Query 011506
Match_columns 484
No_of_seqs 322 out of 2000
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 02:07:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011506.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011506hhsearch_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 2E-25 4.4E-30 204.2 10.1 138 181-347 1-148 (148)
2 COG5082 AIR1 Arginine methyltr 99.8 3.5E-20 7.5E-25 173.3 6.8 130 178-340 58-188 (190)
3 PTZ00368 universal minicircle 99.8 1E-19 2.2E-24 166.5 8.2 114 179-318 26-147 (148)
4 COG5082 AIR1 Arginine methyltr 99.7 6.6E-18 1.4E-22 158.1 6.4 134 161-348 34-174 (190)
5 KOG4400 E3 ubiquitin ligase in 99.6 3.2E-15 6.9E-20 149.1 9.3 157 178-350 22-186 (261)
6 KOG0119 Splicing factor 1/bran 99.5 2.7E-15 5.9E-20 156.0 0.3 172 36-220 107-302 (554)
7 KOG4400 E3 ubiquitin ligase in 99.4 9.2E-13 2E-17 131.4 10.6 155 181-349 55-217 (261)
8 COG5176 MSL5 Splicing factor ( 98.3 9E-08 1.9E-12 90.8 -0.2 120 37-169 118-258 (269)
9 PF00098 zf-CCHC: Zinc knuckle 97.6 3.8E-05 8.1E-10 45.8 1.8 16 330-345 2-17 (18)
10 PF00098 zf-CCHC: Zinc knuckle 97.5 3.3E-05 7.1E-10 46.0 1.0 17 182-198 2-18 (18)
11 KOG0335 ATP-dependent RNA heli 96.6 0.0025 5.4E-08 68.5 4.9 66 378-448 48-113 (482)
12 PF13696 zf-CCHC_2: Zinc knuck 95.4 0.011 2.4E-07 40.4 1.9 18 301-318 9-26 (32)
13 PF13696 zf-CCHC_2: Zinc knuck 94.9 0.016 3.5E-07 39.6 1.7 22 326-347 6-27 (32)
14 KOG0119 Splicing factor 1/bran 92.8 0.07 1.5E-06 57.2 2.6 37 204-240 262-303 (554)
15 PF13917 zf-CCHC_3: Zinc knuck 92.0 0.11 2.3E-06 37.8 2.0 19 328-346 4-22 (42)
16 PF13917 zf-CCHC_3: Zinc knuck 91.9 0.068 1.5E-06 38.9 0.8 19 180-198 4-22 (42)
17 smart00343 ZnF_C2HC zinc finge 89.7 0.14 2.9E-06 33.0 0.6 17 182-198 1-17 (26)
18 smart00343 ZnF_C2HC zinc finge 89.7 0.17 3.6E-06 32.6 1.0 17 330-346 1-17 (26)
19 PF14392 zf-CCHC_4: Zinc knuck 82.3 0.54 1.2E-05 35.1 0.6 18 328-345 31-48 (49)
20 KOG0109 RNA-binding protein LA 80.1 1.6 3.4E-05 44.4 3.2 21 328-348 160-180 (346)
21 KOG0314 Predicted E3 ubiquitin 79.1 2.5 5.4E-05 45.6 4.5 64 203-268 112-177 (448)
22 COG5222 Uncharacterized conser 78.9 1.2 2.5E-05 45.4 1.9 24 297-320 173-196 (427)
23 PF14392 zf-CCHC_4: Zinc knuck 78.5 0.72 1.6E-05 34.4 0.2 18 180-197 31-48 (49)
24 PF15288 zf-CCHC_6: Zinc knuck 77.6 0.99 2.2E-05 32.5 0.7 18 181-198 2-21 (40)
25 PF15288 zf-CCHC_6: Zinc knuck 77.5 1.2 2.7E-05 32.0 1.1 12 302-313 3-14 (40)
26 KOG0314 Predicted E3 ubiquitin 71.3 4.7 0.0001 43.6 4.1 63 179-243 111-179 (448)
27 COG5222 Uncharacterized conser 69.8 2.9 6.4E-05 42.6 2.1 23 326-348 174-196 (427)
28 PF14787 zf-CCHC_5: GAG-polypr 67.3 2.4 5.2E-05 29.8 0.6 19 181-199 3-21 (36)
29 KOG0109 RNA-binding protein LA 67.3 3 6.6E-05 42.4 1.6 23 300-322 160-182 (346)
30 PF14787 zf-CCHC_5: GAG-polypr 61.3 5.2 0.00011 28.1 1.4 21 328-348 2-22 (36)
31 smart00816 Amb_V_allergen Amb 48.0 13 0.00028 26.9 1.7 25 281-305 11-35 (45)
32 PF03913 Amb_V_allergen: Amb V 45.7 14 0.00031 26.5 1.6 25 281-305 10-34 (44)
33 KOG3116 Predicted C3H1-type Zn 39.0 8.1 0.00018 35.6 -0.6 24 220-243 25-48 (177)
34 KOG0337 ATP-dependent RNA heli 38.1 7.8 0.00017 41.7 -1.0 41 406-448 20-60 (529)
35 KOG3116 Predicted C3H1-type Zn 38.1 10 0.00022 35.1 -0.2 21 179-199 26-46 (177)
36 PF10083 DUF2321: Uncharacteri 37.7 9.4 0.0002 35.5 -0.4 12 326-337 66-77 (158)
37 smart00249 PHD PHD zinc finger 32.8 41 0.00089 23.2 2.4 17 276-292 14-30 (47)
38 COG1107 Archaea-specific RecJ- 31.1 31 0.00068 38.6 2.2 94 181-317 3-116 (715)
39 PF12353 eIF3g: Eukaryotic tra 27.0 27 0.00058 31.5 0.7 20 179-199 105-124 (128)
40 PF07708 Tash_PEST: Tash prote 26.9 34 0.00073 20.8 0.8 15 21-35 4-18 (19)
41 cd02395 SF1_like-KH Splicing f 25.8 20 0.00042 32.0 -0.4 95 64-171 5-113 (120)
42 PF04216 FdhE: Protein involve 24.4 12 0.00027 37.9 -2.2 50 180-234 172-223 (290)
43 PF12353 eIF3g: Eukaryotic tra 23.0 43 0.00094 30.1 1.2 17 223-240 107-123 (128)
44 COG5179 TAF1 Transcription ini 21.9 43 0.00093 37.7 1.1 18 178-195 935-952 (968)
45 KOG2044 5'-3' exonuclease HKE1 21.9 47 0.001 38.4 1.5 12 460-471 503-514 (931)
46 PLN00206 DEAD-box ATP-dependen 21.0 5.4 0.00012 43.9 -6.1 49 395-448 112-160 (518)
47 PRK14289 chaperone protein Dna 20.3 71 0.0015 33.9 2.4 17 45-61 22-38 (386)
No 1
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=99.92 E-value=2e-25 Score=204.19 Aligned_cols=138 Identities=32% Similarity=0.879 Sum_probs=110.7
Q ss_pred ccccccccccccccccccc----ccCCCCcccccCCCcCcccCCCC------ccccccCCCCCCCCCCCCcccCCCcCCc
Q 011506 181 QTCYNCGEEGHMAVNCRSA----VKRKKPCFVCGSLEHGVRQCSKA------QDCFICKKGGHRAKDCPDKHKSGFQNAQ 250 (484)
Q Consensus 181 ~~C~~Cg~~GH~a~~Cp~~----~~~~~~C~~CG~~GH~ar~C~~~------~~C~~C~~~GH~a~~Cp~~~~~~~~~~~ 250 (484)
++||+|++.||++++||.. ......|++|+..||++++||.. ..|++|++.||++++||.+.... ...
