Query 032564
Match_columns 138
No_of_seqs 108 out of 123
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 03:05:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032564.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032564hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04690 YABBY: YABBY protein; 100.0 1.2E-37 2.6E-42 245.6 9.5 66 46-111 104-170 (170)
2 PF09011 HMG_box_2: HMG-box do 98.6 7.9E-08 1.7E-12 64.1 5.2 46 60-105 1-47 (73)
3 cd01390 HMGB-UBF_HMG-box HMGB- 98.3 1.5E-06 3.2E-11 55.0 5.5 44 63-106 1-44 (66)
4 cd00084 HMG-box High Mobility 98.2 3.4E-06 7.3E-11 52.7 5.5 44 63-106 1-44 (66)
5 PF00505 HMG_box: HMG (high mo 98.2 2.3E-06 5E-11 54.7 4.9 43 63-105 1-43 (69)
6 smart00398 HMG high mobility g 98.2 3.8E-06 8.3E-11 53.0 5.4 45 62-106 1-45 (70)
7 cd01388 SOX-TCF_HMG-box SOX-TC 98.2 3.6E-06 7.9E-11 55.9 5.5 43 64-106 3-45 (72)
8 cd01389 MATA_HMG-box MATA_HMG- 98.2 3.5E-06 7.6E-11 56.5 5.4 45 62-106 1-45 (77)
9 PTZ00199 high mobility group p 98.2 5E-06 1.1E-10 58.8 5.9 50 57-106 17-68 (94)
10 KOG0381 HMG box-containing pro 97.4 0.00047 1E-08 47.1 5.6 46 61-106 21-66 (96)
11 PF06244 DUF1014: Protein of u 97.0 0.00093 2E-08 51.0 3.9 53 55-109 67-119 (122)
12 KOG3223 Uncharacterized conser 93.5 0.099 2.2E-06 43.9 3.9 52 57-110 161-212 (221)
13 COG5648 NHP6B Chromatin-associ 83.0 3 6.5E-05 35.0 5.3 47 58-104 66-112 (211)
14 PF08073 CHDNT: CHDNT (NUC034) 76.2 5.4 0.00012 27.2 3.9 37 69-105 15-51 (55)
15 KOG0526 Nucleosome-binding fac 51.8 22 0.00049 34.0 4.3 44 59-104 532-575 (615)
16 PF06382 DUF1074: Protein of u 43.8 35 0.00075 28.3 3.8 35 68-106 84-118 (183)
17 PF05047 L51_S25_CI-B8: Mitoch 42.6 23 0.00049 22.0 2.0 18 71-88 2-19 (52)
18 KOG4715 SWI/SNF-related matrix 35.1 57 0.0012 29.8 4.0 48 56-106 61-108 (410)
19 PF05164 ZapA: Cell division p 34.8 62 0.0014 21.4 3.3 32 72-103 28-59 (89)
20 PF04769 MAT_Alpha1: Mating-ty 32.8 1.3E+02 0.0028 24.7 5.4 49 56-108 37-85 (201)
21 PF12876 Cellulase-like: Sugar 30.0 82 0.0018 21.4 3.4 31 59-89 29-59 (88)
22 PF10963 DUF2765: Protein of u 27.0 94 0.002 22.5 3.4 21 75-99 48-68 (83)
23 KOG0527 HMG-box transcription 26.6 1.3E+02 0.0029 26.4 4.8 48 56-103 56-103 (331)
24 TIGR02147 Fsuc_second hypothet 26.6 68 0.0015 27.1 2.9 25 68-92 8-32 (271)
25 PF14722 KRAP_IP3R_bind: Ki-ra 25.9 83 0.0018 25.6 3.2 27 70-96 71-97 (160)
26 PF04420 CHD5: CHD5-like prote 23.9 47 0.001 25.7 1.4 36 65-100 36-71 (161)
27 PRK14126 cell division protein 22.3 1.9E+02 0.0041 20.4 4.1 32 72-103 34-65 (85)
28 PF10159 MMtag: Kinase phospho 22.0 88 0.0019 22.7 2.4 13 73-85 57-69 (78)
29 PF08785 Ku_PK_bind: Ku C term 20.6 59 0.0013 23.8 1.3 36 66-112 62-97 (120)
No 1
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=100.00 E-value=1.2e-37 Score=245.63 Aligned_cols=66 Identities=76% Similarity=1.227 Sum_probs=60.3
Q ss_pred CCCCccccc-ccCCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCccccc
