Query 037799
Match_columns 131
No_of_seqs 113 out of 612
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 04:31:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037799.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037799hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14111 DUF4283: Domain of un 99.9 2.5E-23 5.4E-28 147.8 -0.1 79 1-79 75-153 (153)
2 PF14392 zf-CCHC_4: Zinc knuck 99.6 8.4E-17 1.8E-21 95.2 3.2 44 80-123 1-49 (49)
3 PF00098 zf-CCHC: Zinc knuckle 97.4 9E-05 1.9E-09 34.7 1.2 17 107-123 2-18 (18)
4 smart00343 ZnF_C2HC zinc finge 94.2 0.02 4.2E-07 28.8 0.6 17 107-123 1-17 (26)
5 PF13696 zf-CCHC_2: Zinc knuck 93.5 0.028 6E-07 30.1 0.5 21 106-126 9-29 (32)
6 PF15288 zf-CCHC_6: Zinc knuck 93.0 0.043 9.4E-07 30.8 0.8 17 107-123 3-21 (40)
7 COG5082 AIR1 Arginine methyltr 91.0 0.1 2.2E-06 38.9 1.0 17 106-122 98-114 (190)
8 COG5082 AIR1 Arginine methyltr 88.6 0.19 4.1E-06 37.5 0.8 22 101-122 56-77 (190)
9 PF13917 zf-CCHC_3: Zinc knuck 88.4 0.24 5.2E-06 28.1 1.0 19 105-123 4-22 (42)
10 KOG2560 RNA splicing factor - 83.1 0.3 6.6E-06 40.9 -0.5 25 106-130 113-137 (529)
11 KOG0341 DEAD-box protein abstr 81.0 0.62 1.3E-05 38.9 0.6 20 106-125 571-590 (610)
12 PTZ00368 universal minicircle 79.9 0.95 2.1E-05 31.9 1.2 19 105-123 129-147 (148)
13 KOG4400 E3 ubiquitin ligase in 79.4 0.8 1.7E-05 35.4 0.7 24 99-123 138-161 (261)
14 PF14787 zf-CCHC_5: GAG-polypr 76.2 1.3 2.8E-05 24.2 0.7 21 105-125 2-22 (36)
15 PF10083 DUF2321: Uncharacteri 75.9 1 2.3E-05 32.5 0.4 31 83-114 46-77 (158)
16 KOG0109 RNA-binding protein LA 75.2 1.4 2.9E-05 35.3 0.9 19 106-124 161-179 (346)
17 COG5222 Uncharacterized conser 73.1 1.4 3.1E-05 35.3 0.6 19 106-124 177-195 (427)
18 COG4306 Uncharacterized protei 72.4 1.4 3.1E-05 31.0 0.4 30 84-114 47-77 (160)
19 KOG4285 Mitotic phosphoprotein 71.7 3.1 6.7E-05 33.4 2.1 73 19-95 186-259 (350)
20 PLN00032 DNA-directed RNA poly 68.0 2.2 4.8E-05 26.9 0.5 14 104-117 3-17 (71)
21 PRK04016 DNA-directed RNA poly 65.6 2.6 5.7E-05 25.8 0.5 13 104-116 3-16 (62)
22 PF01194 RNA_pol_N: RNA polyme 65.5 2.8 6.1E-05 25.6 0.6 14 104-117 3-17 (60)
23 COG5179 TAF1 Transcription ini 65.2 2.9 6.3E-05 36.8 0.9 20 106-125 938-959 (968)
24 PTZ00368 universal minicircle 65.2 2.8 6.2E-05 29.4 0.7 19 106-124 104-122 (148)
25 COG1644 RPB10 DNA-directed RNA 63.0 3 6.5E-05 25.6 0.4 14 104-117 3-17 (63)
26 KOG4400 E3 ubiquitin ligase in 61.2 3.4 7.4E-05 31.8 0.5 24 104-127 91-114 (261)
27 KOG3497 DNA-directed RNA polym 60.9 3 6.5E-05 25.6 0.1 11 104-114 3-13 (69)
28 KOG0125 Ataxin 2-binding prote 60.8 5.6 0.00012 32.3 1.7 42 27-69 93-134 (376)
29 KOG2044 5'-3' exonuclease HKE1 59.6 4.4 9.6E-05 36.5 1.0 27 98-124 253-279 (931)
30 PF13821 DUF4187: Domain of un 50.9 7.6 0.00016 23.1 0.8 24 104-127 26-53 (55)
31 smart00647 IBR In Between Ring 50.1 8.8 0.00019 22.4 1.0 24 98-121 40-64 (64)
32 PF14605 Nup35_RRM_2: Nup53/35 50.0 33 0.00071 19.9 3.4 33 30-64 1-33 (53)
33 KOG2985 Uncharacterized conser 45.7 5.5 0.00012 31.2 -0.5 19 105-123 81-99 (306)
34 COG1940 NagC Transcriptional r 44.0 17 0.00036 28.3 2.0 75 45-123 96-190 (314)
35 COG1998 RPS31 Ribosomal protei 42.8 16 0.00036 21.4 1.3 17 96-112 7-26 (51)
36 PF05515 Viral_NABP: Viral nuc 42.0 13 0.00029 25.9 1.0 19 106-124 63-81 (124)
37 PF10102 DUF2341: Domain of un 40.6 34 0.00073 22.2 2.7 23 11-40 19-41 (89)
38 PF13240 zinc_ribbon_2: zinc-r 40.2 9.6 0.00021 18.5 0.0 11 103-113 11-21 (23)
39 TIGR02024 FtcD glutamate formi 39.5 19 0.00042 28.7 1.7 45 12-56 155-205 (298)
40 PF13248 zf-ribbon_3: zinc-rib 36.4 12 0.00026 18.5 0.0 9 105-113 16-24 (26)
41 KOG0119 Splicing factor 1/bran 36.4 16 0.00035 31.3 0.8 18 107-124 287-304 (554)
42 PF08095 Toxin_25: Hefutoxin f 36.3 5.7 0.00012 19.0 -1.1 15 108-122 4-19 (22)
43 PF05687 DUF822: Plant protein 34.5 39 0.00083 24.3 2.4 31 36-66 39-69 (150)
44 PF14803 Nudix_N_2: Nudix N-te 32.1 18 0.00039 19.4 0.3 8 106-113 1-8 (34)
45 KOG4399 C2HC-type Zn-finger pr 32.0 21 0.00045 28.3 0.7 20 105-124 261-280 (325)
46 PF07643 DUF1598: Protein of u 31.1 74 0.0016 20.7 3.1 14 71-84 54-67 (84)
47 PF01485 IBR: IBR domain; Int 30.7 19 0.00041 20.9 0.2 18 104-121 47-64 (64)
48 KOG2673 Uncharacterized conser 29.9 25 0.00055 29.8 0.9 17 108-124 131-147 (485)
49 PF10100 DUF2338: Uncharacteri 28.7 68 0.0015 27.0 3.2 26 34-59 353-379 (429)
