Query psy16699
Match_columns 231
No_of_seqs 177 out of 547
Neff 4.9
Searched_HMMs 46136
Date Fri Aug 16 19:45:09 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16699.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16699hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2752|consensus 100.0 7.6E-61 1.6E-65 434.5 10.2 225 2-227 9-258 (345)
2 PF02207 zf-UBR: Putative zinc 99.1 1.8E-11 4E-16 90.0 1.7 62 35-100 2-69 (71)
3 smart00396 ZnF_UBR1 Putative z 98.9 1.2E-09 2.7E-14 80.7 3.9 61 35-100 2-69 (71)
4 PF00628 PHD: PHD-finger; Int 98.6 5E-09 1.1E-13 71.3 -0.1 50 121-177 1-51 (51)
5 smart00249 PHD PHD zinc finger 98.5 6.9E-08 1.5E-12 62.7 2.7 44 123-174 4-47 (47)
6 KOG1777|consensus 98.5 1.9E-08 4.1E-13 96.8 0.0 82 13-104 530-616 (625)
7 KOG2752|consensus 98.5 7.4E-08 1.6E-12 89.1 3.6 152 63-224 2-238 (345)
8 KOG1973|consensus 98.4 2.8E-07 6E-12 83.6 3.6 57 110-178 210-269 (274)
9 COG5034 TNG2 Chromatin remodel 97.9 6.3E-06 1.4E-10 74.6 2.9 47 118-176 220-269 (271)
10 KOG1632|consensus 97.6 3E-05 6.4E-10 72.8 1.6 69 110-185 51-121 (345)
11 KOG4323|consensus 97.5 5.1E-05 1.1E-09 73.7 2.3 71 110-186 162-233 (464)
12 KOG0943|consensus 96.3 0.0012 2.5E-08 70.6 0.2 55 34-91 1241-1301(3015)
13 KOG1776|consensus 95.3 0.007 1.5E-07 61.9 1.3 57 34-94 765-827 (1110)
14 PF00643 zf-B_box: B-box zinc 85.5 0.52 1.1E-05 30.4 1.5 29 47-81 14-42 (42)
15 KOG1844|consensus 84.8 0.77 1.7E-05 44.4 3.0 64 106-178 71-136 (508)
16 PF13831 PHD_2: PHD-finger; PD 83.2 0.23 5E-06 32.2 -1.0 34 137-174 2-35 (36)
17 KOG0825|consensus 82.0 0.81 1.7E-05 47.9 1.9 46 123-177 220-266 (1134)
18 KOG1632|consensus 81.2 0.24 5.2E-06 46.8 -2.0 54 117-176 237-294 (345)
19 KOG4443|consensus 78.3 0.73 1.6E-05 47.1 0.2 54 119-175 145-200 (694)
20 smart00336 BBOX B-Box-type zin 71.2 2.9 6.4E-05 26.4 1.7 30 46-81 13-42 (42)
21 cd04714 BAH_BAHCC1 BAH, or Bro 70.1 3.3 7.1E-05 33.1 2.1 21 117-142 101-121 (121)
22 KOG1512|consensus 67.9 2.9 6.3E-05 39.3 1.5 49 123-182 319-369 (381)
23 PF13832 zf-HC5HC2H_2: PHD-zin 58.2 4.7 0.0001 31.0 0.9 37 110-154 47-85 (110)
24 cd00021 BBOX B-Box-type zinc f 56.4 6.4 0.00014 24.4 1.1 30 46-81 10-39 (39)
25 KOG0383|consensus 46.8 9.3 0.0002 39.6 1.1 37 136-175 56-92 (696)
26 KOG2626|consensus 41.2 24 0.00052 35.6 3.0 65 116-185 17-86 (544)
27 KOG0957|consensus 40.4 15 0.00033 37.1 1.5 46 123-174 549-595 (707)
28 PRK00965 tetrahydromethanopter 34.5 63 0.0014 25.6 3.8 46 4-50 27-72 (96)
29 PF07227 DUF1423: Protein of u 33.7 37 0.00079 33.6 2.9 63 121-186 131-201 (446)
30 KOG1245|consensus 31.9 11 0.00023 42.1 -1.2 48 123-179 1113-1160(1404)
31 KOG1886|consensus 29.5 36 0.00079 33.8 2.1 53 111-174 163-215 (464)
32 cd04718 BAH_plant_2 BAH, or Br 28.9 43 0.00094 28.4 2.2 27 149-178 2-28 (148)
