Query 019350
Match_columns 342
No_of_seqs 254 out of 1645
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 08:44:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019350.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019350hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00368 universal minicircle 99.9 5.3E-27 1.2E-31 204.4 10.3 135 181-318 1-147 (148)
2 PTZ00368 universal minicircle 99.9 1.5E-21 3.3E-26 170.1 9.0 127 205-341 2-138 (148)
3 COG5082 AIR1 Arginine methyltr 99.8 1.6E-21 3.4E-26 175.3 6.1 120 178-324 58-178 (190)
4 KOG4400 E3 ubiquitin ligase in 99.6 1E-14 2.3E-19 138.2 8.7 133 183-327 57-191 (261)
5 COG5082 AIR1 Arginine methyltr 99.5 9.3E-15 2E-19 131.7 5.3 100 202-339 59-161 (190)
6 KOG4400 E3 ubiquitin ligase in 99.5 5.8E-14 1.3E-18 133.1 8.0 133 178-319 22-162 (261)
7 KOG0119 Splicing factor 1/bran 98.7 1.5E-09 3.2E-14 109.4 -2.7 128 90-221 158-303 (554)
8 PF00098 zf-CCHC: Zinc knuckle 97.8 1.1E-05 2.5E-10 46.4 1.8 18 301-318 1-18 (18)
9 PF00098 zf-CCHC: Zinc knuckle 97.5 4.9E-05 1.1E-09 43.8 1.8 16 251-266 2-17 (18)
10 PF13696 zf-CCHC_2: Zinc knuck 96.4 0.0019 4.2E-08 42.5 1.9 27 295-321 3-29 (32)
11 PF13696 zf-CCHC_2: Zinc knuck 95.8 0.0039 8.4E-08 41.1 1.1 21 247-267 6-26 (32)
12 PF13917 zf-CCHC_3: Zinc knuck 94.0 0.026 5.7E-07 39.5 1.1 19 300-318 4-22 (42)
13 PF15288 zf-CCHC_6: Zinc knuck 93.8 0.044 9.6E-07 37.9 1.9 30 301-330 2-33 (40)
14 PF13917 zf-CCHC_3: Zinc knuck 93.2 0.037 8E-07 38.7 0.9 19 180-198 4-22 (42)
15 KOG0119 Splicing factor 1/bran 92.7 0.083 1.8E-06 54.5 2.9 43 223-268 262-304 (554)
16 smart00343 ZnF_C2HC zinc finge 92.2 0.067 1.5E-06 33.1 1.0 17 302-318 1-17 (26)
17 smart00343 ZnF_C2HC zinc finge 91.2 0.088 1.9E-06 32.5 0.7 16 183-198 2-17 (26)
18 KOG0314 Predicted E3 ubiquitin 88.2 0.68 1.5E-05 47.7 4.7 61 179-241 111-177 (448)
19 PF14392 zf-CCHC_4: Zinc knuck 87.2 0.23 5E-06 35.5 0.5 20 299-318 30-49 (49)
20 KOG0314 Predicted E3 ubiquitin 85.8 1.4 3E-05 45.4 5.5 25 297-321 155-179 (448)
21 COG5222 Uncharacterized conser 85.0 0.39 8.6E-06 46.9 1.1 22 247-268 174-195 (427)
22 KOG0109 RNA-binding protein LA 83.7 0.58 1.3E-05 45.7 1.6 24 247-270 158-181 (346)
23 PF15288 zf-CCHC_6: Zinc knuck 82.7 0.58 1.3E-05 32.5 0.8 18 181-198 2-21 (40)
24 PF14392 zf-CCHC_4: Zinc knuck 81.5 0.53 1.1E-05 33.6 0.3 17 181-197 32-48 (49)
25 COG5222 Uncharacterized conser 80.6 0.98 2.1E-05 44.2 1.9 28 295-322 171-198 (427)
26 KOG0109 RNA-binding protein LA 79.6 1.1 2.3E-05 43.9 1.7 22 299-320 159-180 (346)
27 PF14787 zf-CCHC_5: GAG-polypr 77.6 1.4 3E-05 29.9 1.3 22 301-322 3-24 (36)
28 PF14787 zf-CCHC_5: GAG-polypr 77.3 1.9 4.2E-05 29.2 2.0 20 250-269 3-22 (36)
29 COG5176 MSL5 Splicing factor ( 64.3 2.9 6.3E-05 39.1 0.8 120 41-170 122-259 (269)
30 PRK03564 formate dehydrogenase 47.3 23 0.00051 35.0 4.0 26 275-310 211-236 (309)
31 PF07708 Tash_PEST: Tash prote 43.8 12 0.00025 22.0 0.7 15 22-36 5-19 (19)
32 KOG3116 Predicted C3H1-type Zn 43.8 7.1 0.00015 34.7 -0.2 20 180-199 27-46 (177)
33 PF13248 zf-ribbon_3: zinc-rib 39.8 19 0.00042 22.2 1.4 9 300-308 16-24 (26)
34 TIGR01562 FdhE formate dehydro 36.7 39 0.00084 33.4 3.7 76 249-342 184-262 (305)
35 COG1198 PriA Primosomal protei 35.7 40 0.00087 37.2 3.9 54 245-314 431-488 (730)
36 PF04216 FdhE: Protein involve 35.0 6.7 0.00014 37.9 -1.9 52 275-341 196-247 (290)
37 smart00816 Amb_V_allergen Amb 34.4 29 0.00064 24.2 1.7 25 281-305 11-35 (45)
38 PF11672 DUF3268: Protein of u 32.5 33 0.0007 28.6 2.0 39 300-341 2-40 (102)
39 PRK14890 putative Zn-ribbon RN 32.3 22 0.00048 26.7 0.9 10 301-310 49-58 (59)
40 PF12773 DZR: Double zinc ribb 29.8 78 0.0017 21.9 3.4 10 276-285 29-38 (50)
41 COG5129 MAK16 Nuclear protein 29.3 45 0.00099 31.7 2.6 29 20-49 207-235 (303)
42 KOG2044 5'-3' exonuclease HKE1 29.2 36 0.00078 37.7 2.2 23 248-270 259-281 (931)
43 PF12353 eIF3g: Eukaryotic tra 29.2 25 0.00054 30.2 0.9 19 180-199 106-124 (128)
44 COG0484 DnaJ DnaJ-class molecu 28.6 29 0.00062 35.2 1.3 54 204-262 143-196 (371)
45 PF13240 zinc_ribbon_2: zinc-r 28.2 39 0.00085 20.4 1.4 10 299-308 12-21 (23)
46 PRK14289 chaperone protein Dna 27.2 48 0.0011 33.4 2.6 17 43-59 20-36 (386)
47 PF12353 eIF3g: Eukaryotic tra 27.1 36 0.00078 29.2 1.5 22 299-321 105-126 (128)
48 COG2888 Predicted Zn-ribbon RN 27.0 29 0.00062 26.2 0.7 10 301-310 51-60 (61)
49 PF10083 DUF2321: Uncharacteri 26.9 14 0.0003 33.1 -1.2 13 298-310 66-78 (158)
50 KOG1059 Vesicle coat complex A 26.4 64 0.0014 35.6 3.4 7 42-48 782-788 (877)
51 KOG0107 Alternative splicing f 25.3 36 0.00078 31.2 1.2 15 303-317 103-117 (195)
52 TIGR02349 DnaJ_bact chaperone 25.2 63 0.0014 32.0 3.0 16 41-56 13-28 (354)
53 TIGR00595 priA primosomal prot 24.2 72 0.0016 33.4 3.3 23 276-309 240-262 (505)
54 PRK14298 chaperone protein Dna 23.9 52 0.0011 33.1 2.2 12 250-261 185-196 (377)
55 KOG3116 Predicted C3H1-type Zn 23.7 22 0.00047 31.7 -0.5 22 298-319 25-46 (177)
56 PRK14298 chaperone protein Dna 23.7 65 0.0014 32.4 2.8 53 250-313 159-211 (377)
57 PF00684 DnaJ_CXXCXGXG: DnaJ c 23.2 63 0.0014 24.2 2.0 13 276-288 41-53 (66)
58 PF15616 TerY-C: TerY-C metal 22.7 37 0.00081 29.5 0.7 18 298-315 103-120 (131)
59 KOG2044 5'-3' exonuclease HKE1 22.7 37 0.00079 37.7 0.8 21 299-319 259-279 (931)
60 PF03913 Amb_V_allergen: Amb V 21.9 48 0.001 23.1 1.0 25 281-305 10-34 (44)
61 COG5593 Nucleic-acid-binding p 21.8 41 0.0009 35.9 1.0 26 90-115 772-797 (821)
62 KOG2422 Uncharacterized conser 21.6 27 0.00057 37.5 -0.5 14 28-41 26-39 (665)
63 PRK14559 putative protein seri 21.6 1.1E+02 0.0023 33.4 4.0 48 262-309 1-50 (645)
64 KOG2560 RNA splicing factor - 21.6 21 0.00045 37.1 -1.2 23 299-321 111-133 (529)
65 PRK14287 chaperone protein Dna 21.6 63 0.0014 32.4 2.2 11 278-288 183-193 (371)
66 PF04216 FdhE: Protein involve 21.3 14 0.0003 35.7 -2.5 49 181-234 173-223 (290)
67 PRK14296 chaperone protein Dna 21.2 68 0.0015 32.3 2.3 67 223-310 150-216 (372)
68 PRK14276 chaperone protein Dna 20.9 69 0.0015 32.3 2.3 9 279-287 206-214 (380)
69 PRK14285 chaperone protein Dna 20.6 1.1E+02 0.0023 30.8 3.6 63 223-310 147-209 (365)
70 COG1107 Archaea-specific RecJ- 20.4 60 0.0013 35.0 1.8 33 181-220 3-35 (715)
71 PLN03086 PRLI-interacting fact 20.2 1E+02 0.0022 33.1 3.4 13 178-190 405-417 (567)
72 smart00249 PHD PHD zinc finger 20.0 1.1E+02 0.0024 19.8 2.5 14 277-290 15-28 (47)
No 1
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=99.94 E-value=5.3e-27 Score=204.38 Aligned_cols=135 Identities=32% Similarity=0.803 Sum_probs=113.2
Q ss_pred cccccccccCccccccccc----ccCCCCcccccCCCCccccCCCC------ccCccccCCCCCCCCCCCCCCCCCccCc
Q 019350 181 QTCYNCGEEGHMAVNCRSA----VKRKKPCFVCGSLEHGVRQCSKA------QDCFICKKGGHRAKDCPDKHKSGFQNAQ 250 (342)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~----~~~~~~C~~CG~~GH~~~~Cp~~------~~C~~C~~~GH~ardCp~~~~~g~~~~~ 250 (342)
+.||+|++.||++++||.. ......||+|+..||++++||.. ..||+|++.||++++||+...++ ...