Q 032564 46 PTNKATEER-VVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGL 111 (138)
Q Consensus 46 ~~~~~~~~~-~~~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~~~~g~ 111 (138)
..+.+.++. .++||||||||+|||||+|||+||+|||++||+|+|||||++||+||||+|||||||
T Consensus 104 ~~~~~~pr~~~v~kPPEKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAknW~h~phihfgl 170 (170)
T PF04690_consen 104 SEEEEIPRAPPVNKPPEKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKNWAHFPHIHFGL 170 (170)
T ss_pred cccccccccccccCCccccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhCcccccCC
Confidence 344556654 569999999999999999999999999999999999999999999999999999997
No 2
>PF09011 HMG_box_2: HMG-box domain; InterPro: IPR015101 This domain is predominantly found in Maelstrom homologue proteins. It has no known function. ; GO: 0005634 nucleus; PDB: 2EQZ_A 1V64_A 2CTO_A 1H5P_A 3TQ6_A 3FGH_A 3TMM_A 1J3X_A 2YRQ_A 1AAB_A ....
Probab=98.62 E-value=7.9e-08 Score=64.07 Aligned_cols=46 Identities=35% Similarity=0.634 Sum_probs=39.0
Q ss_pred CCCCCCCCchHHHHHHHHHHHHHhh-CCCCCHHHHHHHHHHhhccCC
Q 032564 60 PEKRQRVPSAYNQFIKEEIQRIKAN-NPDISHREAFSTAAKNWAHFP 105 (138)
Q Consensus 60 peK~~R~PSAYN~FmKeEIqRiKa~-nP~isHKEaFs~AAkNWa~~P 105 (138)
|.|++|.+|||+.||++.+..++.. .+.+++.|++..++..|+..+
T Consensus 1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~Ls 47 (73)
T PF09011_consen 1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSLS 47 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS-
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhcC
Confidence 6788999999999999999999999 889999999999999999854
No 3
>cd01390 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.
Probab=98.34 E-value=1.5e-06 Score=55.03 Aligned_cols=44 Identities=30% Similarity=0.471 Sum_probs=40.9
Q ss_pred CCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564 63 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 106 (138)
Q Consensus 63 ~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~ 106 (138)
++|.+|+|..||++....+++.+|+++..|+...++..|+..+.
T Consensus 1 Pkrp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~ls~ 44 (66)
T cd01390 1 PKRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKELSE 44 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCH
Confidence 46889999999999999999999999999999999999998653
No 4
>cd00084 HMG-box High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4; and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III member
Probab=98.24 E-value=3.4e-06 Score=52.74 Aligned_cols=44 Identities=30% Similarity=0.416 Sum_probs=40.9
Q ss_pred CCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564 63 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 106 (138)
Q Consensus 63 ~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~ 106 (138)
++|.+|+|..|++++...++..+|+++..|+.+.+++.|+..+.
