Query 021409
Match_columns 312
No_of_seqs 246 out of 1582
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 02:44:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021409.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021409hhsearch_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 4.8E-23 1E-27 177.1 8.3 114 179-294 26-147 (148)
2 PTZ00368 universal minicircle 99.9 4.4E-22 9.5E-27 171.2 7.9 112 181-295 1-122 (148)
3 COG5082 AIR1 Arginine methyltr 99.8 9.1E-22 2E-26 175.2 5.5 113 177-299 57-177 (190)
4 COG5082 AIR1 Arginine methyltr 99.6 1.4E-15 3.1E-20 135.7 6.5 118 160-289 61-189 (190)
5 KOG4400 E3 ubiquitin ligase in 99.5 4.6E-14 1E-18 131.9 6.2 84 181-270 93-185 (261)
6 KOG4400 E3 ubiquitin ligase in 99.3 1.3E-12 2.8E-17 122.2 6.5 109 179-298 71-186 (261)
7 KOG0119 Splicing factor 1/bran 99.1 4.3E-12 9.3E-17 126.3 -3.0 168 37-221 108-303 (554)
8 PF00098 zf-CCHC: Zinc knuckle 97.8 1.1E-05 2.4E-10 46.2 1.8 16 278-293 2-17 (18)
9 PF00098 zf-CCHC: Zinc knuckle 97.8 1.4E-05 3E-10 45.8 1.9 17 251-267 2-18 (18)
10 COG5176 MSL5 Splicing factor ( 97.6 5.5E-06 1.2E-10 75.6 -2.5 116 38-169 119-258 (269)
11 PF13696 zf-CCHC_2: Zinc knuck 96.3 0.0017 3.8E-08 42.5 1.1 21 248-268 7-27 (32)
12 PF13696 zf-CCHC_2: Zinc knuck 95.9 0.0041 8.8E-08 40.8 1.2 24 275-298 7-30 (32)
13 KOG0119 Splicing factor 1/bran 94.6 0.023 5.1E-07 57.8 2.8 43 250-295 262-304 (554)
14 PF13917 zf-CCHC_3: Zinc knuck 94.4 0.022 4.8E-07 39.6 1.5 17 250-266 5-21 (42)
15 PF13917 zf-CCHC_3: Zinc knuck 94.3 0.02 4.3E-07 39.8 1.1 18 276-293 4-21 (42)
16 smart00343 ZnF_C2HC zinc finge 92.7 0.051 1.1E-06 33.3 0.9 15 252-266 2-16 (26)
17 smart00343 ZnF_C2HC zinc finge 92.5 0.058 1.3E-06 33.1 1.0 19 278-296 1-19 (26)
18 KOG0314 Predicted E3 ubiquitin 91.7 0.25 5.4E-06 50.3 4.9 61 179-241 111-177 (448)
19 KOG0314 Predicted E3 ubiquitin 89.8 0.38 8.1E-06 49.0 4.1 63 204-268 113-177 (448)
20 COG5222 Uncharacterized conser 88.3 0.27 5.9E-06 47.7 1.9 18 250-267 177-194 (427)
21 PF14392 zf-CCHC_4: Zinc knuck 86.7 0.25 5.3E-06 35.0 0.4 18 276-293 31-48 (49)
22 PF14392 zf-CCHC_4: Zinc knuck 86.1 0.29 6.3E-06 34.6 0.6 18 249-266 31-48 (49)
23 KOG0109 RNA-binding protein LA 85.1 0.45 9.7E-06 46.0 1.5 22 249-270 160-181 (346)
24 PF15288 zf-CCHC_6: Zinc knuck 83.9 0.5 1.1E-05 32.6 0.9 19 181-199 2-22 (40)
25 PF15288 zf-CCHC_6: Zinc knuck 82.5 0.69 1.5E-05 31.9 1.1 19 250-268 2-22 (40)
26 COG5222 Uncharacterized conser 81.2 0.86 1.9E-05 44.3 1.7 23 177-199 173-195 (427)
27 PF14787 zf-CCHC_5: GAG-polypr 76.6 1.4 3E-05 29.7 1.1 20 250-269 3-22 (36)
28 PF14787 zf-CCHC_5: GAG-polypr 67.5 3.6 7.8E-05 27.8 1.5 19 224-242 4-22 (36)
29 KOG2044 5'-3' exonuclease HKE1 67.1 3 6.6E-05 45.2 1.7 21 249-269 260-280 (931)
30 KOG0109 RNA-binding protein LA 66.6 3.1 6.8E-05 40.4 1.5 17 205-221 162-178 (346)
31 COG0484 DnaJ DnaJ-class molecu 54.2 6.1 0.00013 39.5 1.1 56 202-262 141-196 (371)
32 KOG3116 Predicted C3H1-type Zn 47.9 5.4 0.00012 35.2 -0.3 23 220-242 25-47 (177)
33 KOG3116 Predicted C3H1-type Zn 45.4 6.2 0.00013 34.8 -0.3 23 247-269 25-47 (177)
34 KOG0107 Alternative splicing f 42.9 19 0.00041 32.8 2.3 16 252-267 103-118 (195)
35 PRK14296 chaperone protein Dna 42.8 17 0.00037 36.1 2.3 18 41-58 17-34 (372)
36 COG1107 Archaea-specific RecJ- 40.0 25 0.00054 37.4 3.0 97 181-298 3-121 (715)
37 PF00684 DnaJ_CXXCXGXG: DnaJ c 39.4 17 0.00037 27.0 1.3 13 249-261 41-53 (66)
38 PRK14559 putative protein seri 39.3 34 0.00073 36.7 3.9 49 204-258 2-50 (645)
39 COG0484 DnaJ DnaJ-class molecu 39.1 19 0.00041 36.1 1.9 63 181-262 143-210 (371)
40 PRK14298 chaperone protein Dna 38.7 20 0.00044 35.6 2.1 17 42-58 19-35 (377)
41 PF12353 eIF3g: Eukaryotic tra 38.1 17 0.00036 31.0 1.2 19 249-268 106-124 (128)
42 PLN03086 PRLI-interacting fact 38.0 29 0.00064 36.6 3.2 13 178-190 405-417 (567)
43 KOG0262 RNA polymerase I, larg 36.6 51 0.0011 38.0 4.9 16 41-56 1289-1304(1640)
44 PF04216 FdhE: Protein involve 36.4 5.6 0.00012 37.9 -2.2 73 181-258 173-247 (290)
45 PF12353 eIF3g: Eukaryotic tra 36.3 18 0.00038 30.8 1.0 17 224-241 108-124 (128)
46 PRK14298 chaperone protein Dna 35.8 30 0.00065 34.4 2.7 11 224-234 186-196 (377)
47 KOG2044 5'-3' exonuclease HKE1 34.2 24 0.00052 38.7 1.8 32 223-254 261-292 (931)
48 PRK14286 chaperone protein Dna 34.1 22 0.00047 35.3 1.5 18 41-58 17-34 (372)
49 PF10083 DUF2321: Uncharacteri 33.6 12 0.00027 33.1 -0.3 11 275-285 67-77 (158)
50 PRK14286 chaperone protein Dna 33.0 25 0.00054 34.9 1.7 48 181-234 151-201 (372)
51 PRK14289 chaperone protein Dna 32.6 34 0.00075 34.0 2.6 18 41-58 18-35 (386)
52 TIGR02349 DnaJ_bact chaperone 32.6 29 0.00062 34.0 2.0 19 40-58 12-30 (354)
53 PRK14279 chaperone protein Dna 31.8 23 0.0005 35.4 1.2 17 42-58 23-39 (392)
54 PRK14278 chaperone protein Dna 31.5 29 0.00063 34.5 1.9 20 39-58 14-33 (378)
55 PRK14296 chaperone protein Dna 31.4 26 0.00057 34.8 1.5 8 252-259 209-216 (372)
56 PF06524 NOA36: NOA36 protein; 31.0 62 0.0013 31.2 3.8 53 250-303 172-235 (314)
57 PRK14559 putative protein seri 30.9 56 0.0012 35.1 3.9 9 181-189 2-10 (645)
58 PF07708 Tash_PEST: Tash prote 30.8 21 0.00045 20.9 0.4 15 21-35 4-18 (19)
59 COG2888 Predicted Zn-ribbon RN 28.9 34 0.00073 25.7 1.4 10 224-233 40-49 (61)
60 PRK14301 chaperone protein Dna 28.6 34 0.00074 33.9 1.8 16 43-58 19-34 (373)
61 PRK14276 chaperone protein Dna 28.6 34 0.00073 34.0 1.8 19 40-58 16-34 (380)
62 PF05741 zf-nanos: Nanos RNA b 28.4 23 0.00049 26.1 0.4 16 195-212 27-42 (55)
63 TIGR02349 DnaJ_bact chaperone 27.3 46 0.00099 32.6 2.4 30 181-216 144-173 (354)
64 PRK14289 chaperone protein Dna 27.1 38 0.00082 33.7 1.8 10 251-260 199-208 (386)
65 PRK14287 chaperone protein Dna 27.1 36 0.00079 33.7 1.7 16 43-58 19-34 (371)
66 PRK14279 chaperone protein Dna 26.9 33 0.00072 34.3 1.4 10 251-260 214-223 (392)
67 COG1198 PriA Primosomal protei 26.9 65 0.0014 35.2 3.6 43 248-294 434-480 (730)
68 PRK14301 chaperone protein Dna 26.8 36 0.00078 33.8 1.6 11 251-261 199-209 (373)
69 PLN03165 chaperone protein dna 26.5 46 0.00099 27.8 1.9 12 180-191 41-52 (111)
70 PRK14278 chaperone protein Dna 26.4 37 0.00079 33.8 1.6 10 224-233 158-167 (378)
71 PRK14276 chaperone protein Dna 26.2 45 0.00099 33.1 2.2 28 181-214 147-174 (380)
72 PRK03564 formate dehydrogenase 25.8 54 0.0012 32.1 2.6 50 180-234 187-238 (309)
73 PRK14280 chaperone protein Dna 25.6 43 0.00093 33.2 1.9 19 40-58 16-34 (376)
74 PRK14288 chaperone protein Dna 25.5 56 0.0012 32.4 2.7 19 40-58 15-33 (369)
75 TIGR01562 FdhE formate dehydro 25.4 48 0.0011 32.3 2.2 51 180-235 184-237 (305)
76 PRK14714 DNA polymerase II lar 25.3 65 0.0014 37.2 3.4 9 181-189 668-676 (1337)
77 PRK14282 chaperone protein Dna 25.2 53 0.0011 32.5 2.5 9 224-232 197-205 (369)
78 PRK04023 DNA polymerase II lar 25.2 72 0.0016 36.1 3.6 8 205-212 628-635 (1121)
79 PRK04023 DNA polymerase II lar 24.3 61 0.0013 36.7 2.9 14 177-190 623-636 (1121)
80 KOG3070 Predicted RNA-binding 23.9 2.1E+02 0.0046 26.9 6.0 20 249-268 199-218 (235)
81 PF13248 zf-ribbon_3: zinc-rib 23.8 60 0.0013 19.8 1.6 6 278-283 18-23 (26)
82 PRK14287 chaperone protein Dna 23.5 42 0.00091 33.3 1.4 12 250-261 182-193 (371)
83 PF06375 BLVR: Bovine leukaemi 22.9 48 0.001 29.3 1.5 19 50-69 8-26 (154)
84 COG5593 Nucleic-acid-binding p 21.6 59 0.0013 34.5 2.0 11 23-33 697-707 (821)
85 PRK14282 chaperone protein Dna 21.5 66 0.0014 31.8 2.3 57 202-261 151-207 (369)
86 PRK14280 chaperone protein Dna 21.2 55 0.0012 32.5 1.7 11 251-261 202-212 (376)
87 PF12773 DZR: Double zinc ribb 21.2 1.5E+02 0.0032 20.3 3.5 8 250-257 30-37 (50)
88 KOG2673 Uncharacterized conser 21.1 43 0.00094 34.5 0.9 18 182-199 130-147 (485)
89 PRK14277 chaperone protein Dna 21.0 54 0.0012 32.6 1.6 19 40-58 17-35 (386)
90 KOG0341 DEAD-box protein abstr 20.6 54 0.0012 33.6 1.4 20 249-268 570-589 (610)
91 KOG0107 Alternative splicing f 20.5 67 0.0014 29.3 1.9 20 276-295 100-119 (195)
92 PRK14295 chaperone protein Dna 20.1 53 0.0011 32.8 1.3 65 202-286 165-229 (389)
93 KOG2673 Uncharacterized conser 20.0 53 0.0011 33.9 1.3 17 279-295 131-147 (485)
No 1
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=99.88 E-value=4.8e-23 Score=177.13 Aligned_cols=114 Identities=27% Similarity=0.605 Sum_probs=95.6
Q ss_pred ccccccccccccccccCCccccc--CCCccccCCCCCcCccccccC------cccccccCCCCCCCCCCCCCCCCCcccc
Q 021409 179 GWQTCYNCGEEGHMAVNCRSAVK--RKKPCFVCGSLEHGVRQCSKA------QDCFICKKGGHRAKDCPDKHKSGFQNAQ 250 (312)
Q Consensus 179 ~~~~C~~CG~~GH~a~~Cp~~~~--~~~~C~~CG~~GH~a~~Cp~~------~~C~~Cg~~GH~ardCp~~~~~~~~~~~ 250 (312)
+...||+|++.||++++||.+.. ....||+|+..||++.+||+. ..|++|++.||++++||+.... .....