50 PF09297 zf-NADH-PPase: NADH p 28.5 25 0.00054 18.1 0.5 12 105-116 3-14 (32)
51 PF05191 ADK_lid: Adenylate ki 27.0 30 0.00064 18.7 0.6 15 106-120 2-16 (36)
52 smart00661 RPOL9 RNA polymeras 26.3 28 0.00061 19.6 0.5 11 106-116 1-11 (52)
53 KOG2932 E3 ubiquitin ligase in 24.7 23 0.00049 28.7 -0.2 31 100-131 102-136 (389)
54 COG4408 Uncharacterized protei 24.1 57 0.0012 27.0 1.9 41 19-59 336-381 (431)
55 KOG3794 CBF1-interacting corep 23.9 35 0.00075 28.5 0.7 17 107-123 126-144 (453)
56 PRK09698 D-allose kinase; Prov 23.8 1.2E+02 0.0026 23.3 3.8 36 34-69 82-118 (302)
57 PF06869 DUF1258: Protein of u 23.6 25 0.00055 27.5 -0.1 19 104-122 17-35 (258)
58 PF02150 RNA_POL_M_15KD: RNA p 23.1 37 0.00079 18.1 0.5 9 106-114 2-10 (35)
59 PF14259 RRM_6: RNA recognitio 22.9 1E+02 0.0022 17.8 2.6 32 33-65 1-32 (70)
60 PF14149 YhfH: YhfH-like prote 22.4 23 0.00049 19.5 -0.4 14 101-114 8-22 (37)
61 KOG0119 Splicing factor 1/bran 21.6 42 0.00091 28.9 0.8 19 106-124 262-280 (554)
62 PF02591 DUF164: Putative zinc 21.5 37 0.0008 19.7 0.3 12 103-114 44-55 (56)
63 PF05172 Nup35_RRM: Nup53/35/4 21.1 1.1E+02 0.0024 20.3 2.6 32 29-62 5-36 (100)
No 1
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=99.86 E-value=2.5e-23 Score=147.81 Aligned_cols=79 Identities=32% Similarity=0.668 Sum_probs=76.8
Q ss_pred CCeeeeCceEEEEeecCCCCCCccCcceeeeeeecCCCchhhhhHHHHHHHHhhcceEEEEecCCCccchhHHHHHHHH
Q 037799 1 MHFLTLNNYLTVQPWTPSFDVNKTDMEQVNVWIRLPGLAVHLYNRKILQKLGELVGIVIRIDPHTASSARGRFARIAVR 79 (131)
Q Consensus 1 ~PW~f~~~~l~l~~w~~~~~~~~~~~~~~~vWVri~~lP~~~~~~~~~~~i~~~iG~~l~vD~~t~~~~~~~~~RV~V~ 79 (131)
.||+|+|+.+++++|+|++++++..++++++|||++|||++||+++++++||+.+|+++++|.+|.+..+++||||||+
T Consensus 75 ~p~~~~~~~~~l~~W~~~~~~~~~~~~~~~vWVri~glP~~~~~~~~~~~i~~~iG~~i~vD~~t~~~~~~~~~Rv~V~ 153 (153)
T PF14111_consen 75 GPWNFNGHFLILQRWSPDFNPSEVKFEHIPVWVRIYGLPLHLWSEEILKAIGSKIGEPIEVDENTLKRTRLDFARVRVE 153 (153)
T ss_pred ccccccccchhhhhhcccccccccceeccchhhhhccCCHHHhhhHHHHHHHHhcCCeEEEEcCCCCcccccEEEEEEC
Confidence 5999999999999999999999999999999999999999999999999999999999999999999999999999985
No 2
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=99.65 E-value=8.4e-17 Score=95.16 Aligned_cols=44 Identities=39% Similarity=0.747 Sum_probs=39.7
Q ss_pred hhcCCCceEEEEEc---Ce--EeEEEEccCccccccccccccCcCcCCC
Q 037799 80 LSLDKPLVSQFVLD---GK--VQKVEYEGLPVICFTCGRYGHTFWTLDD 123 (131)
Q Consensus 80 id~~kpL~~~v~i~---g~--~~~v~YE~lp~~C~~Cg~~GH~~~~C~~ 123 (131)
+|+++||++++.++ |+ .+.|+|||||.||++||.+||+.++|++
T Consensus 1 id~~kPL~~~i~v~~~~g~~~~~~v~YE~lp~~C~~C~~~gH~~~~C~k 49 (49)
T PF14392_consen 1 IDVSKPLRREIKVKFPEGESFWVKVKYERLPRFCFHCGRIGHSDKECPK 49 (49)
T ss_pred CCCCCcccceEEEEeCCCcEEEEEEEECCcChhhcCCCCcCcCHhHcCC
Confidence 68999999998773 54 5899999999999999999999999985
No 3
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=97.37 E-value=9e-05 Score=34.73 Aligned_cols=17 Identities=35% Similarity=0.759 Sum_probs=15.7
Q ss_pred ccccccccccCcCcCCC
Q 037799 107 ICFTCGRYGHTFWTLDD 123 (131)
Q Consensus 107 ~C~~Cg~~GH~~~~C~~ 123 (131)
.|++||..||...+|++
T Consensus 2 ~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCPK 18 (18)
T ss_dssp BCTTTSCSSSCGCTSSS
T ss_pred cCcCCCCcCcccccCcc
Confidence 59999999999999984
No 4
>smart00343 ZnF_C2HC zinc finger.
Probab=94.19 E-value=0.02 Score=28.81 Aligned_cols=17 Identities=29% Similarity=0.774 Sum_probs=15.4
Q ss_pred ccccccccccCcCcCCC
Q 037799 107 ICFTCGRYGHTFWTLDD 123 (131)
Q Consensus 107 ~C~~Cg~~GH~~~~C~~ 123 (131)
.|+.||..||...+|+.
T Consensus 1 ~C~~CG~~GH~~~~C~~ 17 (26)
T smart00343 1 KCYNCGKEGHIARDCPK 17 (26)
T ss_pred CCccCCCCCcchhhCCc
Confidence 49999999999999983
No 5
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=93.51 E-value=0.028 Score=30.08 Aligned_cols=21 Identities=24% Similarity=0.586 Sum_probs=18.2
Q ss_pred cccccccccccCcCcCCCchh
Q 037799 106 VICFTCGRYGHTFWTLDDSHE 126 (131)
Q Consensus 106 ~~C~~Cg~~GH~~~~C~~~~~ 126 (131)
..|..|+.-||..+.|+.-.+
T Consensus 9 Y~C~~C~~~GH~i~dCP~~~P 29 (32)
T PF13696_consen 9 YVCHRCGQKGHWIQDCPTNKP 29 (32)
T ss_pred CEeecCCCCCccHhHCCCCCC
Confidence 489999999999999997443
No 6
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=93.03 E-value=0.043 Score=30.79 Aligned_cols=17 Identities=29% Similarity=0.571 Sum_probs=14.5
Q ss_pred ccccccccccCc--CcCCC
Q 037799 107 ICFTCGRYGHTF--WTLDD 123 (131)
Q Consensus 107 ~C~~Cg~~GH~~--~~C~~ 123 (131)
.|..||-+||.. +.||.
