFYKNTNSNQVEAEVCIYYDQH 520 (1164)
T ss_pred eEEEEEEEcceeeccCCcEEEEEcCCCCccccccCccccccccchhhhhheecccccchhhhcCCCceeeEEEEEEEccc
Confidence 358999999999999999987644211 11268899998763 346899999999877
Q ss_pred ccc----CC-----c------ccccCCCCCeeEecC--CcCcCCccccccccEEEecCC-Cc---cCCCCCCeEEEEEEE
Q 000336 115 EVK----LG-----K------GFLLEAAPNEIFYSF--HKDEIPAASLLHPCKVAFLPK-GI---ELPSGIGSFVCRKVY 173 (1646)
Q Consensus 115 ET~----lg-----k------g~~~eaDPNELFLSd--h~D~nPLeSI~GKC~Vlsl~e-y~---elP~g~dvFfCRr~Y 173 (1646)
|-. +. + -.|++.+..+.||-. |+-.+.+.-|..|..|..... |. ....|.+-|+|-+..
T Consensus 521 d~~~i~~~~~~~~~rr~~~~f~~~~d~~~~~~~llgni~f~~~~~~~i~kki~~~ne~~~~~~d~~~~~g~~kflc~~~~ 600 (1164)
T PTZ00112 521 DAQYIKELEEKQKSRRCKADFEVFLDDDTKNFYLLGNIHFKILDAKMILKKIYVYNEKELYDEDKTAKQGKDKFLCTHYL 600 (1164)
T ss_pred cHHHHHHHHHHHHhhhhhhhhhHhcccccceeEEecceeEEEechHhhhhhheeecchhhcccchhhhcccchhhhhHhh
Confidence 742 11 1 113445567777765 445667778888888865443 22 223568999998766
Q ss_pred eCCCCEEEec
Q 000336 174 DITNKCLWWL 183 (1646)
Q Consensus 174 D~~tkkF~~L 183 (1646)
.....++..|
T Consensus 601 k~~~~~~~~~ 610 (1164)
T PTZ00112 601 KEREERICFI 610 (1164)
T ss_pred hcchhheeec
Confidence 6555554444
No 33
>COG5076 Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription]
Probab=76.48 E-value=0.37 Score=57.85 Aligned_cols=94 Identities=15% Similarity=0.075 Sum_probs=76.7
Q ss_pred EEEEECCEEEeeCCEEEEcCC-CCCCCeEEEEEEEeecCCCcEEEEEEEEeccccccC-CcccccCCCCCeeEecCCcCc
Q 000336 62 TFFSQDGRKISVGDCALFKPP-QDSPPFIGIIRSLTAGKENKLTLSVNWLYRPAEVKL-GKGFLLEAAPNEIFYSFHKDE 139 (1646)
Q Consensus 62 eSf~iDGeeyrVGDcVLVkpe-dd~pPyIArI~sIwEd~dGe~~VrVqWFYRPeET~l-gkg~~~eaDPNELFLSdh~D~ 139 (1646)
..+.+.+....+|+++++.+. +...|.++.+..+|.+.+...+.-++|||||.++.. -...+.. +++.+....+.
T Consensus 268 ~~~~i~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~ 344 (371)
T COG5076 268 ESVLITNSQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTKELKLRNNYYRPEETFVRDAKLFFD---NCVMYNGEVTD 344 (371)
T ss_pred hhhcccccccccccccccccCCcccccchhhhhhcccccccchhhhhcccCCCccccccccchhhh---cccccchhhhh
Confidence 566778889999999999986 457888999999999888878889999999997654 3333444 88999999999
Q ss_pred CCccccccccEEEecCCCc
Q 000336 140 IPAASLLHPCKVAFLPKGI 158 (1646)
Q Consensus 140 nPLeSI~GKC~Vlsl~ey~ 158 (1646)
+.+..+.+.|.|....++.