T Consensus 26 ~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~C~~Cg~~GH~~~~Cp~~~~~~~~~~C~~Cg~~GH~~~~C~~~~~~-~~~~~ 104 (148)
T PTZ00368 26 KARPCYKCGEPGHLSRECPSAPGGRGERSCYNCGKTGHLSRECPEAPPGSGPRSCYNCGQTGHISRECPNRAKG-GAARR 104 (148)
T ss_pred CCccCccCCCCCcCcccCcCCCCCCCCcccCCCCCcCcCcccCCCcccCCCCcccCcCCCCCcccccCCCcccc-cccch
Confidence 35789999999999999998631 345799999999999999874 3799999999999999997643 23456
Q ss_pred cccccccCCCCccCCCCCCCCCCCCCccccccCCCCcCcCCCcC
Q 021409 251 VCLKCGDSGHDMFSCRNSYSLDDLKVCLYFLVQYLAFCIMQSLL 294 (312)
Q Consensus 251 ~C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~Cg~~GH~~~eC~~ 294 (312)
.||+|++.||++++||..|.. ....+.||+|++.|||+.+||.
T Consensus 105 ~C~~Cg~~gH~~~~C~~~~~~-~~~~~~C~~Cg~~gH~~~dCp~ 147 (148)
T PTZ00368 105 ACYNCGGEGHISRDCPNAGKR-PGGDKTCYNCGQTGHLSRDCPD 147 (148)
T ss_pred hhcccCcCCcchhcCCCcccc-CCCCCccccCCCcCcccccCCC
Confidence 899999999999999997542 3346899999999999999996
No 2
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=99.86 E-value=4.4e-22 Score=171.20 Aligned_cols=112 Identities=26% Similarity=0.632 Sum_probs=95.9
Q ss_pred ccccccccccccccCCccc----ccCCCccccCCCCCcCccccccC------cccccccCCCCCCCCCCCCCCCCCcccc
Q 021409 181 QTCYNCGEEGHMAVNCRSA----VKRKKPCFVCGSLEHGVRQCSKA------QDCFICKKGGHRAKDCPDKHKSGFQNAQ 250 (312)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~----~~~~~~C~~CG~~GH~a~~Cp~~------~~C~~Cg~~GH~ardCp~~~~~~~~~~~ 250 (312)
+.||+|++.||++++||.. ......||+|+..||++++||.. ..||+|++.||++++||+..... ...
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 4799999999999999973 13456899999999999999984 36999999999999999975432 356
Q ss_pred cccccccCCCCccCCCCCCCCCCCCCccccccCCCCcCcCCCcCc
Q 021409 251 VCLKCGDSGHDMFSCRNSYSLDDLKVCLYFLVQYLAFCIMQSLLV 295 (312)
Q Consensus 251 ~C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~Cg~~GH~~~eC~~~ 295 (312)
.||+|++.||++++||+.+.. ......||+|++.||++.+||+.
T Consensus 79 ~C~~Cg~~GH~~~~C~~~~~~-~~~~~~C~~Cg~~gH~~~~C~~~ 122 (148)
T PTZ00368 79 SCYNCGQTGHISRECPNRAKG-GAARRACYNCGGEGHISRDCPNA 122 (148)
T ss_pred ccCcCCCCCcccccCCCcccc-cccchhhcccCcCCcchhcCCCc
Confidence 899999999999999997643 34567899999999999999986
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=9.1e-22 Score=175.23 Aligned_cols=113 Identities=22% Similarity=0.554 Sum_probs=99.6
Q ss_pred CcccccccccccccccccCCcccccCCCccccCCCCCcCccccccCcccccccCCCCCCCCC-CCCCCCCCccccccccc
Q 021409 177 DRGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDC-PDKHKSGFQNAQVCLKC 255 (312)
Q Consensus 177 ~~~~~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~ardC-p~~~~~~~~~~~~C~~C 255 (312)
.....+||+||+.||++++||. .+|++|...||.+..||....|++||+.||++++| |.++. ...|+.|
T Consensus 57 ~~~~~~C~nCg~~GH~~~DCP~-----~iC~~C~~~~H~s~~C~~~~~C~~Cg~~GH~~~dC~P~~~~-----~~~C~~C 126 (190)
T COG5082 57 REENPVCFNCGQNGHLRRDCPH-----SICYNCSWDGHRSNHCPKPKKCYNCGETGHLSRDCNPSKDQ-----QKSCFDC 126 (190)
T ss_pred cccccccchhcccCcccccCCh-----hHhhhcCCCCcccccCCcccccccccccCccccccCccccc-----Ccceecc
Confidence 3446899999999999999994 59999977999999999999999999999999999 67664 5699999
Q ss_pred ccCCCCccCCCCCCCCCCCC-------CccccccCCCCcCcCCCcCcCCCC
Q 021409 256 GDSGHDMFSCRNSYSLDDLK-------VCLYFLVQYLAFCIMQSLLVSFKS 299 (312)
Q Consensus 256 g~~GH~a~dCp~~~~~~~~~-------~~~Cy~Cg~~GH~~~eC~~~~~~~ 299 (312)
+..+|++.+||..|...... .+.||+|+..+||+.+|+.++...
T Consensus 127 ~s~~H~s~~Cp~~~k~y~~~~~~~~~~~~~cy~c~~~~H~~~dc~~~~~s~ 177 (190)
T COG5082 127 NSTRHSSEDCPSIWKHYVLNNGDGHPIKKFCYSCGSAGHFGDDCKEPRSSR 177 (190)
T ss_pred CCCccccccCcccccccccccCCCcceeeeccccCCccccCCCCCCCcccc
Confidence 99999999999999755443 589999999999999999766543
No 4
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=99.59 E-value=1.4e-15 Score=135.69 Aligned_cols=118 Identities=27% Similarity=0.589 Sum_probs=100.2
Q ss_pred HHHHHHhcCCCCCCCCCCcccccccccccccccccCCcccccCCCccccCCCCCcCcccc-cc---CcccccccCCCCCC
Q 021409 160 NIVLRKLLRGPRYFDPPDRGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQC-SK---AQDCFICKKGGHRA 235 (312)
Q Consensus 160 n~~~r~~~rg~R~f~~~~~~~~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~C-p~---~~~C~~Cg~~GH~a 235 (312)
..+..+..+|+..+++| ...||+|...||.+..||.+ +.|++||..||++++| |. ...|+.|+..+|++
T Consensus 61 ~~C~nCg~~GH~~~DCP---~~iC~~C~~~~H~s~~C~~~----~~C~~Cg~~GH~~~dC~P~~~~~~~C~~C~s~~H~s 133 (190)
T COG5082 61 PVCFNCGQNGHLRRDCP---HSICYNCSWDGHRSNHCPKP----KKCYNCGETGHLSRDCNPSKDQQKSCFDCNSTRHSS 133 (190)
T ss_pred cccchhcccCcccccCC---hhHhhhcCCCCcccccCCcc----cccccccccCccccccCcccccCcceeccCCCcccc
Confidence 33445678888888887 38999998899999999987 7899999999999999 44 45899999999999
Q ss_pred CCCCCCCCCCC-------cccccccccccCCCCccCCCCCCCCCCCCCccccccCCCCcCc
Q 021409 236 KDCPDKHKSGF-------QNAQVCLKCGDSGHDMFSCRNSYSLDDLKVCLYFLVQYLAFCI 289 (312)
Q Consensus 236 rdCp~~~~~~~-------~~~~~C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~Cg~~GH~~ 289 (312)
++||..|+... +....||.|+..||++.+|+.+|+.... |.|+..+|..
T Consensus 134 ~~Cp~~~k~y~~~~~~~~~~~~~cy~c~~~~H~~~dc~~~~~s~~~-----~~~~~~~~~~ 189 (190)
T COG5082 134 EDCPSIWKHYVLNNGDGHPIKKFCYSCGSAGHFGDDCKEPRSSRVP-----YVCGKKGYVS 189 (190)
T ss_pred ccCcccccccccccCCCcceeeeccccCCccccCCCCCCCcccccc-----ccccccccCC
Confidence 99999997543 2367899999999999999999876544 8999988863
No 5
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=4.6e-14 Score=131.94 Aligned_cols=84 Identities=33% Similarity=0.903 Sum_probs=43.3
Q ss_pred ccccccccccccccCCcccccC---CCccccCCCCCcCc-cccc-----cCcccccccCCCCCCCCCCCCCCCCCccccc
Q 021409 181 QTCYNCGEEGHMAVNCRSAVKR---KKPCFVCGSLEHGV-RQCS-----KAQDCFICKKGGHRAKDCPDKHKSGFQNAQV 251 (312)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~---~~~C~~CG~~GH~a-~~Cp-----~~~~C~~Cg~~GH~ardCp~~~~~~~~~~~~ 251 (312)
..||+|++.||++++||..... ...|+.|+..||.. .++. ....||.|++.||++.+||.. ....
T Consensus 93 ~~c~~C~~~gH~~~~c~~~~~~~~~~~~~~~c~~~gh~~~~~~~~~~~~~~~~Cy~Cg~~GH~s~~C~~~------~~~~ 166 (261)
T KOG4400|consen 93 AACFNCGEGGHIERDCPEAGKEGSSETSCYSCGKTGHRGCPDADPVDGPKPAKCYSCGEQGHISDDCPEN------KGGT 166 (261)
T ss_pred hhhhhCCCCccchhhCCcccCcccccceeeccCCCccccCcccccccCCCCCccCCCCcCCcchhhCCCC------CCCc
Confidence 4566666666666666654111 12455566666655 2221 112366666666666666654 1345
Q ss_pred ccccccCCCCccCCCCCCC
Q 021409 252 CLKCGDSGHDMFSCRNSYS 270 (312)
Q Consensus 252 C~~Cg~~GH~a~dCp~~~~ 270 (312)
||+|++.||...+||..+.
T Consensus 167 c~~c~~~~h~~~~C~~~~~ 185 (261)
T KOG4400|consen 167 CFRCGKVGHGSRDCPSKQK 185 (261)
T ss_pred cccCCCcceecccCCcccc
Confidence 6666666666666665543
No 6
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=1.3e-12 Score=122.18 Aligned_cols=109 Identities=30% Similarity=0.625 Sum_probs=89.8
Q ss_pred ccccccccccccccccCCcccccCCCccccCCCCCcCccccccC-------cccccccCCCCCCCCCCCCCCCCCccccc
Q 021409 179 GWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKA-------QDCFICKKGGHRAKDCPDKHKSGFQNAQV 251 (312)
Q Consensus 179 ~~~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~~-------~~C~~Cg~~GH~ardCp~~~~~~~~~~~~ 251 (312)
....|+.|++.||.+..|+.. ...|++|+..||+.++|+.. ..|+.|+..||+. |+.......+..+.
