Query 037247
Match_columns 196
No_of_seqs 89 out of 91
Neff 2.3
Searched_HMMs 46136
Date Fri Mar 29 10:16:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037247.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037247hhsearch_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 8.9E-33 1.9E-37 227.3 8.1 67 50-117 104-170 (170)
2 PF09011 HMG_box_2: HMG-box do 98.3 1.2E-06 2.5E-11 60.9 4.8 45 66-110 1-46 (73)
3 cd01390 HMGB-UBF_HMG-box HMGB- 97.9 3.2E-05 6.8E-10 50.9 5.2 42 70-111 2-43 (66)
4 cd00084 HMG-box High Mobility 97.8 5.2E-05 1.1E-09 49.2 5.3 43 70-112 2-44 (66)
5 smart00398 HMG high mobility g 97.8 6E-05 1.3E-09 49.5 4.9 44 69-112 2-45 (70)
6 PF00505 HMG_box: HMG (high mo 97.8 6.4E-05 1.4E-09 50.0 5.0 41 70-110 2-42 (69)
7 cd01388 SOX-TCF_HMG-box SOX-TC 97.8 5.4E-05 1.2E-09 52.4 4.8 42 70-111 3-44 (72)
8 cd01389 MATA_HMG-box MATA_HMG- 97.8 5.8E-05 1.3E-09 52.7 5.0 43 69-111 2-44 (77)
9 PTZ00199 high mobility group p 97.7 9.4E-05 2E-09 54.6 5.4 50 63-112 17-68 (94)
10 PF06244 DUF1014: Protein of u 97.2 0.00043 9.3E-09 55.3 4.2 54 61-116 67-120 (122)
11 KOG0381 HMG box-containing pro 96.5 0.008 1.7E-07 42.8 5.4 45 67-111 21-65 (96)
12 KOG3223 Uncharacterized conser 94.6 0.019 4.1E-07 50.3 1.9 53 63-117 161-213 (221)
13 COG5648 NHP6B Chromatin-associ 45.2 52 0.0011 29.1 5.3 47 65-111 67-113 (211)
14 PF08073 CHDNT: CHDNT (NUC034) 36.5 66 0.0014 23.1 3.8 34 75-111 18-51 (55)
15 PF05697 Trigger_N: Bacterial 33.9 21 0.00046 27.4 1.0 21 140-160 37-57 (145)
16 PF06382 DUF1074: Protein of u 29.5 69 0.0015 27.9 3.5 78 74-162 84-167 (183)
17 PF04420 CHD5: CHD5-like prote 27.3 36 0.00079 27.5 1.4 36 71-106 36-71 (161)
18 PF05047 L51_S25_CI-B8: Mitoch 26.5 51 0.0011 21.4 1.8 19 77-95 2-20 (52)
19 KOG4715 SWI/SNF-related matrix 23.7 1.1E+02 0.0023 29.4 4.0 48 65-112 61-108 (410)
20 PF12876 Cellulase-like: Sugar 23.2 1.3E+02 0.0027 21.5 3.4 29 67-95 31-59 (88)
21 TIGR02147 Fsuc_second hypothet 22.7 83 0.0018 27.9 2.9 25 74-98 8-32 (271)
22 PF05164 ZapA: Cell division p 21.4 1.7E+02 0.0036 20.3 3.7 32 78-109 28-59 (89)
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=99.98 E-value=8.9e-33 Score=227.29 Aligned_cols=67 Identities=63% Similarity=0.949 Sum_probs=61.4
Q ss_pred ccccccccccccccCCCccCCCCChhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCCCCCCCC
Q 037247 50 EEEDTGSVINHVVNKPPEKRQRAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCPPIQHKG 117 (196)
Q Consensus 50 e~~~~~p~~~~~~~kppEKr~R~PSAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~P~~~~~~ 117 (196)
++++..| +.+.|+||||||||+|||||+|||+||||||++||||+|||||++|||||||+|+||||+
T Consensus 104 ~~~~~~p-r~~~v~kPPEKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAknW~h~phihfgl 170 (170)
T PF04690_consen 104 SEEEEIP-RAPPVNKPPEKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKNWAHFPHIHFGL 170 (170)
T ss_pred ccccccc-ccccccCCccccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhCcccccCC
Confidence 3445566 456799999999999999999999999999999999999999999999999999999985
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=98.30 E-value=1.2e-06 Score=60.87 Aligned_cols=45 Identities=33% Similarity=0.637 Sum_probs=38.6
Q ss_pred CccCCCCChhhhHHHHHHHHHHHhc-CCCCCHHHHHHHHHHhhccC
Q 037247 66 PEKRQRAPSAYNRFIKEEIRRLKTE-NPNMAHKEAFSTAAKNWAQC 110 (196)
Q Consensus 66 pEKr~R~PSAYN~FMKeEIqRiKa~-nPdisHKEAFs~AAkNWa~~ 110 (196)
|.|+.|.+|||+.||++.+.+++.. .+.++++|++..++..|+..