T Consensus 1 pkrp~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~~W~~l~~ 44 (66)
T cd00084 1 PKRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKSLSE 44 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCH
Confidence 46789999999999999999999999999999999999998654
No 5
>PF00505 HMG_box: HMG (high mobility group) box; InterPro: IPR000910 High mobility group (HMG or HMGB) proteins are a family of relatively low molecular weight non-histone components in chromatin. HMG1 (also called HMG-T in fish) and HMG2 are two highly related proteins that bind single-stranded DNA preferentially and unwind double-stranded DNA. Although they have no sequence specificity, they have a high affinity for bent or distorted DNA, and bend linear DNA. HMG1 and HMG2 contain two DNA-binding HMG-box domains (A and B) that show structural and functional differences, and have a long acidic C-terminal domain rich in aspartic and glutamic acid residues. The acidic tail modulates the affinity of the tandem HMG boxes in HMG1 and 2 for a variety of DNA targets. HMG1 and 2 appear to play important architectural roles in the assembly of nucleoprotein complexes in a variety of biological processes, for example V(D)J recombination, the initiation of transcription, and DNA repair []. The profile in this entry describing the HMG-domains is much more general than the signature. In addition to the HMG1 and HMG2 proteins, HMG-domains occur in single or multiple copies in the following protein classes; the SOX family of transcription factors; SRY sex determining region Y protein and related proteins []; LEF1 lymphoid enhancer binding factor 1 []; SSRP recombination signal recognition protein; MTF1 mitochondrial transcription factor 1; UBF1/2 nucleolar transcription factors; Abf2 yeast ARS-binding factor []; and Saccharomyces cerevisiae transcription factors Ixr1, Rox1, Nhp6a, Nhp6b and Spp41.; GO: 0003677 DNA binding; PDB: 1I11_A 1J3C_A 1J3D_A 1WZ6_A 1WGF_A 2D7L_A 1GT0_D 3U2B_C 2CRJ_A 2CS1_A ....
Probab=98.24 E-value=2.3e-06 Score=54.75 Aligned_cols=43 Identities=33% Similarity=0.613 Sum_probs=38.5
Q ss_pred CCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032564 63 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP 105 (138)
Q Consensus 63 ~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P 105 (138)
++|.+|+|..|+++....|+++||+++..|+-+.++..|+..+
T Consensus 1 PkrP~~af~lf~~~~~~~~k~~~p~~~~~~i~~~~~~~W~~l~ 43 (69)
T PF00505_consen 1 PKRPPNAFMLFCKEKRAKLKEENPDLSNKEISKILAQMWKNLS 43 (69)
T ss_dssp SSSS--HHHHHHHHHHHHHHHHSTTSTHHHHHHHHHHHHHCSH
T ss_pred CcCCCCHHHHHHHHHHHHHHHHhcccccccchhhHHHHHhcCC
Confidence 4789999999999999999999999999999999999999854
No 6
>smart00398 HMG high mobility group.
Probab=98.21 E-value=3.8e-06 Score=53.03 Aligned_cols=45 Identities=33% Similarity=0.515 Sum_probs=41.8
Q ss_pred CCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564 62 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 106 (138)
Q Consensus 62 K~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~ 106 (138)
+++|.+|+|..|+++....+++.+|+++..|..+.++..|+..+.
T Consensus 1 ~pkrp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~~ 45 (70)
T smart00398 1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSE 45 (70)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCCH
Confidence 467899999999999999999999999999999999999998654
No 7
>cd01388 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and transcription factor-like proteins, TCF-1, -3, -4, and LEF-1. They appear to bind the minor groove of the A/T C A A A G/C-motif.
Probab=98.21 E-value=3.6e-06 Score=55.92 Aligned_cols=43 Identities=16% Similarity=0.297 Sum_probs=40.4
Q ss_pred CCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564 64 QRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 106 (138)
Q Consensus 64 ~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~ 106 (138)
+|.||||..|+++....|+++||+++..|.-+.++..|+..+.
T Consensus 3 KrP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~ls~ 45 (72)
T cd01388 3 KRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKALSN 45 (72)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCH
Confidence 6889999999999999999999999999999999999998653
No 8
>cd01389 MATA_HMG-box MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include the fungal mating type gene products MC, MATA1 and Ste11.
Probab=98.21 E-value=3.5e-06 Score=56.47 Aligned_cols=45 Identities=18% Similarity=0.348 Sum_probs=42.0
Q ss_pred CCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564 62 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 106 (138)
Q Consensus 62 K~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~ 106 (138)
+.+|-++||-.|+++....|+++||++++.|.-+.++..|+..+.
T Consensus 1 ~~kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~ls~ 45 (77)
T cd01389 1 KIPRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSESP 45 (77)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCH
Confidence 457899999999999999999999999999999999999998654
No 9
>PTZ00199 high mobility group protein; Provisional
Probab=98.18 E-value=5e-06 Score=58.83 Aligned_cols=50 Identities=26% Similarity=0.450 Sum_probs=45.0
Q ss_pred CCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCC--HHHHHHHHHHhhccCCC
Q 032564 57 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDIS--HREAFSTAAKNWAHFPH 106 (138)
Q Consensus 57 ~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~is--HKEaFs~AAkNWa~~P~ 106 (138)
.+.|.+++|.+|||..||++.-..|+++||+++ ..|..+.++..|+..+.