T Consensus 71 ~~~~c~~~g~~~~~~~~~~~~---~~~c~~C~~~gH~~~~c~~~~~~~~~~~~~~~c~~~gh~~--~~~~~~~~~~~~~~ 145 (261)
T KOG4400|consen 71 PEVSCYICGEKGHLGRRCTRI---AAACFNCGEGGHIERDCPEAGKEGSSETSCYSCGKTGHRG--CPDADPVDGPKPAK 145 (261)
T ss_pred CCceeeecCCCCchhhcCccc---chhhhhCCCCccchhhCCcccCcccccceeeccCCCcccc--CcccccccCCCCCc
Confidence 457899999999999999962 46899999999999999872 2588999999999 54443222222378
Q ss_pred ccccccCCCCccCCCCCCCCCCCCCccccccCCCCcCcCCCcCcCCC
Q 021409 252 CLKCGDSGHDMFSCRNSYSLDDLKVCLYFLVQYLAFCIMQSLLVSFK 298 (312)
Q Consensus 252 C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~Cg~~GH~~~eC~~~~~~ 298 (312)
||+||+.||++++||.+ ....||.|++.||...+||...-.
T Consensus 146 Cy~Cg~~GH~s~~C~~~------~~~~c~~c~~~~h~~~~C~~~~~~ 186 (261)
T KOG4400|consen 146 CYSCGEQGHISDDCPEN------KGGTCFRCGKVGHGSRDCPSKQKS 186 (261)
T ss_pred cCCCCcCCcchhhCCCC------CCCccccCCCcceecccCCccccc
Confidence 99999999999999987 457999999999999999976543
No 7
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=99.11 E-value=4.3e-12 Score=126.34 Aligned_cols=168 Identities=24% Similarity=0.339 Sum_probs=120.7
Q ss_pred CccccHHHHHHHHHH-----------HhhccCCCCCCCccccCCCCCCCCCCCCCCCCCCeeeccCCCCCCC-cchhhhh
Q 021409 37 NEDLSLKIVEKHMLM-----------RAAKLDQDDSDSDVVLNDNTNTNTSDNSNNKNGGVEAVVPGPSGTT-DDVIIED 104 (312)
Q Consensus 37 ~~d~~~~i~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ 104 (312)
=||+.++||+.+|.+ +.|++..+.+.+ |. -..+.+||+|..|+++.+ ...+-|
T Consensus 108 Le~er~e~I~~~lk~nP~fkpP~DYk~p~~~~~Kv~IP--vk------------e~Pd~NFvGLiiGPRG~TqK~lE~e- 172 (554)
T KOG0119|consen 108 LEDERHEIIEEILKLNPGFKPPADYKPPAKLHDKVYIP--VK------------EFPDINFVGLIIGPRGNTQKRLERE- 172 (554)
T ss_pred HHHHHHHHHHHHHHhCcCCCCCcccCcccccccceecc--hh------------hcCCcceeEEEecCCccHHHHHHHH-
Confidence 478899999999988 444666655554 33 567889999999999884 444444
Q ss_pred cccchHHHHHHHhhhhHHhhhhh---------hhhhhhhhhhhhhhhccccCCCc-ccc---ccCCchHHHHHHhcCC-C
Q 021409 105 VKSSDKKRIRVRKKKKKEADKIE---------IEDQSVIVRKEEQKVETADNGDE-GVT---TVEISDNIVLRKLLRG-P 170 (312)
Q Consensus 105 ~~~~~~~~~k~kk~~k~~~~~~e---------~e~~~~~~~~~ee~ve~~~~a~e-~v~---~~~~~~n~~~r~~~rg-~ 170 (312)
..+|..+++|++-|+.+.... ...+.++.++.+++++.+..-.| +|+ .+++++|.+.+.+++. .
T Consensus 173 --tgAKI~IRGkgSvkEgk~~~~d~~~~~~~~epLH~~Isadt~eki~~Ai~vienli~~av~~~e~~n~l~~~Qlrela 250 (554)
T KOG0119|consen 173 --TGAKIAIRGKGSVKEGKGRSDDLSYIPKENEPLHCLISADTQEKIKKAIAVIENLIQSAVSVPEGQNDLKRLQLRELA 250 (554)
T ss_pred --hCCeEEEeccccccccccCCcccccccccccceeEEEecchHHHHHHHHHHHHHHHHhhccCccccccccHHHHHHHH
Confidence 677788888888887653222 22347788887887777766666 333 6778888877766666 3
Q ss_pred CCCCCC-CcccccccccccccccccCCcccc-cCCCccccCCCCCcCcccccc
Q 021409 171 RYFDPP-DRGWQTCYNCGEEGHMAVNCRSAV-KRKKPCFVCGSLEHGVRQCSK 221 (312)
Q Consensus 171 R~f~~~-~~~~~~C~~CG~~GH~a~~Cp~~~-~~~~~C~~CG~~GH~a~~Cp~ 221 (312)
+.+++. +.....|.+||..||...+||... .....|+.||..||++.+|..
T Consensus 251 ~lNgt~r~~d~~~c~~cg~~~H~q~~cp~r~~~~~n~c~~cg~~gH~~~dc~~ 303 (554)
T KOG0119|consen 251 RLNGTLRDDDNRACRNCGSTGHKQYDCPGRIPNTTNVCKICGPLGHISIDCKV 303 (554)
T ss_pred HhCCCCCccccccccccCCCccccccCCcccccccccccccCCcccccccCCC
Confidence 555544 445589999999999999999862 122278888888888888875
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=46.23 Aligned_cols=16 Identities=6% Similarity=-0.186 Sum_probs=7.9
Q ss_pred cccccCCCCcCcCCCc
Q 021409 278 LYFLVQYLAFCIMQSL 293 (312)
Q Consensus 278 ~Cy~Cg~~GH~~~eC~ 293 (312)
.||+|++.||++.+||
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 3455555555555554
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=97.78 E-value=1.4e-05 Score=45.84 Aligned_cols=17 Identities=35% Similarity=0.991 Sum_probs=10.6
Q ss_pred cccccccCCCCccCCCC
Q 021409 251 VCLKCGDSGHDMFSCRN 267 (312)
Q Consensus 251 ~C~~Cg~~GH~a~dCp~ 267 (312)
.||+|++.||++++||+
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 46666666666666653
No 10
>COG5176 MSL5 Splicing factor (branch point binding protein) [RNA processing and modification]
Probab=97.60 E-value=5.5e-06 Score=75.62 Aligned_cols=116 Identities=21% Similarity=0.155 Sum_probs=85.2
Q ss_pred ccccHHHHHHHHHH-----------HhhccCCCCCCCccccCCCCCCCCCCCCCCCCCCeeeccCCCCCCCcchhhhhcc
Q 021409 38 EDLSLKIVEKHMLM-----------RAAKLDQDDSDSDVVLNDNTNTNTSDNSNNKNGGVEAVVPGPSGTTDDVIIEDVK 106 (312)
Q Consensus 38 ~d~~~~i~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 106 (312)
||..|+|+|+||.| |++|.+.+.+++ |- .+++++||++..||++.+.-.- +++
T Consensus 119 eder~~l~era~k~lp~fv~p~dy~rpsk~q~KiYIP--V~------------eyPe~NFVGLliGPRG~Tlk~l--e~~ 182 (269)
T COG5176 119 EDERLWLKERAQKILPRFVLPNDYIRPSKYQNKIYIP--VQ------------EYPESNFVGLLIGPRGSTLKQL--ERI 182 (269)
T ss_pred hHHHHHHHHHHHHhcCcccCCccccCcccccceEEee--hh------------hCcccceeEEEecCCcchHHHH--HHH
Confidence 78889999999999 788888888877 44 7889999999999998743221 233
Q ss_pred cchHHHHHHHhhhhH---------HhhhhhhhhhhhhhhhhhhhhccccCCCcc-cc---ccCCchHHHHHHhcCC
Q 021409 107 SSDKKRIRVRKKKKK---------EADKIEIEDQSVIVRKEEQKVETADNGDEG-VT---TVEISDNIVLRKLLRG 169 (312)
Q Consensus 107 ~~~~~~~k~kk~~k~---------~~~~~e~e~~~~~~~~~ee~ve~~~~a~e~-v~---~~~~~~n~~~r~~~rg 169 (312)
+.++..++++-+.|. -+++.|..-+++++++.+.+...++..... |. ..|+++|.+.|.+++.
T Consensus 183 s~akIaIRG~gsvKegk~ssd~p~~~~N~e~~lhcLI~adsedki~~~ik~~~n~I~~a~~~PeGqnDlkR~qlr~ 258 (269)
T COG5176 183 SRAKIAIRGSGSVKEGKISSDTPESLKNAEAVLHCLIEADSEDKICRLIKSQLNAIREARRNPEGQNDLKRFQLRW 258 (269)
T ss_pred hCCeEEEecccccccCcccccCchhhhhhHHhHHHHhhcchhhhHHHHHHHHHHHHHHHhcCCcccchHHHHHHHH
Confidence 666677777666664 344444556688999988888888776552 22 7888888887766543
No 11
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=96.29 E-value=0.0017 Score=42.55 Aligned_cols=21 Identities=33% Similarity=0.833 Sum_probs=15.9
Q ss_pred ccccccccccCCCCccCCCCC
Q 021409 248 NAQVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 248 ~~~~C~~Cg~~GH~a~dCp~~ 268 (312)
..-+|++|++.||+..+||..
T Consensus 7 ~~Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 7 PGYVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CCCEeecCCCCCccHhHCCCC
Confidence 355788888888888888874
No 12
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=95.86 E-value=0.0041 Score=40.81 Aligned_cols=24 Identities=8% Similarity=-0.179 Sum_probs=20.1
Q ss_pred CCccccccCCCCcCcCCCcCcCCC
Q 021409 275 KVCLYFLVQYLAFCIMQSLLVSFK 298 (312)
Q Consensus 275 ~~~~Cy~Cg~~GH~~~eC~~~~~~ 298 (312)
..-.|+.|++.||+..+||....+
T Consensus 7 ~~Y~C~~C~~~GH~i~dCP~~~Pk 30 (32)
T PF13696_consen 7 PGYVCHRCGQKGHWIQDCPTNKPK 30 (32)
T ss_pred CCCEeecCCCCCccHhHCCCCCCC
Confidence 356899999999999999985543
No 13
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=94.61 E-value=0.023 Score=57.85 Aligned_cols=43 Identities=16% Similarity=0.454 Sum_probs=25.9
Q ss_pred ccccccccCCCCccCCCCCCCCCCCCCccccccCCCCcCcCCCcCc
Q 021409 250 QVCLKCGDSGHDMFSCRNSYSLDDLKVCLYFLVQYLAFCIMQSLLV 295 (312)
Q Consensus 250 ~~C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~Cg~~GH~~~eC~~~ 295 (312)
..|.+||..||-..+||.... .+. ..|.+|+..|||..+|...
T Consensus 262 ~~c~~cg~~~H~q~~cp~r~~--~~~-n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 262 RACRNCGSTGHKQYDCPGRIP--NTT-NVCKICGPLGHISIDCKVN 304 (554)
T ss_pred ccccccCCCccccccCCcccc--ccc-ccccccCCcccccccCCCc
Confidence 457777777777777766611 111 1677777777777777544
No 14
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=94.43 E-value=0.022 Score=39.59 Aligned_cols=17 Identities=41% Similarity=1.007 Sum_probs=8.5
Q ss_pred ccccccccCCCCccCCC
Q 021409 250 QVCLKCGDSGHDMFSCR 266 (312)
Q Consensus 250 ~~C~~Cg~~GH~a~dCp 266 (312)
..|.+|++.||+..+||
T Consensus 5 ~~CqkC~~~GH~tyeC~ 21 (42)
T PF13917_consen 5 VRCQKCGQKGHWTYECP 21 (42)
T ss_pred CcCcccCCCCcchhhCC
Confidence 34555555555555555
No 15
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=94.34 E-value=0.02 Score=39.82 Aligned_cols=18 Identities=0% Similarity=-0.295 Sum_probs=16.0
Q ss_pred CccccccCCCCcCcCCCc
Q 021409 276 VCLYFLVQYLAFCIMQSL 293 (312)
Q Consensus 276 ~~~Cy~Cg~~GH~~~eC~ 293 (312)
...|.+|++.||+..||+
T Consensus 4 ~~~CqkC~~~GH~tyeC~ 21 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECP 21 (42)
T ss_pred CCcCcccCCCCcchhhCC
Confidence 368999999999999999
No 16
>smart00343 ZnF_C2HC zinc finger.