T Consensus 1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~L 46 (73)
T PF09011_consen 1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSL 46 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhc
Confidence 6778899999999999999999999 88999999999999999964
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=97.89 E-value=3.2e-05 Score=50.94 Aligned_cols=42 Identities=31% Similarity=0.496 Sum_probs=39.3
Q ss_pred CCCChhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 037247 70 QRAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCP 111 (196)
Q Consensus 70 ~R~PSAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~P 111 (196)
.|.+|+|..||++....+++.+|+++..|....++..|+..+
T Consensus 2 krp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~ls 43 (66)
T cd01390 2 KRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKELS 43 (66)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCC
Confidence 467899999999999999999999999999999999999754
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=97.82 E-value=5.2e-05 Score=49.23 Aligned_cols=43 Identities=28% Similarity=0.400 Sum_probs=39.9
Q ss_pred CCCChhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCCC
Q 037247 70 QRAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCPP 112 (196)
Q Consensus 70 ~R~PSAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~P~ 112 (196)
+|.+|+|..|+++....++..+|+++..+....+++.|+..+.
T Consensus 2 krp~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~~W~~l~~ 44 (66)
T cd00084 2 KRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKSLSE 44 (66)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCH
Confidence 5678999999999999999999999999999999999997554
No 5
>smart00398 HMG high mobility group.
Probab=97.77 E-value=6e-05 Score=49.46 Aligned_cols=44 Identities=25% Similarity=0.452 Sum_probs=40.4
Q ss_pred CCCCChhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCCC
Q 037247 69 RQRAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCPP 112 (196)
Q Consensus 69 r~R~PSAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~P~ 112 (196)
+.|.+|+|..||++....++..+|+++..+.-+.++..|+..++
T Consensus 2 pkrp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~~ 45 (70)
T smart00398 2 PKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSE 45 (70)
T ss_pred cCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCCH
Confidence 46789999999999999999999999999999999999997543
No 6
>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=97.75 E-value=6.4e-05 Score=50.02 Aligned_cols=41 Identities=37% Similarity=0.629 Sum_probs=37.0
Q ss_pred CCCChhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccC
Q 037247 70 QRAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQC 110 (196)
Q Consensus 70 ~R~PSAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~ 110 (196)
.|.+|||..|+++....|+.++|+++..+.-+.++..|+..
T Consensus 2 krP~~af~lf~~~~~~~~k~~~p~~~~~~i~~~~~~~W~~l 42 (69)
T PF00505_consen 2 KRPPNAFMLFCKEKRAKLKEENPDLSNKEISKILAQMWKNL 42 (69)
T ss_dssp SSS--HHHHHHHHHHHHHHHHSTTSTHHHHHHHHHHHHHCS
T ss_pred cCCCCHHHHHHHHHHHHHHHHhcccccccchhhHHHHHhcC
Confidence 57899999999999999999999999999999999999964
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=97.75 E-value=5.4e-05 Score=52.44 Aligned_cols=42 Identities=19% Similarity=0.317 Sum_probs=39.2
Q ss_pred CCCChhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 037247 70 QRAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCP 111 (196)
Q Consensus 70 ~R~PSAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~P 111 (196)
.|.||||..|+++....|+++||+++..|.-+.++..|+..+
T Consensus 3 KrP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~ls 44 (72)
T cd01388 3 KRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKALS 44 (72)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCC
Confidence 467999999999999999999999999999999999999754
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=97.75 E-value=5.8e-05 Score=52.72 Aligned_cols=43 Identities=23% Similarity=0.410 Sum_probs=40.1
Q ss_pred CCCCChhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 037247 69 RQRAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCP 111 (196)