T Consensus 1 ~~C~~C~~~GH~~~~c~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~--~~~ 78 (148)
T PTZ00368 1 MVCYRCGGVGHQSRECPNSAPAGAAKARPCYKCGEPGHLSRECPSAPGGRGERSCYNCGKTGHLSRECPEAPPGS--GPR 78 (148)
T ss_pred CcCCCCCCCCcCcccCcCCCCCCCCCCccCccCCCCCcCcccCcCCCCCCCCcccCCCCCcCcCcccCCCcccCC--CCc
Confidence 4699999999999999983 22346899999999999999974 36999999999999999975432 457
Q ss_pred cccCCCCCCccCCCCCCCCCCCCcCCccccccCCCCcCc--ccCCCCCCCCCccccccCCCCCCCCCCCC
Q 019350 251 VCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLC--CVNISDAVPGEVSCFRCGQLGHTGLVSSL 318 (342)
Q Consensus 251 ~C~~CG~~GH~a~dCp~~~~~~~~~~~~C~~Cg~~GH~~--c~~~~~~~~~~~~Cy~CG~~GH~~~dC~~ 318 (342)
.|++|++.||++++||+.+.. ......||+|++.||++ |+..+......+.||+||+.|||+.|||.
T Consensus 79 ~C~~Cg~~GH~~~~C~~~~~~-~~~~~~C~~Cg~~gH~~~~C~~~~~~~~~~~~C~~Cg~~gH~~~dCp~ 147 (148)
T PTZ00368 79 SCYNCGQTGHISRECPNRAKG-GAARRACYNCGGEGHISRDCPNAGKRPGGDKTCYNCGQTGHLSRDCPD 147 (148)
T ss_pred ccCcCCCCCcccccCCCcccc-cccchhhcccCcCCcchhcCCCccccCCCCCccccCCCcCcccccCCC
Confidence 899999999999999996543 34567899999999998 55543445567899999999999999996
No 2
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=99.85 E-value=1.5e-21 Score=170.10 Aligned_cols=127 Identities=26% Similarity=0.636 Sum_probs=101.2
Q ss_pred CcccccCCCCccccCCC--------CccCccccCCCCCCCCCCCCCCCCCccCccccCCCCCCccCCCCCCCCCCCCcCC
Q 019350 205 PCFVCGSLEHGVRQCSK--------AQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNSYSLDDLKE 276 (342)
Q Consensus 205 ~C~~CG~~GH~~~~Cp~--------~~~C~~C~~~GH~ardCp~~~~~g~~~~~~C~~CG~~GH~a~dCp~~~~~~~~~~ 276 (342)
+||+|+..||++++||. ...||+|+..||++++||.+..+ .....|++|++.||++.+||..+... ..
T Consensus 2 ~C~~C~~~GH~~~~c~~~~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~--~~~~~C~~Cg~~GH~~~~Cp~~~~~~--~~ 77 (148)
T PTZ00368 2 VCYRCGGVGHQSRECPNSAPAGAAKARPCYKCGEPGHLSRECPSAPGG--RGERSCYNCGKTGHLSRECPEAPPGS--GP 77 (148)
T ss_pred cCCCCCCCCcCcccCcCCCCCCCCCCccCccCCCCCcCcccCcCCCCC--CCCcccCCCCCcCcCcccCCCcccCC--CC
Confidence 79999999999999996 35899999999999999986532 23568999999999999999865432 45
Q ss_pred ccccccCCCCcCc--ccCCCCCCCCCccccccCCCCCCCCCCCCCccccccceeeEEeecccccccC
Q 019350 277 VQCYICRCFGHLC--CVNISDAVPGEVSCFRCGQLGHTGLVSSLNLSIEILVIIYWEMRGCFNLHAY 341 (342)
Q Consensus 277 ~~C~~Cg~~GH~~--c~~~~~~~~~~~~Cy~CG~~GH~~~dC~~~~~~~~~~~~~~~~~~~~~~~~~ 341 (342)
..||+|++.||++ |+...........||+|++.||++.+|++... ......+||+|.++
T Consensus 78 ~~C~~Cg~~GH~~~~C~~~~~~~~~~~~C~~Cg~~gH~~~~C~~~~~------~~~~~~~C~~Cg~~ 138 (148)
T PTZ00368 78 RSCYNCGQTGHISRECPNRAKGGAARRACYNCGGEGHISRDCPNAGK------RPGGDKTCYNCGQT 138 (148)
T ss_pred cccCcCCCCCcccccCCCcccccccchhhcccCcCCcchhcCCCccc------cCCCCCccccCCCc
Confidence 7899999999998 44433334456799999999999999998511 12234589999764
No 3
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=99.84 E-value=1.6e-21 Score=175.25 Aligned_cols=120 Identities=28% Similarity=0.686 Sum_probs=101.8
Q ss_pred ccccccccccccCcccccccccccCCCCcccccCCCCccccCCCCccCccccCCCCCCCCC-CCCCCCCCccCccccCCC
Q 019350 178 RGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDC-PDKHKSGFQNAQVCLKCG 256 (342)
Q Consensus 178 ~~~~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~~~~Cp~~~~C~~C~~~GH~ardC-p~~~~~g~~~~~~C~~CG 256 (342)
.....||+||+.||++++||. .+|++|...||.+..||....|++|++.||++++| |.++. ...|+.|+
T Consensus 58 ~~~~~C~nCg~~GH~~~DCP~-----~iC~~C~~~~H~s~~C~~~~~C~~Cg~~GH~~~dC~P~~~~-----~~~C~~C~ 127 (190)
T COG5082 58 EENPVCFNCGQNGHLRRDCPH-----SICYNCSWDGHRSNHCPKPKKCYNCGETGHLSRDCNPSKDQ-----QKSCFDCN 127 (190)
T ss_pred ccccccchhcccCcccccCCh-----hHhhhcCCCCcccccCCcccccccccccCccccccCccccc-----CcceeccC
Confidence 345789999999999999995 49999977999999999988999999999999999 66554 46999999
Q ss_pred CCCccCCCCCCCCCCCCcCCccccccCCCCcCcccCCCCCCCCCccccccCCCCCCCCCCCCCccccc
Q 019350 257 DSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLVSSLNLSIEI 324 (342)
Q Consensus 257 ~~GH~a~dCp~~~~~~~~~~~~C~~Cg~~GH~~c~~~~~~~~~~~~Cy~CG~~GH~~~dC~~~~~~~~ 324 (342)
..+|++.+||..|+.+.+. +.-+|. ..+.||+||..+||+.+|.++....+
T Consensus 128 s~~H~s~~Cp~~~k~y~~~-------~~~~~~----------~~~~cy~c~~~~H~~~dc~~~~~s~~ 178 (190)
T COG5082 128 STRHSSEDCPSIWKHYVLN-------NGDGHP----------IKKFCYSCGSAGHFGDDCKEPRSSRV 178 (190)
T ss_pred CCccccccCcccccccccc-------cCCCcc----------eeeeccccCCccccCCCCCCCccccc
Confidence 9999999999999876544 223333 56899999999999999998765433
No 4
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=1e-14 Score=138.18 Aligned_cols=133 Identities=29% Similarity=0.696 Sum_probs=88.9
Q ss_pred cccccccCcccccccccccCCCCcccccCCCCccccCCC-CccCccccCCCCCCCCCCCCCCCCCccCccccCCCCCCcc
Q 019350 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK-AQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHD 261 (342)
Q Consensus 183 C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~~~~Cp~-~~~C~~C~~~GH~ardCp~~~~~g~~~~~~C~~CG~~GH~ 261 (342)
+..+...+|+-..++.. .|+.||..||...+|+. ...|++|++.||++++||..+..+. ....||.|+..||.
T Consensus 57 ~~~~~~~~~~~~~~~~~-----~c~~~g~~~~~~~~~~~~~~~c~~C~~~gH~~~~c~~~~~~~~-~~~~~~~c~~~gh~ 130 (261)
T KOG4400|consen 57 CVSTSPNGPLKSECPEV-----SCYICGEKGHLGRRCTRIAAACFNCGEGGHIERDCPEAGKEGS-SETSCYSCGKTGHR 130 (261)
T ss_pred ccccccCcccCCCCCCc-----eeeecCCCCchhhcCcccchhhhhCCCCccchhhCCcccCccc-ccceeeccCCCccc
Confidence 44455566666666553 78888888888888874 5678888888888888888765432 45577888888888
Q ss_pred CCCCCCCCC-CCCcCCccccccCCCCcCcccCCCCCCCCCccccccCCCCCCCCCCCCCccccccce
Q 019350 262 MFSCRNSYS-LDDLKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLVSSLNLSIEILVI 327 (342)
Q Consensus 262 a~dCp~~~~-~~~~~~~~C~~Cg~~GH~~c~~~~~~~~~~~~Cy~CG~~GH~~~dC~~~~~~~~~~~ 327 (342)
. |+.... ...+. +.||+|++.|||+-+|+.. ....||.|++.||...+||.........+
T Consensus 131 ~--~~~~~~~~~~~~-~~Cy~Cg~~GH~s~~C~~~---~~~~c~~c~~~~h~~~~C~~~~~~~~~~~ 191 (261)
T KOG4400|consen 131 G--CPDADPVDGPKP-AKCYSCGEQGHISDDCPEN---KGGTCFRCGKVGHGSRDCPSKQKSKSKQG 191 (261)
T ss_pred c--CcccccccCCCC-CccCCCCcCCcchhhCCCC---CCCccccCCCcceecccCCccccccccCc
Confidence 8 332221 12223 6788888888886333322 46788888888888888887766544433
No 5
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=99.52 E-value=9.3e-15 Score=131.67 Aligned_cols=100 Identities=27% Similarity=0.570 Sum_probs=72.6
Q ss_pred CCCCcccccCCCCccccCCCCccCccccCCCCCCCCCCCCCCCCCccCccccCCCCCCccCCCC-CCCCCCCCcCCcccc
Q 019350 202 RKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC-RNSYSLDDLKEVQCY 280 (342)
Q Consensus 202 ~~~~C~~CG~~GH~~~~Cp~~~~C~~C~~~GH~ardCp~~~~~g~~~~~~C~~CG~~GH~a~dC-p~~~~~~~~~~~~C~ 280 (342)
....|++||+.||..++|| ..+||+|...||.+..||.. +.||+||+.||++++| |..|.