Probab=92.74 E-value=0.051 Score=33.34 Aligned_cols=15 Identities=40% Similarity=1.046 Sum_probs=7.9
Q ss_pred ccccccCCCCccCCC
Q 021409 252 CLKCGDSGHDMFSCR 266 (312)
Q Consensus 252 C~~Cg~~GH~a~dCp 266 (312)
|++|++.||++.+||
T Consensus 2 C~~CG~~GH~~~~C~ 16 (26)
T smart00343 2 CYNCGKEGHIARDCP 16 (26)
T ss_pred CccCCCCCcchhhCC
Confidence 455555555555554
No 17
>smart00343 ZnF_C2HC zinc finger.
Probab=92.52 E-value=0.058 Score=33.09 Aligned_cols=19 Identities=0% Similarity=-0.210 Sum_probs=16.4
Q ss_pred cccccCCCCcCcCCCcCcC
Q 021409 278 LYFLVQYLAFCIMQSLLVS 296 (312)
Q Consensus 278 ~Cy~Cg~~GH~~~eC~~~~ 296 (312)
.|++|++.||++.+|+...
T Consensus 1 ~C~~CG~~GH~~~~C~~~~ 19 (26)
T smart00343 1 KCYNCGKEGHIARDCPKXX 19 (26)
T ss_pred CCccCCCCCcchhhCCccc
Confidence 4999999999999998443
No 18
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.70 E-value=0.25 Score=50.26 Aligned_cols=61 Identities=25% Similarity=0.392 Sum_probs=35.3
Q ss_pred ccccccccccccccccCCcccccCCCccccCCCCCcCcccccc------CcccccccCCCCCCCCCCCC
Q 021409 179 GWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK------AQDCFICKKGGHRAKDCPDK 241 (312)
Q Consensus 179 ~~~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~------~~~C~~Cg~~GH~ardCp~~ 241 (312)
....|+.++..||..+.+... ....|..|-..+|+...|.. ...|++|.++||+.+.||..
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 345677777777777777543 33456666666666655543 23455555555555555544
No 19
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.75 E-value=0.38 Score=48.97 Aligned_cols=63 Identities=21% Similarity=0.392 Sum_probs=39.6
Q ss_pred CccccCCCCCcCcccccc--CcccccccCCCCCCCCCCCCCCCCCcccccccccccCCCCccCCCCC
Q 021409 204 KPCFVCGSLEHGVRQCSK--AQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 204 ~~C~~CG~~GH~a~~Cp~--~~~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~ 268 (312)
..++.++..||..+.+.. ...|..|...+|+...|..... ++-...|++|+++||+...||..
T Consensus 113 q~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~iq~~~~~g~--Pppsy~c~rc~~~g~wikacptv 177 (448)
T KOG0314|consen 113 QMNGRMGGRGFGMRRQTPPPGYVCHRCNSPGHFIQHCSTNGS--PPPSYKCVKCPTPGPWIKACPTV 177 (448)
T ss_pred hhccccccCCcccccCCCcccceeeecccCccccccccccCC--CCCCcceecCCCCCccceecccc
Confidence 456666666776666644 3357777777777666665433 23345677777777777777654
No 20
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=88.34 E-value=0.27 Score=47.66 Aligned_cols=18 Identities=39% Similarity=1.005 Sum_probs=9.6
Q ss_pred ccccccccCCCCccCCCC
Q 021409 250 QVCLKCGDSGHDMFSCRN 267 (312)
Q Consensus 250 ~~C~~Cg~~GH~a~dCp~ 267 (312)
-.||+||+.|||..+||.
T Consensus 177 Y~CyRCGqkgHwIqnCpT 194 (427)
T COG5222 177 YVCYRCGQKGHWIQNCPT 194 (427)
T ss_pred eeEEecCCCCchhhcCCC
Confidence 345555555555555554
No 21
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=86.67 E-value=0.25 Score=35.01 Aligned_cols=18 Identities=6% Similarity=-0.046 Sum_probs=11.1
Q ss_pred CccccccCCCCcCcCCCc
Q 021409 276 VCLYFLVQYLAFCIMQSL 293 (312)
Q Consensus 276 ~~~Cy~Cg~~GH~~~eC~ 293 (312)
+..|++||..||...+|+
T Consensus 31 p~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 31 PRFCFHCGRIGHSDKECP 48 (49)
T ss_pred ChhhcCCCCcCcCHhHcC
Confidence 355666666666666665
No 22
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=86.11 E-value=0.29 Score=34.61 Aligned_cols=18 Identities=33% Similarity=0.918 Sum_probs=11.6
Q ss_pred cccccccccCCCCccCCC
Q 021409 249 AQVCLKCGDSGHDMFSCR 266 (312)
Q Consensus 249 ~~~C~~Cg~~GH~a~dCp 266 (312)
+..|++||..||...+||
T Consensus 31 p~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 31 PRFCFHCGRIGHSDKECP 48 (49)
T ss_pred ChhhcCCCCcCcCHhHcC
Confidence 345666666666666665
No 23
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=85.13 E-value=0.45 Score=46.04 Aligned_cols=22 Identities=27% Similarity=0.625 Sum_probs=18.9
Q ss_pred cccccccccCCCCccCCCCCCC
Q 021409 249 AQVCLKCGDSGHDMFSCRNSYS 270 (312)
Q Consensus 249 ~~~C~~Cg~~GH~a~dCp~~~~ 270 (312)
...||+||..|||+.+||....
T Consensus 160 q~~cyrcGkeghwskEcP~~~~ 181 (346)
T KOG0109|consen 160 QSGCYRCGKEGHWSKECPVDRT 181 (346)
T ss_pred HHHheeccccccccccCCccCC
Confidence 4569999999999999998754
No 24
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=83.87 E-value=0.5 Score=32.59 Aligned_cols=19 Identities=42% Similarity=0.840 Sum_probs=12.9
Q ss_pred ccccccccccccc--cCCccc
Q 021409 181 QTCYNCGEEGHMA--VNCRSA 199 (312)
Q Consensus 181 ~~C~~CG~~GH~a--~~Cp~~ 199 (312)
+.|.+||..||++ +.||..
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~ 22 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMY 22 (40)
T ss_pred ccccccccccccccCccCCCC
Confidence 4677788888776 456654
No 25
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=82.51 E-value=0.69 Score=31.91 Aligned_cols=19 Identities=32% Similarity=0.578 Sum_probs=12.6
Q ss_pred ccccccccCCCCc--cCCCCC
Q 021409 250 QVCLKCGDSGHDM--FSCRNS 268 (312)
Q Consensus 250 ~~C~~Cg~~GH~a--~dCp~~ 268 (312)
+.|.+||+.||.. +.||..
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~ 22 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMY 22 (40)
T ss_pred ccccccccccccccCccCCCC
Confidence 4577777777776 447754
No 26
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=81.24 E-value=0.86 Score=44.30 Aligned_cols=23 Identities=35% Similarity=0.820 Sum_probs=19.8
Q ss_pred CcccccccccccccccccCCccc
Q 021409 177 DRGWQTCYNCGEEGHMAVNCRSA 199 (312)
Q Consensus 177 ~~~~~~C~~CG~~GH~a~~Cp~~ 199 (312)
.-....||+||+.||+-.+||+.
T Consensus 173 pPpgY~CyRCGqkgHwIqnCpTN 195 (427)
T COG5222 173 PPPGYVCYRCGQKGHWIQNCPTN 195 (427)
T ss_pred CCCceeEEecCCCCchhhcCCCC
Confidence 34457899999999999999985
No 27
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=76.63 E-value=1.4 Score=29.73 Aligned_cols=20 Identities=30% Similarity=0.655 Sum_probs=11.5
Q ss_pred ccccccccCCCCccCCCCCC
Q 021409 250 QVCLKCGDSGHDMFSCRNSY 269 (312)
Q Consensus 250 ~~C~~Cg~~GH~a~dCp~~~ 269 (312)
..|.+|++..|++.+|...+
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 46888888888888887764
No 28
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=67.51 E-value=3.6 Score=27.75 Aligned_cols=19 Identities=42% Similarity=0.700 Sum_probs=10.4
Q ss_pred ccccccCCCCCCCCCCCCC
Q 021409 224 DCFICKKGGHRAKDCPDKH 242 (312)
Q Consensus 224 ~C~~Cg~~GH~ardCp~~~ 242 (312)
.|++|+...|++++|-.+.
T Consensus 4 ~CprC~kg~Hwa~~C~sk~ 22 (36)
T PF14787_consen 4 LCPRCGKGFHWASECRSKT 22 (36)
T ss_dssp C-TTTSSSCS-TTT---TC
T ss_pred cCcccCCCcchhhhhhhhh
Confidence 5777777778888887654
No 29
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=67.13 E-value=3 Score=45.24 Aligned_cols=21 Identities=29% Similarity=0.838 Sum_probs=14.2
Q ss_pred cccccccccCCCCccCCCCCC
Q 021409 249 AQVCLKCGDSGHDMFSCRNSY 269 (312)
Q Consensus 249 ~~~C~~Cg~~GH~a~dCp~~~ 269 (312)
...|+.||+.||.+.+|....
T Consensus 260 ~~~C~~cgq~gh~~~dc~g~~ 280 (931)
T KOG2044|consen 260 PRRCFLCGQTGHEAKDCEGKP 280 (931)
T ss_pred cccchhhcccCCcHhhcCCcC
Confidence 345777777777777776653
No 30
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=66.56 E-value=3.1 Score=40.40 Aligned_cols=17 Identities=29% Similarity=0.847 Sum_probs=8.8
Q ss_pred ccccCCCCCcCcccccc
Q 021409 205 PCFVCGSLEHGVRQCSK 221 (312)
Q Consensus 205 ~C~~CG~~GH~a~~Cp~ 221 (312)
.|+.||+.||++++||.
T Consensus 162 ~cyrcGkeghwskEcP~ 178 (346)
T KOG0109|consen 162 GCYRCGKEGHWSKECPV 178 (346)
T ss_pred HheeccccccccccCCc
Confidence 45555555555555554
No 31
>COG0484 DnaJ DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]
Probab=54.24 E-value=6.1 Score=39.52 Aligned_cols=56 Identities=20% Similarity=0.431 Sum_probs=32.2
Q ss_pred CCCccccCCCCCcCccccccCcccccccCCCCCCCCCCCCCCCCCcccccccccccCCCCc
Q 021409 202 RKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDM 262 (312)
Q Consensus 202 ~~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~GH~a 262 (312)
+...|..|...| ++.......|..|+..|-....=.. +......+|..|+..|++.
T Consensus 141 ~~~~C~~C~GsG--ak~gt~~~tC~tC~G~G~v~~~~~~---g~~~~~~~C~~C~G~G~~i 196 (371)
T COG0484 141 RSVTCSTCHGSG--AKPGTDPKTCPTCNGSGQVRTVQRT---GFFSFQQTCPTCNGTGKII 196 (371)
T ss_pred eeeECCcCCCCC--CCCCCCCCcCCCCCCcCeEEEEEee---eEEEEEEECCCCccceeEC
Confidence 445677786543 4444445678888777743211100 2233456788888888776
No 32
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=47.92 E-value=5.4 Score=35.18 Aligned_cols=23 Identities=26% Similarity=0.702 Sum_probs=14.8
Q ss_pred ccCcccccccCCCCCCCCCCCCC
Q 021409 220 SKAQDCFICKKGGHRAKDCPDKH 242 (312)
Q Consensus 220 p~~~~C~~Cg~~GH~ardCp~~~ 242 (312)
++...|.+|.+.|||..+|.++.