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 13457899999999999999863 36999999999999998865321 346
Q ss_pred cccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccCCCCCCCceeeccCCCCCCCCCCCCCCCCcccCCCcc
Q 011506 251 VCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLACARSRGETVEASPSS 330 (484)
Q Consensus 251 ~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~~~~~~~~~CynCg~~GH~~~dCp~~r~~~~~~~~~~ 330 (484)
.|++|++.||++.+|+..+. .....+.||+|++.||++.+||+.+.. +..+..
T Consensus 79 ~C~~Cg~~GH~~~~C~~~~~-------------------------~~~~~~~C~~Cg~~gH~~~~C~~~~~~--~~~~~~ 131 (148)
T PTZ00368 79 SCYNCGQTGHISRECPNRAK-------------------------GGAARRACYNCGGEGHISRDCPNAGKR--PGGDKT 131 (148)
T ss_pred ccCcCCCCCcccccCCCccc-------------------------ccccchhhcccCcCCcchhcCCCcccc--CCCCCc
Confidence 89999999999999987531 112346899999999999999996432 234689
Q ss_pred ccccCCCCcCcCcCCCC
Q 011506 331 CYNCGAEGHFARECVSS 347 (484)
Q Consensus 331 Cy~Cge~GH~ardCp~~ 347 (484)
||+|++.|||++|||.+
T Consensus 132 C~~Cg~~gH~~~dCp~~ 148 (148)
T PTZ00368 132 CYNCGQTGHLSRDCPDK 148 (148)
T ss_pred cccCCCcCcccccCCCC
Confidence 99999999999999963
No 2
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=99.80 E-value=3.5e-20 Score=173.28 Aligned_cols=130 Identities=31% Similarity=0.772 Sum_probs=104.7
Q ss_pred ccccccccccccccccccccccccCCCCcccccCCCcCcccCCCCccccccCCCCCCCCCC-CCcccCCCcCCccccccC
Q 011506 178 RGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDC-PDKHKSGFQNAQVCLKCG 256 (484)
Q Consensus 178 ~~~~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~~~~~C~~C~~~GH~a~~C-p~~~~~~~~~~~~C~~Cg 256 (484)
....+|||||+.||++++||. .+|++|...||....||....|++|++.||++++| |.++. ...|+.|.
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 456899999999999999995 69999977899999999989999999999999999 55543 46999999
Q ss_pred CCCcCCCCCCCCCCCCcccccccccccCCCCccccccCCCCCCCceeeccCCCCCCCCCCCCCCCCcccCCCccccccCC
Q 011506 257 DSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLACARSRGETVEASPSSCYNCGA 336 (484)
Q Consensus 257 ~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~~~~~~~~~CynCg~~GH~~~dCp~~r~~~~~~~~~~Cy~Cge 336 (484)
..+|.+.+||..|..+.+. .|+. .+..+.||+|+..||++.+|+.++....+ |.|+.
T Consensus 128 s~~H~s~~Cp~~~k~y~~~---------~~~~--------~~~~~~cy~c~~~~H~~~dc~~~~~s~~~------~~~~~ 184 (190)
T COG5082 128 STRHSSEDCPSIWKHYVLN---------NGDG--------HPIKKFCYSCGSAGHFGDDCKEPRSSRVP------YVCGK 184 (190)
T ss_pred CCccccccCcccccccccc---------cCCC--------cceeeeccccCCccccCCCCCCCcccccc------ccccc
Confidence 9999999999999755432 2222 23457899999999999999987753322 66766
Q ss_pred CCcC
Q 011506 337 EGHF 340 (484)
Q Consensus 337 ~GH~ 340 (484)
.+|+
T Consensus 185 ~~~~ 188 (190)
T COG5082 185 KGYV 188 (190)
T ss_pred cccC
Confidence 6654
No 3
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=99.80 E-value=1e-19 Score=166.51 Aligned_cols=114 Identities=34% Similarity=0.863 Sum_probs=95.1
Q ss_pred ccccccccccccccccccccccc--CCCCcccccCCCcCcccCCCC------ccccccCCCCCCCCCCCCcccCCCcCCc
Q 011506 179 GWQTCYNCGEEGHMAVNCRSAVK--RKKPCFVCGSLEHGVRQCSKA------QDCFICKKGGHRAKDCPDKHKSGFQNAQ 250 (484)
Q Consensus 179 ~~~~C~~Cg~~GH~a~~Cp~~~~--~~~~C~~CG~~GH~ar~C~~~------~~C~~C~~~GH~a~~Cp~~~~~~~~~~~ 250 (484)
....||+|++.||++++||.+.. ....|+.|++.||++++||.. ..|++|++.||++++||+.... .....
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 36789999999999999998521 346899999999999999974 3799999999999999996643 23457
Q ss_pred cccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccCCCCCCCceeeccCCCCCCCCCCCC
Q 011506 251 VCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLACAR 318 (484)
Q Consensus 251 ~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~~~~~~~~~CynCg~~GH~~~dCp~ 318 (484)
.|++|++.||++.+||..|.. ....++||+|++.||++.+||.
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 899999999999999986421 1234799999999999999996
No 4
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=99.72 E-value=6.6e-18 Score=158.06 Aligned_cols=134 Identities=31% Similarity=0.683 Sum_probs=107.7
Q ss_pred HHHHHhhCCCCCCCCCCccccccccccccccccccccccccCCCCcccccCCCcCcccCCCCccccccCCCCCCCCCCCC
Q 011506 161 IVLRKLLRGPRYFDPPDRGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPD 240 (484)
Q Consensus 161 ~~~~~~~~~~Ryf~~~~~~~~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~~~~~C~~C~~~GH~a~~Cp~ 240 (484)
.+++.+....||++....... +..+ ...+|++||+.||..++|| ..+|++|...||.+..||.
T Consensus 34 ~~~~~~~~~~~~~~~~~~d~~-----------~~~~-----~~~~C~nCg~~GH~~~DCP-~~iC~~C~~~~H~s~~C~~ 96 (190)
T COG5082 34 NELRSLRSSGRYEDRSVEDVS-----------AIRE-----ENPVCFNCGQNGHLRRDCP-HSICYNCSWDGHRSNHCPK 96 (190)
T ss_pred cceeeccceeeeecccccccc-----------cccc-----cccccchhcccCcccccCC-hhHhhhcCCCCcccccCCc
Confidence 344555555677766533222 3333 4469999999999999999 8999999889999999998
Q ss_pred cccCCCcCCccccccCCCCcCCCCC-CCCCCCCcccccccccccCCCCccccccCCCCCCCceeeccCCCCCCCCCCCCC
Q 011506 241 KHKSGFQNAQVCLKCGDSGHDMFSC-RNSYSLDDLKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGHTGLACARS 319 (484)
Q Consensus 241 ~~~~~~~~~~~C~~Cg~~GH~~~dC-p~~~~~~~~~~~~C~~C~~~GH~~c~~~~~~~~~~~~CynCg~~GH~~~dCp~~ 319 (484)
+ +.|++||..||+.++| |..|. .+.|+.|...+|++.+||..