T Consensus 59 ~~~~C~nCg~~GH~~~DCP-~~iC~~C~~~~H~s~~C~~~--------~~C~~Cg~~GH~~~dC~P~~~~---------- 119 (190)
T COG5082 59 ENPVCFNCGQNGHLRRDCP-HSICYNCSWDGHRSNHCPKP--------KKCYNCGETGHLSRDCNPSKDQ---------- 119 (190)
T ss_pred cccccchhcccCcccccCC-hhHhhhcCCCCcccccCCcc--------cccccccccCccccccCccccc----------
Confidence 3458999999999999999 58999998899999999883 7899999999999999 55432
Q ss_pred ccCCCCcCcccCCCCCCCCCccccccCCCCCCCCCCCCCccccccc--eeeEEeecccccc
Q 019350 281 ICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLVSSLNLSIEILV--IIYWEMRGCFNLH 339 (342)
Q Consensus 281 ~Cg~~GH~~c~~~~~~~~~~~~Cy~CG~~GH~~~dC~~~~~~~~~~--~~~~~~~~~~~~~ 339 (342)
++.|+.|...+|++.+||....-..+. -..-++..||+|.
T Consensus 120 -------------------~~~C~~C~s~~H~s~~Cp~~~k~y~~~~~~~~~~~~~cy~c~ 161 (190)
T COG5082 120 -------------------QKSCFDCNSTRHSSEDCPSIWKHYVLNNGDGHPIKKFCYSCG 161 (190)
T ss_pred -------------------CcceeccCCCccccccCcccccccccccCCCcceeeeccccC
Confidence 346666666666666666654432222 3444566677764
No 6
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=99.48 E-value=5.8e-14 Score=133.12 Aligned_cols=133 Identities=26% Similarity=0.578 Sum_probs=104.7
Q ss_pred ccccccccccccCccccccccccc-------CCCCcccccCCCCccccCCCCccCccccCCCCCCCCCCCCCCCCCccCc
Q 019350 178 RGWQTCYNCGEEGHMAVNCRSAVK-------RKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQ 250 (342)
Q Consensus 178 ~~~~~C~~CG~~GH~a~~Cp~~~~-------~~~~C~~CG~~GH~~~~Cp~~~~C~~C~~~GH~ardCp~~~~~g~~~~~ 250 (342)
.+...+++|+..+|.+..|+.... ....+..+...+|....++. ..|+.|++.||..+.|+. ...
T Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~c~~~g~~~~~~~~~~~-------~~~ 93 (261)
T KOG4400|consen 22 DSSPNELKCLKSGHKAVSCTDGDSRGDSSKSDGPGCVSTSPNGPLKSECPE-VSCYICGEKGHLGRRCTR-------IAA 93 (261)
T ss_pred ccchhhhhhccccCcceecccCCcccccccCCCCcccccccCcccCCCCCC-ceeeecCCCCchhhcCcc-------cch
Confidence 345678999999999999997532 12334456666777777875 799999999999999997 258
Q ss_pred cccCCCCCCccCCCCCCCCCCCCcCCccccccCCCCcCcccCCC-CCCCCCccccccCCCCCCCCCCCCC
Q 019350 251 VCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS-DAVPGEVSCFRCGQLGHTGLVSSLN 319 (342)
Q Consensus 251 ~C~~CG~~GH~a~dCp~~~~~~~~~~~~C~~Cg~~GH~~c~~~~-~~~~~~~~Cy~CG~~GH~~~dC~~~ 319 (342)
.|++|++.||++++||..|.... ....||.|+..||..|.... ...+..+.||+||+.|||+.+|+.+
T Consensus 94 ~c~~C~~~gH~~~~c~~~~~~~~-~~~~~~~c~~~gh~~~~~~~~~~~~~~~~Cy~Cg~~GH~s~~C~~~ 162 (261)
T KOG4400|consen 94 ACFNCGEGGHIERDCPEAGKEGS-SETSCYSCGKTGHRGCPDADPVDGPKPAKCYSCGEQGHISDDCPEN 162 (261)
T ss_pred hhhhCCCCccchhhCCcccCccc-ccceeeccCCCccccCcccccccCCCCCccCCCCcCCcchhhCCCC
Confidence 99999999999999999876543 56789999999999832222 2233337899999999999999976
No 7
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=98.67 E-value=1.5e-09 Score=109.45 Aligned_cols=128 Identities=22% Similarity=0.378 Sum_probs=88.7
Q ss_pred cCCCCCCCcchhhhhccchhhHHHHHHhhhhhhhhhhh--------cccchhhhhhhhhhhhhhhccccccc-------c
Q 019350 90 VPGPSGTTDDVIIEDVKSSDKKRIRVRKKKKKEADKIE--------IEDQSVIVRKEEQKVETADNGDEGVT-------T 154 (342)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~kk~~k~~~~~~~--------~e~q~v~~ia~ee~le~~~~A~e~v~-------~ 154 (342)
--|+.. ++.+.-+++.++||.||||+++||++..++ .|.-+.-|.+ +..|.+.+|...|+ .
T Consensus 158 iiGPRG--~TqK~lE~etgAKI~IRGkgSvkEgk~~~~d~~~~~~~~epLH~~Isa--dt~eki~~Ai~vienli~~av~ 233 (554)
T KOG0119|consen 158 IIGPRG--NTQKRLERETGAKIAIRGKGSVKEGKGRSDDLSYIPKENEPLHCLISA--DTQEKIKKAIAVIENLIQSAVS 233 (554)
T ss_pred EecCCc--cHHHHHHHHhCCeEEEeccccccccccCCcccccccccccceeEEEec--chHHHHHHHHHHHHHHHHhhcc
Confidence 444443 578888899999999999999999984444 2222332333 33444444444444 4
Q ss_pred ccchhHHHHHHhhCCCCCCCCC--CccccccccccccCccccccccccc-CCCCcccccCCCCccccCCC
Q 019350 155 VEISDNIVLRKLLRGPRYFDPP--DRGWQTCYNCGEEGHMAVNCRSAVK-RKKPCFVCGSLEHGVRQCSK 221 (342)
Q Consensus 155 v~~~~n~~~r~~~r~~Ryf~~~--~~~~~~C~~CG~~GH~a~~Cp~~~~-~~~~C~~CG~~GH~~~~Cp~ 221 (342)
++.++|.+.+.++++....++. +..+..|.+||..||...+||.... -...|+.||..||++.+|..
T Consensus 234 ~~e~~n~l~~~Qlrela~lNgt~r~~d~~~c~~cg~~~H~q~~cp~r~~~~~n~c~~cg~~gH~~~dc~~ 303 (554)
T KOG0119|consen 234 VPEGQNDLKRLQLRELARLNGTLRDDDNRACRNCGSTGHKQYDCPGRIPNTTNVCKICGPLGHISIDCKV 303 (554)
T ss_pred CccccccccHHHHHHHHHhCCCCCccccccccccCCCccccccCCcccccccccccccCCcccccccCCC
Confidence 5567788888888777665553 4556899999999999999998621 12278888888888888875
No 8
>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=97.81 E-value=1.1e-05 Score=46.44 Aligned_cols=18 Identities=33% Similarity=0.744 Sum_probs=15.7
Q ss_pred ccccccCCCCCCCCCCCC
Q 019350 301 VSCFRCGQLGHTGLVSSL 318 (342)
Q Consensus 301 ~~Cy~CG~~GH~~~dC~~ 318 (342)
+.||+||+.||++++||.
T Consensus 1 ~~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 1 RKCFNCGEPGHIARDCPK 18 (18)
T ss_dssp SBCTTTSCSSSCGCTSSS
T ss_pred CcCcCCCCcCcccccCcc
Confidence 369999999999999984
No 9
>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=97.55 E-value=4.9e-05 Score=43.77 Aligned_cols=16 Identities=38% Similarity=1.037 Sum_probs=9.2
Q ss_pred cccCCCCCCccCCCCC
Q 019350 251 VCLKCGDSGHDMFSCR 266 (342)
Q Consensus 251 ~C~~CG~~GH~a~dCp 266 (342)
.||+|++.||++++||
T Consensus 2 ~C~~C~~~GH~~~~Cp 17 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCP 17 (18)
T ss_dssp BCTTTSCSSSCGCTSS
T ss_pred cCcCCCCcCcccccCc
Confidence 4555555555555555
No 10
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=96.43 E-value=0.0019 Score=42.54 Aligned_cols=27 Identities=33% Similarity=0.465 Sum_probs=22.0
Q ss_pred CCCCCCccccccCCCCCCCCCCCCCcc
Q 019350 295 DAVPGEVSCFRCGQLGHTGLVSSLNLS 321 (342)
Q Consensus 295 ~~~~~~~~Cy~CG~~GH~~~dC~~~~~ 321 (342)
+..|..-.|+.|++.|||..+||.+..
T Consensus 3 k~pP~~Y~C~~C~~~GH~i~dCP~~~P 29 (32)
T PF13696_consen 3 KKPPPGYVCHRCGQKGHWIQDCPTNKP 29 (32)
T ss_pred CCCCCCCEeecCCCCCccHhHCCCCCC
Confidence 445667799999999999999998543
No 11
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=95.85 E-value=0.0039 Score=41.13 Aligned_cols=21 Identities=33% Similarity=0.816 Sum_probs=18.0
Q ss_pred ccCccccCCCCCCccCCCCCC
Q 019350 247 QNAQVCLKCGDSGHDMFSCRN 267 (342)
Q Consensus 247 ~~~~~C~~CG~~GH~a~dCp~ 267 (342)
.....|++|++.||+..+||.