T Consensus 25 ~~~~rCQKClq~GHWtYECk~kR 47 (177)
T KOG3116|consen 25 GSSARCQKCLQAGHWTYECKNKR 47 (177)
T ss_pred ccchhHHHHHhhccceeeecCce
Confidence 33456777777777777776654
No 33
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=45.40 E-value=6.2 Score=34.84 Aligned_cols=23 Identities=30% Similarity=0.716 Sum_probs=19.6
Q ss_pred cccccccccccCCCCccCCCCCC
Q 021409 247 QNAQVCLKCGDSGHDMFSCRNSY 269 (312)
Q Consensus 247 ~~~~~C~~Cg~~GH~a~dCp~~~ 269 (312)
++.+.|..|-+.|||..+|.+..
T Consensus 25 ~~~~rCQKClq~GHWtYECk~kR 47 (177)
T KOG3116|consen 25 GSSARCQKCLQAGHWTYECKNKR 47 (177)
T ss_pred ccchhHHHHHhhccceeeecCce
Confidence 34678999999999999998863
No 34
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=42.92 E-value=19 Score=32.77 Aligned_cols=16 Identities=38% Similarity=1.128 Sum_probs=10.4
Q ss_pred ccccccCCCCccCCCC
Q 021409 252 CLKCGDSGHDMFSCRN 267 (312)
Q Consensus 252 C~~Cg~~GH~a~dCp~ 267 (312)
||+||..||+.+.|.+
T Consensus 103 ~~r~G~rg~~~r~~~~ 118 (195)
T KOG0107|consen 103 CYRCGERGHIGRNCKD 118 (195)
T ss_pred cccCCCcccccccccc
Confidence 6666666666666655
No 35
>PRK14296 chaperone protein DnaJ; Provisional
Probab=42.80 E-value=17 Score=36.05 Aligned_cols=18 Identities=11% Similarity=0.004 Sum_probs=9.6
Q ss_pred cHHHHHHHHHHHhhccCC
Q 021409 41 SLKIVEKHMLMRAAKLDQ 58 (312)
Q Consensus 41 ~~~i~~~~~~~~~~~~~~ 58 (312)
|.+-|.||.++.|-+.-+
T Consensus 17 ~~~eik~ayrkla~~~HP 34 (372)
T PRK14296 17 SEQEIRQAYRKLAKQYHP 34 (372)
T ss_pred CHHHHHHHHHHHHHHHCc
Confidence 344466666655555544
No 36
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=40.04 E-value=25 Score=37.41 Aligned_cols=97 Identities=20% Similarity=0.306 Sum_probs=52.0
Q ss_pred ccccccccccccccCCcccccCCCccccCCCCCcCcccccc----------------CcccccccCCCCC--CCCCCCCC
Q 021409 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK----------------AQDCFICKKGGHR--AKDCPDKH 242 (312)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp~----------------~~~C~~Cg~~GH~--ardCp~~~ 242 (312)
..|..|+..||... ....|..|+..|....--|. ...|..|...|-. ...||.-.
T Consensus 3 ~~C~~C~g~G~i~v-------~~e~c~vc~gtG~~~~~d~k~~~~~~~~~~D~~~~~~~pc~~c~gkG~V~v~~~c~~c~ 75 (715)
T COG1107 3 KKCPECGGKGKIVV-------GEEECPVCHGTGFSDDFDPKGVANLSRETVDLFASFEIPCPKCRGKGTVTVYDTCPECG 75 (715)
T ss_pred ccccccCCCceEee-------eeeecccccccccccccChhhhhhhhhccccccccCCCCCCeeccceeEEEEeecccCC
Confidence 56888888887622 22456667766655333321 2467777766642 22333322
Q ss_pred CCCCcccccccccccCCCCccCCCCCCCCCCCCCccccccCCCCc----CcCCCcCcCCC
Q 021409 243 KSGFQNAQVCLKCGDSGHDMFSCRNSYSLDDLKVCLYFLVQYLAF----CIMQSLLVSFK 298 (312)
Q Consensus 243 ~~~~~~~~~C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~Cg~~GH----~~~eC~~~~~~ 298 (312)
. ......|..||..= ..+.+..|..|.+++| +..-|.-..+.
T Consensus 76 G--~gkv~~c~~cG~~~------------~~~~~~lc~~c~~~~~~vy~l~~~c~~~Dve 121 (715)
T COG1107 76 G--TGKVLTCDICGDII------------VPWEEGLCPECRRKPKIVYVLDNSCTMEDVE 121 (715)
T ss_pred C--ceeEEeecccccee------------cCcccccChhHhhCCceeEEeccccchhhcc
Confidence 1 11234455554431 1222347999999999 55667644443
No 37
>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=39.39 E-value=17 Score=26.97 Aligned_cols=13 Identities=46% Similarity=0.974 Sum_probs=6.5
Q ss_pred cccccccccCCCC
Q 021409 249 AQVCLKCGDSGHD 261 (312)
Q Consensus 249 ~~~C~~Cg~~GH~ 261 (312)
...|..|+..|.+
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 3445555555555
No 38
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=39.32 E-value=34 Score=36.73 Aligned_cols=49 Identities=20% Similarity=0.374 Sum_probs=22.3
Q ss_pred CccccCCCCCcCccccccCcccccccCCCCCCCCCCCCCCCCCcccccccccccC
Q 021409 204 KPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDS 258 (312)
Q Consensus 204 ~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~ 258 (312)
..|-.||..-. .....|..||.+-- .+.||.-......+..+|.+||..
T Consensus 2 ~~Cp~Cg~~n~-----~~akFC~~CG~~l~-~~~Cp~CG~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 2 LICPQCQFENP-----NNNRFCQKCGTSLT-HKPCPQCGTEVPVDEAHCPNCGAE 50 (645)
T ss_pred CcCCCCCCcCC-----CCCccccccCCCCC-CCcCCCCCCCCCcccccccccCCc
Confidence 35777765411 01235666665421 123444433333334455555543
No 39
>COG0484 DnaJ DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]
Probab=39.08 E-value=19 Score=36.07 Aligned_cols=63 Identities=24% Similarity=0.406 Sum_probs=40.5
Q ss_pred ccccccccccccccCCcccccCCCccccCCCCCcCcccc--c---cCcccccccCCCCCCCCCCCCCCCCCccccccccc
Q 021409 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQC--S---KAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKC 255 (312)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~C--p---~~~~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~C 255 (312)
..|..|...|-. ... ....|..|+..|-....= - ..+.|-.|+..|++. ...|..|
T Consensus 143 ~~C~~C~GsGak--~gt----~~~tC~tC~G~G~v~~~~~~g~~~~~~~C~~C~G~G~~i-------------~~pC~~C 203 (371)
T COG0484 143 VTCSTCHGSGAK--PGT----DPKTCPTCNGSGQVRTVQRTGFFSFQQTCPTCNGTGKII-------------KDPCGKC 203 (371)
T ss_pred eECCcCCCCCCC--CCC----CCCcCCCCCCcCeEEEEEeeeEEEEEEECCCCccceeEC-------------CCCCCCC
Confidence 578888877632 221 346799999887432221 1 135799999998875 2367778
Q ss_pred ccCCCCc
Q 021409 256 GDSGHDM 262 (312)
Q Consensus 256 g~~GH~a 262 (312)
...|+..
T Consensus 204 ~G~G~v~ 210 (371)
T COG0484 204 KGKGRVK 210 (371)
T ss_pred CCCCeEe
Confidence 7777643
No 40
>PRK14298 chaperone protein DnaJ; Provisional
Probab=38.73 E-value=20 Score=35.63 Aligned_cols=17 Identities=18% Similarity=0.100 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHhhccCC
Q 021409 42 LKIVEKHMLMRAAKLDQ 58 (312)
Q Consensus 42 ~~i~~~~~~~~~~~~~~ 58 (312)
..=|.+|.++.|.+.-+
T Consensus 19 ~~eik~ayr~la~~~HP 35 (377)
T PRK14298 19 VEDIKKAYRKLAMKYHP 35 (377)
T ss_pred HHHHHHHHHHHHHHhCc
Confidence 33366777766666554
No 41
>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=38.07 E-value=17 Score=31.00 Aligned_cols=19 Identities=21% Similarity=0.375 Sum_probs=13.4
Q ss_pred cccccccccCCCCccCCCCC
Q 021409 249 AQVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 249 ~~~C~~Cg~~GH~a~dCp~~ 268 (312)
.+.|+.|+ ..||...||..
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 56677775 67777777764
No 42
>PLN03086 PRLI-interacting factor K; Provisional
Probab=37.95 E-value=29 Score=36.64 Aligned_cols=13 Identities=23% Similarity=0.261 Sum_probs=9.9
Q ss_pred ccccccccccccc
Q 021409 178 RGWQTCYNCGEEG 190 (312)
Q Consensus 178 ~~~~~C~~CG~~G 190 (312)
.....|.||...+
T Consensus 405 ~~~V~C~NC~~~i 417 (567)
T PLN03086 405 VDTVECRNCKHYI 417 (567)
T ss_pred CCeEECCCCCCcc
Confidence 3456899999876
No 43
>KOG0262 consensus RNA polymerase I, large subunit [Transcription]
Probab=36.60 E-value=51 Score=38.04 Aligned_cols=16 Identities=25% Similarity=0.347 Sum_probs=10.5
Q ss_pred cHHHHHHHHHHHhhcc
Q 021409 41 SLKIVEKHMLMRAAKL 56 (312)
Q Consensus 41 ~~~i~~~~~~~~~~~~ 56 (312)
=|+++++|+++.-+|.
T Consensus 1289 Flk~L~~aI~k~~~k~ 1304 (1640)
T KOG0262|consen 1289 FLKLLERAIKKKLKKA 1304 (1640)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 3788888887644433
No 44
>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=36.45 E-value=5.6 Score=37.91 Aligned_cols=73 Identities=23% Similarity=0.370 Sum_probs=30.0
Q ss_pred ccccccccccccccCCccc--ccCCCccccCCCCCcCccccccCcccccccCCCCCCCCCCCCCCCCCcccccccccccC
Q 021409 181 QTCYNCGEEGHMAVNCRSA--VKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDS 258 (312)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~--~~~~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~ 258 (312)
..|..||..-.++.--... ..+...|..||..-|+. ...|..|+...|..-.--..........-.|..|+..
T Consensus 173 g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~-----R~~Cp~Cg~~~~~~l~~~~~e~~~~~rve~C~~C~~Y 247 (290)
T PF04216_consen 173 GYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFV-----RIKCPYCGNTDHEKLEYFTVEGEPAYRVEVCESCGSY 247 (290)
T ss_dssp SS-TTT---EEEEEEE------EEEEEETTT--EEE-------TTS-TTT---SS-EEE--------SEEEEEETTTTEE
T ss_pred CcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeec-----CCCCcCCCCCCCcceeeEecCCCCcEEEEECCcccch
Confidence 6899999976555544432 23556788898877765 3578888887774322210000001123468888653
No 45
>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=36.28 E-value=18 Score=30.84 Aligned_cols=17 Identities=53% Similarity=1.161 Sum_probs=8.1
Q ss_pred ccccccCCCCCCCCCCCC
Q 021409 224 DCFICKKGGHRAKDCPDK 241 (312)
Q Consensus 224 ~C~~Cg~~GH~ardCp~~ 241 (312)
.|++|+ ..||...||.+
T Consensus 108 ~CR~Ck-GdH~T~~CPyK 124 (128)
T PF12353_consen 108 KCRICK-GDHWTSKCPYK 124 (128)
T ss_pred EeCCCC-CCcccccCCcc
Confidence 444453 44555555543
No 46
>PRK14298 chaperone protein DnaJ; Provisional
Probab=35.79 E-value=30 Score=34.43 Aligned_cols=11 Identities=27% Similarity=0.724 Sum_probs=6.1
Q ss_pred ccccccCCCCC
Q 021409 224 DCFICKKGGHR 234 (312)
Q Consensus 224 ~C~~Cg~~GH~ 234 (312)
.|..|+..|..