T Consensus 97 ~--------~~C~~Cg~~GH~~~dC~P~~~~-----------------------------~~~C~~C~s~~H~s~~Cp~~ 139 (190)
T COG5082 97 P--------KKCYNCGETGHLSRDCNPSKDQ-----------------------------QKSCFDCNSTRHSSEDCPSI 139 (190)
T ss_pred c--------cccccccccCccccccCccccc-----------------------------CcceeccCCCccccccCccc
Confidence 4 7999999999999999 55441 25899999999999999999
Q ss_pred CCCccc------CCCccccccCCCCcCcCcCCCCc
Q 011506 320 RGETVE------ASPSSCYNCGAEGHFARECVSSS 348 (484)
Q Consensus 320 r~~~~~------~~~~~Cy~Cge~GH~ardCp~~~ 348 (484)
|+.+.. .....||+|+..+||+.+|+.+.
T Consensus 140 ~k~y~~~~~~~~~~~~~cy~c~~~~H~~~dc~~~~ 174 (190)
T COG5082 140 WKHYVLNNGDGHPIKKFCYSCGSAGHFGDDCKEPR 174 (190)
T ss_pred ccccccccCCCcceeeeccccCCccccCCCCCCCc
Confidence 987642 34579999999999999999754
No 5
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=99.59 E-value=3.2e-15 Score=149.10 Aligned_cols=157 Identities=28% Similarity=0.653 Sum_probs=121.4
Q ss_pred cccccccccccccccccccccccc-------CCCCcccccCCCcCcccCCCCccccccCCCCCCCCCCCCcccCCCcCCc
Q 011506 178 RGWQTCYNCGEEGHMAVNCRSAVK-------RKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQ 250 (484)
Q Consensus 178 ~~~~~C~~Cg~~GH~a~~Cp~~~~-------~~~~C~~CG~~GH~ar~C~~~~~C~~C~~~GH~a~~Cp~~~~~~~~~~~ 250 (484)
.....|++|+..+|.+..|+.... ....+..+...+|....++ ...|+.|++.||....|+.. ..
T Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~c~~~g~~~~~~~~~~~~-------~~ 93 (261)
T KOG4400|consen 22 DSSPNELKCLKSGHKAVSCTDGDSRGDSSKSDGPGCVSTSPNGPLKSECP-EVSCYICGEKGHLGRRCTRI-------AA 93 (261)
T ss_pred ccchhhhhhccccCcceecccCCcccccccCCCCcccccccCcccCCCCC-CceeeecCCCCchhhcCccc-------ch
Confidence 345778899999999999887531 1234555667778888888 67899999999999999871 47
Q ss_pred cccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccC-CCCCCCceeeccCCCCCCCCCCCCCCCCcccCCCc
Q 011506 251 VCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNIS-DAVPGEVSCFRCGQLGHTGLACARSRGETVEASPS 329 (484)
Q Consensus 251 ~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~-~~~~~~~~CynCg~~GH~~~dCp~~r~~~~~~~~~ 329 (484)
.|++|+..||+..+|+..+.... ....||.|+..||..|.+.. ...+..+.||+||+.||+..+|++. .+.
T Consensus 94 ~c~~C~~~gH~~~~c~~~~~~~~-~~~~~~~c~~~gh~~~~~~~~~~~~~~~~Cy~Cg~~GH~s~~C~~~-------~~~ 165 (261)
T KOG4400|consen 94 ACFNCGEGGHIERDCPEAGKEGS-SETSCYSCGKTGHRGCPDADPVDGPKPAKCYSCGEQGHISDDCPEN-------KGG 165 (261)
T ss_pred hhhhCCCCccchhhCCcccCccc-ccceeeccCCCccccCcccccccCCCCCccCCCCcCCcchhhCCCC-------CCC
Confidence 89999999999999998875443 56688999999998743222 1222227899999999999999975 268
Q ss_pred cccccCCCCcCcCcCCCCccc
Q 011506 330 SCYNCGAEGHFARECVSSSKV 350 (484)
Q Consensus 330 ~Cy~Cge~GH~ardCp~~~~~ 350 (484)
.||.|++.||.+++||.....
T Consensus 166 ~c~~c~~~~h~~~~C~~~~~~ 186 (261)
T KOG4400|consen 166 TCFRCGKVGHGSRDCPSKQKS 186 (261)
T ss_pred ccccCCCcceecccCCccccc
Confidence 999999999999999986654
No 6
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=99.50 E-value=2.7e-15 Score=156.03 Aligned_cols=172 Identities=19% Similarity=0.267 Sum_probs=128.5
Q ss_pred cCccchhHHHHHHHHhhhhcccCCCC--------CCcccccCCCCCCCCCCCCCCCCCcccccCCCCCCCcchhhhhhcc
Q 011506 36 GNEDLSLKIVEKHMLMRAAKLDQDDS--------DSDVVLNDNTNTNTSDNSNNKNGGVEAVVPGPSGTTDDVIIEDVKS 107 (484)
Q Consensus 36 ~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~ 107 (484)
.-||++++||+.+|++.+..-...|+ .+.|.++..++.++.++ +...+..|+...+.+.
T Consensus 107 ~Le~er~e~I~~~lk~nP~fkpP~DYk~p~~~~~Kv~IPvke~Pd~NFvGL----------iiGPRG~TqK~lE~et--- 173 (554)
T KOG0119|consen 107 KLEDERHEIIEEILKLNPGFKPPADYKPPAKLHDKVYIPVKEFPDINFVGL----------IIGPRGNTQKRLERET--- 173 (554)
T ss_pred HHHHHHHHHHHHHHHhCcCCCCCcccCcccccccceecchhhcCCcceeEE----------EecCCccHHHHHHHHh---
Confidence 45899999999999997776666663 44589999999999999 8888888888877766
Q ss_pred cchhhHHHhhhhhhhhhhh------hccccceeechhhhhhhhhhccccccc-------cccchhHHHHHHhhCCCCCCC
Q 011506 108 SDKKRIRVRKKKKKEADKI------EIEDQSVIVRKEEQKVETADNGDEGVT-------TVEISDNIVLRKLLRGPRYFD 174 (484)
Q Consensus 108 ~~~~~i~~K~~~~~~~~~~------~~e~~~v~~~~~ee~~e~~~~A~e~v~-------~~~~~~n~~~~~~~~~~Ryf~ 174 (484)
++|+.||+|+++||++... .-+++.|......+.+|.+++|...|+ .++.++|.+.+.++++....+
T Consensus 174 gAKI~IRGkgSvkEgk~~~~d~~~~~~~~epLH~~Isadt~eki~~Ai~vienli~~av~~~e~~n~l~~~Qlrela~lN 253 (554)
T KOG0119|consen 174 GAKIAIRGKGSVKEGKGRSDDLSYIPKENEPLHCLISADTQEKIKKAIAVIENLIQSAVSVPEGQNDLKRLQLRELARLN 253 (554)
T ss_pred CCeEEEeccccccccccCCcccccccccccceeEEEecchHHHHHHHHHHHHHHHHhhccCccccccccHHHHHHHHHhC
Confidence 9999999999999988433 337888888888888888888876666 456777888777777743322
Q ss_pred C-C-Ccccccccccccccccccccccccc-CCCCcccccCCCcCcccCC
Q 011506 175 P-P-DRGWQTCYNCGEEGHMAVNCRSAVK-RKKPCFVCGSLEHGVRQCS 220 (484)
Q Consensus 175 ~-~-~~~~~~C~~Cg~~GH~a~~Cp~~~~-~~~~C~~CG~~GH~ar~C~ 220 (484)
+ . +..+..|.+||..||...+||.... ...+|+.||..||++.+|.