T Consensus 6 P~~Y~C~~C~~~GH~i~dCP~ 26 (32)
T PF13696_consen 6 PPGYVCHRCGQKGHWIQDCPT 26 (32)
T ss_pred CCCCEeecCCCCCccHhHCCC
Confidence 446889999999999999987
No 12
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=93.98 E-value=0.026 Score=39.51 Aligned_cols=19 Identities=37% Similarity=0.658 Sum_probs=17.3
Q ss_pred CccccccCCCCCCCCCCCC
Q 019350 300 EVSCFRCGQLGHTGLVSSL 318 (342)
Q Consensus 300 ~~~Cy~CG~~GH~~~dC~~ 318 (342)
...|.+|++.|||..+|+.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4689999999999999994
No 13
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=93.76 E-value=0.044 Score=37.94 Aligned_cols=30 Identities=23% Similarity=0.301 Sum_probs=22.4
Q ss_pred ccccccCCCCCCCCC--CCCCccccccceeeE
Q 019350 301 VSCFRCGQLGHTGLV--SSLNLSIEILVIIYW 330 (342)
Q Consensus 301 ~~Cy~CG~~GH~~~d--C~~~~~~~~~~~~~~ 330 (342)
+.|.+||..||+..+ ||++....+++|.-+
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~~~~~a~~p~~~ 33 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMYCWSGALAPQPV 33 (40)
T ss_pred ccccccccccccccCccCCCCCCCCCCCCccc
Confidence 578889999997754 999887666666544
No 14
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=93.24 E-value=0.037 Score=38.75 Aligned_cols=19 Identities=32% Similarity=0.908 Sum_probs=15.8
Q ss_pred ccccccccccCcccccccc
Q 019350 180 WQTCYNCGEEGHMAVNCRS 198 (342)
Q Consensus 180 ~~~C~~CG~~GH~a~~Cp~ 198 (342)
...|.+|++.||+..+||+
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4678999999999999984
No 15
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=92.70 E-value=0.083 Score=54.46 Aligned_cols=43 Identities=33% Similarity=0.798 Sum_probs=30.4
Q ss_pred ccCccccCCCCCCCCCCCCCCCCCccCccccCCCCCCccCCCCCCC
Q 019350 223 QDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNS 268 (342)
Q Consensus 223 ~~C~~C~~~GH~ardCp~~~~~g~~~~~~C~~CG~~GH~a~dCp~~ 268 (342)
..|.+|+..||...+||.... . ....|..||..||++.+|+..
T Consensus 262 ~~c~~cg~~~H~q~~cp~r~~-~--~~n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 262 RACRNCGSTGHKQYDCPGRIP-N--TTNVCKICGPLGHISIDCKVN 304 (554)
T ss_pred ccccccCCCccccccCCcccc-c--ccccccccCCcccccccCCCc
Confidence 568888888888888887511 1 112788888888888888764
No 16
>smart00343 ZnF_C2HC zinc finger.
Probab=92.18 E-value=0.067 Score=33.06 Aligned_cols=17 Identities=29% Similarity=0.776 Sum_probs=15.3
Q ss_pred cccccCCCCCCCCCCCC
Q 019350 302 SCFRCGQLGHTGLVSSL 318 (342)
Q Consensus 302 ~Cy~CG~~GH~~~dC~~ 318 (342)
.|++||+.||++.+|+.
T Consensus 1 ~C~~CG~~GH~~~~C~~ 17 (26)
T smart00343 1 KCYNCGKEGHIARDCPK 17 (26)
T ss_pred CCccCCCCCcchhhCCc
Confidence 48999999999999984
No 17
>smart00343 ZnF_C2HC zinc finger.
Probab=91.22 E-value=0.088 Score=32.54 Aligned_cols=16 Identities=63% Similarity=1.547 Sum_probs=12.2
Q ss_pred cccccccCcccccccc
Q 019350 183 CYNCGEEGHMAVNCRS 198 (342)
Q Consensus 183 C~~CG~~GH~a~~Cp~ 198 (342)
|++|++.||++++||.
T Consensus 2 C~~CG~~GH~~~~C~~ 17 (26)
T smart00343 2 CYNCGKEGHIARDCPK 17 (26)
T ss_pred CccCCCCCcchhhCCc
Confidence 7777888887777773
No 18
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.17 E-value=0.68 Score=47.65 Aligned_cols=61 Identities=25% Similarity=0.392 Sum_probs=39.2
Q ss_pred cccccccccccCcccccccccccCCCCcccccCCCCccccCCC------CccCccccCCCCCCCCCCCC
Q 019350 179 GWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK------AQDCFICKKGGHRAKDCPDK 241 (342)
Q Consensus 179 ~~~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~~~~Cp~------~~~C~~C~~~GH~ardCp~~ 241 (342)
....++.++..||..+.+... ....|.+|-..+|+...|.. ...|++|...||+...||..
T Consensus 111 ~~q~~~~~~~~~~~~~~~t~~--~~~~~~~~~~~~~~iq~~~~~g~Pppsy~c~rc~~~g~wikacptv 177 (448)
T KOG0314|consen 111 LIQMNGRMGGRGFGMRRQTPP--PGYVCHRCNSPGHFIQHCSTNGSPPPSYKCVKCPTPGPWIKACPTV 177 (448)
T ss_pred hhhhccccccCCcccccCCCc--ccceeeecccCccccccccccCCCCCCcceecCCCCCccceecccc
Confidence 345788888888888887543 34567777777777776654 23455555555555555553
No 19
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=87.22 E-value=0.23 Score=35.49 Aligned_cols=20 Identities=30% Similarity=0.674 Sum_probs=16.7
Q ss_pred CCccccccCCCCCCCCCCCC
Q 019350 299 GEVSCFRCGQLGHTGLVSSL 318 (342)
Q Consensus 299 ~~~~Cy~CG~~GH~~~dC~~ 318 (342)
.+..|++||..||...+||.
T Consensus 30 lp~~C~~C~~~gH~~~~C~k 49 (49)
T PF14392_consen 30 LPRFCFHCGRIGHSDKECPK 49 (49)
T ss_pred cChhhcCCCCcCcCHhHcCC
Confidence 36789999999999998874
No 20
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.85 E-value=1.4 Score=45.44 Aligned_cols=25 Identities=16% Similarity=0.217 Sum_probs=18.0
Q ss_pred CCCCccccccCCCCCCCCCCCCCcc
Q 019350 297 VPGEVSCFRCGQLGHTGLVSSLNLS 321 (342)
Q Consensus 297 ~~~~~~Cy~CG~~GH~~~dC~~~~~ 321 (342)
.|-...||+|+..||+...||....
T Consensus 155 Pppsy~c~rc~~~g~wikacptv~~ 179 (448)
T KOG0314|consen 155 PPPSYKCVKCPTPGPWIKACPTVSG 179 (448)
T ss_pred CCCCcceecCCCCCccceeccccCC
Confidence 3445678888888888888876554
No 21
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=85.01 E-value=0.39 Score=46.90 Aligned_cols=22 Identities=32% Similarity=0.827 Sum_probs=17.7
Q ss_pred ccCccccCCCCCCccCCCCCCC
Q 019350 247 QNAQVCLKCGDSGHDMFSCRNS 268 (342)
Q Consensus 247 ~~~~~C~~CG~~GH~a~dCp~~ 268 (342)
..+..||+||+.|||...||..
T Consensus 174 PpgY~CyRCGqkgHwIqnCpTN 195 (427)
T COG5222 174 PPGYVCYRCGQKGHWIQNCPTN 195 (427)
T ss_pred CCceeEEecCCCCchhhcCCCC
Confidence 3468899999999999999864
No 22
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=83.66 E-value=0.58 Score=45.65 Aligned_cols=24 Identities=25% Similarity=0.590 Sum_probs=19.1
Q ss_pred ccCccccCCCCCCccCCCCCCCCC
Q 019350 247 QNAQVCLKCGDSGHDMFSCRNSYS 270 (342)
Q Consensus 247 ~~~~~C~~CG~~GH~a~dCp~~~~ 270 (342)
.....||+||+.|||+.+||..+.
T Consensus 158 gDq~~cyrcGkeghwskEcP~~~~ 181 (346)
T KOG0109|consen 158 GDQSGCYRCGKEGHWSKECPVDRT 181 (346)
T ss_pred CCHHHheeccccccccccCCccCC
Confidence 345679999999999999998754
No 23
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=82.67 E-value=0.58 Score=32.45 Aligned_cols=18 Identities=44% Similarity=0.959 Sum_probs=12.1
Q ss_pred cccccccccCcccc--cccc
Q 019350 181 QTCYNCGEEGHMAV--NCRS 198 (342)
Q Consensus 181 ~~C~~CG~~GH~a~--~Cp~ 198 (342)
++|.+||..||.+. .||.
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~ 21 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPM 21 (40)
T ss_pred ccccccccccccccCccCCC
Confidence 46778888888763 4554
No 24
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=81.46 E-value=0.53 Score=33.61 Aligned_cols=17 Identities=35% Similarity=1.050 Sum_probs=15.3
Q ss_pred cccccccccCccccccc
Q 019350 181 QTCYNCGEEGHMAVNCR 197 (342)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp 197 (342)
..|++||..||...+||
T Consensus 32 ~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 32 RFCFHCGRIGHSDKECP 48 (49)
T ss_pred hhhcCCCCcCcCHhHcC
Confidence 56999999999999997
No 25
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=80.62 E-value=0.98 Score=44.23 Aligned_cols=28 Identities=32% Similarity=0.503 Sum_probs=22.1
Q ss_pred CCCCCCccccccCCCCCCCCCCCCCccc
Q 019350 295 DAVPGEVSCFRCGQLGHTGLVSSLNLSI 322 (342)
Q Consensus 295 ~~~~~~~~Cy~CG~~GH~~~dC~~~~~~ 322 (342)
+-.|.+-.||+||+.|||-..||.++-+
T Consensus 171 kppPpgY~CyRCGqkgHwIqnCpTN~Dp 198 (427)
T COG5222 171 KPPPPGYVCYRCGQKGHWIQNCPTNQDP 198 (427)
T ss_pred CCCCCceeEEecCCCCchhhcCCCCCCC
Confidence 3345567899999999999999987643
No 26
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=79.56 E-value=1.1 Score=43.88 Aligned_cols=22 Identities=27% Similarity=0.714 Sum_probs=19.3
Q ss_pred CCccccccCCCCCCCCCCCCCc
Q 019350 299 GEVSCFRCGQLGHTGLVSSLNL 320 (342)
Q Consensus 299 ~~~~Cy~CG~~GH~~~dC~~~~ 320 (342)
....||.||..|||+.+||...