T Consensus 186 ~C~~C~G~G~~ 196 (377)
T PRK14298 186 TCSTCHGRGQV 196 (377)
T ss_pred eCCCCCCCCcc
Confidence 46666655543
No 47
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=34.25 E-value=24 Score=38.71 Aligned_cols=32 Identities=38% Similarity=0.764 Sum_probs=21.9
Q ss_pred cccccccCCCCCCCCCCCCCCCCCcccccccc
Q 021409 223 QDCFICKKGGHRAKDCPDKHKSGFQNAQVCLK 254 (312)
Q Consensus 223 ~~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~ 254 (312)
..||.|++.||.+.+|....+.+-.+...+..
T Consensus 261 ~~C~~cgq~gh~~~dc~g~~~~~~~~~~~~~~ 292 (931)
T KOG2044|consen 261 RRCFLCGQTGHEAKDCEGKPRLGETNELADVP 292 (931)
T ss_pred ccchhhcccCCcHhhcCCcCCcccccccccCc
Confidence 47999999999999998876533233344444
No 48
>PRK14286 chaperone protein DnaJ; Provisional
Probab=34.12 E-value=22 Score=35.29 Aligned_cols=18 Identities=11% Similarity=-0.034 Sum_probs=11.7
Q ss_pred cHHHHHHHHHHHhhccCC
Q 021409 41 SLKIVEKHMLMRAAKLDQ 58 (312)
Q Consensus 41 ~~~i~~~~~~~~~~~~~~ 58 (312)
|.+-|.+|.++.|-+.-+
T Consensus 17 ~~~eik~ayr~la~~~HP 34 (372)
T PRK14286 17 NDEEIKSAYRKLAIKYHP 34 (372)
T ss_pred CHHHHHHHHHHHHHHHCc
Confidence 444477887777666655
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=33.63 E-value=12 Score=33.07 Aligned_cols=11 Identities=0% Similarity=-0.333 Sum_probs=8.3
Q ss_pred CCccccccCCC
Q 021409 275 KVCLYFLVQYL 285 (312)
Q Consensus 275 ~~~~Cy~Cg~~ 285 (312)
.+.+|++||+.
T Consensus 67 ~PsYC~~CGkp 77 (158)
T PF10083_consen 67 APSYCHNCGKP 77 (158)
T ss_pred CChhHHhCCCC
Confidence 46788888873
No 50
>PRK14286 chaperone protein DnaJ; Provisional
Probab=33.02 E-value=25 Score=34.87 Aligned_cols=48 Identities=23% Similarity=0.489 Sum_probs=21.4
Q ss_pred ccccccccccccccCCcccccCCCccccCCCCCcCccccc---cCcccccccCCCCC
Q 021409 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCS---KAQDCFICKKGGHR 234 (312)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a~~Cp---~~~~C~~Cg~~GH~ 234 (312)
..|..|...|-..... ...|..|...|.....-. ....|..|...|.+
T Consensus 151 ~~C~~C~G~G~~~~~~------~~~C~~C~G~G~v~~~~G~~~~~~~C~~C~G~G~~ 201 (372)
T PRK14286 151 ESCVDCNGSGASKGSS------PTTCPDCGGSGQIRRTQGFFSVATTCPTCRGKGTV 201 (372)
T ss_pred ccCCCCcCCCcCCCCC------CccCCCCcCeEEEEEEeceEEEEEeCCCCCceeeE
Confidence 4566666655321111 134666665554322210 12245556555543
No 51
>PRK14289 chaperone protein DnaJ; Provisional
Probab=32.65 E-value=34 Score=33.96 Aligned_cols=18 Identities=11% Similarity=0.187 Sum_probs=10.5
Q ss_pred cHHHHHHHHHHHhhccCC
Q 021409 41 SLKIVEKHMLMRAAKLDQ 58 (312)
Q Consensus 41 ~~~i~~~~~~~~~~~~~~ 58 (312)
+++=|.+|.++.|-+.-+
T Consensus 18 ~~~eik~ayr~la~~~Hp 35 (386)
T PRK14289 18 TVDEIKKAYRKKAIQYHP 35 (386)
T ss_pred CHHHHHHHHHHHHHHHCC
Confidence 333377776666665544
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=32.61 E-value=29 Score=33.98 Aligned_cols=19 Identities=21% Similarity=0.051 Sum_probs=11.0
Q ss_pred ccHHHHHHHHHHHhhccCC
Q 021409 40 LSLKIVEKHMLMRAAKLDQ 58 (312)
Q Consensus 40 ~~~~i~~~~~~~~~~~~~~ 58 (312)
.|..-|.+|.++.|.+.-+
T Consensus 12 a~~~~ik~ayr~la~~~HP 30 (354)
T TIGR02349 12 ASEEEIKKAYRKLAKKYHP 30 (354)
T ss_pred CCHHHHHHHHHHHHHHHCC
Confidence 4555567776665555544
No 53
>PRK14279 chaperone protein DnaJ; Provisional
Probab=31.82 E-value=23 Score=35.39 Aligned_cols=17 Identities=18% Similarity=0.104 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHhhccCC
Q 021409 42 LKIVEKHMLMRAAKLDQ 58 (312)
Q Consensus 42 ~~i~~~~~~~~~~~~~~ 58 (312)
.+=|.||.++.|-+.-+
T Consensus 23 ~~eik~ayr~la~~~HP 39 (392)
T PRK14279 23 AEEIKKAYRKLARELHP 39 (392)
T ss_pred HHHHHHHHHHHHHHHCc
Confidence 34466666666655544
No 54
>PRK14278 chaperone protein DnaJ; Provisional
Probab=31.51 E-value=29 Score=34.49 Aligned_cols=20 Identities=15% Similarity=0.061 Sum_probs=12.0
Q ss_pred cccHHHHHHHHHHHhhccCC
Q 021409 39 DLSLKIVEKHMLMRAAKLDQ 58 (312)
Q Consensus 39 d~~~~i~~~~~~~~~~~~~~ 58 (312)
+.|.+-|.+|.++.|.++-+
T Consensus 14 ~a~~~eik~ayr~la~~~hp 33 (378)
T PRK14278 14 NASDAEIKRAYRKLARELHP 33 (378)
T ss_pred CCCHHHHHHHHHHHHHHHCC
Confidence 34445566776666666655
No 55
>PRK14296 chaperone protein DnaJ; Provisional
Probab=31.35 E-value=26 Score=34.76 Aligned_cols=8 Identities=38% Similarity=1.140 Sum_probs=3.9
Q ss_pred ccccccCC
Q 021409 252 CLKCGDSG 259 (312)
Q Consensus 252 C~~Cg~~G 259 (312)
|..|...|
T Consensus 209 C~~C~G~g 216 (372)
T PRK14296 209 CKNCKGKG 216 (372)
T ss_pred ccCCCCce
Confidence 44454444
No 56
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=30.97 E-value=62 Score=31.23 Aligned_cols=53 Identities=17% Similarity=0.221 Sum_probs=28.6
Q ss_pred ccccccccCCCCc-cCCCC-----C-----CCCCCCCCccccccCCCCcCcCCCcCcCCCCCCce
Q 021409 250 QVCLKCGDSGHDM-FSCRN-----S-----YSLDDLKVCLYFLVQYLAFCIMQSLLVSFKSLEFV 303 (312)
Q Consensus 250 ~~C~~Cg~~GH~a-~dCp~-----~-----~~~~~~~~~~Cy~Cg~~GH~~~eC~~~~~~~~~~~ 303 (312)
..|..|+..|.++ ..|.. . ......+.+-|..||....-..+ .+.++|+|.|.
T Consensus 172 ~KC~SCNrlGq~sCLRCK~cfCddHvrrKg~ky~k~k~~PCPKCg~et~eTkd-LSmStR~hkyG 235 (314)
T PF06524_consen 172 FKCQSCNRLGQYSCLRCKICFCDDHVRRKGFKYEKGKPIPCPKCGYETQETKD-LSMSTRSHKYG 235 (314)
T ss_pred ccccccccccchhhhheeeeehhhhhhhcccccccCCCCCCCCCCCccccccc-ceeeeecchhc
Confidence 3577777766554 11211 1 12334567889999765443322 45666666654
No 57
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=30.95 E-value=56 Score=35.12 Aligned_cols=9 Identities=33% Similarity=0.634 Sum_probs=5.9
Q ss_pred ccccccccc
Q 021409 181 QTCYNCGEE 189 (312)
Q Consensus 181 ~~C~~CG~~ 189 (312)
..|..||..
T Consensus 2 ~~Cp~Cg~~ 10 (645)
T PRK14559 2 LICPQCQFE 10 (645)
T ss_pred CcCCCCCCc
Confidence 467777665
No 58
>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=30.75 E-value=21 Score=20.85 Aligned_cols=15 Identities=33% Similarity=0.415 Sum_probs=11.3
Q ss_pred hhccccccccCCccc
Q 021409 21 EKLKSAAAMSSDDEE 35 (312)
Q Consensus 21 ~~~~~~~~~~~~~~~ 35 (312)
+|.+..++++||||+
T Consensus 4 ePEti~vEi~SDeee 18 (19)
T PF07708_consen 4 EPETIPVEIGSDEEE 18 (19)
T ss_pred CCceEEEEecccccC
Confidence 356777889998875
No 59
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=28.95 E-value=34 Score=25.71 Aligned_cols=10 Identities=40% Similarity=0.919 Sum_probs=5.2
Q ss_pred ccccccCCCC
Q 021409 224 DCFICKKGGH 233 (312)
Q Consensus 224 ~C~~Cg~~GH 233 (312)
.|-.|.+.|+
T Consensus 40 Rc~~CRk~g~ 49 (61)
T COG2888 40 RCAKCRKLGN 49 (61)
T ss_pred hhhhHHHcCC
Confidence 4555555543
No 60
>PRK14301 chaperone protein DnaJ; Provisional
Probab=28.62 E-value=34 Score=33.95 Aligned_cols=16 Identities=13% Similarity=0.032 Sum_probs=8.1
Q ss_pred HHHHHHHHHHhhccCC
Q 021409 43 KIVEKHMLMRAAKLDQ 58 (312)
Q Consensus 43 ~i~~~~~~~~~~~~~~ 58 (312)
.=|.+|.++.|.++-+
T Consensus 19 ~~ik~ayr~la~~~HP 34 (373)
T PRK14301 19 DEIKKAYRKLALQYHP 34 (373)
T ss_pred HHHHHHHHHHHHHhCC
Confidence 3355555555555444
No 61
>PRK14276 chaperone protein DnaJ; Provisional
Probab=28.58 E-value=34 Score=34.04 Aligned_cols=19 Identities=16% Similarity=0.037 Sum_probs=10.3
Q ss_pred ccHHHHHHHHHHHhhccCC
Q 021409 40 LSLKIVEKHMLMRAAKLDQ 58 (312)
Q Consensus 40 ~~~~i~~~~~~~~~~~~~~ 58 (312)
.|.+=|.+|.++.|.+.-+
T Consensus 16 a~~~eik~ayr~la~~~Hp 34 (380)
T PRK14276 16 ASQDEIKKAYRKLSKKYHP 34 (380)
T ss_pred CCHHHHHHHHHHHHHHHCc
Confidence 3444466666665555544
No 62
>PF05741 zf-nanos: Nanos RNA binding domain; InterPro: IPR024161 Nanos is a highly conserved RNA-binding protein in higher eukaryotes and functions as a key regulatory protein in translational control using a 3' untranslated region during the development and maintenance of germ cells. Nanos comprises a non-conserved amino-terminus and highly conserved carboxy- terminal regions. The C-terminal region has two conserved Cys-Cys-His-Cys (CCHC)-type zinc-finger motifs that are indispensable for nanos function [, , ]. The structure of the nanos-type zinc finger is composed of two independent zinc-finger (ZF) lobes, the N-terminal ZF1 and the C-terminal ZF2, which are connected by a linker helix []. These lobes create a large cleft. Zinc ions in ZF1 and ZF2 are bound to the CCHC motif by tetrahedral coordination.; PDB: 3ALR_B.