T Consensus 345 ~~~~~~~~~~~~~~~~~~~ 363 (371)
T COG5076 345 YYKNANVLEDFVIKKTRLI 363 (371)
T ss_pred hhhhccchhhhHhhhhhhh
Confidence 9999999999997665443
No 34
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.94 E-value=4.2e+02 Score=36.46 Aligned_cols=26 Identities=19% Similarity=0.258 Sum_probs=14.1
Q ss_pred CCcCCCCcccccccccCCCCCCCCCC
Q 000336 1370 GGLLNGEVNVRRDFDLNDGPVLDDCS 1395 (1646)
Q Consensus 1370 ~~~ss~~~~~~RdFDLNdgP~~d~~~ 1395 (1646)
+++|+.--.++-|--+|--|.+....
T Consensus 21 ~g~~~~~a~~~~~~~~~p~p~~~~~~ 46 (1007)
T KOG1984|consen 21 GGSSNSLAQAMPNGSINPPPPMQGTG 46 (1007)
T ss_pred CCCCchhhhhccCCccCCCCCCCCCC
Confidence 44455544556666677545554444
No 35
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=47.78 E-value=22 Score=32.80 Aligned_cols=41 Identities=10% Similarity=0.127 Sum_probs=25.4
Q ss_pred EeeCCEEEEcCCCCCCCeEEEEEEEeecCCCcEEEEEEEEeccc
Q 000336 71 ISVGDCALFKPPQDSPPFIGIIRSLTAGKENKLTLSVNWLYRPA 114 (1646)
Q Consensus 71 yrVGDcVLVkpedd~pPyIArI~sIwEd~dGe~~VrVqWFYRPe 114 (1646)
|++||.|.++++.+ .--|..|..- ......++.++||---.
T Consensus 1 f~~GDvV~LKSGGp-~MTV~~v~~~--~~~~~~~v~C~WFd~~~ 41 (53)
T PF09926_consen 1 FKIGDVVQLKSGGP-RMTVTEVGPN--AGASGGWVECQWFDGHG 41 (53)
T ss_pred CCCCCEEEEccCCC-CeEEEEcccc--ccCCCCeEEEEeCCCCC
Confidence 58999999998752 1123333322 12234689999997443
No 36
>cd05834 HDGF_related The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2, HPR3, HPR4, respectively) and lens epithelium-derived growth factor, LEDGF. Members of the HDGF family have been linked to human diseases, and HDGF is a prognostic factor in several types of cancer. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=41.24 E-value=34 Score=33.72 Aligned_cols=44 Identities=14% Similarity=0.123 Sum_probs=34.4
Q ss_pred EEeeCCEEEEcCCCCCCCeEEEEEEEeecCCCcEEEEEEEEeccc
Q 000336 70 KISVGDCALFKPPQDSPPFIGIIRSLTAGKENKLTLSVNWLYRPA 114 (1646)
Q Consensus 70 eyrVGDcVLVkpedd~pPyIArI~sIwEd~dGe~~VrVqWFYRPe 114 (1646)
.|.+||.|+-+-. .-++|-|+|++.-+.......+.|+||-..+
T Consensus 2 ~f~~GdlVwaK~k-Gyp~WPa~I~~~~~~~~~~~~~~V~FfGt~~ 45 (83)
T cd05834 2 QFKAGDLVFAKVK-GYPAWPARVDEPEDWKPPGKKYPVYFFGTHE 45 (83)
T ss_pred CCCCCCEEEEecC-CCCCCCEEEecccccCCCCCEEEEEEeCCCC
Confidence 4789999999973 4689999999987643345689999998643
No 37
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=34.70 E-value=3.6e+02 Score=38.19 Aligned_cols=13 Identities=23% Similarity=0.107 Sum_probs=7.1
Q ss_pred ccccccccccccc
Q 000336 1111 VSTALRAQETGQL 1123 (1646)
Q Consensus 1111 ~~p~~~~~e~~~~ 1123 (1646)
-+|-++..|.+..