T Consensus 159 Dq~~cyrcGkeghwskEcP~~~ 180 (346)
T KOG0109|consen 159 DQSGCYRCGKEGHWSKECPVDR 180 (346)
T ss_pred CHHHheeccccccccccCCccC
Confidence 5778999999999999999754
No 27
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=77.60 E-value=1.4 Score=29.88 Aligned_cols=22 Identities=23% Similarity=0.258 Sum_probs=13.4
Q ss_pred ccccccCCCCCCCCCCCCCccc
Q 019350 301 VSCFRCGQLGHTGLVSSLNLSI 322 (342)
Q Consensus 301 ~~Cy~CG~~GH~~~dC~~~~~~ 322 (342)
..|++|+...|++.+|+....+
T Consensus 3 ~~CprC~kg~Hwa~~C~sk~d~ 24 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSKTDV 24 (36)
T ss_dssp -C-TTTSSSCS-TTT---TCCC
T ss_pred ccCcccCCCcchhhhhhhhhcc
Confidence 4799999999999999865443
No 28
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=77.29 E-value=1.9 Score=29.18 Aligned_cols=20 Identities=30% Similarity=0.655 Sum_probs=11.7
Q ss_pred ccccCCCCCCccCCCCCCCC
Q 019350 250 QVCLKCGDSGHDMFSCRNSY 269 (342)
Q Consensus 250 ~~C~~CG~~GH~a~dCp~~~ 269 (342)
..|.+|++..||+.+|-..+
T Consensus 3 ~~CprC~kg~Hwa~~C~sk~ 22 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSKT 22 (36)
T ss_dssp -C-TTTSSSCS-TTT---TC
T ss_pred ccCcccCCCcchhhhhhhhh
Confidence 46889999999999997654
No 29
>COG5176 MSL5 Splicing factor (branch point binding protein) [RNA processing and modification]
Probab=64.32 E-value=2.9 Score=39.15 Aligned_cols=120 Identities=15% Similarity=0.058 Sum_probs=65.8
Q ss_pred cHHHHHHHHHhhhhhcCCCCCCCceeecC-----CCCCCCCCCCCCCCCCeeeecCCCCCCCcchhhhhccchhhHHHHH
Q 019350 41 SLKIVEKHMLMRAAKLDQDDSDSDVVLND-----NTNTNTSDNSNNKNGGVEAVVPGPSGTTDDVIIEDVKSSDKKRIRV 115 (342)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 115 (342)
-|.++|.+|-|-.--...||.-+-.+.-+ -++-- +.-.|..--||.+ -+...-+..|.+||+|||
T Consensus 122 r~~l~era~k~lp~fv~p~dy~rpsk~q~KiYIPV~eyP--------e~NFVGLliGPRG--~Tlk~le~~s~akIaIRG 191 (269)
T COG5176 122 RLWLKERAQKILPRFVLPNDYIRPSKYQNKIYIPVQEYP--------ESNFVGLLIGPRG--STLKQLERISRAKIAIRG 191 (269)
T ss_pred HHHHHHHHHHhcCcccCCccccCcccccceEEeehhhCc--------ccceeEEEecCCc--chHHHHHHHhCCeEEEec
Confidence 38889988877644444444433111111 01111 1223444555554 345667778999999999
Q ss_pred Hhhhhhhhhhhh-------cccch-hhhhh-hhhhhhhhhccccccc----cccchhHHHHHHhhCCC
Q 019350 116 RKKKKKEADKIE-------IEDQS-VIVRK-EEQKVETADNGDEGVT----TVEISDNIVLRKLLRGP 170 (342)
Q Consensus 116 kk~~k~~~~~~~-------~e~q~-v~~ia-~ee~le~~~~A~e~v~----~v~~~~n~~~r~~~r~~ 170 (342)
+.++|+.+...+ +|... -.|++ .++.+.++.+....+. ..|.++|.+.|.+++..
T Consensus 192 ~gsvKegk~ssd~p~~~~N~e~~lhcLI~adsedki~~~ik~~~n~I~~a~~~PeGqnDlkR~qlr~l 259 (269)
T COG5176 192 SGSVKEGKISSDTPESLKNAEAVLHCLIEADSEDKICRLIKSQLNAIREARRNPEGQNDLKRFQLRWL 259 (269)
T ss_pred ccccccCcccccCchhhhhhHHhHHHHhhcchhhhHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHH
Confidence 999998765544 22221 11222 4555555444443333 56667788777776543
No 30
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=47.29 E-value=23 Score=34.95 Aligned_cols=26 Identities=31% Similarity=0.709 Sum_probs=15.5
Q ss_pred CCccccccCCCCcCcccCCCCCCCCCccccccCCCC
Q 019350 275 KEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLG 310 (342)
Q Consensus 275 ~~~~C~~Cg~~GH~~c~~~~~~~~~~~~Cy~CG~~G 310 (342)
+...|..|+..=|+ ..+.|-+||+.+
T Consensus 211 RyL~CslC~teW~~----------~R~~C~~Cg~~~ 236 (309)
T PRK03564 211 RYLHCNLCESEWHV----------VRVKCSNCEQSG 236 (309)
T ss_pred eEEEcCCCCCcccc----------cCccCCCCCCCC
Confidence 45566666666665 245667777644
No 31
>PF07708 Tash_PEST: Tash protein PEST motif; InterPro: IPR011695 The PEST motif is found in one or more copies in Tash AT-hook proteins from Theileria annulata. Tash proteins are transported to the host nucleus and are thought to be involved in pathogenesis []. The PEST motif is often found in conjunction with the (IPR007480 from INTERPRO), whose function is unknown. These repeats may be part of the PEST motif (a signal for rapid proteolytic degradation) [], though this is not proven. This motif is also found in other T. annulata proteins, which have no other known domains.
Probab=43.85 E-value=12 Score=21.97 Aligned_cols=15 Identities=27% Similarity=0.317 Sum_probs=11.2
Q ss_pred hccceEEeccCcccc
Q 019350 22 KLKSAAAMSSDDEEG 36 (342)
Q Consensus 22 ~~~~~~~~~~~~~~~ 36 (342)
+.+.-++|+|||||.
T Consensus 5 PEti~vEi~SDeeee 19 (19)
T PF07708_consen 5 PETIPVEIGSDEEEE 19 (19)
T ss_pred CceEEEEecccccCC
Confidence 456667899998873
No 32
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=43.75 E-value=7.1 Score=34.70 Aligned_cols=20 Identities=25% Similarity=0.707 Sum_probs=18.1
Q ss_pred ccccccccccCccccccccc
Q 019350 180 WQTCYNCGEEGHMAVNCRSA 199 (342)
Q Consensus 180 ~~~C~~CG~~GH~a~~Cp~~ 199 (342)
.+.|.+|.+.|||.++|.+.
T Consensus 27 ~~rCQKClq~GHWtYECk~k 46 (177)
T KOG3116|consen 27 SARCQKCLQAGHWTYECKNK 46 (177)
T ss_pred chhHHHHHhhccceeeecCc
Confidence 46899999999999999985
No 33
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=39.81 E-value=19 Score=22.16 Aligned_cols=9 Identities=33% Similarity=0.792 Sum_probs=5.9
Q ss_pred CccccccCC
Q 019350 300 EVSCFRCGQ 308 (342)
Q Consensus 300 ~~~Cy~CG~ 308 (342)
..+|.+||.
T Consensus 16 ~~fC~~CG~ 24 (26)
T PF13248_consen 16 AKFCPNCGA 24 (26)
T ss_pred cccChhhCC
Confidence 467777765
No 34
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=36.73 E-value=39 Score=33.35 Aligned_cols=76 Identities=20% Similarity=0.365 Sum_probs=48.5
Q ss_pred CccccCCCCCCccCC--CCCCCCCCCCcCCccccccCCCCcCcccCCCCCCCCCccccccCCCCCCCCCCCCCcccccc-
Q 019350 249 AQVCLKCGDSGHDMF--SCRNSYSLDDLKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLVSSLNLSIEIL- 325 (342)
Q Consensus 249 ~~~C~~CG~~GH~a~--dCp~~~~~~~~~~~~C~~Cg~~GH~~c~~~~~~~~~~~~Cy~CG~~GH~~~dC~~~~~~~~~- 325 (342)
...|--||..=+.+. .-+ ...+.+...|..|+..=|+ ..+.|-+||+..++.+=- +...
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~---~~~G~RyL~CslC~teW~~----------~R~~C~~Cg~~~~l~y~~-----~e~~~ 245 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGG---KETGLRYLSCSLCATEWHY----------VRVKCSHCEESKHLAYLS-----LEHDA 245 (305)
T ss_pred CCcCCCCCChhhhhhhcccC---CCCCceEEEcCCCCCcccc----------cCccCCCCCCCCceeeEe-----ecCCC
Confidence 468999999854431 111 1234578899999998888 357999999876543211 1100
Q ss_pred ceeeEEeecccccccCC
Q 019350 326 VIIYWEMRGCFNLHAYC 342 (342)
Q Consensus 326 ~~~~~~~~~~~~~~~~~ 342 (342)
.-..+.-..|..|+.|.
T Consensus 246 ~~~~~r~e~C~~C~~Yl 262 (305)
T TIGR01562 246 EKAVLKAETCDSCQGYL 262 (305)
T ss_pred CCcceEEeeccccccch
Confidence 11234567899999984
No 35
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=35.74 E-value=40 Score=37.15 Aligned_cols=54 Identities=26% Similarity=0.508 Sum_probs=33.6
Q ss_pred CCccCccccCCCCCCccCCCCCCCCC--C--CCcCCccccccCCCCcCcccCCCCCCCCCccccccCCCCCCCC
Q 019350 245 GFQNAQVCLKCGDSGHDMFSCRNSYS--L--DDLKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGL 314 (342)
Q Consensus 245 g~~~~~~C~~CG~~GH~a~dCp~~~~--~--~~~~~~~C~~Cg~~GH~~c~~~~~~~~~~~~Cy~CG~~GH~~~ 314 (342)
|+.....|..||-. ..||+-.. . .......|..||-... .+..|.+||.. |+-.