Q Consensus 69 r~R~PSAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~P 111 (196)
..|.++||..|+++....|+++||++++.|.-+.++..|+..+
T Consensus 2 ~kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~ls 44 (77)
T cd01389 2 IPRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSES 44 (77)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCC
Confidence 4688999999999999999999999999999999999999654
No 9
>PTZ00199 high mobility group protein; Provisional
Probab=97.68 E-value=9.4e-05 Score=54.63 Aligned_cols=50 Identities=30% Similarity=0.435 Sum_probs=44.0
Q ss_pred cCCCccCCCCChhhhHHHHHHHHHHHhcCCCCC--HHHHHHHHHHhhccCCC
Q 037247 63 NKPPEKRQRAPSAYNRFIKEEIRRLKTENPNMA--HKEAFSTAAKNWAQCPP 112 (196)
Q Consensus 63 ~kppEKr~R~PSAYN~FMKeEIqRiKa~nPdis--HKEAFs~AAkNWa~~P~ 112 (196)
.+.|.++.|.+|||..||.+.-..|+++||+++ -.|.-+.++..|+..++
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 567788899999999999999999999999987 57888999999997653
No 10
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=97.22 E-value=0.00043 Score=55.28 Aligned_cols=54 Identities=26% Similarity=0.519 Sum_probs=48.5
Q ss_pred cccCCCccCCCCChhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCCCCCCC
Q 037247 61 VVNKPPEKRQRAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCPPIQHK 116 (196)
Q Consensus 61 ~~~kppEKr~R~PSAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~P~~~~~ 116 (196)
-+.+.||||-+ -||..|.-.+|.+||++||++.+-+-=-..=|.|..+|+||+-
T Consensus 67 ~~drHPErR~K--AAy~afeE~~Lp~lK~E~PgLrlsQ~kq~l~K~w~KSPeNP~N 120 (122)
T PF06244_consen 67 PIDRHPERRMK--AAYKAFEERRLPELKEENPGLRLSQYKQMLWKEWQKSPENPFN 120 (122)
T ss_pred CCCCCcchhHH--HHHHHHHHHHhHHHHhhCCCchHHHHHHHHHHHHhcCCCCCcc
Confidence 45778888764 6999999999999999999999999999999999999999973
No 11
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=96.46 E-value=0.008 Score=42.79 Aligned_cols=45 Identities=24% Similarity=0.417 Sum_probs=40.6
Q ss_pred ccCCCCChhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 037247 67 EKRQRAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCP 111 (196)
Q Consensus 67 EKr~R~PSAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~P 111 (196)
...+|.+|||..|+.+.-.+||++||+++..|.=+.+..+|....
T Consensus 21 ~~pkrp~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~l~ 65 (96)
T KOG0381|consen 21 QAPKRPLSAFFLFSSEQRSKIKAENPGLSVGEVAKALGEMWKNLA 65 (96)
T ss_pred CCCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCC
Confidence 356788999999999999999999999999999999999998643
No 12
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.63 E-value=0.019 Score=50.31 Aligned_cols=53 Identities=32% Similarity=0.561 Sum_probs=47.7
Q ss_pred cCCCccCCCCChhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCCCCCCCC
Q 037247 63 NKPPEKRQRAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCPPIQHKG 117 (196)
Q Consensus 63 ~kppEKr~R~PSAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~P~~~~~~ 117 (196)
-+.||||-|+ ||--|=..+|.|||.+||+++|-+-=-+.-|.|..+|.|||..
T Consensus 161 drHPEkRmrA--A~~afEe~~LPrLK~e~P~lrlsQ~Kqll~Kew~KsPDNP~Nq 213 (221)
T KOG3223|consen 161 DRHPEKRMRA--AFKAFEEARLPRLKKENPGLRLSQYKQLLKKEWQKSPDNPFNQ 213 (221)
T ss_pred ccChHHHHHH--HHHHHHHhhchhhhhcCCCccHHHHHHHHHHHHhhCCCChhhH
Confidence 4788998774 9999999999999999999999998888899999999999854
No 13
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=45.15 E-value=52 Score=29.12 Aligned_cols=47 Identities=23% Similarity=0.420 Sum_probs=41.7
Q ss_pred CCccCCCCChhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 037247 65 PPEKRQRAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCP 111 (196)
Q Consensus 65 ppEKr~R~PSAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~P 111 (196)
-|--+.|.-|||-.|..+-=.+|...+|+++--|.=+.+...|+..-
T Consensus 67 dpN~PKRp~sayf~y~~~~R~ei~~~~p~l~~~e~~k~~~e~WK~Lt 113 (211)
T COG5648 67 DPNGPKRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKELT 113 (211)
T ss_pred CCCCCCCchhHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHhcc
Confidence 34445788899999999999999999999999999999999999865
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=36.53 E-value=66 Score=23.07 Aligned_cols=34 Identities=15% Similarity=0.382 Sum_probs=27.0