T Consensus 1175 ispwlLrlelDr~ 1187 (1605)
T KOG0260|consen 1175 ISPWLLRLELDRA 1187 (1605)
T ss_pred cChHHHHhhhhhh
Confidence 3466666665554
No 38
>KOG2133 consensus Transcriptional corepressor Atrophin-1/DRPLA [General function prediction only]
Probab=34.09 E-value=25 Score=47.20 Aligned_cols=116 Identities=13% Similarity=0.076 Sum_probs=80.1
Q ss_pred EECCEEEeeCCEEEEcCCCCCCCeEEEEEEEeecCC-CcEEEEEEEEeccccccC-C---ccccc------------CCC
Q 000336 65 SQDGRKISVGDCALFKPPQDSPPFIGIIRSLTAGKE-NKLTLSVNWLYRPAEVKL-G---KGFLL------------EAA 127 (1646)
Q Consensus 65 ~iDGeeyrVGDcVLVkpedd~pPyIArI~sIwEd~d-Ge~~VrVqWFYRPeET~l-g---kg~~~------------eaD 127 (1646)
..++..|.++|-+.++.....++.|+.|+.+...++ ..+.++.-.|.|.+||.. + .+... ...
T Consensus 140 s~~e~~y~~~~~l~~~v~~~~p~lia~~~~~~~~Kr~~~~~~k~s~~~r~~d~Pet~y~~~m~pe~Ar~e~~P~~~pq~~ 219 (1229)
T KOG2133|consen 140 SHDETLYDLRDSLFVEVSQPEPYLIAAICGFKYTKRDDRQVVKLSFYFRADDIPETGYLNLMKPERARLEINPHLCPQPL 219 (1229)
T ss_pred cccchhhhhhhhhhhhhccCCccccccccCccccccccccccccccccccccCcccccccccCchhhhhccCCccCCCcc
Confidence 456778999999999887665555888887765553 467778888999999872 1 11100 124
Q ss_pred CCeeEecCCc-CcCCccccccccEEEecCCCc----c---CCCCCCeEEEEEEEeCCCCEE
Q 000336 128 PNEIFYSFHK-DEIPAASLLHPCKVAFLPKGI----E---LPSGIGSFVCRKVYDITNKCL 180 (1646)
Q Consensus 128 PNELFLSdh~-D~nPLeSI~GKC~Vlsl~ey~----e---lP~g~dvFfCRr~YD~~tkkF 180 (1646)
.+|||.+... -.-|..|..|||.+.+..+.. . +..+.++||...+|.+-.++.
T Consensus 220 sq~l~~s~l~~i~qppscp~gk~~~~~skd~~h~~~~n~p~~ld~~i~fk~agglpps~k~ 280 (1229)
T KOG2133|consen 220 SQELFNSELQGITQPPSCPRGKGIAEYSKDVRHGGNTNAPFSLDNDIFFKCAGGLPPSTKP 280 (1229)
T ss_pred hhhhhcccccCCCCCCcCCCCCceEEeecccccCCccCCCCcccceeeeecccCCCCCCCC
Confidence 6788888776 457899999999998443221 1 113468888889998877654
No 39
>COG4014 Uncharacterized protein conserved in archaea [Function unknown]
Probab=32.01 E-value=82 Score=32.19 Aligned_cols=40 Identities=15% Similarity=0.351 Sum_probs=30.2
Q ss_pred eeCCEE-EEcCCCCCCCeEEEEEEEeecCCCcEEEEEE---EEeccccc
Q 000336 72 SVGDCA-LFKPPQDSPPFIGIIRSLTAGKENKLTLSVN---WLYRPAEV 116 (1646)
Q Consensus 72 rVGDcV-LVkpedd~pPyIArI~sIwEd~dGe~~VrVq---WFYRPeET 116 (1646)
.|||.| |+..+ -+++|.+|.++.+|..||.+- -+||+.=+
T Consensus 10 ~VG~avrYvnTg-----TvgrV~dIkkdEdG~~WV~LdstdLwYre~~l 53 (97)
T COG4014 10 KVGDAVRYVNTG-----TVGRVVDIKKDEDGDIWVVLDSTDLWYREHYL 53 (97)
T ss_pred hhcceEEEeecC-----ceeeEEEEEeecCCceEEEEecCCceecccce
Confidence 489988 77764 399999999999999998874 25555533
No 40
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=31.76 E-value=59 Score=32.32 Aligned_cols=39 Identities=21% Similarity=0.226 Sum_probs=31.3
Q ss_pred EeeCCEEEEcCCCCCCCeEEEEEEEeecCCCcEEEEEEEEecc
Q 000336 71 ISVGDCALFKPPQDSPPFIGIIRSLTAGKENKLTLSVNWLYRP 113 (1646)
Q Consensus 71 yrVGDcVLVkpedd~pPyIArI~sIwEd~dGe~~VrVqWFYRP 113 (1646)
|++||.|.-+-. .-++|.|+|.++... ..+++|.||=-.