T Consensus 3 kC~~CG~~GH~~t~k~CP~ 21 (40)
T PF15288_consen 3 KCKNCGAFGHMRTNKRCPM 21 (40)
T ss_pred cccccccccccccCccCCC
Confidence 699999999987 67874
No 7
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=90.99 E-value=0.1 Score=38.91 Aligned_cols=17 Identities=29% Similarity=0.735 Sum_probs=9.6
Q ss_pred cccccccccccCcCcCC
Q 037799 106 VICFTCGRYGHTFWTLD 122 (131)
Q Consensus 106 ~~C~~Cg~~GH~~~~C~ 122 (131)
..|++||..||....|+
T Consensus 98 ~~C~~Cg~~GH~~~dC~ 114 (190)
T COG5082 98 KKCYNCGETGHLSRDCN 114 (190)
T ss_pred cccccccccCccccccC
Confidence 45555555555555553
No 8
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=88.61 E-value=0.19 Score=37.48 Aligned_cols=22 Identities=27% Similarity=0.576 Sum_probs=18.7
Q ss_pred EccCccccccccccccCcCcCC
Q 037799 101 YEGLPVICFTCGRYGHTFWTLD 122 (131)
Q Consensus 101 YE~lp~~C~~Cg~~GH~~~~C~ 122 (131)
+-.--.+|++||..||..+.|+
T Consensus 56 ~~~~~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 56 IREENPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred ccccccccchhcccCcccccCC
Confidence 3344579999999999999999
No 9
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=88.40 E-value=0.24 Score=28.09 Aligned_cols=19 Identities=32% Similarity=0.658 Sum_probs=17.1
Q ss_pred ccccccccccccCcCcCCC
Q 037799 105 PVICFTCGRYGHTFWTLDD 123 (131)
Q Consensus 105 p~~C~~Cg~~GH~~~~C~~ 123 (131)
-..|..|+..||-..+|+.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4589999999999999994
No 10
>KOG2560 consensus RNA splicing factor - Slu7p [RNA processing and modification]
Probab=83.11 E-value=0.3 Score=40.95 Aligned_cols=25 Identities=20% Similarity=0.268 Sum_probs=23.1
Q ss_pred cccccccccccCcCcCCCchhhhcC
Q 037799 106 VICFTCGRYGHTFWTLDDSHEKRQK 130 (131)
Q Consensus 106 ~~C~~Cg~~GH~~~~C~~~~~~~~~ 130 (131)
.+|-+||-+||..+.|-.-+.|+|+
T Consensus 113 GACeNCGAmtHk~KDCmERPRK~gA 137 (529)
T KOG2560|consen 113 GACENCGAMTHKVKDCMERPRKVGA 137 (529)
T ss_pred hhhhhhhhhhcchHHHhhcchhhcc
Confidence 5999999999999999999998875
No 11
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=80.99 E-value=0.62 Score=38.92 Aligned_cols=20 Identities=25% Similarity=0.413 Sum_probs=18.2
Q ss_pred cccccccccccCcCcCCCch
Q 037799 106 VICFTCGRYGHTFWTLDDSH 125 (131)
Q Consensus 106 ~~C~~Cg~~GH~~~~C~~~~ 125 (131)
.-|.+||-+||-...||++-
T Consensus 571 kGCayCgGLGHRItdCPKle 590 (610)
T KOG0341|consen 571 KGCAYCGGLGHRITDCPKLE 590 (610)
T ss_pred cccccccCCCcccccCchhh
Confidence 57999999999999999874
No 12
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=79.94 E-value=0.95 Score=31.89 Aligned_cols=19 Identities=32% Similarity=0.723 Sum_probs=15.6
Q ss_pred ccccccccccccCcCcCCC
Q 037799 105 PVICFTCGRYGHTFWTLDD 123 (131)
Q Consensus 105 p~~C~~Cg~~GH~~~~C~~ 123 (131)
+..|++||..||...+|++
T Consensus 129 ~~~C~~Cg~~gH~~~dCp~ 147 (148)
T PTZ00368 129 DKTCYNCGQTGHLSRDCPD 147 (148)
T ss_pred CCccccCCCcCcccccCCC
Confidence 4688888888888888875
No 13
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=79.42 E-value=0.8 Score=35.36 Aligned_cols=24 Identities=25% Similarity=0.495 Sum_probs=19.3
Q ss_pred EEEccCccccccccccccCcCcCCC
Q 037799 99 VEYEGLPVICFTCGRYGHTFWTLDD 123 (131)
Q Consensus 99 v~YE~lp~~C~~Cg~~GH~~~~C~~ 123 (131)
+.+.+- .+|+.||..||..+.|+.
T Consensus 138 ~~~~~~-~~Cy~Cg~~GH~s~~C~~ 161 (261)
T KOG4400|consen 138 VDGPKP-AKCYSCGEQGHISDDCPE 161 (261)
T ss_pred ccCCCC-CccCCCCcCCcchhhCCC
Confidence 344444 679999999999999994
No 14
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=76.20 E-value=1.3 Score=24.24 Aligned_cols=21 Identities=24% Similarity=0.343 Sum_probs=12.6
Q ss_pred ccccccccccccCcCcCCCch
Q 037799 105 PVICFTCGRYGHTFWTLDDSH 125 (131)
Q Consensus 105 p~~C~~Cg~~GH~~~~C~~~~ 125 (131)
|..|+.||+-.|-..+|....
T Consensus 2 ~~~CprC~kg~Hwa~~C~sk~ 22 (36)
T PF14787_consen 2 PGLCPRCGKGFHWASECRSKT 22 (36)
T ss_dssp --C-TTTSSSCS-TTT---TC
T ss_pred CccCcccCCCcchhhhhhhhh
Confidence 568999999999999998543
No 15
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=75.88 E-value=1 Score=32.54 Aligned_cols=31 Identities=26% Similarity=0.678 Sum_probs=22.8
Q ss_pred CCCceEEEEEcCeE-eEEEEccCcccccccccc
Q 037799 83 DKPLVSQFVLDGKV-QKVEYEGLPVICFTCGRY 114 (131)
Q Consensus 83 ~kpL~~~v~i~g~~-~~v~YE~lp~~C~~Cg~~ 114 (131)
+.|++....++|.. +.-.|+ .|.+|++||.-
T Consensus 46 ~~~IrG~y~v~gv~~~g~~~~-~PsYC~~CGkp 77 (158)
T PF10083_consen 46 STPIRGDYHVEGVFGLGGHYE-APSYCHNCGKP 77 (158)
T ss_pred CCCCCCceecCCeeeeCCCCC-CChhHHhCCCC
Confidence 55666666666664 457888 99999999963
No 16
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=75.22 E-value=1.4 Score=35.27 Aligned_cols=19 Identities=26% Similarity=0.477 Sum_probs=17.4
Q ss_pred cccccccccccCcCcCCCc
Q 037799 106 VICFTCGRYGHTFWTLDDS 124 (131)
Q Consensus 106 ~~C~~Cg~~GH~~~~C~~~ 124 (131)
.-|+.||+-||-.++|+..
T Consensus 161 ~~cyrcGkeghwskEcP~~ 179 (346)
T KOG0109|consen 161 SGCYRCGKEGHWSKECPVD 179 (346)
T ss_pred HHheeccccccccccCCcc
Confidence 5799999999999999965
No 17
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=73.08 E-value=1.4 Score=35.33 Aligned_cols=19 Identities=26% Similarity=0.746 Sum_probs=17.2
Q ss_pred cccccccccccCcCcCCCc
Q 037799 106 VICFTCGRYGHTFWTLDDS 124 (131)
Q Consensus 106 ~~C~~Cg~~GH~~~~C~~~ 124 (131)
..|+.||.-||-.++|+.-
T Consensus 177 Y~CyRCGqkgHwIqnCpTN 195 (427)
T COG5222 177 YVCYRCGQKGHWIQNCPTN 195 (427)
T ss_pred eeEEecCCCCchhhcCCCC
Confidence 4899999999999999953
No 18
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.37 E-value=1.4 Score=30.99 Aligned_cols=30 Identities=23% Similarity=0.653 Sum_probs=19.3
Q ss_pred CCceEEEEEcCeE-eEEEEccCcccccccccc
Q 037799 84 KPLVSQFVLDGKV-QKVEYEGLPVICFTCGRY 114 (131)
Q Consensus 84 kpL~~~v~i~g~~-~~v~YE~lp~~C~~Cg~~ 114 (131)
-|++....++|.. +-=.|| .|.||.+||.-
T Consensus 47 asirgd~~vegvlglg~dye-~psfchncgs~ 77 (160)
T COG4306 47 ASIRGDYYVEGVLGLGGDYE-PPSFCHNCGSR 77 (160)
T ss_pred CcccccceeeeeeccCCCCC-CcchhhcCCCC
Confidence 3444444555542 444777 89999999963
No 19
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=71.67 E-value=3.1 Score=33.40 Aligned_cols=73 Identities=16% Similarity=0.263 Sum_probs=50.5
Q ss_pred CCCCccCcceeeeeeecCCCchhhhhHHHHHHHHhhcceEEEEecCCCccchhHHHHHHHHhhcCCCceE-EEEEcCe
Q 037799 19 FDVNKTDMEQVNVWIRLPGLAVHLYNRKILQKLGELVGIVIRIDPHTASSARGRFARIAVRLSLDKPLVS-QFVLDGK 95 (131)
Q Consensus 19 ~~~~~~~~~~~~vWVri~~lP~~~~~~~~~~~i~~~iG~~l~vD~~t~~~~~~~~~RV~V~id~~kpL~~-~v~i~g~ 95 (131)
..+.+...+-.+.||.++|.|.. ...++...-+..|++++.-.. .+.+|. ++|--=.++..|.|.+ +.+++|.