Q ss_pred hhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 037247 75 AYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCP 111 (196)
Q Consensus 75 AYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~P 111 (196)
+|..+|+=- |-+.||++.+---+...+..|+.+-
T Consensus 18 ~Fsq~vRP~---l~~~NPk~~~sKl~~l~~AKwrEF~ 51 (55)
T PF08073_consen 18 AFSQHVRPL---LAKANPKAPMSKLMMLLQAKWREFQ 51 (55)
T ss_pred HHHHHHHHH---HHHHCCCCcHHHHHHHHHHHHHHHH
Confidence 455556544 4578999999999999999999864
No 15
>PF05697 Trigger_N: Bacterial trigger factor protein (TF); InterPro: IPR008881 In the Escherichia coli cytosol, a fraction of the newly synthesised proteins requires the activity of molecular chaperones for folding to the native state. The major chaperones implicated in this folding process are the ribosome-associated Trigger Factor (TF), and the DnaK and GroEL chaperones with their respective co-chaperones. Trigger Factor is an ATP-independent chaperone and displays chaperone and peptidyl-prolyl-cis-trans-isomerase (PPIase) activities in vitro. It is composed of at least three domains, an N-terminal domain which mediates association with the large ribosomal subunit, a central substrate binding and PPIase domain with homology to FKBP proteins, and a C-terminal domain of unknown function. The positioning of TF at the peptide exit channel, together with its ability to interact with nascent chains as short as 57 residues renders TF a prime candidate for being the first chaperone that binds to the nascent polypeptide chains []. This group of sequences contain the ribosomal subunit association domain.; GO: 0006457 protein folding, 0015031 protein transport; PDB: 2D3O_1 1W26_A 1P9Y_A 1OMS_C 1T11_A 3GU0_A 2NSB_A 2NSC_A 3GTY_X.
Probab=33.87 E-value=21 Score=27.41 Aligned_cols=21 Identities=43% Similarity=0.646 Sum_probs=15.0
Q ss_pred hhhccCcccccCCCcchhhhh
Q 037247 140 VHVQGNGFRERKAPRHSFRAR 160 (196)
Q Consensus 140 ~~~~~qgF~~rKvpR~s~~~~ 160 (196)
...+..|||-+|+|++-+..+
T Consensus 37 k~~~ipGFRkGK~P~~vi~~~ 57 (145)
T PF05697_consen 37 KKVKIPGFRKGKAPRNVIEKR 57 (145)
T ss_dssp TTTTBTTS-TTSS-HHHHHHH
T ss_pred hhCCCCCCCCCCCCHHHHHHH
Confidence 466889999999999766554
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=29.54 E-value=69 Score=27.92 Aligned_cols=78 Identities=17% Similarity=0.284 Sum_probs=47.7
Q ss_pred hhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCCCCC---CCCCCC--C-CCcchhhhhccccchhhhhhhccCcc
Q 037247 74 SAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCPPIQ---HKGDGE--S-CGGQEEEKRAWNFEATDRVHVQGNGF 147 (196)
Q Consensus 74 SAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~P~~~---~~~~~~--~-~~s~~~~~v~~d~~~~~~~~~~~qgF 147 (196)
++|=.||.+ .+..|.+|..+|.-..||+-|....+.+ |..... . .++... .+ +=++..+.-|=
T Consensus 84 naYLNFLRe----FRrkh~~L~p~dlI~~AAraW~rLSe~eK~rYrr~~~~~~~~k~p~q-~~------aC~~~~~~~~~ 152 (183)
T PF06382_consen 84 NAYLNFLRE----FRRKHCGLSPQDLIQRAARAWCRLSEAEKNRYRRMAPSVRAFKSPQQ-YV------ACEVKSDVAGG 152 (183)
T ss_pred hHHHHHHHH----HHHHccCCCHHHHHHHHHHHHHhCCHHHHHHHHhhcchhhhhcCcch-hc------ccchhhhhhcc
Confidence 688888764 7778999999999999999999866532 332111 0 001110 00 11122223355
Q ss_pred cccCCCcchhhhhhh
Q 037247 148 RERKAPRHSFRARKM 162 (196)
Q Consensus 148 ~~rKvpR~s~~~~t~ 162 (196)
+++--+|+|-.++.-
T Consensus 153 ~~~~~~~~~~~~~~~ 167 (183)
T PF06382_consen 153 QQSSCQRQSPSARQR 167 (183)
T ss_pred ccCcCccCCchhhhh
Confidence 667778888877765
No 17
>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=27.30 E-value=36 Score=27.52 Aligned_cols=36 Identities=28% Similarity=0.334 Sum_probs=30.9
Q ss_pred CCChhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHh
Q 037247 71 RAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKN 106 (196)
Q Consensus 71 R~PSAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkN 106 (196)
..++.-.+=++.||+.+|++.-.|+.++-|...||+
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 456777788999999999999999999999999986
No 18
>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=26.46 E-value=51 Score=21.42 Aligned_cols=19 Identities=32% Similarity=0.627 Sum_probs=15.5
Q ss_pred hHHHHHHHHHHHhcCCCCC
Q 037247 77 NRFIKEEIRRLKTENPNMA 95 (196)
Q Consensus 77 N~FMKeEIqRiKa~nPdis 95 (196)
..|++.-+..|+..||++.