T Consensus 17 ~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~ 68 (94)
T PTZ00199 17 KKDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSE 68 (94)
T ss_pred CCCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCH
Confidence 456789999999999999999999999999987 68899999999998764
No 10
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=97.41 E-value=0.00047 Score=47.13 Aligned_cols=46 Identities=28% Similarity=0.441 Sum_probs=42.3
Q ss_pred CCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564 61 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 106 (138)
Q Consensus 61 eK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~ 106 (138)
..++|-+|||..|+.+.-.+||++||+++..|.-+.+..+|.....
T Consensus 21 ~~pkrp~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~l~~ 66 (96)
T KOG0381|consen 21 QAPKRPLSAFFLFSSEQRSKIKAENPGLSVGEVAKALGEMWKNLAE 66 (96)
T ss_pred CCCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCH
Confidence 4678899999999999999999999999999999999999987544
No 11
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=96.98 E-value=0.00093 Score=51.03 Aligned_cols=53 Identities=26% Similarity=0.518 Sum_probs=47.4
Q ss_pred ccCCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCccc
Q 032564 55 VVNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHF 109 (138)
Q Consensus 55 ~~~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~~~~ 109 (138)
.+.+.||||- --||..|.-.+|.+||++||++.+-.---..=+.|..+|+++|
T Consensus 67 ~~drHPErR~--KAAy~afeE~~Lp~lK~E~PgLrlsQ~kq~l~K~w~KSPeNP~ 119 (122)
T PF06244_consen 67 PIDRHPERRM--KAAYKAFEERRLPELKEENPGLRLSQYKQMLWKEWQKSPENPF 119 (122)
T ss_pred CCCCCcchhH--HHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHHHHhcCCCCCc
Confidence 4556677664 5699999999999999999999999999999999999999998
No 12
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.45 E-value=0.099 Score=43.89 Aligned_cols=52 Identities=31% Similarity=0.580 Sum_probs=46.8
Q ss_pred CCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCcccc
Q 032564 57 NRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFG 110 (138)
Q Consensus 57 ~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~~~~g 110 (138)
-+-||||=| -||--|=..++.|||.+||++.|-+-=-+.-+.|...|.++|.
T Consensus 161 drHPEkRmr--AA~~afEe~~LPrLK~e~P~lrlsQ~Kqll~Kew~KsPDNP~N 212 (221)
T KOG3223|consen 161 DRHPEKRMR--AAFKAFEEARLPRLKKENPGLRLSQYKQLLKKEWQKSPDNPFN 212 (221)
T ss_pred ccChHHHHH--HHHHHHHHhhchhhhhcCCCccHHHHHHHHHHHHhhCCCChhh
Confidence 377888766 4999999999999999999999998888889999999999995
No 13
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=82.98 E-value=3 Score=34.99 Aligned_cols=47 Identities=23% Similarity=0.443 Sum_probs=43.3
Q ss_pred CCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccC
Q 032564 58 RPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHF 104 (138)
Q Consensus 58 kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~ 104 (138)
+-|--++|--|||-.|..+.=.+|+..+|+++.-|.=+.+.+.|+..