T Consensus 1 f~~gdlVWaK~~-g~P~WPa~I~~~~~~---~~k~~V~FfG~~ 39 (80)
T cd06080 1 FEKNDLVWAKIQ-GYPWWPAVIKSISRK---KQKARVNFIGDN 39 (80)
T ss_pred CCCCCEEEEeCC-CCCCCCEEEeeecCC---CCEEEEEEeCCC
Confidence 578999998863 468899999998653 568999999766
No 41
>PF09871 DUF2098: Uncharacterized protein conserved in archaea (DUF2098); InterPro: IPR019209 This family of proteins have no known function.
Probab=29.89 E-value=76 Score=32.38 Aligned_cols=42 Identities=17% Similarity=0.396 Sum_probs=31.5
Q ss_pred EEeeCCEE-EEcCCCCCCCeEEEEEEEeecCCCcEEEEE---EEEecccccc
Q 000336 70 KISVGDCA-LFKPPQDSPPFIGIIRSLTAGKENKLTLSV---NWLYRPAEVK 117 (1646)
Q Consensus 70 eyrVGDcV-LVkpedd~pPyIArI~sIwEd~dGe~~VrV---qWFYRPeET~ 117 (1646)
.|.||++| |+..+. +|+|.+|-. .++..|+.+ .=|||+.-+.
T Consensus 2 ~I~vGs~VRY~~TGT-----~G~V~diK~-ed~~~wv~LD~t~L~Yr~~~Le 47 (91)
T PF09871_consen 2 PIKVGSYVRYINTGT-----VGKVVDIKE-EDGETWVLLDSTDLYYRPDYLE 47 (91)
T ss_pred cceeCCEEEECCCCe-----EEEEEEEEE-eCCCeEEEEccCCceeecceeE
Confidence 57899999 777643 999999954 466788887 5667777653
No 42
>cd05835 Dnmt3b_related The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in the inactivation of tumor suppressor genes. In addition, a point mutation in the PWWP domain of Dnmt3b has been identified in patients with ICF syndrome (immunodeficiency, centromeric instability, and facial anomalies), a rare autosomal recessive disorder characterized by hypomethylation of classical satellite DNA. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=29.89 E-value=55 Score=32.43 Aligned_cols=41 Identities=24% Similarity=0.190 Sum_probs=31.0
Q ss_pred EeeCCEEEEcCCCCCCCeEEEEEEEeecC---CCcEEEEEEEEec
Q 000336 71 ISVGDCALFKPPQDSPPFIGIIRSLTAGK---ENKLTLSVNWLYR 112 (1646)
Q Consensus 71 yrVGDcVLVkpedd~pPyIArI~sIwEd~---dGe~~VrVqWFYR 112 (1646)
|.+||.|..+-. .-+.|-|+|.+..... ....++.|+||-.