T Consensus 431 Gys~~l~C~~Cg~v----~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~-----------~p~~Cp~Cgs~-~L~~ 488 (730)
T COG1198 431 GYAPLLLCRDCGYI----AECPNCDSPLTLHKATGQLRCHYCGYQEP-----------IPQSCPECGSE-HLRA 488 (730)
T ss_pred CccceeecccCCCc----ccCCCCCcceEEecCCCeeEeCCCCCCCC-----------CCCCCCCCCCC-eeEE
Confidence 45566778888643 46765311 1 1235678888876543 36789999998 6543
No 36
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=35.00 E-value=6.7 Score=37.87 Aligned_cols=52 Identities=17% Similarity=0.367 Sum_probs=20.3
Q ss_pred CCccccccCCCCcCcccCCCCCCCCCccccccCCCCCCCCCCCCCccccccceeeEEeecccccccC
Q 019350 275 KEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLVSSLNLSIEILVIIYWEMRGCFNLHAY 341 (342)
Q Consensus 275 ~~~~C~~Cg~~GH~~c~~~~~~~~~~~~Cy~CG~~GH~~~dC~~~~~~~~~~~~~~~~~~~~~~~~~ 341 (342)
+...|..|+..=|+ ..+.|-+||...|....= +..-+...+.-..|..|+.|
T Consensus 196 R~L~Cs~C~t~W~~----------~R~~Cp~Cg~~~~~~l~~-----~~~e~~~~~rve~C~~C~~Y 247 (290)
T PF04216_consen 196 RYLHCSLCGTEWRF----------VRIKCPYCGNTDHEKLEY-----FTVEGEPAYRVEVCESCGSY 247 (290)
T ss_dssp EEEEETTT--EEE------------TTS-TTT---SS-EEE-------------SEEEEEETTTTEE
T ss_pred EEEEcCCCCCeeee----------cCCCCcCCCCCCCcceee-----EecCCCCcEEEEECCcccch
Confidence 44556666555444 235666777666644321 10111124445667777766
No 37
>smart00816 Amb_V_allergen Amb V Allergen. Amb V is an Ambrosia sp (ragweed) pollen allergen. Amb t V has been shown to contain a C-terminal helix as the major T cell epitope. Free sulphhydryl groups also play a major role in the T cell recognition of cross-reactivity T cell epitopes within these related allergens.
Probab=34.37 E-value=29 Score=24.24 Aligned_cols=25 Identities=24% Similarity=0.603 Sum_probs=20.3
Q ss_pred ccCCCCcCcccCCCCCCCCCccccc
Q 019350 281 ICRCFGHLCCVNISDAVPGEVSCFR 305 (342)
Q Consensus 281 ~Cg~~GH~~c~~~~~~~~~~~~Cy~ 305 (342)
+||+.+-++|..|.+-||=.+.||.
T Consensus 11 ~CGekr~YCcSdpGrYCpwqvVCYe 35 (45)
T smart00816 11 NCGEKRKYCCSDPGRYCPWQVVCYE 35 (45)
T ss_pred cccccCccccCCCcccCCceEEEee
Confidence 7888888888888887888888884
No 38
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=32.54 E-value=33 Score=28.57 Aligned_cols=39 Identities=18% Similarity=0.075 Sum_probs=23.9
Q ss_pred CccccccCCCCCCCCCCCCCccccccceeeEEeecccccccC
Q 019350 300 EVSCFRCGQLGHTGLVSSLNLSIEILVIIYWEMRGCFNLHAY 341 (342)
Q Consensus 300 ~~~Cy~CG~~GH~~~dC~~~~~~~~~~~~~~~~~~~~~~~~~ 341 (342)
++.|..||....+....-.........|+.| .|.+|-||
T Consensus 2 p~~CpYCg~~~~l~~~~~iYg~~~~~~~~~y---~C~~C~Ay 40 (102)
T PF11672_consen 2 PIICPYCGGPAELVDGSEIYGHRYDDGPYLY---VCTPCDAY 40 (102)
T ss_pred CcccCCCCCeeEEcccchhcCccCCCCceeE---ECCCCCce
Confidence 4567777777776665444444444556555 57777776
No 39
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=32.28 E-value=22 Score=26.72 Aligned_cols=10 Identities=40% Similarity=1.002 Sum_probs=6.4
Q ss_pred ccccccCCCC
Q 019350 301 VSCFRCGQLG 310 (342)
Q Consensus 301 ~~Cy~CG~~G 310 (342)
-.|.+||..|
T Consensus 49 Y~CP~CGF~G 58 (59)
T PRK14890 49 YTCPKCGFEG 58 (59)
T ss_pred eECCCCCCcC
Confidence 4666777655
No 40
>PF12773 DZR: Double zinc ribbon
Probab=29.75 E-value=78 Score=21.93 Aligned_cols=10 Identities=20% Similarity=0.345 Sum_probs=6.0
Q ss_pred CccccccCCC
Q 019350 276 EVQCYICRCF 285 (342)
Q Consensus 276 ~~~C~~Cg~~ 285 (342)
...|..|+..
T Consensus 29 ~~~C~~Cg~~ 38 (50)
T PF12773_consen 29 KKICPNCGAE 38 (50)
T ss_pred CCCCcCCcCC
Confidence 4566666664
No 41
>COG5129 MAK16 Nuclear protein with HMG-like acidic region [General function prediction only]
Probab=29.25 E-value=45 Score=31.68 Aligned_cols=29 Identities=31% Similarity=0.344 Sum_probs=17.2
Q ss_pred hhhccceEEeccCcccccccccHHHHHHHH
Q 019350 20 EEKLKSAAAMSSDDEEGNEDLSLKIVEKHM 49 (342)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 49 (342)
+|.+-.++++-+||.|. +-...+.+|+||
T Consensus 207 eE~~d~elE~vtdD~e~-e~~~~~dlekWl 235 (303)
T COG5129 207 EEESDTELEAVTDDSEK-EKTKKKDLEKWL 235 (303)
T ss_pred hhcccceeEeecccccc-chhhHHHHHHHh
Confidence 33445556665555443 455677889994
No 42
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=29.20 E-value=36 Score=37.74 Aligned_cols=23 Identities=26% Similarity=0.774 Sum_probs=16.5
Q ss_pred cCccccCCCCCCccCCCCCCCCC
Q 019350 248 NAQVCLKCGDSGHDMFSCRNSYS 270 (342)
Q Consensus 248 ~~~~C~~CG~~GH~a~dCp~~~~ 270 (342)
....|+.||+.||.+.+|....+
T Consensus 259 ~~~~C~~cgq~gh~~~dc~g~~~ 281 (931)
T KOG2044|consen 259 KPRRCFLCGQTGHEAKDCEGKPR 281 (931)
T ss_pred CcccchhhcccCCcHhhcCCcCC
Confidence 34568888888888888876544
No 43
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=29.18 E-value=25 Score=30.21 Aligned_cols=19 Identities=21% Similarity=0.447 Sum_probs=16.5
Q ss_pred ccccccccccCccccccccc
Q 019350 180 WQTCYNCGEEGHMAVNCRSA 199 (342)
Q Consensus 180 ~~~C~~CG~~GH~a~~Cp~~ 199 (342)
.+.|+.|+ ..||...||..
T Consensus 106 ~v~CR~Ck-GdH~T~~CPyK 124 (128)
T PF12353_consen 106 KVKCRICK-GDHWTSKCPYK 124 (128)
T ss_pred eEEeCCCC-CCcccccCCcc
Confidence 48899996 78999999975
No 44
>COG0484 DnaJ DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]
Probab=28.56 E-value=29 Score=35.22 Aligned_cols=54 Identities=19% Similarity=0.388 Sum_probs=24.7
Q ss_pred CCcccccCCCCccccCCCCccCccccCCCCCCCCCCCCCCCCCccCccccCCCCCCccC
Q 019350 204 KPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDM 262 (342)
Q Consensus 204 ~~C~~CG~~GH~~~~Cp~~~~C~~C~~~GH~ardCp~~~~~g~~~~~~C~~CG~~GH~a 262 (342)
..|..|...|-. .......|..|+..|-....=-. +.......|..|+..|++.
T Consensus 143 ~~C~~C~GsGak--~gt~~~tC~tC~G~G~v~~~~~~---g~~~~~~~C~~C~G~G~~i 196 (371)
T COG0484 143 VTCSTCHGSGAK--PGTDPKTCPTCNGSGQVRTVQRT---GFFSFQQTCPTCNGTGKII 196 (371)
T ss_pred eECCcCCCCCCC--CCCCCCcCCCCCCcCeEEEEEee---eEEEEEEECCCCccceeEC
Confidence 456666544322 22223456666665532111000 1123345666666666655
No 45
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=28.17 E-value=39 Score=20.39 Aligned_cols=10 Identities=30% Similarity=0.723 Sum_probs=5.8
Q ss_pred CCccccccCC
Q 019350 299 GEVSCFRCGQ 308 (342)
Q Consensus 299 ~~~~Cy~CG~ 308 (342)
...+|.+||.
T Consensus 12 ~~~fC~~CG~ 21 (23)
T PF13240_consen 12 DAKFCPNCGT 21 (23)
T ss_pred cCcchhhhCC
Confidence 3456666664
No 46
>PRK14289 chaperone protein DnaJ; Provisional
Probab=27.19 E-value=48 Score=33.35 Aligned_cols=17 Identities=18% Similarity=0.225 Sum_probs=8.0
Q ss_pred HHHHHHHHhhhhhcCCC
Q 019350 43 KIVEKHMLMRAAKLDQD 59 (342)
Q Consensus 43 ~~~~~~~~~~~~~~~~~ 59 (342)
+-+.+|.+..|.++-+|
T Consensus 20 ~eik~ayr~la~~~HpD 36 (386)
T PRK14289 20 DEIKKAYRKKAIQYHPD 36 (386)
T ss_pred HHHHHHHHHHHHHHCCC
Confidence 33555545554444433
No 47
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=27.11 E-value=36 Score=29.25 Aligned_cols=22 Identities=18% Similarity=0.206 Sum_probs=16.7
Q ss_pred CCccccccCCCCCCCCCCCCCcc
Q 019350 299 GEVSCFRCGQLGHTGLVSSLNLS 321 (342)
Q Consensus 299 ~~~~Cy~CG~~GH~~~dC~~~~~ 321 (342)
..+.|.+|+ -.||...||+.+.