T Consensus 254 gt~r~~d~~~c~~cg~~~H~q~~cp~r~~~~~n~c~~cg~~gH~~~dc~ 302 (554)
T KOG0119|consen 254 GTLRDDDNRACRNCGSTGHKQYDCPGRIPNTTNVCKICGPLGHISIDCK 302 (554)
T ss_pred CCCCccccccccccCCCccccccCCcccccccccccccCCcccccccCC
Confidence 2 2 3456899999999999999998411 1125555555555555554
No 7
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=99.41 E-value=9.2e-13 Score=131.43 Aligned_cols=155 Identities=33% Similarity=0.802 Sum_probs=112.1
Q ss_pred cccccccccccccccccccccCCCCcccccCCCcCcccCCC-CccccccCCCCCCCCCCCCcccCCCcCCccccccCCCC
Q 011506 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK-AQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSG 259 (484)
Q Consensus 181 ~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~~-~~~C~~C~~~GH~a~~Cp~~~~~~~~~~~~C~~Cg~~G 259 (484)
..+..+...+|+-..++. ..|+.||..+|..+.|+. ...|++|++.||+.++||.....+. ....|+.|+..|
T Consensus 55 ~~~~~~~~~~~~~~~~~~-----~~c~~~g~~~~~~~~~~~~~~~c~~C~~~gH~~~~c~~~~~~~~-~~~~~~~c~~~g 128 (261)
T KOG4400|consen 55 PGCVSTSPNGPLKSECPE-----VSCYICGEKGHLGRRCTRIAAACFNCGEGGHIERDCPEAGKEGS-SETSCYSCGKTG 128 (261)
T ss_pred CcccccccCcccCCCCCC-----ceeeecCCCCchhhcCcccchhhhhCCCCccchhhCCcccCccc-ccceeeccCCCc
Confidence 344456677777777776 489999999999999985 7789999999999999998776432 456899999999
Q ss_pred cCCCCCCCCCCCCcccccccccccCCCCccccccCCCCC--CCceeeccCCCCCCCCCCCCCCCCccc-----CCCcccc
Q 011506 260 HDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNISDAVP--GEVSCFRCGQLGHTGLACARSRGETVE-----ASPSSCY 332 (484)
Q Consensus 260 H~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~~~~~--~~~~CynCg~~GH~~~dCp~~r~~~~~-----~~~~~Cy 332 (484)
|.. |+..-.......+.||.|++.||+. ..|+ ....||.|++.||...+||........ ..-..|+
T Consensus 129 h~~--~~~~~~~~~~~~~~Cy~Cg~~GH~s-----~~C~~~~~~~c~~c~~~~h~~~~C~~~~~~~~~~~~~~~~~~~~~ 201 (261)
T KOG4400|consen 129 HRG--CPDADPVDGPKPAKCYSCGEQGHIS-----DDCPENKGGTCFRCGKVGHGSRDCPSKQKSKSKQGGQRKGFGACY 201 (261)
T ss_pred ccc--CcccccccCCCCCccCCCCcCCcch-----hhCCCCCCCccccCCCcceecccCCccccccccCcccccccccCc
Confidence 998 4332211111127799999999984 3444 368999999999999999997654211 1122344
Q ss_pred ccCCCCcCcCcCCCCcc
Q 011506 333 NCGAEGHFARECVSSSK 349 (484)
Q Consensus 333 ~Cge~GH~ardCp~~~~ 349 (484)
+...+|+.++|+....
T Consensus 202 -~~~~~~~~~~~~~~~~ 217 (261)
T KOG4400|consen 202 -DYPQGHKQRACGGSGP 217 (261)
T ss_pred -cccccccccccCCCCc
Confidence 6688999998886543
No 8
>COG5176 MSL5 Splicing factor (branch point binding protein) [RNA processing and modification]
Probab=98.33 E-value=9e-08 Score=90.81 Aligned_cols=120 Identities=16% Similarity=0.042 Sum_probs=94.2
Q ss_pred CccchhHHHHHHHHhhhhcccCCC--------CCCcccccCCCCCCCCCCCCCCCCCcccccCCCCCCCcchhhhhhccc
Q 011506 37 NEDLSLKIVEKHMLMRAAKLDQDD--------SDSDVVLNDNTNTNTSDNSNNKNGGVEAVVPGPSGTTDDVIIEDVKSS 108 (484)
Q Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~ 108 (484)
-||++|+|||.||.|-+-....|| |.++|+|+.++++++.|. +..+...|+...+... +
T Consensus 118 Leder~~l~era~k~lp~fv~p~dy~rpsk~q~KiYIPV~eyPe~NFVGL----------liGPRG~Tlk~le~~s---~ 184 (269)
T COG5176 118 LEDERLWLKERAQKILPRFVLPNDYIRPSKYQNKIYIPVQEYPESNFVGL----------LIGPRGSTLKQLERIS---R 184 (269)
T ss_pred hhHHHHHHHHHHHHhcCcccCCccccCcccccceEEeehhhCcccceeEE----------EecCCcchHHHHHHHh---C
Confidence 389999999999999777777777 566799999999999999 8888888888887766 9
Q ss_pred chhhHHHhhhhhhhhh---------hhhccccceeechhhhhhhhhhccccccc----cccchhHHHHHHhhCC
Q 011506 109 DKKRIRVRKKKKKEAD---------KIEIEDQSVIVRKEEQKVETADNGDEGVT----TVEISDNIVLRKLLRG 169 (484)
Q Consensus 109 ~~~~i~~K~~~~~~~~---------~~~~e~~~v~~~~~ee~~e~~~~A~e~v~----~~~~~~n~~~~~~~~~ 169 (484)
+|++|||+.++|++.- +++.....+++++.++++..+......+. ..|.++|.+.+.+++.
T Consensus 185 akIaIRG~gsvKegk~ssd~p~~~~N~e~~lhcLI~adsedki~~~ik~~~n~I~~a~~~PeGqnDlkR~qlr~ 258 (269)
T COG5176 185 AKIAIRGSGSVKEGKISSDTPESLKNAEAVLHCLIEADSEDKICRLIKSQLNAIREARRNPEGQNDLKRFQLRW 258 (269)
T ss_pred CeEEEecccccccCcccccCchhhhhhHHhHHHHhhcchhhhHHHHHHHHHHHHHHHhcCCcccchHHHHHHHH
Confidence 9999999999998543 34445566777888888776555443222 6677888887777754
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=97.59 E-value=3.8e-05 Score=45.76 Aligned_cols=16 Identities=56% Similarity=1.481 Sum_probs=9.5
Q ss_pred cccccCCCCcCcCcCC
Q 011506 330 SCYNCGAEGHFARECV 345 (484)
Q Consensus 330 ~Cy~Cge~GH~ardCp 345 (484)
.||+|++.||++++||
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 4566666666666665
No 10
>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=97.54 E-value=3.3e-05 Score=46.02 Aligned_cols=17 Identities=53% Similarity=1.372 Sum_probs=11.3
Q ss_pred ccccccccccccccccc
Q 011506 182 TCYNCGEEGHMAVNCRS 198 (484)
Q Consensus 182 ~C~~Cg~~GH~a~~Cp~ 198 (484)
.||+|++.||++++||+
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 46777777777776663
No 11
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.57 E-value=0.0025 Score=68.47 Aligned_cols=66 Identities=20% Similarity=0.176 Sum_probs=56.4
Q ss_pred CCCCCCcccccCCCccccCcccCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCCCCccCCCCC
Q 011506 378 PHDLGKVHKRKKTQHEERGIMTSRKSKQRGGWITDDPGDISYGKPKRNHWRSPGTPSSKAHKISAITSGGH 448 (484)
Q Consensus 378 ~~d~~k~~k~~k~~~ee~~~~~p~~s~sRGgw~~~~~~d~~~~~~~~~~~~sp~TP~~~~~~~~~~~~~~~ 448 (484)
...+.|+.++..+.++.++...|....+ +...++...+..|.++.+|..| ||+|+|. ||+|..|..