T Consensus 186 s~pte~~~d~~D~WVTVfGFppg--~~s~vL~~F~~cG~Vvkhv~~-~ngNwM-hirYssr~~A~KALskng~ii~g~ 259 (350)
T KOG4285|consen 186 SQPTEEEADAADTWVTVFGFPPG--QVSIVLNLFSRCGEVVKHVTP-SNGNWM-HIRYSSRTHAQKALSKNGTIIDGD 259 (350)
T ss_pred ccccccccccccceEEEeccCcc--chhHHHHHHHhhCeeeeeecC-CCCceE-EEEecchhHHHHhhhhcCeeeccc
Confidence 33445566677899999999997 556788888999999987665 333333 3333446788888876 4555543
No 20
>PLN00032 DNA-directed RNA polymerase; Provisional
Probab=68.03 E-value=2.2 Score=26.87 Aligned_cols=14 Identities=57% Similarity=1.426 Sum_probs=10.8
Q ss_pred Ccccccccccc-ccC
Q 037799 104 LPVICFTCGRY-GHT 117 (131)
Q Consensus 104 lp~~C~~Cg~~-GH~ 117 (131)
+|-.||.||++ ||.
T Consensus 3 iPVRCFTCGkvig~~ 17 (71)
T PLN00032 3 IPVRCFTCGKVIGNK 17 (71)
T ss_pred CceeecCCCCCcHHH
Confidence 58899999974 544
No 21
>PRK04016 DNA-directed RNA polymerase subunit N; Provisional
Probab=65.56 E-value=2.6 Score=25.84 Aligned_cols=13 Identities=54% Similarity=1.357 Sum_probs=10.3
Q ss_pred Ccccccccccc-cc
Q 037799 104 LPVICFTCGRY-GH 116 (131)
Q Consensus 104 lp~~C~~Cg~~-GH 116 (131)
+|-.||.||++ ||
T Consensus 3 iPvRCFTCGkvi~~ 16 (62)
T PRK04016 3 IPVRCFTCGKVIAE 16 (62)
T ss_pred CCeEecCCCCChHH
Confidence 58899999974 44
No 22
>PF01194 RNA_pol_N: RNA polymerases N / 8 kDa subunit; InterPro: IPR000268 In eukaryotes, there are three different forms of DNA-dependent RNA polymerases (2.7.7.6 from EC) transcribing different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. In archaebacteria, there is generally a single form of RNA polymerase which also consists of an oligomeric assemblage of 10 to 13 polypeptides. Archaebacterial subunit N (gene rpoN) [] is a small protein of about 8 kDa, it is evolutionary related [] to a 8.3 kDa component shared by all three forms of eukaryotic RNA polymerases (gene RPB10 in yeast and POLR2J in mammals) as well as to African swine fever virus (ASFV) protein CP80R []. There is a conserved region which is located at the N-terminal extremity of these polymerase subunits; this region contains two cysteines that binds a zinc ion [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_N 3HKZ_N 1EF4_A 3H0G_V 2Y0S_N 2R92_J 3M4O_J 3S2D_J 1R9S_J 1Y1W_J ....
Probab=65.52 E-value=2.8 Score=25.55 Aligned_cols=14 Identities=57% Similarity=1.426 Sum_probs=9.1
Q ss_pred Ccccccccccc-ccC
Q 037799 104 LPVICFTCGRY-GHT 117 (131)
Q Consensus 104 lp~~C~~Cg~~-GH~ 117 (131)
+|-.||.||++ ||.
T Consensus 3 iPVRCFTCGkvi~~~ 17 (60)
T PF01194_consen 3 IPVRCFTCGKVIGNK 17 (60)
T ss_dssp -SSS-STTTSBTCGH
T ss_pred CceecCCCCCChhHh
Confidence 58899999974 443
No 23
>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]
Probab=65.25 E-value=2.9 Score=36.81 Aligned_cols=20 Identities=25% Similarity=0.401 Sum_probs=16.2
Q ss_pred cccccccccccC--cCcCCCch
Q 037799 106 VICFTCGRYGHT--FWTLDDSH 125 (131)
Q Consensus 106 ~~C~~Cg~~GH~--~~~C~~~~ 125 (131)
..|.+||.+||- .+.||...
T Consensus 938 r~C~nCGQvGHmkTNK~CP~f~ 959 (968)
T COG5179 938 RTCGNCGQVGHMKTNKACPKFS 959 (968)
T ss_pred eecccccccccccccccCcccc
Confidence 589999999995 56788654
No 24
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=65.19 E-value=2.8 Score=29.42 Aligned_cols=19 Identities=26% Similarity=0.657 Sum_probs=16.1
Q ss_pred cccccccccccCcCcCCCc
Q 037799 106 VICFTCGRYGHTFWTLDDS 124 (131)
Q Consensus 106 ~~C~~Cg~~GH~~~~C~~~ 124 (131)
..|+.|+..||..+.|+..
T Consensus 104 ~~C~~Cg~~gH~~~~C~~~ 122 (148)
T PTZ00368 104 RACYNCGGEGHISRDCPNA 122 (148)
T ss_pred hhhcccCcCCcchhcCCCc
Confidence 4799999999999999875
No 25
>COG1644 RPB10 DNA-directed RNA polymerase, subunit N (RpoN/RPB10) [Transcription]
Probab=63.01 E-value=3 Score=25.58 Aligned_cols=14 Identities=57% Similarity=1.526 Sum_probs=10.8
Q ss_pred Cccccccccc-cccC
Q 037799 104 LPVICFTCGR-YGHT 117 (131)
Q Consensus 104 lp~~C~~Cg~-~GH~ 117 (131)
.|-.||.||+ +||.
T Consensus 3 iPiRCFsCGkvi~~~ 17 (63)
T COG1644 3 IPVRCFSCGKVIGHK 17 (63)
T ss_pred CceEeecCCCCHHHH
Confidence 5889999997 4554
No 26
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=61.16 E-value=3.4 Score=31.84 Aligned_cols=24 Identities=25% Similarity=0.625 Sum_probs=20.3
Q ss_pred CccccccccccccCcCcCCCchhh
Q 037799 104 LPVICFTCGRYGHTFWTLDDSHEK 127 (131)
Q Consensus 104 lp~~C~~Cg~~GH~~~~C~~~~~~ 127 (131)
...+|++|+..||....|+...++
T Consensus 91 ~~~~c~~C~~~gH~~~~c~~~~~~ 114 (261)
T KOG4400|consen 91 IAAACFNCGEGGHIERDCPEAGKE 114 (261)
T ss_pred cchhhhhCCCCccchhhCCcccCc
Confidence 457999999999999999976554
No 27
>KOG3497 consensus DNA-directed RNA polymerase, subunit RPB10 [Transcription]
Probab=60.89 E-value=3 Score=25.57 Aligned_cols=11 Identities=55% Similarity=1.567 Sum_probs=9.4
Q ss_pred Ccccccccccc
Q 037799 104 LPVICFTCGRY 114 (131)
Q Consensus 104 lp~~C~~Cg~~ 114 (131)
+|..||.||++
T Consensus 3 iPiRCFtCGKv 13 (69)
T KOG3497|consen 3 IPIRCFTCGKV 13 (69)
T ss_pred eeeEeeecccc
Confidence 58899999985
No 28
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=60.80 E-value=5.6 Score=32.32 Aligned_cols=42 Identities=7% Similarity=0.178 Sum_probs=32.1
Q ss_pred ceeeeeeecCCCchhhhhHHHHHHHHhhcceEEEEecCCCccc
Q 037799 27 EQVNVWIRLPGLAVHLYNRKILQKLGELVGIVIRIDPHTASSA 69 (131)
Q Consensus 27 ~~~~vWVri~~lP~~~~~~~~~~~i~~~iG~~l~vD~~t~~~~ 69 (131)
+..|=-+.+-|||+.|++.+. +..-.+.|.+++|+.-.+.+.