T Consensus 66 ~dpN~PKRp~sayf~y~~~~R~ei~~~~p~l~~~e~~k~~~e~WK~L 112 (211)
T COG5648 66 KDPNGPKRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKEL 112 (211)
T ss_pred cCCCCCCCchhHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHhc
Confidence 45667889999999999999999999999999999999999999975
No 14
>PF08073 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 The CHD N-terminal domain is found in PHD/RING fingers and chromo domain-associated helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=76.25 E-value=5.4 Score=27.18 Aligned_cols=37 Identities=16% Similarity=0.352 Sum_probs=28.1
Q ss_pred hHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 032564 69 AYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP 105 (138)
Q Consensus 69 AYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P 105 (138)
.|..|-.-==.-|-+.||++.+-..+.+.+..|+.|-
T Consensus 15 ~yK~Fsq~vRP~l~~~NPk~~~sKl~~l~~AKwrEF~ 51 (55)
T PF08073_consen 15 NYKAFSQHVRPLLAKANPKAPMSKLMMLLQAKWREFQ 51 (55)
T ss_pred HHHHHHHHHHHHHHHHCCCCcHHHHHHHHHHHHHHHH
Confidence 3444443333456789999999999999999999863
No 15
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=51.81 E-value=22 Score=33.98 Aligned_cols=44 Identities=25% Similarity=0.478 Sum_probs=39.8
Q ss_pred CCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccC
Q 032564 59 PPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHF 104 (138)
Q Consensus 59 ppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~ 104 (138)
-|-.++|+-|||-.|...+-..||++ +|+.-|.=+.+...|+.-
T Consensus 532 dpnapkra~sa~m~w~~~~r~~ik~d--gi~~~dv~kk~g~~wk~m 575 (615)
T KOG0526|consen 532 DPNAPKRATSAYMLWLNASRESIKED--GISVGDVAKKAGEKWKQM 575 (615)
T ss_pred CCCCCccchhHHHHHHHhhhhhHhhc--CchHHHHHHHHhHHHhhh
Confidence 35567899999999999999999999 999999999999999873
No 16
>PF06382 DUF1074: Protein of unknown function (DUF1074); InterPro: IPR024460 This family consists of several proteins which appear to be specific to Insecta. The function of this family is unknown.
Probab=43.83 E-value=35 Score=28.29 Aligned_cols=35 Identities=23% Similarity=0.574 Sum_probs=30.1
Q ss_pred chHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564 68 SAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 106 (138)
Q Consensus 68 SAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~ 106 (138)
.+|=.||.+ .+..|.+++.+|....||+-|...++
T Consensus 84 naYLNFLRe----FRrkh~~L~p~dlI~~AAraW~rLSe 118 (183)
T PF06382_consen 84 NAYLNFLRE----FRRKHCGLSPQDLIQRAARAWCRLSE 118 (183)
T ss_pred hHHHHHHHH----HHHHccCCCHHHHHHHHHHHHHhCCH
Confidence 578888764 77789999999999999999988654
No 17
>PF05047 L51_S25_CI-B8: Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain ; InterPro: IPR007741 Proteins containing this domain are located in the mitochondrion and include ribosomal protein L51, and S25. This domain is also found in mitochondrial NADH-ubiquinone oxidoreductase B8 subunit (CI-B8) 1.6.5.3 from EC. It is not known whether all members of this family form part of the NADH-ubiquinone oxidoreductase and whether they are also all ribosomal proteins.; PDB: 1S3A_A.
Probab=42.60 E-value=23 Score=22.00 Aligned_cols=18 Identities=28% Similarity=0.719 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHhhCCCC
Q 032564 71 NQFIKEEIQRIKANNPDI 88 (138)
Q Consensus 71 N~FmKeEIqRiKa~nP~i 88 (138)
..|+++.+..|+..||++
T Consensus 2 R~F~~~~lp~l~~~NP~v 19 (52)
T PF05047_consen 2 RDFLKNNLPTLKYHNPQV 19 (52)
T ss_dssp HHHHHHTHHHHHHHSTT-
T ss_pred HhHHHHhHHHHHHHCCCc
Confidence 369999999999999986
No 18
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=35.08 E-value=57 Score=29.81 Aligned_cols=48 Identities=25% Similarity=0.486 Sum_probs=40.6
Q ss_pred cCCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 032564 56 VNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 106 (138)
Q Consensus 56 ~~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~ 106 (138)
+.|||+| -.-.|-+|-+.=-..+|+.||++--=|.=+.++..|.+.|.