T Consensus 48 ~~~~~nfd~~~~i~v~~~G~~~p~~i~~---f~~~~l~~~l~~ni~~~~~~~p-tpvQk~s-ip~i~~Grd 113 (482)
T KOG0335|consen 48 ISTGINFDKYNDIPVKVSGRDVPPHIPT---FDEAILGEALAGNIKRSGYTKP-TPVQKYS-IPIISGGRD 113 (482)
T ss_pred cchhhccCCccceeeeccCCccCCCccc---ccccchhHHHhhccccccccCC-Ccceeec-cceeecCCc
Confidence 4667899999999999999888777774 6666668899999999999999 9999999 999987654
No 12
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=95.37 E-value=0.011 Score=40.39 Aligned_cols=18 Identities=44% Similarity=0.870 Sum_probs=9.2
Q ss_pred ceeeccCCCCCCCCCCCC
Q 011506 301 VSCFRCGQLGHTGLACAR 318 (484)
Q Consensus 301 ~~CynCg~~GH~~~dCp~ 318 (484)
-.|+.|++.||+..+||.
T Consensus 9 Y~C~~C~~~GH~i~dCP~ 26 (32)
T PF13696_consen 9 YVCHRCGQKGHWIQDCPT 26 (32)
T ss_pred CEeecCCCCCccHhHCCC
Confidence 445555555555555554
No 13
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=94.90 E-value=0.016 Score=39.57 Aligned_cols=22 Identities=27% Similarity=0.857 Sum_probs=19.2
Q ss_pred CCCccccccCCCCcCcCcCCCC
Q 011506 326 ASPSSCYNCGAEGHFARECVSS 347 (484)
Q Consensus 326 ~~~~~Cy~Cge~GH~ardCp~~ 347 (484)
.....|+.|++.|||..+||.+
T Consensus 6 P~~Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 6 PPGYVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CCCCEeecCCCCCccHhHCCCC
Confidence 3457999999999999999983
No 14
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=92.78 E-value=0.07 Score=57.24 Aligned_cols=37 Identities=35% Similarity=0.696 Sum_probs=19.1
Q ss_pred CCcccccCCCcCcccCCCC-----ccccccCCCCCCCCCCCC
Q 011506 204 KPCFVCGSLEHGVRQCSKA-----QDCFICKKGGHRAKDCPD 240 (484)
Q Consensus 204 ~~C~~CG~~GH~ar~C~~~-----~~C~~C~~~GH~a~~Cp~ 240 (484)
..|..||..||...+||.. ..|++|+..||++.+|..
T Consensus 262 ~~c~~cg~~~H~q~~cp~r~~~~~n~c~~cg~~gH~~~dc~~ 303 (554)
T KOG0119|consen 262 RACRNCGSTGHKQYDCPGRIPNTTNVCKICGPLGHISIDCKV 303 (554)
T ss_pred ccccccCCCccccccCCcccccccccccccCCcccccccCCC
Confidence 3555555555555555531 145555555555555544
No 15
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=92.04 E-value=0.11 Score=37.84 Aligned_cols=19 Identities=37% Similarity=0.996 Sum_probs=13.2
Q ss_pred CccccccCCCCcCcCcCCC
Q 011506 328 PSSCYNCGAEGHFARECVS 346 (484)
Q Consensus 328 ~~~Cy~Cge~GH~ardCp~ 346 (484)
...|.+|++.||+..+|+.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 3567777777777777774
No 16
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=91.90 E-value=0.068 Score=38.88 Aligned_cols=19 Identities=32% Similarity=0.908 Sum_probs=15.4
Q ss_pred ccccccccccccccccccc
Q 011506 180 WQTCYNCGEEGHMAVNCRS 198 (484)
Q Consensus 180 ~~~C~~Cg~~GH~a~~Cp~ 198 (484)
...|.+|++.||+..+|+.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4678888888888888883
No 17
>smart00343 ZnF_C2HC zinc finger.
Probab=89.67 E-value=0.14 Score=33.01 Aligned_cols=17 Identities=59% Similarity=1.458 Sum_probs=12.0
Q ss_pred ccccccccccccccccc
Q 011506 182 TCYNCGEEGHMAVNCRS 198 (484)
Q Consensus 182 ~C~~Cg~~GH~a~~Cp~ 198 (484)
.|++|++.||++++||.
T Consensus 1 ~C~~CG~~GH~~~~C~~ 17 (26)
T smart00343 1 KCYNCGKEGHIARDCPK 17 (26)
T ss_pred CCccCCCCCcchhhCCc
Confidence 37777777777777763
No 18
>smart00343 ZnF_C2HC zinc finger.
Probab=89.67 E-value=0.17 Score=32.58 Aligned_cols=17 Identities=65% Similarity=1.521 Sum_probs=14.7
Q ss_pred cccccCCCCcCcCcCCC
Q 011506 330 SCYNCGAEGHFARECVS 346 (484)
Q Consensus 330 ~Cy~Cge~GH~ardCp~ 346 (484)
.|++|++.||++++|+.
T Consensus 1 ~C~~CG~~GH~~~~C~~ 17 (26)
T smart00343 1 KCYNCGKEGHIARDCPK 17 (26)
T ss_pred CCccCCCCCcchhhCCc
Confidence 48999999999999984
No 19
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=82.31 E-value=0.54 Score=35.06 Aligned_cols=18 Identities=44% Similarity=1.160 Sum_probs=9.3
Q ss_pred CccccccCCCCcCcCcCC
Q 011506 328 PSSCYNCGAEGHFARECV 345 (484)
Q Consensus 328 ~~~Cy~Cge~GH~ardCp 345 (484)
|..|++|+..||...+||
T Consensus 31 p~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 31 PRFCFHCGRIGHSDKECP 48 (49)
T ss_pred ChhhcCCCCcCcCHhHcC
Confidence 344555555555555554
No 20
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=80.13 E-value=1.6 Score=44.44 Aligned_cols=21 Identities=48% Similarity=1.203 Sum_probs=12.3
Q ss_pred CccccccCCCCcCcCcCCCCc
Q 011506 328 PSSCYNCGAEGHFARECVSSS 348 (484)
Q Consensus 328 ~~~Cy~Cge~GH~ardCp~~~ 348 (484)
+..||.||++||++.+||...
T Consensus 160 q~~cyrcGkeghwskEcP~~~ 180 (346)
T KOG0109|consen 160 QSGCYRCGKEGHWSKECPVDR 180 (346)
T ss_pred HHHheeccccccccccCCccC
Confidence 345666666666666666543
No 21
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.12 E-value=2.5 Score=45.59 Aligned_cols=64 Identities=20% Similarity=0.375 Sum_probs=48.9
Q ss_pred CCCcccccCCCcCcccCCC--CccccccCCCCCCCCCCCCcccCCCcCCccccccCCCCcCCCCCCCC
Q 011506 203 KKPCFVCGSLEHGVRQCSK--AQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNS 268 (484)
Q Consensus 203 ~~~C~~CG~~GH~ar~C~~--~~~C~~C~~~GH~a~~Cp~~~~~~~~~~~~C~~Cg~~GH~~~dCp~~ 268 (484)
...|..|+..||..+.|+. ...|..|...+|+...|..... ..-...|++|+..||+...||..