Probab=28.42 E-value=23 Score=26.10 Aligned_cols=16 Identities=38% Similarity=0.866 Sum_probs=3.7
Q ss_pred CCcccccCCCccccCCCC
Q 021409 195 NCRSAVKRKKPCFVCGSL 212 (312)
Q Consensus 195 ~Cp~~~~~~~~C~~CG~~ 212 (312)
.||-. +.-.|-.||..
T Consensus 27 ~CPvL--r~y~Cp~CgAt 42 (55)
T PF05741_consen 27 TCPVL--RKYVCPICGAT 42 (55)
T ss_dssp --TTG--GG---TTT---
T ss_pred eCHHH--hcCcCCCCcCc
Confidence 45543 33455555553
No 63
>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=27.32 E-value=46 Score=32.58 Aligned_cols=30 Identities=23% Similarity=0.480 Sum_probs=15.1
Q ss_pred ccccccccccccccCCcccccCCCccccCCCCCcCc
Q 021409 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGV 216 (312)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH~a 216 (312)
..|..|...|-..... ...|..|+..|...
T Consensus 144 ~~C~~C~G~G~~~~~~------~~~C~~C~G~G~~~ 173 (354)
T TIGR02349 144 ESCETCHGTGAKPGTD------PKTCPTCGGTGQVR 173 (354)
T ss_pred CcCCCCCCCCCCCCCC------CccCCCCCCeeEEE
Confidence 5566666665322111 23466666665433
No 64
>PRK14289 chaperone protein DnaJ; Provisional
Probab=27.14 E-value=38 Score=33.68 Aligned_cols=10 Identities=30% Similarity=0.956 Sum_probs=4.4
Q ss_pred cccccccCCC
Q 021409 251 VCLKCGDSGH 260 (312)
Q Consensus 251 ~C~~Cg~~GH 260 (312)
.|..|+..|.
T Consensus 199 ~C~~C~G~G~ 208 (386)
T PRK14289 199 TCPTCNGEGK 208 (386)
T ss_pred ecCCCCcccc
Confidence 3444444443
No 65
>PRK14287 chaperone protein DnaJ; Provisional
Probab=27.05 E-value=36 Score=33.72 Aligned_cols=16 Identities=25% Similarity=0.086 Sum_probs=10.0
Q ss_pred HHHHHHHHHHhhccCC
Q 021409 43 KIVEKHMLMRAAKLDQ 58 (312)
Q Consensus 43 ~i~~~~~~~~~~~~~~ 58 (312)
.=|.||.++.|.+.-+
T Consensus 19 ~eik~ayr~la~~~Hp 34 (371)
T PRK14287 19 DEVKKAYRKLARKYHP 34 (371)
T ss_pred HHHHHHHHHHHHHHCc
Confidence 3367777776666544
No 66
>PRK14279 chaperone protein DnaJ; Provisional
Probab=26.90 E-value=33 Score=34.27 Aligned_cols=10 Identities=30% Similarity=0.913 Sum_probs=4.5
Q ss_pred cccccccCCC
Q 021409 251 VCLKCGDSGH 260 (312)
Q Consensus 251 ~C~~Cg~~GH 260 (312)
.|..|+..|-
T Consensus 214 ~C~~C~G~G~ 223 (392)
T PRK14279 214 PCTDCRGTGS 223 (392)
T ss_pred ecCCCCceeE
Confidence 4444444443
No 67
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=26.86 E-value=65 Score=35.19 Aligned_cols=43 Identities=16% Similarity=0.104 Sum_probs=23.6
Q ss_pred ccccccccccCCCCccCCCCCCC----CCCCCCccccccCCCCcCcCCCcC
Q 021409 248 NAQVCLKCGDSGHDMFSCRNSYS----LDDLKVCLYFLVQYLAFCIMQSLL 294 (312)
Q Consensus 248 ~~~~C~~Cg~~GH~a~dCp~~~~----~~~~~~~~Cy~Cg~~GH~~~eC~~ 294 (312)
....|..||- . ..||+--. ........|-.||........||+
T Consensus 434 ~~l~C~~Cg~---v-~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~ 480 (730)
T COG1198 434 PLLLCRDCGY---I-AECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPE 480 (730)
T ss_pred ceeecccCCC---c-ccCCCCCcceEEecCCCeeEeCCCCCCCCCCCCCCC
Confidence 3455666642 2 36665321 122345667777777777777763
No 68
>PRK14301 chaperone protein DnaJ; Provisional
Probab=26.79 E-value=36 Score=33.75 Aligned_cols=11 Identities=45% Similarity=0.752 Sum_probs=6.0
Q ss_pred cccccccCCCC
Q 021409 251 VCLKCGDSGHD 261 (312)
Q Consensus 251 ~C~~Cg~~GH~ 261 (312)
.|..|...|..
T Consensus 199 ~C~~C~G~g~v 209 (373)
T PRK14301 199 PCPKCKGSGIV 209 (373)
T ss_pred CCCCCCCCcee
Confidence 45556555544
No 69
>PLN03165 chaperone protein dnaJ-related; Provisional
Probab=26.53 E-value=46 Score=27.82 Aligned_cols=12 Identities=33% Similarity=0.883 Sum_probs=7.9
Q ss_pred cccccccccccc
Q 021409 180 WQTCYNCGEEGH 191 (312)
Q Consensus 180 ~~~C~~CG~~GH 191 (312)
...|..|...|.
T Consensus 41 ~v~C~~C~GsG~ 52 (111)
T PLN03165 41 TQPCFPCSGTGA 52 (111)
T ss_pred CCCCCCCCCCCC
Confidence 466777776664
No 70
>PRK14278 chaperone protein DnaJ; Provisional
Probab=26.43 E-value=37 Score=33.78 Aligned_cols=10 Identities=30% Similarity=0.723 Sum_probs=5.3
Q ss_pred ccccccCCCC
Q 021409 224 DCFICKKGGH 233 (312)
Q Consensus 224 ~C~~Cg~~GH 233 (312)
.|..|+..|.
T Consensus 158 ~C~~C~G~G~ 167 (378)
T PRK14278 158 TCDTCGGRGE 167 (378)
T ss_pred ecCCccCceE
Confidence 4555555553
No 71
>PRK14276 chaperone protein DnaJ; Provisional
Probab=26.24 E-value=45 Score=33.11 Aligned_cols=28 Identities=21% Similarity=0.395 Sum_probs=14.0
Q ss_pred ccccccccccccccCCcccccCCCccccCCCCCc
Q 021409 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEH 214 (312)
Q Consensus 181 ~~C~~CG~~GH~a~~Cp~~~~~~~~C~~CG~~GH 214 (312)
..|..|...|-.... ....|..|+..|.
T Consensus 147 ~~C~~C~G~G~~~~~------~~~~C~~C~G~G~ 174 (380)
T PRK14276 147 ATCHTCNGSGAKPGT------SPVTCGKCHGSGV 174 (380)
T ss_pred ccCCCCcCcccCCCC------CCccCCCCCCeeE
Confidence 456666666532211 1234666666553
No 72
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=25.84 E-value=54 Score=32.07 Aligned_cols=50 Identities=28% Similarity=0.383 Sum_probs=32.2
Q ss_pred ccccccccccccccc--CCcccccCCCccccCCCCCcCccccccCcccccccCCCCC
Q 021409 180 WQTCYNCGEEGHMAV--NCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHR 234 (312)
Q Consensus 180 ~~~C~~CG~~GH~a~--~Cp~~~~~~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~ 234 (312)
...|-.||..-..+. .-.....+-..|..|+..-|+. ...|..|++.+.+
T Consensus 187 ~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~-----R~~C~~Cg~~~~l 238 (309)
T PRK03564 187 RQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVV-----RVKCSNCEQSGKL 238 (309)
T ss_pred CCCCCCCCCcchhheeeccCCCCceEEEcCCCCCccccc-----CccCCCCCCCCce
Confidence 468999998765442 1111123556788888887776 3578888876543
No 73
>PRK14280 chaperone protein DnaJ; Provisional
Probab=25.60 E-value=43 Score=33.25 Aligned_cols=19 Identities=16% Similarity=0.029 Sum_probs=10.5
Q ss_pred ccHHHHHHHHHHHhhccCC
Q 021409 40 LSLKIVEKHMLMRAAKLDQ 58 (312)
Q Consensus 40 ~~~~i~~~~~~~~~~~~~~ 58 (312)
.+.+-|.+|.++.|.+.-+
T Consensus 16 a~~~eik~ayr~la~~~Hp 34 (376)
T PRK14280 16 ASKDEIKKAYRKLSKKYHP 34 (376)
T ss_pred CCHHHHHHHHHHHHHHHCc
Confidence 3444466666666555544
No 74
>PRK14288 chaperone protein DnaJ; Provisional
Probab=25.52 E-value=56 Score=32.37 Aligned_cols=19 Identities=16% Similarity=0.067 Sum_probs=11.5
Q ss_pred ccHHHHHHHHHHHhhccCC
Q 021409 40 LSLKIVEKHMLMRAAKLDQ 58 (312)
Q Consensus 40 ~~~~i~~~~~~~~~~~~~~ 58 (312)
.|.+=|.||.|+.|-+.-|
T Consensus 15 As~~eIkkayrkla~k~HP 33 (369)
T PRK14288 15 SNQETIKKSYRKLALKYHP 33 (369)
T ss_pred CCHHHHHHHHHHHHHHHCC
Confidence 3444567777766666655
No 75
>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=25.38 E-value=48 Score=32.32 Aligned_cols=51 Identities=24% Similarity=0.407 Sum_probs=33.3
Q ss_pred ccccccccccccccc--CCc-ccccCCCccccCCCCCcCccccccCcccccccCCCCCC
Q 021409 180 WQTCYNCGEEGHMAV--NCR-SAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRA 235 (312)
Q Consensus 180 ~~~C~~CG~~GH~a~--~Cp-~~~~~~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~a 235 (312)
...|-.||..-+.+. .-. ....+...|..|+..-|+. ...|..|++..++.
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~-----R~~C~~Cg~~~~l~ 237 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYV-----RVKCSHCEESKHLA 237 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCccccc-----CccCCCCCCCCcee
Confidence 358999999865542 221 1123556788888887776 35788888776543
No 76
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=25.33 E-value=65 Score=37.22 Aligned_cols=9 Identities=44% Similarity=1.191 Sum_probs=4.4
Q ss_pred ccccccccc
Q 021409 181 QTCYNCGEE 189 (312)
Q Consensus 181 ~~C~~CG~~ 189 (312)
..|.+||..
T Consensus 668 rkCPkCG~~ 676 (1337)
T PRK14714 668 RRCPSCGTE 676 (1337)
T ss_pred EECCCCCCc
Confidence 445555544
No 77
>PRK14282 chaperone protein DnaJ; Provisional
Probab=25.24 E-value=53 Score=32.47 Aligned_cols=9 Identities=33% Similarity=0.741 Sum_probs=4.6
Q ss_pred ccccccCCC
Q 021409 224 DCFICKKGG 232 (312)
Q Consensus 224 ~C~~Cg~~G 232 (312)
.|..|+..|
T Consensus 197 ~C~~C~G~G 205 (369)
T PRK14282 197 TCERCGGTG 205 (369)
T ss_pred ECCCCCCcc
Confidence 455555544
No 78
>PRK04023 DNA polymerase II large subunit; Validated
Probab=25.22 E-value=72 Score=36.09 Aligned_cols=8 Identities=38% Similarity=0.895 Sum_probs=3.5
Q ss_pred ccccCCCC
Q 021409 205 PCFVCGSL 212 (312)
Q Consensus 205 ~C~~CG~~ 212 (312)
.|..||..