T Consensus 1 f~vGDlVWaK~k-g~pwWP~~V~~~~~~~~~~~~~~~~~V~fFGs 44 (87)
T cd05835 1 FNVGDLVWGKIK-GFPWWPGRVVSITVTSKRPPVVGMRWVTWFGS 44 (87)
T ss_pred CCCCCEEEEecC-CCCCCCeEEechhhcccccCCCCeEEEEEeCC
Confidence 578999999864 4678999999986542 1235799999973
No 43
>PF10383 Clr2: Transcription-silencing protein Clr2 ; InterPro: IPR018839 Clr2 (cryptic loci regulator) is a chromatin silencing protein, one of a quartet of proteins forming the core of SHREC, a multienzyme effector complex that mediates hetero-chromatic transcriptional gene silencing in fission yeast []. Clr2 does not have any obvious well-conserved domains but, along with the other core proteins, binds to the histone deacetylase Clr3, and on its own might also have a role in chromatin organisation at the cnt domain, the site of kinetochore assembly.
Probab=29.87 E-value=1.7e+02 Score=31.50 Aligned_cols=39 Identities=18% Similarity=0.118 Sum_probs=30.2
Q ss_pred ceEEEEECCEEEeeCCEEEEcCCC-----------CCCCeEEEEEEEeec
Q 000336 60 SVTFFSQDGRKISVGDCALFKPPQ-----------DSPPFIGIIRSLTAG 98 (1646)
Q Consensus 60 ~YeSf~iDGeeyrVGDcVLVkped-----------d~pPyIArI~sIwEd 98 (1646)
||..+.++-+.+.|||+|-|++.. ....-|-.|.+|...
T Consensus 2 ~y~GiflGAE~I~vGD~VRl~~~~~~~~~~~~~~~~~~tdvMvI~~I~~~ 51 (139)
T PF10383_consen 2 YYRGIFLGAEMIWVGDAVRLKPLNASPSPNQSDGNPDVTDVMVIDEIQLR 51 (139)
T ss_pred eECeEEEeeEEEEeCCEEEECccCCCcccccccCCCCceeEEEEeEEEEe
Confidence 899999999999999999996532 223457778777654
No 44
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. The function of the PWWP domain is still not known precisely; however, based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.
Probab=25.82 E-value=77 Score=30.79 Aligned_cols=40 Identities=13% Similarity=0.084 Sum_probs=30.2
Q ss_pred EeeCCEEEEcCCCCCCCeEEEEEEEeecC------CCcEEEEEEEEe
Q 000336 71 ISVGDCALFKPPQDSPPFIGIIRSLTAGK------ENKLTLSVNWLY 111 (1646)
Q Consensus 71 yrVGDcVLVkpedd~pPyIArI~sIwEd~------dGe~~VrVqWFY 111 (1646)
|++||.|..+-. .-+.|-|+|+...... .....+.|+||-
T Consensus 1 f~~GdlVwaK~~-g~pwWPa~V~~~~~~~~~~~~~~~~~~~~V~Ffg 46 (87)
T cd05162 1 FRPGDLVWAKMK-GYPWWPALVVDPPKDSKKAKKKAKEGKVLVLFFG 46 (87)
T ss_pred CCCCCEEEEeCC-CCCCCCEEEccccccchhhhccCCCCEEEEEEeC
Confidence 579999999975 3578899999987642 223578888886
No 45
>PHA02763 hypothetical protein; Provisional
Probab=25.19 E-value=59 Score=33.00 Aligned_cols=44 Identities=23% Similarity=0.422 Sum_probs=31.6
Q ss_pred cccccchhhhHHHHh-ccchhhHHHHHHHhchhhHHHHHHHHhhc
Q 000336 319 IDLVCRSLLAGVVAA-TDKFDCLNWFVQLRGLLVFDEWLQEVHKG 362 (1646)
Q Consensus 319 ~~L~~R~~l~~Vi~~-T~~qd~L~~Fvq~~Gl~vL~eWLqE~~K~ 362 (1646)