T Consensus 2 R~F~~~~lp~l~~~NP~v~ 20 (52)
T PF05047_consen 2 RDFLKNNLPTLKYHNPQVQ 20 (52)
T ss_dssp HHHHHHTHHHHHHHSTT--
T ss_pred HhHHHHhHHHHHHHCCCcE
Confidence 3699999999999999974
No 19
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=23.74 E-value=1.1e+02 Score=29.42 Aligned_cols=48 Identities=21% Similarity=0.412 Sum_probs=39.9
Q ss_pred CCccCCCCChhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCCC
Q 037247 65 PPEKRQRAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCPP 112 (196)
Q Consensus 65 ppEKr~R~PSAYN~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~~P~ 112 (196)
||.-.-+..-.|-+|-+.=-..+|+.||++--=|.=+.....|.+.|.
T Consensus 61 pPkppekpl~pymrySrkvWd~VkA~nPe~kLWeiGK~Ig~mW~dLpd 108 (410)
T KOG4715|consen 61 PPKPPEKPLMPYMRYSRKVWDQVKASNPELKLWEIGKIIGGMWLDLPD 108 (410)
T ss_pred CCCCCCcccchhhHHhhhhhhhhhccCcchHHHHHHHHHHHHHhhCcc
Confidence 443333456679999999999999999999999999999999998775
No 20
>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=23.21 E-value=1.3e+02 Score=21.50 Aligned_cols=29 Identities=24% Similarity=0.472 Sum_probs=21.7
Q ss_pred ccCCCCChhhhHHHHHHHHHHHhcCCCCC
Q 037247 67 EKRQRAPSAYNRFIKEEIRRLKTENPNMA 95 (196)
Q Consensus 67 EKr~R~PSAYN~FMKeEIqRiKa~nPdis 95 (196)
+.......+|..+|++-++.||+.+|+.+
T Consensus 31 ~~~~~~~~~~~~~l~~~~~~iR~~dP~~p 59 (88)
T PF12876_consen 31 EWGDPKAEAYAEWLKEAFRWIRAVDPSQP 59 (88)
T ss_dssp -TT-TTSHHHHHHHHHHHHHHHTT-TTS-
T ss_pred cccchhHHHHHHHHHHHHHHHHHhCCCCc
Confidence 33444678999999999999999999854
No 21
>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=22.72 E-value=83 Score=27.87 Aligned_cols=25 Identities=12% Similarity=0.453 Sum_probs=23.4
Q ss_pred hhhhHHHHHHHHHHHhcCCCCCHHH
Q 037247 74 SAYNRFIKEEIRRLKTENPNMAHKE 98 (196)
Q Consensus 74 SAYN~FMKeEIqRiKa~nPdisHKE 98 (196)
.-|..||++...+-|..+|.+|.|+
T Consensus 8 ~dYR~fl~d~ye~rk~~~p~fS~R~ 32 (271)
T TIGR02147 8 TDYRKYLRDYYEERKKTDPAFSWRF 32 (271)
T ss_pred hhHHHHHHHHHHHHhccCcCcCHHH
Confidence 4699999999999999999999997
No 22
>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=21.40 E-value=1.7e+02 Score=20.26 Aligned_cols=32 Identities=28% Similarity=0.404 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcc
Q 037247 78 RFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQ 109 (196)
Q Consensus 78 ~FMKeEIqRiKa~nPdisHKEAFs~AAkNWa~ 109 (196)
.++.+.|..++..+|.++-..+...||-|-++
T Consensus 28 ~~i~~~i~~~~~~~~~~~~~~~~vlaaLnla~ 59 (89)
T PF05164_consen 28 ELINEKINEIKKKYPKLSPERLAVLAALNLAD 59 (89)
T ss_dssp HHHHHHHHHHCTTCCTSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence 57889999999999999999999999988764
Done!