T Consensus 628 fCpsCG~~ 635 (1121)
T PRK04023 628 KCPSCGKE 635 (1121)
T ss_pred cCCCCCCc
Confidence 34444443
No 79
>PRK04023 DNA polymerase II large subunit; Validated
Probab=24.32 E-value=61 Score=36.66 Aligned_cols=14 Identities=36% Similarity=0.904 Sum_probs=10.9
Q ss_pred Cccccccccccccc
Q 021409 177 DRGWQTCYNCGEEG 190 (312)
Q Consensus 177 ~~~~~~C~~CG~~G 190 (312)
+.+...|..||..+
T Consensus 623 EVg~RfCpsCG~~t 636 (1121)
T PRK04023 623 EIGRRKCPSCGKET 636 (1121)
T ss_pred cccCccCCCCCCcC
Confidence 45567899999886
No 80
>KOG3070 consensus Predicted RNA-binding protein containing PIN domain and invovled in translation or RNA processing [Translation, ribosomal structure and biogenesis]
Probab=23.94 E-value=2.1e+02 Score=26.88 Aligned_cols=20 Identities=40% Similarity=0.951 Sum_probs=16.3
Q ss_pred cccccccccCCCCccCCCCC
Q 021409 249 AQVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 249 ~~~C~~Cg~~GH~a~dCp~~ 268 (312)
...||.|+..||.+..|.+.
T Consensus 199 ~~~~~~~~~~g~~~~~~~e~ 218 (235)
T KOG3070|consen 199 ASLCYTCGEPGHVADGCEES 218 (235)
T ss_pred cccccccCcccccccccccc
Confidence 55788888888888888875
No 81
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=23.81 E-value=60 Score=19.76 Aligned_cols=6 Identities=0% Similarity=-0.346 Sum_probs=2.3
Q ss_pred cccccC
Q 021409 278 LYFLVQ 283 (312)
Q Consensus 278 ~Cy~Cg 283 (312)
+|-+||
T Consensus 18 fC~~CG 23 (26)
T PF13248_consen 18 FCPNCG 23 (26)
T ss_pred cChhhC
Confidence 333333
No 82
>PRK14287 chaperone protein DnaJ; Provisional
Probab=23.52 E-value=42 Score=33.28 Aligned_cols=12 Identities=33% Similarity=0.855 Sum_probs=6.3
Q ss_pred ccccccccCCCC
Q 021409 250 QVCLKCGDSGHD 261 (312)
Q Consensus 250 ~~C~~Cg~~GH~ 261 (312)
..|..|...|.+
T Consensus 182 ~~C~~C~G~G~~ 193 (371)
T PRK14287 182 RVCHHCEGTGKI 193 (371)
T ss_pred EeCCCCCCCCcc
Confidence 345555555544
No 83
>PF06375 BLVR: Bovine leukaemia virus receptor (BLVR); InterPro: IPR010474 Bovine leukemia virus (BLV) is one of the most common infectious cattle viruses, with between 30 and 40% of cows in the United States being infected. It is closely related to the human T-cell leukaemia virus type 1 (HTLV-1) and has highly conserved envelope glycoprotein functional domains []. BLV is an oncogenic C-type retrovirus, which results in the animals developing a malignant lymphoma. BLV, like the human and simian T cell leukaemia viruses, is a deltaretrovirus. 182 residues at the amino-terminal of the BLV envelope glycoprotein surface unit encompass the receptor-binding domain. The metabolic activity in B cells, T cells, and thymocytes is indicated by the expression of the BLV-binding receptor []. A candidate gene of the receptor (BLVR) is related, but unique, to a gene family of the delta subunit of the adaptor protein (AP) complex 3, AP-3 []. The AP-3 complex is not clathrin-associated but is associated with the Golgi region as well as more peripheral structures. It facilitates the budding of vesicles from the Golgi membrane and may be directly involved in trafficking to lysosomes. ; PDB: 4AFI_B.
Probab=22.94 E-value=48 Score=29.27 Aligned_cols=19 Identities=16% Similarity=0.249 Sum_probs=0.0
Q ss_pred HHHhhccCCCCCCCccccCC
Q 021409 50 LMRAAKLDQDDSDSDVVLND 69 (312)
Q Consensus 50 ~~~~~~~~~~~~~~~~~~~~ 69 (312)
+||-|.+++-.|-| .||-+
T Consensus 8 rrReaR~~Eq~NNP-~YLK~ 26 (154)
T PF06375_consen 8 RRREARKAEQENNP-HYLKG 26 (154)
T ss_dssp --------------------
T ss_pred HHHHHHHHHHHcCC-ceecC
Confidence 55666666666655 45544
No 84
>COG5593 Nucleic-acid-binding protein possibly involved in ribosomal biogenesis [Translation, ribosomal structure and biogenesis]
Probab=21.57 E-value=59 Score=34.51 Aligned_cols=11 Identities=27% Similarity=0.302 Sum_probs=6.7
Q ss_pred ccccccccCCc
Q 021409 23 LKSAAAMSSDD 33 (312)
Q Consensus 23 ~~~~~~~~~~~ 33 (312)
++|-++.-|||
T Consensus 697 srp~~e~d~dd 707 (821)
T COG5593 697 SRPDVEDDSDD 707 (821)
T ss_pred cCCccccCccc
Confidence 66766665544
No 85
>PRK14282 chaperone protein DnaJ; Provisional
Probab=21.47 E-value=66 Score=31.79 Aligned_cols=57 Identities=21% Similarity=0.427 Sum_probs=29.4
Q ss_pred CCCccccCCCCCcCccccccCcccccccCCCCCCCCCCCCCCCCCcccccccccccCCCC
Q 021409 202 RKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHD 261 (312)
Q Consensus 202 ~~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~GH~ 261 (312)
+...|-.|...|-.... ....|..|+..|-....-...+ +.......|..|+..|-.
T Consensus 151 r~~~C~~C~G~G~~~~~--~~~~C~~C~G~G~~~~~~~~~~-G~~~~~~~C~~C~G~G~~ 207 (369)
T PRK14282 151 RYETCPHCGGTGVEPGS--GYVTCPKCHGTGRIREERRSFF-GVFVSERTCERCGGTGKI 207 (369)
T ss_pred ecccCCCCCccCCCCCC--CCcCCCCCCCcCEEEEEEEccC-cceEEEEECCCCCCccee
Confidence 34567777766532221 2347888887775432211100 111224567788777754
No 86
>PRK14280 chaperone protein DnaJ; Provisional
Probab=21.25 E-value=55 Score=32.48 Aligned_cols=11 Identities=27% Similarity=0.673 Sum_probs=5.5
Q ss_pred cccccccCCCC
Q 021409 251 VCLKCGDSGHD 261 (312)
Q Consensus 251 ~C~~Cg~~GH~ 261 (312)
.|..|...|-.
T Consensus 202 ~C~~C~G~g~v 212 (376)
T PRK14280 202 KCPTCHGKGKV 212 (376)
T ss_pred CCCCCCCceEE
Confidence 35555555533
No 87
>PF12773 DZR: Double zinc ribbon
Probab=21.18 E-value=1.5e+02 Score=20.26 Aligned_cols=8 Identities=38% Similarity=1.348 Sum_probs=3.9
Q ss_pred cccccccc
Q 021409 250 QVCLKCGD 257 (312)
Q Consensus 250 ~~C~~Cg~ 257 (312)
.+|..||.
T Consensus 30 ~~C~~Cg~ 37 (50)
T PF12773_consen 30 KICPNCGA 37 (50)
T ss_pred CCCcCCcC
Confidence 34555544
No 88
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=21.06 E-value=43 Score=34.49 Aligned_cols=18 Identities=33% Similarity=0.933 Sum_probs=16.8
Q ss_pred cccccccccccccCCccc
Q 021409 182 TCYNCGEEGHMAVNCRSA 199 (312)
Q Consensus 182 ~C~~CG~~GH~a~~Cp~~ 199 (312)
.|||||..-|.-++||.+
T Consensus 130 ~CFNC~g~~hsLrdC~rp 147 (485)
T KOG2673|consen 130 PCFNCGGTPHSLRDCPRP 147 (485)
T ss_pred cccccCCCCCccccCCCc
Confidence 499999999999999987
No 89
>PRK14277 chaperone protein DnaJ; Provisional
Probab=21.01 E-value=54 Score=32.63 Aligned_cols=19 Identities=16% Similarity=0.034 Sum_probs=10.8
Q ss_pred ccHHHHHHHHHHHhhccCC
Q 021409 40 LSLKIVEKHMLMRAAKLDQ 58 (312)
Q Consensus 40 ~~~~i~~~~~~~~~~~~~~ 58 (312)
.|..-|.+|.++.|.+.-+
T Consensus 17 a~~~eik~ayr~la~~~HP 35 (386)
T PRK14277 17 ATEEEIKKAYRRLAKKYHP 35 (386)
T ss_pred CCHHHHHHHHHHHHHHHCC
Confidence 3444466676666665544
No 90
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=20.56 E-value=54 Score=33.64 Aligned_cols=20 Identities=30% Similarity=0.748 Sum_probs=14.7
Q ss_pred cccccccccCCCCccCCCCC
Q 021409 249 AQVCLKCGDSGHDMFSCRNS 268 (312)
Q Consensus 249 ~~~C~~Cg~~GH~a~dCp~~ 268 (312)
...|..||.-||...+||..
T Consensus 570 ~kGCayCgGLGHRItdCPKl 589 (610)
T KOG0341|consen 570 EKGCAYCGGLGHRITDCPKL 589 (610)
T ss_pred ccccccccCCCcccccCchh
Confidence 45677777777777777765
No 91
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=20.53 E-value=67 Score=29.31 Aligned_cols=20 Identities=0% Similarity=-0.308 Sum_probs=17.1
Q ss_pred CccccccCCCCcCcCCCcCc
Q 021409 276 VCLYFLVQYLAFCIMQSLLV 295 (312)
Q Consensus 276 ~~~Cy~Cg~~GH~~~eC~~~ 295 (312)
...||.||+.||+...|..+
T Consensus 100 ~~~~~r~G~rg~~~r~~~~s 119 (195)
T KOG0107|consen 100 RGFCYRCGERGHIGRNCKDS 119 (195)
T ss_pred ccccccCCCccccccccccc
Confidence 35599999999999999873
No 92
>PRK14295 chaperone protein DnaJ; Provisional
Probab=20.05 E-value=53 Score=32.83 Aligned_cols=65 Identities=17% Similarity=0.374 Sum_probs=0.0
Q ss_pred CCCccccCCCCCcCccccccCcccccccCCCCCCCCCCCCCCCCCcccccccccccCCCCccCCCCCCCCCCCCCccccc
Q 021409 202 RKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNSYSLDDLKVCLYFL 281 (312)
Q Consensus 202 ~~~~C~~CG~~GH~a~~Cp~~~~C~~Cg~~GH~ardCp~~~~~~~~~~~~C~~Cg~~GH~a~dCp~~~~~~~~~~~~Cy~ 281 (312)
+...|..|...|-....-+. .|..|+..|...... +.......|..|+..|-+. ...|..
T Consensus 165 r~~~C~~C~G~G~~~~~~~~--~C~~C~G~G~~~~~~-----g~~~~~~~C~~C~G~G~~~-------------~~~C~~ 224 (389)
T PRK14295 165 SQAPCPACSGTGAKNGTTPR--VCPTCSGTGQVSRNS-----GGFSLSEPCPDCKGRGLIA-------------DDPCLV 224 (389)
T ss_pred ccccCCCCcccccCCCCCCc--CCCCCCCEeEEEEEe-----cceEEEEecCCCcceeEEe-------------ccCCCC
Q ss_pred cCCCC
Q 021409 282 VQYLA 286 (312)
Q Consensus 282 Cg~~G 286 (312)
|...|
T Consensus 225 C~G~g 229 (389)
T PRK14295 225 CKGSG 229 (389)
T ss_pred CCCCc
No 93
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=20.02 E-value=53 Score=33.89 Aligned_cols=17 Identities=6% Similarity=-0.129 Sum_probs=10.1
Q ss_pred ccccCCCCcCcCCCcCc
Q 021409 279 YFLVQYLAFCIMQSLLV 295 (312)
Q Consensus 279 Cy~Cg~~GH~~~eC~~~ 295 (312)
||||+..-|-.++||.+
T Consensus 131 CFNC~g~~hsLrdC~rp 147 (485)
T KOG2673|consen 131 CFNCGGTPHSLRDCPRP 147 (485)
T ss_pred ccccCCCCCccccCCCc
Confidence 56666666666666543
Done!