+.+-.|.-..-||+- -=..+||+++|+..|..-..+||.|+..-
T Consensus 36 l~v~dr~f~gKvIa~ap~t~~~LsKYv~~SGFe~VEeWl~eArrL 80 (102)
T PHA02763 36 LKVGDKRFPGKVIAKAPVTEYCLSKYVKFSGFENVEEWLNEARRL 80 (102)
T ss_pred EEecCccccceEEEecCchHHHHHHHhhhcchhhHHHHHHHHHHH
Confidence 344445444444442 22468999999999999999999988765
No 46
>PF14726 RTTN_N: Rotatin, an armadillo repeat protein, centriole functioning
Probab=21.48 E-value=81 Score=32.41 Aligned_cols=52 Identities=23% Similarity=0.277 Sum_probs=43.9
Q ss_pred ChHHHHHHHHHHhcCCCCcHhhhhhcCCCcccccccCCCCHHHHHHHHHHHH
Q 000336 376 SVEEFLLILLRALDKLPVNLNALQMCNIGKSVNHLRTHKNVEIQKKARSLVD 427 (1646)
Q Consensus 376 s~ee~lLeLLraLk~LPITlelLk~T~IGktVnkLRKH~n~eI~kLAk~LVk 427 (1646)
+..+.+|+||..|-+.|-...+|+.-..=...++||++-++..+...-.|++
T Consensus 45 ~~~~~VL~Ll~~L~~~~~a~~~l~~iG~~~fL~klr~~~~~~~~~~id~il~ 96 (98)
T PF14726_consen 45 PMKEEVLALLLRLLKSPYAAQILRDIGAVRFLSKLRPNVEPNLQAEIDEILD 96 (98)
T ss_pred ccHHHHHHHHHHHHhCcHHHHHHHHccHHHHHHHHHhcCCHHHHHHHHHHHh
Confidence 3578999999999999999999998887777999999888777776666654
No 47
>PF06371 Drf_GBD: Diaphanous GTPase-binding Domain; InterPro: IPR010473 Diaphanous-related formins (Drfs) are a family of formin homology (FH) proteins that act as effectors of Rho small GTPases during growth factor-induced cytoskeletal remodelling, stress fibre formation, and cell division []. Drf proteins are characterised by a variety of shared domains: an N-terminal GTPase-binding domain (GBD), formin-homology domains FH1, FH2 (IPR003104 from INTERPRO) and FH3 (IPR010472 from INTERPRO), and a C-terminal conserved Dia-autoregulatory domain (DAD) that binds the GBD. This entry represents the GBD, which is a bifunctional autoinhibitory domain that interacts with and is regulated by activated Rho family members. Mammalian Drf3 contains a CRIB-like motif within its GBD for binding to Cdc42, which is required for Cdc42 to activate and guide Drf3 towards the cell cortex where it remodels the actin skeleton [].; GO: 0003779 actin binding, 0017048 Rho GTPase binding, 0030036 actin cytoskeleton organization; PDB: 3OBV_A 2BNX_A 3EG5_D 2BAP_B 3O4X_B 1Z2C_B 2F31_A.
Probab=20.64 E-value=1.7e+02 Score=31.44 Aligned_cols=93 Identities=23% Similarity=0.227 Sum_probs=51.4
Q ss_pred hHHHHhccchhhHHHHHHHhchhhHHHHHHHHhhcccCCCCCCCCCCCChHHHHHHHHHHhcCCCCcHhhhhhcC--CCc
Q 000336 328 AGVVAATDKFDCLNWFVQLRGLLVFDEWLQEVHKGKIGDAGSPRDGDKSVEEFLLILLRALDKLPVNLNALQMCN--IGK 405 (1646)
Q Consensus 328 ~~Vi~~T~~qd~L~~Fvq~~Gl~vL~eWLqE~~K~k~gd~~sp~~~dks~ee~lLeLLraLk~LPITlelLk~T~--IGk 405 (1646)
+.|...|..-+=+..|+..+|+.+|-++|....+..... +.+...+-.++..||+|-+...-++.+-.+. +..