T Consensus 112 ~q~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~iq~~~~~g~--Pppsy~c~rc~~~g~wikacptv 177 (448)
T KOG0314|consen 112 IQMNGRMGGRGFGMRRQTPPPGYVCHRCNSPGHFIQHCSTNGS--PPPSYKCVKCPTPGPWIKACPTV 177 (448)
T ss_pred hhhccccccCCcccccCCCcccceeeecccCccccccccccCC--CCCCcceecCCCCCccceecccc
Confidence 3478888888998888864 5678888888888888875332 12357888888888888888874
No 22
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=78.91 E-value=1.2 Score=45.36 Aligned_cols=24 Identities=38% Similarity=0.805 Sum_probs=19.9
Q ss_pred CCCCceeeccCCCCCCCCCCCCCC
Q 011506 297 VPGEVSCFRCGQLGHTGLACARSR 320 (484)
Q Consensus 297 ~~~~~~CynCg~~GH~~~dCp~~r 320 (484)
.+..-.||+||+.||+..+||...
T Consensus 173 pPpgY~CyRCGqkgHwIqnCpTN~ 196 (427)
T COG5222 173 PPPGYVCYRCGQKGHWIQNCPTNQ 196 (427)
T ss_pred CCCceeEEecCCCCchhhcCCCCC
Confidence 345678999999999999998643
No 23
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=78.46 E-value=0.72 Score=34.37 Aligned_cols=18 Identities=33% Similarity=0.899 Sum_probs=16.3
Q ss_pred cccccccccccccccccc
Q 011506 180 WQTCYNCGEEGHMAVNCR 197 (484)
Q Consensus 180 ~~~C~~Cg~~GH~a~~Cp 197 (484)
...|++||..||...+||
T Consensus 31 p~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 31 PRFCFHCGRIGHSDKECP 48 (49)
T ss_pred ChhhcCCCCcCcCHhHcC
Confidence 367999999999999997
No 24
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=77.64 E-value=0.99 Score=32.49 Aligned_cols=18 Identities=44% Similarity=0.959 Sum_probs=11.2
Q ss_pred cccccccccccccc--cccc
Q 011506 181 QTCYNCGEEGHMAV--NCRS 198 (484)
Q Consensus 181 ~~C~~Cg~~GH~a~--~Cp~ 198 (484)
++|.+||..||.+. .||.
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~ 21 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPM 21 (40)
T ss_pred ccccccccccccccCccCCC
Confidence 45777777777663 3544
No 25
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=77.51 E-value=1.2 Score=32.01 Aligned_cols=12 Identities=42% Similarity=1.096 Sum_probs=6.0
Q ss_pred eeeccCCCCCCC
Q 011506 302 SCFRCGQLGHTG 313 (484)
Q Consensus 302 ~CynCg~~GH~~ 313 (484)
.|.+||..||..
T Consensus 3 kC~~CG~~GH~~ 14 (40)
T PF15288_consen 3 KCKNCGAFGHMR 14 (40)
T ss_pred cccccccccccc
Confidence 455555555544
No 26
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.28 E-value=4.7 Score=43.56 Aligned_cols=63 Identities=24% Similarity=0.368 Sum_probs=54.4
Q ss_pred cccccccccccccccccccccccCCCCcccccCCCcCcccCCC------CccccccCCCCCCCCCCCCccc
Q 011506 179 GWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK------AQDCFICKKGGHRAKDCPDKHK 243 (484)
Q Consensus 179 ~~~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~~------~~~C~~C~~~GH~a~~Cp~~~~ 243 (484)
....|+.|+..||..+.|.. ....+|..|-..+|+-..|.. ...|++|...||+...||....
T Consensus 111 ~~q~~~~~~~~~~~~~~~t~--~~~~~~~~~~~~~~~iq~~~~~g~Pppsy~c~rc~~~g~wikacptv~~ 179 (448)
T KOG0314|consen 111 LIQMNGRMGGRGFGMRRQTP--PPGYVCHRCNSPGHFIQHCSTNGSPPPSYKCVKCPTPGPWIKACPTVSG 179 (448)
T ss_pred hhhhccccccCCcccccCCC--cccceeeecccCccccccccccCCCCCCcceecCCCCCccceeccccCC
Confidence 45689999999999999955 467899999999999999975 4689999999999999997543
No 27
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=69.79 E-value=2.9 Score=42.56 Aligned_cols=23 Identities=30% Similarity=0.941 Sum_probs=19.5
Q ss_pred CCCccccccCCCCcCcCcCCCCc
Q 011506 326 ASPSSCYNCGAEGHFARECVSSS 348 (484)
Q Consensus 326 ~~~~~Cy~Cge~GH~ardCp~~~ 348 (484)
+....||+||+.||+...||...
T Consensus 174 PpgY~CyRCGqkgHwIqnCpTN~ 196 (427)
T COG5222 174 PPGYVCYRCGQKGHWIQNCPTNQ 196 (427)
T ss_pred CCceeEEecCCCCchhhcCCCCC
Confidence 33578999999999999999743
No 28
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=67.32 E-value=2.4 Score=29.79 Aligned_cols=19 Identities=42% Similarity=0.789 Sum_probs=11.5
Q ss_pred ccccccccccccccccccc
Q 011506 181 QTCYNCGEEGHMAVNCRSA 199 (484)
Q Consensus 181 ~~C~~Cg~~GH~a~~Cp~~ 199 (484)
..|++|++..|++.+|...
T Consensus 3 ~~CprC~kg~Hwa~~C~sk 21 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSK 21 (36)
T ss_dssp -C-TTTSSSCS-TTT---T
T ss_pred ccCcccCCCcchhhhhhhh
Confidence 4699999999999999774
No 29
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=67.30 E-value=3 Score=42.45 Aligned_cols=23 Identities=35% Similarity=0.865 Sum_probs=19.9
Q ss_pred CceeeccCCCCCCCCCCCCCCCC
Q 011506 300 EVSCFRCGQLGHTGLACARSRGE 322 (484)
Q Consensus 300 ~~~CynCg~~GH~~~dCp~~r~~ 322 (484)
.-.||.||+.||++.+||..+..
T Consensus 160 q~~cyrcGkeghwskEcP~~~~~ 182 (346)
T KOG0109|consen 160 QSGCYRCGKEGHWSKECPVDRTG 182 (346)
T ss_pred HHHheeccccccccccCCccCCC
Confidence 36899999999999999987653
No 30
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=61.30 E-value=5.2 Score=28.12 Aligned_cols=21 Identities=43% Similarity=0.873 Sum_probs=11.3
Q ss_pred CccccccCCCCcCcCcCCCCc
Q 011506 328 PSSCYNCGAEGHFARECVSSS 348 (484)
Q Consensus 328 ~~~Cy~Cge~GH~ardCp~~~ 348 (484)
+..|.+|++-.|++.+|....