T Consensus 61 pPkppek---pl~pymrySrkvWd~VkA~nPe~kLWeiGK~Ig~mW~dLpd 108 (410)
T KOG4715|consen 61 PPKPPEK---PLMPYMRYSRKVWDQVKASNPELKLWEIGKIIGGMWLDLPD 108 (410)
T ss_pred CCCCCCc---ccchhhHHhhhhhhhhhccCcchHHHHHHHHHHHHHhhCcc
Confidence 3345554 46789999999999999999999999999999999999875
No 19
>PF05164 ZapA: Cell division protein ZapA; InterPro: IPR007838 This entry a structural domain found in the cell division protein ZapA, as well as in related proteins. This domain has a core structure consisting of two layers alpha/beta, and has a long C-terminal helix that forms dimeric parallel and tetrameric antiparallel coiled coils []. ZapA interacts with FtsZ, where FtsZ is part of a mid-cell cytokinetic structure termed the Z-ring that recruits a hierarchy of fission related proteins early in the bacterial cell cycle. ZapA drives the polymerisation and filament bundling of FtsZ, thereby contributing to the spatio-temporal tuning of the Z-ring.; PDB: 1T3U_B 1W2E_B 3HNW_A.
Probab=34.76 E-value=62 Score=21.40 Aligned_cols=32 Identities=34% Similarity=0.420 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHhhCCCCCHHHHHHHHHHhhcc
Q 032564 72 QFIKEEIQRIKANNPDISHREAFSTAAKNWAH 103 (138)
Q Consensus 72 ~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~ 103 (138)
.++.+.|..++...|.++...++..||-|-++
T Consensus 28 ~~i~~~i~~~~~~~~~~~~~~~~vlaaLnla~ 59 (89)
T PF05164_consen 28 ELINEKINEIKKKYPKLSPERLAVLAALNLAD 59 (89)
T ss_dssp HHHHHHHHHHCTTCCTSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence 57889999999999999999999999988765
No 20
>PF04769 MAT_Alpha1: Mating-type protein MAT alpha 1; InterPro: IPR006856 This family includes Saccharomyces cerevisiae (Baker's yeast) mating type protein alpha 1 (P01365 from SWISSPROT). MAT alpha 1 is a transcription activator that activates mating-type alpha-specific genes with the help of the MADS-box containing MCM1 transcription factor, which together bind cooperatively to PQ elements upstream of alpha-specific genes. The MCM1-MATalpha1 complex is required for the proper DNA-bending that is needed for transcriptional activation []. Alpha 1 interacts in vivo with STE12, linking expression of alpha-specific genes to the alpha-pheromone (IPR006742 from INTERPRO) response pathway [].; GO: 0000772 mating pheromone activity, 0003677 DNA binding, 0045895 positive regulation of transcription, mating-type specific, 0005634 nucleus
Probab=32.85 E-value=1.3e+02 Score=24.71 Aligned_cols=49 Identities=22% Similarity=0.312 Sum_probs=39.2
Q ss_pred cCCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCcc
Q 032564 56 VNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIH 108 (138)
Q Consensus 56 ~~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~~~ 108 (138)
..+.+++++|.-.+|+.|+.==. ...|+.+.|++-...+..|...|+-.
T Consensus 37 ~~~~~~~~kr~lN~Fm~FRsyy~----~~~~~~~Qk~~S~~l~~lW~~dp~k~ 85 (201)
T PF04769_consen 37 RKRSPEKAKRPLNGFMAFRSYYS----PIFPPLPQKELSGILTKLWEKDPFKN 85 (201)
T ss_pred ccccccccccchhHHHHHHHHHH----hhcCCcCHHHHHHHHHHHHhCCccHh
Confidence 34456788888888988876433 67889999999999999999988744
No 21
>PF12876 Cellulase-like: Sugar-binding cellulase-like; InterPro: IPR024778 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This entry represents a family of putative cellulase enzymes.; PDB: 3GYC_B.