T Consensus 88 L~v~Lrt~~~~Wv~~Fl~~~G~~~L~~~L~~~~~~~~~~-----~~~~~~~~~~l~Clkal~n~~~G~~~v~~~~~~v~~ 162 (187)
T PF06371_consen 88 LRVSLRTNPISWVQEFLELGGLEALLNVLSKLNKKKEKS-----EEDIDIEHECLRCLKALMNTKYGLEAVLSHPDSVNL 162 (187)
T ss_dssp HHHHHHHS-HHHHHHH-HHHHHHHHHHHHHHHHTHHCTC-----TTCHHHHHHHHHHHHHHTSSHHHHHHHHCSSSHHHH
T ss_pred HHHHhccCCchHHHHhccCCCHHHHHHHHHHhhhhhhhc-----chhHHHHHHHHHHHHHHHccHHHHHHHHcCcHHHHH
Confidence 445556777788999999999999999998888764222 1121223345555555555444444333322 222
Q ss_pred ccccccCCCCHHHHHHHHHHH
Q 000336 406 SVNHLRTHKNVEIQKKARSLV 426 (1646)
Q Consensus 406 tVnkLRKH~n~eI~kLAk~LV 426 (1646)
.+.-|- ..+..++.+|-.|.
T Consensus 163 i~~~L~-s~~~~~r~~~leiL 182 (187)
T PF06371_consen 163 IALSLD-SPNIKTRKLALEIL 182 (187)
T ss_dssp HHHT---TTSHHHHHHHHHHH
T ss_pred HHHHHC-CCCHHHHHHHHHHH
Confidence 222222 24566777766654
No 48
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=20.61 E-value=1.6e+02 Score=26.87 Aligned_cols=37 Identities=19% Similarity=0.249 Sum_probs=26.1
Q ss_pred EeeCCEEEEcCCCCCCCeEEEEEEEeecCCCcEEEEEEE
Q 000336 71 ISVGDCALFKPPQDSPPFIGIIRSLTAGKENKLTLSVNW 109 (1646)
Q Consensus 71 yrVGDcVLVkpedd~pPyIArI~sIwEd~dGe~~VrVqW 109 (1646)
|.||+.|++.- .....|-|+|.++... .+.....|++
T Consensus 1 ~~vG~~v~~~~-~~~~~y~A~I~~~r~~-~~~~~YyVHY 37 (55)
T PF11717_consen 1 FEVGEKVLCKY-KDGQWYEAKILDIREK-NGEPEYYVHY 37 (55)
T ss_dssp --TTEEEEEEE-TTTEEEEEEEEEEEEC-TTCEEEEEEE
T ss_pred CCcCCEEEEEE-CCCcEEEEEEEEEEec-CCCEEEEEEc
Confidence 57899999986 3467899999999884 4445555554
No 49
>cd05840 SPBC215_ISWI_like The PWWP domain is a component of the S. pombe hypothetical protein SPBC215, as well as ISWI complex protein 4. The ISWI (imitation switch) proteins are ATPases responsible for chromatin remodeling in eukaryotes, and SPBC215 is proposed to also bind chromatin. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=20.34 E-value=87 Score=31.64 Aligned_cols=40 Identities=28% Similarity=0.291 Sum_probs=28.9
Q ss_pred EeeCCEEEEcCCCCCCCeEEEEEEEe---------ecCCCcEEEEEEEEe
Q 000336 71 ISVGDCALFKPPQDSPPFIGIIRSLT---------AGKENKLTLSVNWLY 111 (1646)
Q Consensus 71 yrVGDcVLVkpedd~pPyIArI~sIw---------Ed~dGe~~VrVqWFY 111 (1646)
|++||.|+.+-. .-++|-|+|+.-. ........+.|+||-
T Consensus 1 f~~GDlVwaK~~-GyPwWPA~V~~~~~~p~~~l~~~~~~~~~~~~V~FFg 49 (93)
T cd05840 1 FQPGDRVLAKVK-GFPAWPAIVVPEEMLPDSVLKGKKKKNKRTYPVMFFP 49 (93)
T ss_pred CCCCCEEEEeCC-CCCCCCEEECChHHCCHHHHhcccCCCCCeEEEEEeC
Confidence 578999999975 4688999998621 112334678888884
Done!