T Consensus 105 ~~v~CR~Ck-GdH~T~~CPyKd~ 126 (128)
T PF12353_consen 105 SKVKCRICK-GDHWTSKCPYKDT 126 (128)
T ss_pred ceEEeCCCC-CCcccccCCcccc
Confidence 467888886 7788888887653
No 48
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=27.01 E-value=29 Score=26.25 Aligned_cols=10 Identities=40% Similarity=0.946 Sum_probs=6.3
Q ss_pred ccccccCCCC
Q 019350 301 VSCFRCGQLG 310 (342)
Q Consensus 301 ~~Cy~CG~~G 310 (342)
-.|.+||..|
T Consensus 51 Y~Cp~CGF~G 60 (61)
T COG2888 51 YRCPKCGFEG 60 (61)
T ss_pred eECCCcCccC
Confidence 4666777655
No 49
>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=26.92 E-value=14 Score=33.06 Aligned_cols=13 Identities=23% Similarity=0.554 Sum_probs=10.6
Q ss_pred CCCccccccCCCC
Q 019350 298 PGEVSCFRCGQLG 310 (342)
Q Consensus 298 ~~~~~Cy~CG~~G 310 (342)
..+.+|++||.+-
T Consensus 66 ~~PsYC~~CGkpy 78 (158)
T PF10083_consen 66 EAPSYCHNCGKPY 78 (158)
T ss_pred CCChhHHhCCCCC
Confidence 4688999999864
No 50
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.36 E-value=64 Score=35.60 Aligned_cols=7 Identities=29% Similarity=0.188 Sum_probs=3.4
Q ss_pred HHHHHHH
Q 019350 42 LKIVEKH 48 (342)
Q Consensus 42 ~~~~~~~ 48 (342)
+.+|..+
T Consensus 782 ~~~vn~~ 788 (877)
T KOG1059|consen 782 LHKVNLA 788 (877)
T ss_pred HHHHHHh
Confidence 5555544
No 51
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=25.33 E-value=36 Score=31.24 Aligned_cols=15 Identities=47% Similarity=1.183 Sum_probs=7.5
Q ss_pred ccccCCCCCCCCCCC
Q 019350 303 CFRCGQLGHTGLVSS 317 (342)
Q Consensus 303 Cy~CG~~GH~~~dC~ 317 (342)
||+||+.||+++.|.
T Consensus 103 ~~r~G~rg~~~r~~~ 117 (195)
T KOG0107|consen 103 CYRCGERGHIGRNCK 117 (195)
T ss_pred cccCCCccccccccc
Confidence 555555555554443
No 52
>TIGR02349 DnaJ_bact chaperone protein DnaJ. This model represents bacterial forms of DnaJ, part of the DnaK-DnaJ-GrpE chaperone system. The three components typically are encoded by consecutive genes. DnaJ homologs occur in many genomes, typically not near DnaK and GrpE-like genes; most such genes are not included by this family. Eukaryotic (mitochondrial and chloroplast) forms are not included in the scope of this family.
Probab=25.23 E-value=63 Score=32.04 Aligned_cols=16 Identities=25% Similarity=0.081 Sum_probs=7.3
Q ss_pred cHHHHHHHHHhhhhhc
Q 019350 41 SLKIVEKHMLMRAAKL 56 (342)
Q Consensus 41 ~~~~~~~~~~~~~~~~ 56 (342)
|.+.+.+|.+..|.++
T Consensus 13 ~~~~ik~ayr~la~~~ 28 (354)
T TIGR02349 13 SEEEIKKAYRKLAKKY 28 (354)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 4444555544444443
No 53
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=24.23 E-value=72 Score=33.44 Aligned_cols=23 Identities=26% Similarity=0.678 Sum_probs=14.8
Q ss_pred CccccccCCCCcCcccCCCCCCCCCccccccCCC
Q 019350 276 EVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQL 309 (342)
Q Consensus 276 ~~~C~~Cg~~GH~~c~~~~~~~~~~~~Cy~CG~~ 309 (342)
...|..||..- +.+..|.+||..
T Consensus 240 ~l~Ch~Cg~~~-----------~~~~~Cp~C~s~ 262 (505)
T TIGR00595 240 KLRCHYCGYQE-----------PIPKTCPQCGSE 262 (505)
T ss_pred eEEcCCCcCcC-----------CCCCCCCCCCCC
Confidence 45677776432 235688889875
No 54
>PRK14298 chaperone protein DnaJ; Provisional
Probab=23.85 E-value=52 Score=33.12 Aligned_cols=12 Identities=25% Similarity=0.678 Sum_probs=6.6
Q ss_pred ccccCCCCCCcc
Q 019350 250 QVCLKCGDSGHD 261 (342)
Q Consensus 250 ~~C~~CG~~GH~ 261 (342)
..|..|+..|..
T Consensus 185 ~~C~~C~G~G~~ 196 (377)
T PRK14298 185 TTCSTCHGRGQV 196 (377)
T ss_pred EeCCCCCCCCcc
Confidence 456666555543
No 55
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=23.73 E-value=22 Score=31.70 Aligned_cols=22 Identities=23% Similarity=0.353 Sum_probs=18.5
Q ss_pred CCCccccccCCCCCCCCCCCCC
Q 019350 298 PGEVSCFRCGQLGHTGLVSSLN 319 (342)
Q Consensus 298 ~~~~~Cy~CG~~GH~~~dC~~~ 319 (342)
+..+.|..|-+.|||.++|...
T Consensus 25 ~~~~rCQKClq~GHWtYECk~k 46 (177)
T KOG3116|consen 25 GSSARCQKCLQAGHWTYECKNK 46 (177)
T ss_pred ccchhHHHHHhhccceeeecCc
Confidence 4567899999999999999753
No 56
>PRK14298 chaperone protein DnaJ; Provisional
Probab=23.67 E-value=65 Score=32.43 Aligned_cols=53 Identities=21% Similarity=0.492 Sum_probs=29.6
Q ss_pred ccccCCCCCCccCCCCCCCCCCCCcCCccccccCCCCcCcccCCCCCCCCCccccccCCCCCCC
Q 019350 250 QVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTG 313 (342)
Q Consensus 250 ~~C~~CG~~GH~a~dCp~~~~~~~~~~~~C~~Cg~~GH~~c~~~~~~~~~~~~Cy~CG~~GH~~ 313 (342)
..|..|+..|.....-..+.. .......|..|...|.+. ...|..|...|-..
T Consensus 159 ~~C~~C~G~G~~~~~~~~~~g-~~~~~~~C~~C~G~G~~~----------~~~C~~C~G~g~v~ 211 (377)
T PRK14298 159 KRCPTCGGTGQVTTTRSTPLG-QFVTTTTCSTCHGRGQVI----------ESPCPVCSGTGKVR 211 (377)
T ss_pred CcCCCCCCccEEEEEEecCce-eEEEEEeCCCCCCCCccc----------CCCCCCCCCccEEE
Confidence 568888877765432111100 112345788888888662 23477777776543
No 57
>PF00684 DnaJ_CXXCXGXG: DnaJ central domain; InterPro: IPR001305 The hsp70 chaperone machine performs many diverse roles in the cell, including folding of nascent proteins, translocation of polypeptides across organelle membranes, coordinating responses to stress, and targeting selected proteins for degradation. DnaJ is a member of the hsp40 family of molecular chaperones, which is also called the J-protein family, the members of which regulate the activity of hsp70s. DnaJ (hsp40) binds to DnaK (hsp70) and stimulates its ATPase activity, generating the ADP-bound state of DnaK, which interacts stably with the polypeptide substrate []. Besides stimulating the ATPase activity of DnaK through its J-domain, DnaJ also associates with unfolded polypeptide chains and prevents their aggregation []. DnaJ consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acid residues, a glycine and phenylalanine-rich domain ('G/F' domain), a central cysteine rich domain (CR-type zinc finger) containing four repeats of a CXXCXGXG motif which can coordinate two zinc atom and a C-terminal domain (CTD) []. This entry represents the central cysteine-rich (CR) domain of DnaJ proteins. This central cysteine rich domain (CR-type zinc finger) has an overall V-shaped extended beta-hairpin topology and contains four repeats of the motif CXXCXGXG where X is any amino acid. The isolated cysteine rich domain folds in zinc dependent fashion. Each set of two repeats binds one unit of zinc. Although this domain has been implicated in substrate binding, no evidence of specific interaction between the isolated DnaJ cysteine rich domain and various hydrophobic peptides has been found [].; GO: 0031072 heat shock protein binding, 0051082 unfolded protein binding; PDB: 1NLT_A 2CTT_A 1EXK_A.
Probab=23.22 E-value=63 Score=24.15 Aligned_cols=13 Identities=23% Similarity=0.585 Sum_probs=5.8
Q ss_pred CccccccCCCCcC
Q 019350 276 EVQCYICRCFGHL 288 (342)
Q Consensus 276 ~~~C~~Cg~~GH~ 288 (342)
.+.|..|+..|.+
T Consensus 41 ~~~C~~C~G~G~~ 53 (66)
T PF00684_consen 41 QQTCPKCGGTGKI 53 (66)
T ss_dssp EEE-TTTSSSSEE
T ss_pred EEECCCCcceeeE
Confidence 3445555555544
No 58
>PF15616 TerY-C: TerY-C metal binding domain
Probab=22.72 E-value=37 Score=29.47 Aligned_cols=18 Identities=44% Similarity=0.796 Sum_probs=13.6
Q ss_pred CCCccccccCCCCCCCCC
Q 019350 298 PGEVSCFRCGQLGHTGLV 315 (342)
Q Consensus 298 ~~~~~Cy~CG~~GH~~~d 315 (342)
+..+.|..||..|.|+..
T Consensus 103 ~~~~~CPwCg~~g~~~~~ 120 (131)
T PF15616_consen 103 EGEVTCPWCGNEGSFGAG 120 (131)
T ss_pred CCCEECCCCCCeeeeccc
Confidence 346888889988887754
No 59
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=22.66 E-value=37 Score=37.69 Aligned_cols=21 Identities=33% Similarity=0.583 Sum_probs=17.8
Q ss_pred CCccccccCCCCCCCCCCCCC
Q 019350 299 GEVSCFRCGQLGHTGLVSSLN 319 (342)
Q Consensus 299 ~~~~Cy~CG~~GH~~~dC~~~ 319 (342)
.+..|+.||+.||++.+|.-.
T Consensus 259 ~~~~C~~cgq~gh~~~dc~g~ 279 (931)
T KOG2044|consen 259 KPRRCFLCGQTGHEAKDCEGK 279 (931)
T ss_pred CcccchhhcccCCcHhhcCCc
Confidence 466799999999999999754
No 60
>PF03913 Amb_V_allergen: Amb V Allergen; InterPro: IPR005611 Amb V is an Ambrosia sp (ragweed) pollen allergen. Amb t V has been shown to contain a C-terminal helix as the major T cell epitope. Free sulphydryl groups also play a major role in the T cell recognition of cross-reactivity T cell epitopes within these related allergens [].; PDB: 2BBG_A 3BBG_A 1BBG_A.
Probab=21.91 E-value=48 Score=23.11 Aligned_cols=25 Identities=28% Similarity=0.675 Sum_probs=14.3
Q ss_pred ccCCCCcCcccCCCCCCCCCccccc
Q 019350 281 ICRCFGHLCCVNISDAVPGEVSCFR 305 (342)
Q Consensus 281 ~Cg~~GH~~c~~~~~~~~~~~~Cy~ 305 (342)
+||+.+-++|..+.+-||=.+.||.