T Consensus 93 ~~~pkRLhVSNIPFrFRdpDL-~aMF~kfG~VldVEIIfNERG 134 (376)
T KOG0125|consen 93 KDTPKRLHVSNIPFRFRDPDL-RAMFEKFGKVLDVEIIFNERG 134 (376)
T ss_pred CCCCceeEeecCCccccCccH-HHHHHhhCceeeEEEEeccCC
Confidence 345666788999999999985 555678899999987765443
No 29
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=59.58 E-value=4.4 Score=36.47 Aligned_cols=27 Identities=26% Similarity=0.550 Sum_probs=23.2
Q ss_pred EEEEccCccccccccccccCcCcCCCc
Q 037799 98 KVEYEGLPVICFTCGRYGHTFWTLDDS 124 (131)
Q Consensus 98 ~v~YE~lp~~C~~Cg~~GH~~~~C~~~ 124 (131)
..-+..-|.-|+-||..||..++|...
T Consensus 253 E~~~P~~~~~C~~cgq~gh~~~dc~g~ 279 (931)
T KOG2044|consen 253 EEFFPNKPRRCFLCGQTGHEAKDCEGK 279 (931)
T ss_pred eeecCCCcccchhhcccCCcHhhcCCc
Confidence 344577888999999999999999976
No 30
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=50.89 E-value=7.6 Score=23.09 Aligned_cols=24 Identities=21% Similarity=0.245 Sum_probs=18.9
Q ss_pred CccccccccccccCc----CcCCCchhh
Q 037799 104 LPVICFTCGRYGHTF----WTLDDSHEK 127 (131)
Q Consensus 104 lp~~C~~Cg~~GH~~----~~C~~~~~~ 127 (131)
-..+|+.||.---+. .+||...+.
T Consensus 26 ~~~YC~~Cg~~Y~d~~dL~~~CPG~t~~ 53 (55)
T PF13821_consen 26 EHNYCFWCGTKYDDEEDLERNCPGPTED 53 (55)
T ss_pred hCceeeeeCCccCCHHHHHhCCCCCCcc
Confidence 457999999988877 789877653
No 31
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=50.06 E-value=8.8 Score=22.38 Aligned_cols=24 Identities=21% Similarity=0.241 Sum_probs=17.4
Q ss_pred EEEE-ccCccccccccccccCcCcC
Q 037799 98 KVEY-EGLPVICFTCGRYGHTFWTL 121 (131)
Q Consensus 98 ~v~Y-E~lp~~C~~Cg~~GH~~~~C 121 (131)
.+.- .--..||+.|+.-.|....|
T Consensus 40 ~v~C~~C~~~fC~~C~~~~H~~~~C 64 (64)
T smart00647 40 RVTCPKCGFSFCFRCKVPWHSPVSC 64 (64)
T ss_pred eeECCCCCCeECCCCCCcCCCCCCC
Confidence 3444 33467999999999987666
No 32
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=50.03 E-value=33 Score=19.88 Aligned_cols=33 Identities=21% Similarity=0.529 Sum_probs=26.0
Q ss_pred eeeeecCCCchhhhhHHHHHHHHhhcceEEEEecC
Q 037799 30 NVWIRLPGLAVHLYNRKILQKLGELVGIVIRIDPH 64 (131)
Q Consensus 30 ~vWVri~~lP~~~~~~~~~~~i~~~iG~~l~vD~~ 64 (131)
+-||-+.|.|.+.. +.++..+.+ +|++.++...
T Consensus 1 ~~wI~V~Gf~~~~~-~~vl~~F~~-fGeI~~~~~~ 33 (53)
T PF14605_consen 1 STWISVSGFPPDLA-EEVLEHFAS-FGEIVDIYVP 33 (53)
T ss_pred CcEEEEEeECchHH-HHHHHHHHh-cCCEEEEEcC
Confidence 35999999998865 466777775 9999988776
No 33
>KOG2985 consensus Uncharacterized conserved protein [Function unknown]
Probab=45.70 E-value=5.5 Score=31.23 Aligned_cols=19 Identities=32% Similarity=0.669 Sum_probs=16.6
Q ss_pred ccccccccccccCcCcCCC
Q 037799 105 PVICFTCGRYGHTFWTLDD 123 (131)
Q Consensus 105 p~~C~~Cg~~GH~~~~C~~ 123 (131)
..-|..||..||...+|.-
T Consensus 81 sg~ckRcg~~ghl~fqcRn 99 (306)
T KOG2985|consen 81 SGSCKRCGRVGHLTFQCRN 99 (306)
T ss_pred ccchhhccccchhhHHHhh
Confidence 3579999999999999984
No 34
>COG1940 NagC Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=44.03 E-value=17 Score=28.28 Aligned_cols=75 Identities=19% Similarity=0.307 Sum_probs=45.0
Q ss_pred HHHHHHHHhhcceEEEEecCCCccchhHHHH-------HHHHhhcCCCceEEEEEcCeE-------------eEEEEccC
Q 037799 45 RKILQKLGELVGIVIRIDPHTASSARGRFAR-------IAVRLSLDKPLVSQFVLDGKV-------------QKVEYEGL 104 (131)
Q Consensus 45 ~~~~~~i~~~iG~~l~vD~~t~~~~~~~~~R-------V~V~id~~kpL~~~v~i~g~~-------------~~v~YE~l 104 (131)
.++.+.+.+.+|.|+.++.+.+-.+.+...+ .-+-+.++.-+=..+.++|+. ..+....-
T Consensus 96 ~~l~~~L~~~~~~Pv~veNDan~aalaE~~~g~~~~~~~~~~i~~gtGIG~giv~~g~l~~G~~g~age~Gh~~v~~~g~ 175 (314)
T COG1940 96 VDLAEELEARLGLPVFVENDANAAALAEAWFGAGRGIDDVVYITLGTGIGGGIIVNGKLLRGANGNAGEIGHMVVDPDGE 175 (314)
T ss_pred ccHHHHHHHHHCCCEEEecHHHHHHHHHHHhCCCCCCCCEEEEEEccceeEEEEECCEEeecCCCccccccceEECCCCc
Confidence 4578899999999999998875444433321 112223333333344445442 23433333
Q ss_pred ccccccccccccCcCcCCC
Q 037799 105 PVICFTCGRYGHTFWTLDD 123 (131)
Q Consensus 105 p~~C~~Cg~~GH~~~~C~~ 123 (131)
| .||..|+.+..+..