Probab=30.02 E-value=82 Score=21.40 Aligned_cols=31 Identities=29% Similarity=0.509 Sum_probs=22.7
Q ss_pred CCCCCCCCCchHHHHHHHHHHHHHhhCCCCC
Q 032564 59 PPEKRQRVPSAYNQFIKEEIQRIKANNPDIS 89 (138)
Q Consensus 59 ppeK~~R~PSAYN~FmKeEIqRiKa~nP~is 89 (138)
|.+.......+|-.||++=++.||+.+|..+
T Consensus 29 ~~~~~~~~~~~~~~~l~~~~~~iR~~dP~~p 59 (88)
T PF12876_consen 29 PAEWGDPKAEAYAEWLKEAFRWIRAVDPSQP 59 (88)
T ss_dssp TT-TT-TTSHHHHHHHHHHHHHHHTT-TTS-
T ss_pred cccccchhHHHHHHHHHHHHHHHHHhCCCCc
Confidence 3344445778999999999999999999753
No 22
>PF10963 DUF2765: Protein of unknown function (DUF2765); InterPro: IPR024406 This family of proteins with no known function is found in phages and suspected prophages.
Probab=26.98 E-value=94 Score=22.49 Aligned_cols=21 Identities=29% Similarity=0.476 Sum_probs=13.3
Q ss_pred HHHHHHHHhhCCCCCHHHHHHHHHH
Q 032564 75 KEEIQRIKANNPDISHREAFSTAAK 99 (138)
Q Consensus 75 KeEIqRiKa~nP~isHKEaFs~AAk 99 (138)
|+.+..|-++.||. ++..|++
T Consensus 48 KeaL~~lle~~PGa----a~qia~~ 68 (83)
T PF10963_consen 48 KEALKELLEENPGA----AMQIAGA 68 (83)
T ss_pred HHHHHHHHHHCCCH----HHHHHHH
Confidence 46677777777776 4444444
No 23
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=26.64 E-value=1.3e+02 Score=26.45 Aligned_cols=48 Identities=13% Similarity=0.303 Sum_probs=43.7
Q ss_pred cCCCCCCCCCCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhcc
Q 032564 56 VNRPPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAH 103 (138)
Q Consensus 56 ~~kppeK~~R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~ 103 (138)
..+..++-+|--.||=.|=+.|=++|-.+||+|---|.=+...+.|+.
T Consensus 56 ~k~~~~hIKRPMNAFMVWSq~~RRkma~qnP~mHNSEISK~LG~~WK~ 103 (331)
T KOG0527|consen 56 DKTSTDRIKRPMNAFMVWSQGQRRKLAKQNPKMHNSEISKRLGAEWKL 103 (331)
T ss_pred CCCCccccCCCcchhhhhhHHHHHHHHHhCcchhhHHHHHHHHHHHhh
Confidence 455678888999999999999999999999999889999999999986
No 24
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=26.57 E-value=68 Score=27.11 Aligned_cols=25 Identities=20% Similarity=0.486 Sum_probs=23.5
Q ss_pred chHHHHHHHHHHHHHhhCCCCCHHH
Q 032564 68 SAYNQFIKEEIQRIKANNPDISHRE 92 (138)
Q Consensus 68 SAYN~FmKeEIqRiKa~nP~isHKE 92 (138)
.-|..||++...+-|..+|..|.|+
T Consensus 8 ~dYR~fl~d~ye~rk~~~p~fS~R~ 32 (271)
T TIGR02147 8 TDYRKYLRDYYEERKKTDPAFSWRF 32 (271)
T ss_pred hhHHHHHHHHHHHHhccCcCcCHHH
Confidence 4699999999999999999999998
No 25
>PF14722 KRAP_IP3R_bind: Ki-ras-induced actin-interacting protein-IP3R-interacting domain
Probab=25.86 E-value=83 Score=25.60 Aligned_cols=27 Identities=22% Similarity=0.502 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHhhCCCCCHHHHHHH
Q 032564 70 YNQFIKEEIQRIKANNPDISHREAFST 96 (138)
Q Consensus 70 YN~FmKeEIqRiKa~nP~isHKEaFs~ 96 (138)
...|++.+++||..++|...---+|.+
T Consensus 71 ~~~FL~aQ~qrm~~E~p~~~l~~RFRQ 97 (160)
T PF14722_consen 71 IRVFLEAQKQRMDIENPNLALASRFRQ 97 (160)
T ss_pred HHHHHHHHHHHHHhhCccHHHHHHHHH
Confidence 568999999999999999655555554
No 26
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=23.88 E-value=47 Score=25.65 Aligned_cols=36 Identities=25% Similarity=0.282 Sum_probs=30.4