T Consensus 2 ~~~CprC~kg~Hwa~~C~sk~ 22 (36)
T PF14787_consen 2 PGLCPRCGKGFHWASECRSKT 22 (36)
T ss_dssp --C-TTTSSSCS-TTT---TC
T ss_pred CccCcccCCCcchhhhhhhhh
Confidence 457888888889999888643
No 31
>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=48.01 E-value=13 Score=26.85 Aligned_cols=25 Identities=24% Similarity=0.603 Sum_probs=21.0
Q ss_pred cccCCCCccccccCCCCCCCceeec
Q 011506 281 ICRCFGHLCCVNISDAVPGEVSCFR 305 (484)
Q Consensus 281 ~C~~~GH~~c~~~~~~~~~~~~Cyn 305 (484)
+|++.+..+|.++..-||+.++||-
T Consensus 11 ~CGekr~YCcSdpGrYCpwqvVCYe 35 (45)
T smart00816 11 NCGEKRKYCCSDPGRYCPWQVVCYE 35 (45)
T ss_pred cccccCccccCCCcccCCceEEEee
Confidence 6778888888888888899999985
No 32
>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=45.74 E-value=14 Score=26.55 Aligned_cols=25 Identities=28% Similarity=0.675 Sum_probs=15.0
Q ss_pred cccCCCCccccccCCCCCCCceeec
Q 011506 281 ICRCFGHLCCVNISDAVPGEVSCFR 305 (484)
Q Consensus 281 ~C~~~GH~~c~~~~~~~~~~~~Cyn 305 (484)
+|++.+-.+|.++..-|++.++||.
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 6888888888888888999999984
No 33
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=38.98 E-value=8.1 Score=35.65 Aligned_cols=24 Identities=29% Similarity=0.717 Sum_probs=16.7
Q ss_pred CCCccccccCCCCCCCCCCCCccc
Q 011506 220 SKAQDCFICKKGGHRAKDCPDKHK 243 (484)
Q Consensus 220 ~~~~~C~~C~~~GH~a~~Cp~~~~ 243 (484)
++...|..|.+.||+..+|.++++
T Consensus 25 ~~~~rCQKClq~GHWtYECk~kRk 48 (177)
T KOG3116|consen 25 GSSARCQKCLQAGHWTYECKNKRK 48 (177)
T ss_pred ccchhHHHHHhhccceeeecCcee
Confidence 335577777777777777777654
No 34
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=38.13 E-value=7.8 Score=41.68 Aligned_cols=41 Identities=20% Similarity=0.323 Sum_probs=37.3
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCCCCccCCCCC
Q 011506 406 RGGWITDDPGDISYGKPKRNHWRSPGTPSSKAHKISAITSGGH 448 (484)
Q Consensus 406 RGgw~~~~~~d~~~~~~~~~~~~sp~TP~~~~~~~~~~~~~~~ 448 (484)
-|||.+++++-..+.++.+-||..| ||.|..+ ||.|..|-+
T Consensus 20 ~g~fqsmgL~~~v~raI~kkg~~~p-tpiqRKT-ipliLe~~d 60 (529)
T KOG0337|consen 20 SGGFQSMGLDYKVLRAIHKKGFNTP-TPIQRKT-IPLILEGRD 60 (529)
T ss_pred CCCccccCCCHHHHHHHHHhhcCCC-Cchhccc-ccceeeccc
Confidence 6899999999999999999999999 9999999 998886554
No 35
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=38.06 E-value=10 Score=35.07 Aligned_cols=21 Identities=24% Similarity=0.679 Sum_probs=18.1
Q ss_pred ccccccccccccccccccccc
Q 011506 179 GWQTCYNCGEEGHMAVNCRSA 199 (484)
Q Consensus 179 ~~~~C~~Cg~~GH~a~~Cp~~ 199 (484)
..+.|..|.+.|||..+|...
T Consensus 26 ~~~rCQKClq~GHWtYECk~k 46 (177)
T KOG3116|consen 26 SSARCQKCLQAGHWTYECKNK 46 (177)
T ss_pred cchhHHHHHhhccceeeecCc
Confidence 357899999999999999874
No 36
>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=37.75 E-value=9.4 Score=35.50 Aligned_cols=12 Identities=50% Similarity=1.090 Sum_probs=9.3
Q ss_pred CCCccccccCCC
Q 011506 326 ASPSSCYNCGAE 337 (484)
Q Consensus 326 ~~~~~Cy~Cge~ 337 (484)
..|.+|++||..
T Consensus 66 ~~PsYC~~CGkp 77 (158)
T PF10083_consen 66 EAPSYCHNCGKP 77 (158)
T ss_pred CCChhHHhCCCC
Confidence 358899999864
No 37
>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 COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=31.06 E-value=31 Score=38.56 Aligned_cols=94 Identities=26% Similarity=0.505 Sum_probs=0.0
Q ss_pred cccccccccccccccccccccCCCCcccccCCCcCcccCCC----------------CccccccCCCCCCCCCCCCcccC
Q 011506 181 QTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSK----------------AQDCFICKKGGHRAKDCPDKHKS 244 (484)
Q Consensus 181 ~~C~~Cg~~GH~a~~Cp~~~~~~~~C~~CG~~GH~ar~C~~----------------~~~C~~C~~~GH~a~~Cp~~~~~ 244 (484)
..|..|+..||. ......|-.|+..|.....=|. ...|..|...|-.
T Consensus 3 ~~C~~C~g~G~i-------~v~~e~c~vc~gtG~~~~~d~k~~~~~~~~~~D~~~~~~~pc~~c~gkG~V---------- 65 (715)
T COG1107 3 KKCPECGGKGKI-------VVGEEECPVCHGTGFSDDFDPKGVANLSRETVDLFASFEIPCPKCRGKGTV---------- 65 (715)
T ss_pred ccccccCCCceE-------eeeeeecccccccccccccChhhhhhhhhccccccccCCCCCCeeccceeE----------
Q ss_pred CCcCCccccccCCCCcCCCCCCCCCCCCcccccccccccCCCCccccccCCCCCCCceeeccCCCCC----CCCCCC
Q 011506 245 GFQNAQVCLKCGDSGHDMFSCRNSYSLDDLKEVQCYICRCFGHLCCVNISDAVPGEVSCFRCGQLGH----TGLACA 317 (484)
Q Consensus 245 ~~~~~~~C~~Cg~~GH~~~dCp~~~~~~~~~~~~C~~C~~~GH~~c~~~~~~~~~~~~CynCg~~GH----~~~dCp 317 (484)
.-...|..|+..| +...|..|+..-+- .....|..|...+| +...|.
T Consensus 66 --~v~~~c~~c~G~g---------------kv~~c~~cG~~~~~---------~~~~lc~~c~~~~~~vy~l~~~c~ 116 (715)
T COG1107 66 --TVYDTCPECGGTG---------------KVLTCDICGDIIVP---------WEEGLCPECRRKPKIVYVLDNSCT 116 (715)
T ss_pred --EEEeecccCCCce---------------eEEeeccccceecC---------cccccChhHhhCCceeEEeccccc
No 39
>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=27.03 E-value=27 Score=31.49 Aligned_cols=20 Identities=20% Similarity=0.431 Sum_probs=16.9
Q ss_pred ccccccccccccccccccccc
Q 011506 179 GWQTCYNCGEEGHMAVNCRSA 199 (484)
Q Consensus 179 ~~~~C~~Cg~~GH~a~~Cp~~ 199 (484)
..+.|+.|+ ..||...||..