T Consensus 176 ---c-~cG~~GclE~~as~ 190 (314)
T COG1940 176 ---C-GCGRRGCLETYASG 190 (314)
T ss_pred ---c-CCCCCCchHHhccH
Confidence 9 99999998887763
No 35
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=42.83 E-value=16 Score=21.39 Aligned_cols=17 Identities=24% Similarity=0.462 Sum_probs=12.0
Q ss_pred EeEEEE---ccCcccccccc
Q 037799 96 VQKVEY---EGLPVICFTCG 112 (131)
Q Consensus 96 ~~~v~Y---E~lp~~C~~Cg 112 (131)
.|.|+. .++..||..||
T Consensus 7 yY~v~~~kv~rk~~~CPrCG 26 (51)
T COG1998 7 YYEVDDEKVKRKNRFCPRCG 26 (51)
T ss_pred EEEEcCCcEEEccccCCCCC
Confidence 345555 45668999999
No 36
>PF05515 Viral_NABP: Viral nucleic acid binding ; InterPro: IPR008891 This family is common to ssRNA positive-strand viruses and are commonly described as nucleic acid binding proteins (NABP).
Probab=41.98 E-value=13 Score=25.88 Aligned_cols=19 Identities=37% Similarity=0.682 Sum_probs=16.5
Q ss_pred cccccccccccCcCcCCCc
Q 037799 106 VICFTCGRYGHTFWTLDDS 124 (131)
Q Consensus 106 ~~C~~Cg~~GH~~~~C~~~ 124 (131)
..|+.||.+-|....|...
T Consensus 63 ~~C~~CG~~l~~~~~C~~~ 81 (124)
T PF05515_consen 63 NRCFKCGRYLHNNGNCRRN 81 (124)
T ss_pred CccccccceeecCCcCCCc
Confidence 4799999999999999854
No 37
>PF10102 DUF2341: Domain of unknown function (DUF2341); InterPro: IPR018765 This domain of unknown function is found in various bacterial proteins, including MotA/TolQ/ExbB proton channels and other transport proteins.
Probab=40.59 E-value=34 Score=22.22 Aligned_cols=23 Identities=26% Similarity=0.890 Sum_probs=17.2
Q ss_pred EEEeecCCCCCCccCcceeeeeeecCCCch
Q 037799 11 TVQPWTPSFDVNKTDMEQVNVWIRLPGLAV 40 (131)
Q Consensus 11 ~l~~w~~~~~~~~~~~~~~~vWVri~~lP~ 40 (131)
-++.|++.. ...-+|||+..+|.
T Consensus 19 wIE~wd~~~-------~~A~iWVkvp~i~~ 41 (89)
T PF10102_consen 19 WIESWDPTN-------EQALIWVKVPSIPA 41 (89)
T ss_pred EEEECCCCC-------CeEEEEEECCCCCC
Confidence 467777642 37889999999983
No 38
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=40.21 E-value=9.6 Score=18.49 Aligned_cols=11 Identities=27% Similarity=0.661 Sum_probs=7.8
Q ss_pred cCccccccccc
Q 037799 103 GLPVICFTCGR 113 (131)
Q Consensus 103 ~lp~~C~~Cg~ 113 (131)
.--.||.+||.
T Consensus 11 ~~~~fC~~CG~ 21 (23)
T PF13240_consen 11 DDAKFCPNCGT 21 (23)
T ss_pred CcCcchhhhCC
Confidence 34568999984
No 39
>TIGR02024 FtcD glutamate formiminotransferase. This model covers enzymes from metazoa as well as gram-positive bacteria and archaea. In humans, deficiency of this enzyme results in a disease phenotype. The crystal structure of the enzyme has been studied in the context of the catalytic mechanism.
Probab=39.55 E-value=19 Score=28.73 Aligned_cols=45 Identities=13% Similarity=0.268 Sum_probs=35.0
Q ss_pred EEeecCCCCCCccCc----ce--eeeeeecCCCchhhhhHHHHHHHHhhcc
Q 037799 12 VQPWTPSFDVNKTDM----EQ--VNVWIRLPGLAVHLYNRKILQKLGELVG 56 (131)
Q Consensus 12 l~~w~~~~~~~~~~~----~~--~~vWVri~~lP~~~~~~~~~~~i~~~iG 56 (131)
..+|.||+.|+...- .. ..-|+--||+|+.--+.+++++||..|.
T Consensus 155 ~~~~~PD~Gp~~~~p~~Gat~vGAr~~liayNV~L~t~d~~~a~~IAk~vR 205 (298)
T TIGR02024 155 DPKWKPDFGPSEFNPKAGATATGARKFLIAFNVNLGTSNLEIAKKIAKAIR 205 (298)
T ss_pred CCCCCCCCCCCCCCCCCCeEEEecCCceEEEEEeecCCCHHHHHHHHHHhh
Confidence 468999999976421 11 2359999999999999999999998774
No 40
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=36.44 E-value=12 Score=18.50 Aligned_cols=9 Identities=33% Similarity=0.936 Sum_probs=6.6
Q ss_pred ccccccccc
Q 037799 105 PVICFTCGR 113 (131)
Q Consensus 105 p~~C~~Cg~ 113 (131)
-.||.+||.
T Consensus 16 ~~fC~~CG~ 24 (26)
T PF13248_consen 16 AKFCPNCGA 24 (26)
T ss_pred cccChhhCC
Confidence 468888874
No 41
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=36.38 E-value=16 Score=31.28 Aligned_cols=18 Identities=28% Similarity=0.599 Sum_probs=16.8
Q ss_pred ccccccccccCcCcCCCc
Q 037799 107 ICFTCGRYGHTFWTLDDS 124 (131)
Q Consensus 107 ~C~~Cg~~GH~~~~C~~~ 124 (131)
.|+.||-+||....|+.-
T Consensus 287 ~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 287 VCKICGPLGHISIDCKVN 304 (554)
T ss_pred cccccCCcccccccCCCc
Confidence 899999999999999865
No 42
>PF08095 Toxin_25: Hefutoxin family; InterPro: IPR012630 This family consists of the hefutoxins that are found in the venom of the scorpion Heterometrus fulvipes (Indian black scorpion). These toxins, kappa-hefutoxin1 and kappa-hefutoxin2, exhibit no homology to any known toxins. The hefutoxins are potassium channel toxins [].; GO: 0009405 pathogenesis, 0005576 extracellular region; PDB: 1HP9_A.
Probab=36.30 E-value=5.7 Score=19.02 Aligned_cols=15 Identities=33% Similarity=0.711 Sum_probs=11.4
Q ss_pred cc-cccccccCcCcCC
Q 037799 108 CF-TCGRYGHTFWTLD 122 (131)
Q Consensus 108 C~-~Cg~~GH~~~~C~ 122 (131)
|+ +|-+-||..+.|.
T Consensus 4 cyrscwk~g~deetck 19 (22)
T PF08095_consen 4 CYRSCWKAGHDEETCK 19 (22)
T ss_dssp TTTHHHHHHS-TTHHH
T ss_pred hHHHHHHccCcHHHHH
Confidence 55 6889999999885
No 43
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=34.52 E-value=39 Score=24.29 Aligned_cols=31 Identities=26% Similarity=0.243 Sum_probs=28.3
Q ss_pred CCCchhhhhHHHHHHHHhhcceEEEEecCCC
Q 037799 36 PGLAVHLYNRKILQKLGELVGIVIRIDPHTA 66 (131)
Q Consensus 36 ~~lP~~~~~~~~~~~i~~~iG~~l~vD~~t~ 66 (131)
|.||-+.-+.+++++++..-|=+++-|-.|.
T Consensus 39 y~Lp~~aD~NeVLkALc~eAGw~Ve~DGTty 69 (150)
T PF05687_consen 39 YKLPKHADNNEVLKALCREAGWTVEPDGTTY 69 (150)
T ss_pred CCCCCcCCHHHHHHHHHHhCCEEEccCCCee
Confidence 5799999999999999999999999888774
No 44
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=32.14 E-value=18 Score=19.35 Aligned_cols=8 Identities=38% Similarity=1.003 Sum_probs=3.1
Q ss_pred cccccccc
Q 037799 106 VICFTCGR 113 (131)
Q Consensus 106 ~~C~~Cg~ 113 (131)
+||..||.