T Consensus 10 ~CGekr~YCcSdpGrYCpwqvVCYe 34 (44)
T PF03913_consen 10 ICGEKRAYCCSDPGRYCPWQVVCYE 34 (44)
T ss_dssp TTS-TTSEEE-SSSSS-----EEES
T ss_pred cccccCCeecCCCcccccceeeeec
Confidence 6888888888877777888888884
No 61
>COG5593 Nucleic-acid-binding protein possibly involved in ribosomal biogenesis [Translation, ribosomal structure and biogenesis]
Probab=21.84 E-value=41 Score=35.86 Aligned_cols=26 Identities=15% Similarity=0.078 Sum_probs=13.2
Q ss_pred cCCCCCCCcchhhhhccchhhHHHHH
Q 019350 90 VPGPSGTTDDVIIEDVKSSDKKRIRV 115 (342)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 115 (342)
+.-++-|.+..+.+.+.-++|.++|+
T Consensus 772 e~~~~~e~e~eeee~~e~s~~~a~kk 797 (821)
T COG5593 772 EEDESSEEEKEEEENKEVSAKRAKKK 797 (821)
T ss_pred ccCccccchhhhhhhhhHHHHHHHHH
Confidence 33444455555555555455544443
No 62
>KOG2422 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.65 E-value=27 Score=37.48 Aligned_cols=14 Identities=21% Similarity=0.366 Sum_probs=5.7
Q ss_pred EeccCccccccccc
Q 019350 28 AMSSDDEEGNEDLS 41 (342)
Q Consensus 28 ~~~~~~~~~~~~~~ 41 (342)
.+.|||+++-+.-+
T Consensus 26 d~esded~e~s~~k 39 (665)
T KOG2422|consen 26 DMESDEDTEESGQK 39 (665)
T ss_pred cccccccchhcccc
Confidence 44454443333333
No 63
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=21.63 E-value=1.1e+02 Score=33.44 Aligned_cols=48 Identities=21% Similarity=0.346 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCcCCccccccCCC-CcCccc-CCCCCCCCCccccccCCC
Q 019350 262 MFSCRNSYSLDDLKEVQCYICRCF-GHLCCV-NISDAVPGEVSCFRCGQL 309 (342)
Q Consensus 262 a~dCp~~~~~~~~~~~~C~~Cg~~-GH~~c~-~~~~~~~~~~~Cy~CG~~ 309 (342)
+.-||.=.........+|..||.. .|..|+ |.....+...+|.+||..
T Consensus 1 M~~Cp~Cg~~n~~~akFC~~CG~~l~~~~Cp~CG~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 1 MLICPQCQFENPNNNRFCQKCGTSLTHKPCPQCGTEVPVDEAHCPNCGAE 50 (645)
T ss_pred CCcCCCCCCcCCCCCccccccCCCCCCCcCCCCCCCCCcccccccccCCc
No 64
>KOG2560 consensus RNA splicing factor - Slu7p [RNA processing and modification]
Probab=21.63 E-value=21 Score=37.10 Aligned_cols=23 Identities=17% Similarity=0.248 Sum_probs=19.5
Q ss_pred CCccccccCCCCCCCCCCCCCcc
Q 019350 299 GEVSCFRCGQLGHTGLVSSLNLS 321 (342)
Q Consensus 299 ~~~~Cy~CG~~GH~~~dC~~~~~ 321 (342)
....|-|||.+||-..+|..+.+
T Consensus 111 RKGACeNCGAmtHk~KDCmERPR 133 (529)
T KOG2560|consen 111 RKGACENCGAMTHKVKDCMERPR 133 (529)
T ss_pred hhhhhhhhhhhhcchHHHhhcch
Confidence 46799999999999999977554
No 65
>PRK14287 chaperone protein DnaJ; Provisional
Probab=21.58 E-value=63 Score=32.44 Aligned_cols=11 Identities=27% Similarity=0.706 Sum_probs=5.2
Q ss_pred cccccCCCCcC
Q 019350 278 QCYICRCFGHL 288 (342)
Q Consensus 278 ~C~~Cg~~GH~ 288 (342)
.|..|...|.+
T Consensus 183 ~C~~C~G~G~~ 193 (371)
T PRK14287 183 VCHHCEGTGKI 193 (371)
T ss_pred eCCCCCCCCcc
Confidence 44444444444
No 66
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=21.29 E-value=14 Score=35.71 Aligned_cols=49 Identities=27% Similarity=0.421 Sum_probs=20.0
Q ss_pred cccccccccCccccccccc--ccCCCCcccccCCCCccccCCCCccCccccCCCCC
Q 019350 181 QTCYNCGEEGHMAVNCRSA--VKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHR 234 (342)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~--~~~~~~C~~CG~~GH~~~~Cp~~~~C~~C~~~GH~ 234 (342)
..|..||..-.++.--... ..+...|..|+..-|+. ...|..|+...|.
T Consensus 173 g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~-----R~~Cp~Cg~~~~~ 223 (290)
T PF04216_consen 173 GYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFV-----RIKCPYCGNTDHE 223 (290)
T ss_dssp SS-TTT---EEEEEEE------EEEEEETTT--EEE-------TTS-TTT---SS-
T ss_pred CcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeec-----CCCCcCCCCCCCc
Confidence 6799999987666654442 12344577777655554 2356667776664
No 67
>PRK14296 chaperone protein DnaJ; Provisional
Probab=21.15 E-value=68 Score=32.27 Aligned_cols=67 Identities=18% Similarity=0.495 Sum_probs=0.0
Q ss_pred ccCccccCCCCCCCCCCCCCCCCCccCccccCCCCCCccCCCCCCCCCCCCcCCccccccCCCCcCcccCCCCCCCCCcc
Q 019350 223 QDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNISDAVPGEVS 302 (342)
Q Consensus 223 ~~C~~C~~~GH~ardCp~~~~~g~~~~~~C~~CG~~GH~a~dCp~~~~~~~~~~~~C~~Cg~~GH~~c~~~~~~~~~~~~ 302 (342)
..|..|...|-.....+. .|..|+..|.....-.... ..-.....|..|+..|-+ ....
T Consensus 150 ~~C~~C~G~G~~~~~~~~----------~C~~C~G~G~~~~~~~~g~-~~~q~~~~C~~C~G~G~~----------~~~~ 208 (372)
T PRK14296 150 TNCSKCFGSGAESNSDIH----------ICNNCHGTGEVLVQKNMGF-FQFQQSAKCNVCNGAGKI----------IKNK 208 (372)
T ss_pred eccCCCCCCccCCCCCCc----------cCCCCCCCceEEEEEeccc-eEEEEEecCCCcCCccee----------eccc
Q ss_pred ccccCCCC
Q 019350 303 CFRCGQLG 310 (342)
Q Consensus 303 Cy~CG~~G 310 (342)
|..|...|
T Consensus 209 C~~C~G~g 216 (372)
T PRK14296 209 CKNCKGKG 216 (372)
T ss_pred ccCCCCce
No 68
>PRK14276 chaperone protein DnaJ; Provisional
Probab=20.91 E-value=69 Score=32.25 Aligned_cols=9 Identities=44% Similarity=1.099 Sum_probs=3.9
Q ss_pred ccccCCCCc
Q 019350 279 CYICRCFGH 287 (342)
Q Consensus 279 C~~Cg~~GH 287 (342)
|..|...|.
T Consensus 206 C~~C~G~g~ 214 (380)
T PRK14276 206 CQTCHGTGH 214 (380)
T ss_pred CCCCCCceE
Confidence 444444443
No 69
>PRK14285 chaperone protein DnaJ; Provisional
Probab=20.57 E-value=1.1e+02 Score=30.76 Aligned_cols=63 Identities=22% Similarity=0.318 Sum_probs=0.0
Q ss_pred ccCccccCCCCCCCCCCCCCCCCCccCccccCCCCCCccCCCCCCCCCCCCcCCccccccCCCCcCcccCCCCCCCCCcc
Q 019350 223 QDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNISDAVPGEVS 302 (342)
Q Consensus 223 ~~C~~C~~~GH~ardCp~~~~~g~~~~~~C~~CG~~GH~a~dCp~~~~~~~~~~~~C~~Cg~~GH~~c~~~~~~~~~~~~ 302 (342)
..|..|...|-....-+. .|..|+..|.... ..+.-.....|..|...|-+ ....
T Consensus 147 ~~C~~C~G~G~~~~~~~~----------~C~~C~G~G~~~~-----~~G~~~~~~~C~~C~G~G~~----------~~~~ 201 (365)
T PRK14285 147 MLCESCLGKKSEKGTSPS----------ICNMCNGSGRVMQ-----GGGFFRVTTTCPKCYGNGKI----------ISNP 201 (365)
T ss_pred ccCCCCCCcccCCCCCCc----------cCCCccCceeEEe-----cCceeEEeeecCCCCCcccc----------cCCC
Q ss_pred ccccCCCC
Q 019350 303 CFRCGQLG 310 (342)
Q Consensus 303 Cy~CG~~G 310 (342)
|..|...|
T Consensus 202 C~~C~G~g 209 (365)
T PRK14285 202 CKSCKGKG 209 (365)
T ss_pred CCCCCCCC
No 70
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=20.43 E-value=60 Score=35.01 Aligned_cols=33 Identities=24% Similarity=0.553 Sum_probs=19.8
Q ss_pred cccccccccCcccccccccccCCCCcccccCCCCccccCC
Q 019350 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCS 220 (342)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~~~~Cp 220 (342)
..|..|+..||.-. ....|..|+..|.....-|
T Consensus 3 ~~C~~C~g~G~i~v-------~~e~c~vc~gtG~~~~~d~ 35 (715)
T COG1107 3 KKCPECGGKGKIVV-------GEEECPVCHGTGFSDDFDP 35 (715)
T ss_pred ccccccCCCceEee-------eeeecccccccccccccCh
Confidence 46888888887622 2235666777766544333
No 71
>PLN03086 PRLI-interacting factor K; Provisional
Probab=20.20 E-value=1e+02 Score=33.12 Aligned_cols=13 Identities=23% Similarity=0.261 Sum_probs=10.0
Q ss_pred ccccccccccccC
Q 019350 178 RGWQTCYNCGEEG 190 (342)
Q Consensus 178 ~~~~~C~~CG~~G 190 (342)
...+.|.||.+.+
T Consensus 405 ~~~V~C~NC~~~i 417 (567)
T PLN03086 405 VDTVECRNCKHYI 417 (567)
T ss_pred CCeEECCCCCCcc
Confidence 3456899999887
No 72
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the