T Consensus 105 ~~v~CR~Ck-GdH~T~~CPyK 124 (128)
T PF12353_consen 105 SKVKCRICK-GDHWTSKCPYK 124 (128)
T ss_pred ceEEeCCCC-CCcccccCCcc
Confidence 358999996 67999999974
No 40
>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=26.86 E-value=34 Score=20.78 Aligned_cols=15 Identities=33% Similarity=0.415 Sum_probs=11.9
Q ss_pred hcccceeeeccCccc
Q 011506 21 EKLKSAAAMSSDDEE 35 (484)
Q Consensus 21 ~~~~~~~~~~~~~~~ 35 (484)
++.+.-++++||||+
T Consensus 4 ePEti~vEi~SDeee 18 (19)
T PF07708_consen 4 EPETIPVEIGSDEEE 18 (19)
T ss_pred CCceEEEEecccccC
Confidence 456788899998876
No 41
>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hnRNP K) fold which is necessary and sufficient for BPS binding. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=25.82 E-value=20 Score=31.96 Aligned_cols=95 Identities=20% Similarity=0.209 Sum_probs=52.8
Q ss_pred cccccCCCCCCCCCCCCCCCCCcccccCCCCCCCcchhhhhhcccchhhHHHhhhhhhhhhhhhc---------cccce-
Q 011506 64 DVVLNDNTNTNTSDNSNNKNGGVEAVVPGPSGTTDDVIIEDVKSSDKKRIRVRKKKKKEADKIEI---------EDQSV- 133 (484)
Q Consensus 64 ~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~i~~K~~~~~~~~~~~~---------e~~~v- 133 (484)
.|+++.++..++.+. .-||...+.....++ |+.++.|+++.+.+........ +...|
T Consensus 5 ~iP~~~~P~~N~IG~-----------IIGPgG~tiK~i~~e--Tg~kI~Irg~gs~~~~~~~~~~~~~~~~~~~eplhV~ 71 (120)
T cd02395 5 YIPVKQYPKYNFVGL-----------ILGPRGNTLKQLEKE--TGAKISIRGKGSMKDGKKEEELRGPKYAHLNEPLHVL 71 (120)
T ss_pred EcCcccCCCCCeeEE-----------EECCCChHHHHHHHH--HCCEEEEecCcccccccccccccCcccccCCCCcEEE
Confidence 467766666655554 445555666666666 7899999999888776554432 11222
Q ss_pred eechh--hhhhhhhhccccccc-cccc-hhHHHHHHhhCCCC
Q 011506 134 IVRKE--EQKVETADNGDEGVT-TVEI-SDNIVLRKLLRGPR 171 (484)
Q Consensus 134 ~~~~~--ee~~e~~~~A~e~v~-~~~~-~~n~~~~~~~~~~R 171 (484)
+.... .+.++.+....+.+- .+.. ..+.+.+.+|....
T Consensus 72 I~a~~~~~e~~~~A~~~I~~ll~~~~~~~~~~~k~~ql~~la 113 (120)
T cd02395 72 ITAETPPEEALAKAVEAIEELLKPAIEGGNDELKREQLRELA 113 (120)
T ss_pred EEeCCcHHHHHHHHHHHHHHHhccCCCccchHHHHHHHHHHH
Confidence 23333 444444433332222 2222 25677777776544
No 42
>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=24.36 E-value=12 Score=37.91 Aligned_cols=50 Identities=28% Similarity=0.437 Sum_probs=23.2
Q ss_pred cccccccccccccccccccc--ccCCCCcccccCCCcCcccCCCCccccccCCCCCC
Q 011506 180 WQTCYNCGEEGHMAVNCRSA--VKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHR 234 (484)
Q Consensus 180 ~~~C~~Cg~~GH~a~~Cp~~--~~~~~~C~~CG~~GH~ar~C~~~~~C~~C~~~GH~ 234 (484)
...|-.||..=.++.--... +.+...|..|+..-|+.+ ..|..|+...|.
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R-----~~Cp~Cg~~~~~ 223 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVR-----IKCPYCGNTDHE 223 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--T-----TS-TTT---SS-
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecC-----CCCcCCCCCCCc
Confidence 37899999987776665553 245567888888777764 467778877665
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=22.97 E-value=43 Score=30.14 Aligned_cols=17 Identities=47% Similarity=1.070 Sum_probs=8.1
Q ss_pred ccccccCCCCCCCCCCCC
Q 011506 223 QDCFICKKGGHRAKDCPD 240 (484)
Q Consensus 223 ~~C~~C~~~GH~a~~Cp~ 240 (484)
+.|++|+ -.|+...||.
T Consensus 107 v~CR~Ck-GdH~T~~CPy 123 (128)
T PF12353_consen 107 VKCRICK-GDHWTSKCPY 123 (128)
T ss_pred EEeCCCC-CCcccccCCc
Confidence 3444443 3455555554
No 44
>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]
Probab=21.90 E-value=43 Score=37.74 Aligned_cols=18 Identities=50% Similarity=0.911 Sum_probs=12.5
Q ss_pred cccccccccccccccccc
Q 011506 178 RGWQTCYNCGEEGHMAVN 195 (484)
Q Consensus 178 ~~~~~C~~Cg~~GH~a~~ 195 (484)
....+|-+||+.||+..+
T Consensus 935 ~Ttr~C~nCGQvGHmkTN 952 (968)
T COG5179 935 NTTRTCGNCGQVGHMKTN 952 (968)
T ss_pred Ccceeccccccccccccc
Confidence 346778888888887543
No 45
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=21.89 E-value=47 Score=38.40 Aligned_cols=12 Identities=25% Similarity=0.534 Sum_probs=7.3
Q ss_pred CccccccccccC
Q 011506 460 SHHRFSASRFDS 471 (484)
Q Consensus 460 ~~~~~~~~~~~~ 471 (484)
.+-||=.+.|.-
T Consensus 503 ~keRYY~~KF~v 514 (931)
T KOG2044|consen 503 WKERYYEEKFDV 514 (931)
T ss_pred hhhhhhhhhcCC
Confidence 555666666663
No 46
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=20.99 E-value=5.4 Score=43.90 Aligned_cols=49 Identities=16% Similarity=0.095 Sum_probs=37.9
Q ss_pred cCcccCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCCCCccCCCCC
Q 011506 395 RGIMTSRKSKQRGGWITDDPGDISYGKPKRNHWRSPGTPSSKAHKISAITSGGH 448 (484)
Q Consensus 395 ~~~~~p~~s~sRGgw~~~~~~d~~~~~~~~~~~~sp~TP~~~~~~~~~~~~~~~ 448 (484)
.|...|.+..+ |...+..+....+....||..| ||.|... +|.+..|.+
T Consensus 112 ~g~~~p~pi~~---f~~~~l~~~l~~~L~~~g~~~p-tpiQ~~a-ip~il~g~d 160 (518)
T PLN00206 112 KGEAVPPPILS---FSSCGLPPKLLLNLETAGYEFP-TPIQMQA-IPAALSGRS 160 (518)
T ss_pred cCCCCCchhcC---HHhCCCCHHHHHHHHHcCCCCC-CHHHHHH-HHHHhcCCC
Confidence 45566667777 7766666777788889999999 9999888 887776654
No 47
>PRK14289 chaperone protein DnaJ; Provisional
Probab=20.35 E-value=71 Score=33.90 Aligned_cols=17 Identities=18% Similarity=0.296 Sum_probs=10.5
Q ss_pred HHHHHHhhhhcccCCCC
Q 011506 45 VEKHMLMRAAKLDQDDS 61 (484)
Q Consensus 45 ~~~~~~~~~~~~~~~~~ 61 (484)
|.+|....|.++-+|-+
T Consensus 22 ik~ayr~la~~~HpD~~ 38 (386)
T PRK14289 22 IKKAYRKKAIQYHPDKN 38 (386)
T ss_pred HHHHHHHHHHHHCCCCC
Confidence 67776666666655443
Done!