T Consensus 1 kfC~~CG~ 8 (34)
T PF14803_consen 1 KFCPQCGG 8 (34)
T ss_dssp -B-TTT--
T ss_pred CccccccC
Confidence 47777774
No 45
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=32.01 E-value=21 Score=28.28 Aligned_cols=20 Identities=30% Similarity=0.496 Sum_probs=17.6
Q ss_pred ccccccccccccCcCcCCCc
Q 037799 105 PVICFTCGRYGHTFWTLDDS 124 (131)
Q Consensus 105 p~~C~~Cg~~GH~~~~C~~~ 124 (131)
-.+|+.||.+.|....|+..
T Consensus 261 ~~~C~iC~~~~~~R~~C~~~ 280 (325)
T KOG4399|consen 261 KHGCFICGELDHKRSTCPNI 280 (325)
T ss_pred hcceeeccccccccccCccH
Confidence 36999999999999999864
No 46
>PF07643 DUF1598: Protein of unknown function (DUF1598); InterPro: IPR011487 This is a family of Rhodopirellula baltica hypothetical proteins of about 500 amino acids in length.
Probab=31.09 E-value=74 Score=20.68 Aligned_cols=14 Identities=29% Similarity=0.439 Sum_probs=11.5
Q ss_pred hHHHHHHHHhhcCC
Q 037799 71 GRFARIAVRLSLDK 84 (131)
Q Consensus 71 ~~~~RV~V~id~~k 84 (131)
-+||||+|+-|-.-
T Consensus 54 sh~ArvLVeADyrM 67 (84)
T PF07643_consen 54 SHFARVLVEADYRM 67 (84)
T ss_pred cHHHHHHHHhhhHH
Confidence 47999999998654
No 47
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=30.72 E-value=19 Score=20.86 Aligned_cols=18 Identities=33% Similarity=0.443 Sum_probs=12.8
Q ss_pred CccccccccccccCcCcC
Q 037799 104 LPVICFTCGRYGHTFWTL 121 (131)
Q Consensus 104 lp~~C~~Cg~~GH~~~~C 121 (131)
-..||+.|+.--|....|
T Consensus 47 ~~~fC~~C~~~~H~~~~C 64 (64)
T PF01485_consen 47 GTEFCFKCGEPWHEGVTC 64 (64)
T ss_dssp CSEECSSSTSESCTTS-H
T ss_pred CCcCccccCcccCCCCCC
Confidence 346888998888876554
No 48
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=29.86 E-value=25 Score=29.75 Aligned_cols=17 Identities=29% Similarity=0.753 Sum_probs=16.1
Q ss_pred cccccccccCcCcCCCc
Q 037799 108 CFTCGRYGHTFWTLDDS 124 (131)
Q Consensus 108 C~~Cg~~GH~~~~C~~~ 124 (131)
||+||-.-|+...|+..
T Consensus 131 CFNC~g~~hsLrdC~rp 147 (485)
T KOG2673|consen 131 CFNCGGTPHSLRDCPRP 147 (485)
T ss_pred ccccCCCCCccccCCCc
Confidence 89999999999999976
No 49
>PF10100 DUF2338: Uncharacterized protein conserved in bacteria (DUF2338); InterPro: IPR016935 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=28.72 E-value=68 Score=26.97 Aligned_cols=26 Identities=23% Similarity=0.454 Sum_probs=22.8
Q ss_pred ecCCCchh-hhhHHHHHHHHhhcceEE
Q 037799 34 RLPGLAVH-LYNRKILQKLGELVGIVI 59 (131)
Q Consensus 34 ri~~lP~~-~~~~~~~~~i~~~iG~~l 59 (131)
+|+.+|.+ |+.-++++.||+.+|...
T Consensus 353 ~iPRmP~EDy~r~~~i~~la~~l~v~~ 379 (429)
T PF10100_consen 353 DIPRMPKEDYYRLKIIQGLARALNVSC 379 (429)
T ss_pred cCCCCCHHHHHHHHHHHHHHHHhCCCC
Confidence 68999998 888899999999998743
No 50
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=28.51 E-value=25 Score=18.10 Aligned_cols=12 Identities=25% Similarity=0.498 Sum_probs=6.1
Q ss_pred cccccccccccc
Q 037799 105 PVICFTCGRYGH 116 (131)
Q Consensus 105 p~~C~~Cg~~GH 116 (131)
..||..||---+
T Consensus 3 ~rfC~~CG~~t~ 14 (32)
T PF09297_consen 3 HRFCGRCGAPTK 14 (32)
T ss_dssp TSB-TTT--BEE
T ss_pred CcccCcCCcccc
Confidence 468999986543
No 51
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=26.98 E-value=30 Score=18.66 Aligned_cols=15 Identities=40% Similarity=0.744 Sum_probs=12.2
Q ss_pred cccccccccccCcCc
Q 037799 106 VICFTCGRYGHTFWT 120 (131)
Q Consensus 106 ~~C~~Cg~~GH~~~~ 120 (131)
..|..||.+-|....
T Consensus 2 r~C~~Cg~~Yh~~~~ 16 (36)
T PF05191_consen 2 RICPKCGRIYHIEFN 16 (36)
T ss_dssp EEETTTTEEEETTTB
T ss_pred cCcCCCCCccccccC
Confidence 379999999998654
No 52
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=26.30 E-value=28 Score=19.55 Aligned_cols=11 Identities=27% Similarity=0.567 Sum_probs=7.4
Q ss_pred ccccccccccc
Q 037799 106 VICFTCGRYGH 116 (131)
Q Consensus 106 ~~C~~Cg~~GH 116 (131)
.||..||.+=.
T Consensus 1 ~FCp~Cg~~l~ 11 (52)
T smart00661 1 KFCPKCGNMLI 11 (52)
T ss_pred CCCCCCCCccc
Confidence 37888876543
No 53
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=24.67 E-value=23 Score=28.75 Aligned_cols=31 Identities=23% Similarity=0.410 Sum_probs=24.2
Q ss_pred EEccC----ccccccccccccCcCcCCCchhhhcCC
Q 037799 100 EYEGL----PVICFTCGRYGHTFWTLDDSHEKRQKI 131 (131)
Q Consensus 100 ~YE~l----p~~C~~Cg~~GH~~~~C~~~~~~~~~~ 131 (131)
-|-|+ +.||..|.+. |..+.|+.=.+++|+|
T Consensus 102 IYGRmIPCkHvFCl~CAr~-~~dK~Cp~C~d~VqrI 136 (389)
T KOG2932|consen 102 IYGRMIPCKHVFCLECARS-DSDKICPLCDDRVQRI 136 (389)
T ss_pred eeecccccchhhhhhhhhc-CccccCcCcccHHHHH
Confidence 35554 3699999876 6688999999999876
No 54
>COG4408 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.10 E-value=57 Score=26.95 Aligned_cols=41 Identities=22% Similarity=0.387 Sum_probs=29.6
Q ss_pred CCCCccCcceee----eeeecCCCchh-hhhHHHHHHHHhhcceEE
Q 037799 19 FDVNKTDMEQVN----VWIRLPGLAVH-LYNRKILQKLGELVGIVI 59 (131)
Q Consensus 19 ~~~~~~~~~~~~----vWVri~~lP~~-~~~~~~~~~i~~~iG~~l 59 (131)
|+.|.++|.++- --.+++.+|++ |+.-.++..||+.+|.+.