Q ss_pred CCCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Q 032564 65 RVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKN 100 (138)
Q Consensus 65 R~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkN 100 (138)
..++.-.+=++.||..+|++.-.+|..|=|...||+
T Consensus 36 ~~~~~~~~~l~~Ei~~l~~E~~~iS~qDeFAkwaKl 71 (161)
T PF04420_consen 36 SKSSKEQRQLRKEILQLKRELNAISAQDEFAKWAKL 71 (161)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHTTS-TTTSHHHHHHH
T ss_pred ccccHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence 456677788999999999999999999999998886
No 27
>PRK14126 cell division protein ZapA; Provisional
Probab=22.27 E-value=1.9e+02 Score=20.39 Aligned_cols=32 Identities=16% Similarity=0.365 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHhhCCCCCHHHHHHHHHHhhcc
Q 032564 72 QFIKEEIQRIKANNPDISHREAFSTAAKNWAH 103 (138)
Q Consensus 72 ~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~ 103 (138)
.|+-+.|..|+..+|.++-..+-.+||-|-++
T Consensus 34 ~~vd~km~ei~~~~~~ls~~~iAVLaALNia~ 65 (85)
T PRK14126 34 AIVDDKMRELNEKNPSLDTSKLAVLTAVNVIH 65 (85)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHH
Confidence 58889999999999999999999999998776
No 28
>PF10159 MMtag: Kinase phosphorylation protein; InterPro: IPR019315 This entry represents a glycine-rich domain that is the most highly conserved region of a family of proteins that, in vertebrates, are associated with tumours in multiple myelomas. The region may contain phosphorylation sites for several protein kinases, as well as N-myristoylation sites and nuclear localisation signals, so it might act as a signal molecule in the nucleus [].
Probab=22.04 E-value=88 Score=22.73 Aligned_cols=13 Identities=54% Similarity=0.567 Sum_probs=11.6
Q ss_pred HHHHHHHHHHhhC
Q 032564 73 FIKEEIQRIKANN 85 (138)
Q Consensus 73 FmKeEIqRiKa~n 85 (138)
=.++||++||+..
T Consensus 57 ~~~eE~~~iK~~E 69 (78)
T PF10159_consen 57 ERKEEIRRIKEAE 69 (78)
T ss_pred hHHHHHHHHHHHH
Confidence 6899999999976
No 29
>PF08785 Ku_PK_bind: Ku C terminal domain like; InterPro: IPR014893 The non-homologous end joining (NHEJ) pathway is one method by which double stranded breaks in chromosomal DNA are repaired. Ku is a component of a multi-protein complex that is involved in the NHEJ. Ku has affinity for DNA ends and recruits the DNA-dependent protein kinase catalytic subunit (DNA-PKcs). This domain is found at the C-terminal of Ku which binds to DNA-PKcs []. ; GO: 0016817 hydrolase activity, acting on acid anhydrides; PDB: 1RW2_A 1Q2Z_A 3ISM_C.
Probab=20.56 E-value=59 Score=23.82 Aligned_cols=36 Identities=19% Similarity=0.545 Sum_probs=19.7
Q ss_pred CCchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCcccccc
Q 032564 66 VPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 112 (138)
Q Consensus 66 ~PSAYN~FmKeEIqRiKa~nP~isHKEaFs~AAkNWa~~P~~~~g~~ 112 (138)
.|..||.||++==..+...+ + ..-|..--...+||-
T Consensus 62 ep~~yN~Fl~~LK~~~~~~~----~-------~~FW~~i~~~~l~LI 97 (120)
T PF08785_consen 62 EPDEYNDFLRKLKKKLLSKD----R-------RDFWELIVSKKLGLI 97 (120)
T ss_dssp -CHHHHHHHHHHHHHHHCTT----T-------CHHHHCCCCCT-SS-
T ss_pred CHHHHHHHHHHHHHHHHhcc----H-------HHHHHHHHHcCCCcc
Confidence 49999999976444444331 1 245765555555543
Done!