T Consensus 336 fDFSAVpfr~Vy~de~gl~~lPRvP~EDy~kla~iq~la~~l~v~~ 381 (431)
T COG4408 336 FDFSAVPFRTVYQDENGLWHLPRVPLEDYYKLATIQLLAGALDVVM 381 (431)
T ss_pred ccccccceeeeeecccccccCCCCcHHHHHHHHHHHHHHHhcCCCC
Confidence 344444444432 23689999999 888899999999998764
No 55
>KOG3794 consensus CBF1-interacting corepressor CIR and related proteins [Transcription]
Probab=23.93 E-value=35 Score=28.50 Aligned_cols=17 Identities=24% Similarity=0.544 Sum_probs=14.1
Q ss_pred ccccccccccC--cCcCCC
Q 037799 107 ICFTCGRYGHT--FWTLDD 123 (131)
Q Consensus 107 ~C~~Cg~~GH~--~~~C~~ 123 (131)
.|-.|+.+||. ..+|+.
T Consensus 126 rC~kChkwGH~n~DreCpl 144 (453)
T KOG3794|consen 126 RCLKCHKWGHINTDRECPL 144 (453)
T ss_pred eEEeecccccccCCccCcc
Confidence 69999999996 467874
No 56
>PRK09698 D-allose kinase; Provisional
Probab=23.82 E-value=1.2e+02 Score=23.25 Aligned_cols=36 Identities=14% Similarity=0.132 Sum_probs=22.7
Q ss_pred ecCCCch-hhhhHHHHHHHHhhcceEEEEecCCCccc
Q 037799 34 RLPGLAV-HLYNRKILQKLGELVGIVIRIDPHTASSA 69 (131)
Q Consensus 34 ri~~lP~-~~~~~~~~~~i~~~iG~~l~vD~~t~~~~ 69 (131)
...++|. .+.+..+.+.+.+.+|.|+.++.+.....
T Consensus 82 ~~~~~~~~~~~~~~l~~~l~~~~~~pv~v~NDa~aaa 118 (302)
T PRK09698 82 STPNLPLTALDLYDLADKLENTLNCPVFFSRDVNLQL 118 (302)
T ss_pred ecCCCCccccccCCHHHHHHHHhCCCEEEcchHhHHH
Confidence 3344443 23334667778888999998887755433
No 57
>PF06869 DUF1258: Protein of unknown function (DUF1258); InterPro: IPR009667 This family represents a conserved region approximately 260 residues long within a number of hypothetical proteins of unknown function that seem to be specific to Caenorhabditis elegans. Note that this family contains a number of conserved cysteine and histidine residues.
Probab=23.59 E-value=25 Score=27.50 Aligned_cols=19 Identities=21% Similarity=0.380 Sum_probs=16.6
Q ss_pred CccccccccccccCcCcCC
Q 037799 104 LPVICFTCGRYGHTFWTLD 122 (131)
Q Consensus 104 lp~~C~~Cg~~GH~~~~C~ 122 (131)
-+.||..||...+..+.|.
T Consensus 17 ~h~~CN~CG~~~~~~~kC~ 35 (258)
T PF06869_consen 17 THFICNSCGKVVESNEKCS 35 (258)
T ss_pred eehhhhhhhhhhccCceee
Confidence 3579999999999999995
No 58
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=23.13 E-value=37 Score=18.10 Aligned_cols=9 Identities=33% Similarity=0.925 Sum_probs=6.5
Q ss_pred ccccccccc
Q 037799 106 VICFTCGRY 114 (131)
Q Consensus 106 ~~C~~Cg~~ 114 (131)
.||..||.+
T Consensus 2 ~FCp~C~nl 10 (35)
T PF02150_consen 2 RFCPECGNL 10 (35)
T ss_dssp -BETTTTSB
T ss_pred eeCCCCCcc
Confidence 488888865
No 59
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=22.94 E-value=1e+02 Score=17.75 Aligned_cols=32 Identities=13% Similarity=0.113 Sum_probs=20.8
Q ss_pred eecCCCchhhhhHHHHHHHHhhcceEEEEecCC
Q 037799 33 IRLPGLAVHLYNRKILQKLGELVGIVIRIDPHT 65 (131)
Q Consensus 33 Vri~~lP~~~~~~~~~~~i~~~iG~~l~vD~~t 65 (131)
|.|.|||.. .+++-++...+..|.+..+....
T Consensus 1 v~i~nlp~~-~~~~~l~~~f~~~g~v~~v~~~~ 32 (70)
T PF14259_consen 1 VYISNLPPS-TTEEDLRNFFSRFGPVEKVRLIK 32 (70)
T ss_dssp EEEESSTTT---HHHHHHHCTTSSBEEEEEEEE
T ss_pred CEEeCCCCC-CCHHHHHHHHHhcCCcceEEEEe
Confidence 457899997 45555666777778876665543
No 60
>PF14149 YhfH: YhfH-like protein
Probab=22.35 E-value=23 Score=19.48 Aligned_cols=14 Identities=36% Similarity=0.973 Sum_probs=10.0
Q ss_pred EccCcc-cccccccc
Q 037799 101 YEGLPV-ICFTCGRY 114 (131)
Q Consensus 101 YE~lp~-~C~~Cg~~ 114 (131)
|.+||. -|..||..
T Consensus 8 frnLp~K~C~~CG~~ 22 (37)
T PF14149_consen 8 FRNLPPKKCTECGKE 22 (37)
T ss_pred HHhCCCcccHHHHHH
Confidence 456765 89999864
No 61
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=21.57 E-value=42 Score=28.86 Aligned_cols=19 Identities=26% Similarity=0.595 Sum_probs=17.4
Q ss_pred cccccccccccCcCcCCCc
Q 037799 106 VICFTCGRYGHTFWTLDDS 124 (131)
Q Consensus 106 ~~C~~Cg~~GH~~~~C~~~ 124 (131)
.+|..||..||..-.|+.-
T Consensus 262 ~~c~~cg~~~H~q~~cp~r 280 (554)
T KOG0119|consen 262 RACRNCGSTGHKQYDCPGR 280 (554)
T ss_pred ccccccCCCccccccCCcc
Confidence 7999999999999999854
No 62
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=21.54 E-value=37 Score=19.74 Aligned_cols=12 Identities=42% Similarity=0.816 Sum_probs=8.6
Q ss_pred cCcccccccccc
Q 037799 103 GLPVICFTCGRY 114 (131)
Q Consensus 103 ~lp~~C~~Cg~~ 114 (131)
.--.+|.+||++
T Consensus 44 ~~i~~Cp~CgRi 55 (56)
T PF02591_consen 44 DEIVFCPNCGRI 55 (56)
T ss_pred CCeEECcCCCcc
Confidence 345689999875
No 63
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=21.09 E-value=1.1e+02 Score=20.29 Aligned_cols=32 Identities=9% Similarity=0.211 Sum_probs=19.1
Q ss_pred eeeeeecCCCchhhhhHHHHHHHHhhcceEEEEe
Q 037799 29 VNVWIRLPGLAVHLYNRKILQKLGELVGIVIRID 62 (131)
Q Consensus 29 ~~vWVri~~lP~~~~~~~~~~~i~~~iG~~l~vD 62 (131)
-.-||-++|-|... . ..+..--+..|++++..
T Consensus 5 ~~~wVtVFGfp~~~-~-~~Vl~~F~~~G~Ile~~ 36 (100)
T PF05172_consen 5 SETWVTVFGFPPSA-S-NQVLRHFSSFGTILEHF 36 (100)
T ss_dssp GCCEEEEE---GGG-H-HHHHHHHHCCS-EECEE
T ss_pred CCeEEEEEccCHHH-H-HHHHHHHHhcceEEEee
Confidence 35699999999983 3 33444457789998775
Done!