33 PF07496 zf-CW: CW-type Zinc F 28.9 25 0.00053 24.0 0.6 34 138-174 2-35 (50)
34 PF09332 Mcm10: Mcm10 replicat 28.8 16 0.00034 34.9 -0.5 40 46-91 250-294 (344)
35 cd02340 ZZ_NBR1_like Zinc fing 28.0 53 0.0012 21.8 2.1 32 42-79 9-41 (43)
36 PF14047 DCR: Dppa2/4 conserve 27.0 31 0.00066 25.6 0.8 19 160-178 47-65 (66)
37 cd02669 Peptidase_C19M A subfa 25.7 45 0.00098 32.1 2.0 29 24-55 7-35 (440)
38 PF05440 MtrB: Tetrahydrometha 25.1 1.1E+02 0.0024 24.3 3.7 42 7-49 29-70 (97)
39 PF13901 DUF4206: Domain of un 24.1 39 0.00084 29.4 1.1 60 3-84 109-169 (202)
40 PF13771 zf-HC5HC2H: PHD-like 22.6 38 0.00081 24.9 0.6 37 111-155 29-67 (90)
41 COG1931 Uncharacterized protei 21.3 77 0.0017 26.7 2.3 40 7-50 51-91 (140)
42 PF09538 FYDLN_acid: Protein o 20.8 42 0.00091 26.8 0.6 12 80-91 5-18 (108)
43 PHA01740 putative single-stran 20.0 42 0.00092 28.4 0.5 16 201-216 30-45 (158)
No 1
>KOG2752|consensus
Probab=100.00 E-value=7.6e-61 Score=434.49 Aligned_cols=225 Identities=46% Similarity=0.908 Sum_probs=185.4
Q ss_pred CCccCcccHHHHHHHHHHHHHHHHHHcCCCCCCCCccccCcccccceeecccCCCCCCCCceeeccccchhcCCcccccc
Q psy16699 2 ADEEGTVTLGDVLALQDHLEESAVAVLGAADDKNCTYSQGYMKRQALYACLTCTPDICDPAGFCLACNYHCHEGHNIVEL 81 (231)
Q Consensus 2 ~~~~~~vt~~d~l~~q~~le~eA~~~l~~~d~~~CTy~~gy~~rQ~~y~C~TC~~~~~~~~gvC~~Cs~~CH~gH~lvel 81 (231)
+|...+||+.+|++++++||++|++|||++++++|||++||++||++|+|+||.|.+ ..+|||++|++.||+||+||||
T Consensus 9 ee~~~tiT~~e~vE~~~~lE~~a~~vL~~~~~~~CTy~~Gy~~rQ~l~sClTC~P~~-~~agvC~~C~~~CH~~H~lveL 87 (345)
T KOG2752|consen 9 EEIAPTITLGEYVEQIDELEDEADVVLGTQNPDVCTYAKGYKKRQALFSCLTCTPAP-EMAGVCYACSLSCHDGHELVEL 87 (345)
T ss_pred hhccccccHHHHHHhHHHHHHHHHhhcCCCCCcccccccCcccccceeEeecccCCh-hhceeEEEeeeeecCCceeeec
Confidence 344558999999999999999999999999999999999999999999999999864 4899999999999999999999
Q ss_pred cccc---cCCCCCCCCccceeecCCCCcCCCCCCcCCCCcceeEEeCCCCCCCCCCCCccceeccccccccc-cCCCCCC
Q psy16699 82 YTKR---CDCGNSKFGEKKCNLEPNKDALNVNNTYNQNFKGKYCTCARPYPDEENPNCDEMIQCALCEDWFH-SGHLGLD 157 (231)
Q Consensus 82 ~~kR---CDCG~~~~~~~~C~L~~~k~~~n~~N~Yn~Nf~g~YC~C~~pYpdpe~~~~~~MIQC~~CEDWFH-~~Clg~~ 157 (231)
|||| |||||++|+..+|+|.+.|+..|+.|.|||||+|+||+|.+|||||.+++++.|+||.+|||||| ..|+...
T Consensus 88 ~tKR~FrCDCg~sk~g~~sc~l~~~~~~~n~~N~YNhNfqG~~C~Cd~~Ypdp~~~~e~~m~QC~iCEDWFHce~c~~~~ 167 (345)
T KOG2752|consen 88 YTKRNFRCDCGNSKFGRCSCNLLEDKDAENSENLYNHNFQGLFCKCDTPYPDPVRTEEGEMLQCVICEDWFHCEGCMQAK 167 (345)
T ss_pred cccCCcccccccccccccccccccccccccchhhhhhhhcceeEEecCCCCCccccccceeeeEEeccchhcccccCccc
Confidence 9999 99999999999999999999999999999999999999999999999888999999999999999 8887542
Q ss_pred ---CCCC-----CCC---------cccccccccccccCcccccccccccCCCc---cCCCCC-CCCCCcceeecchhhhc
Q psy16699 158 ---SPIP-----DGE---------DYSEMSCASCINMYPVLKLYPHLLECPIK---DKDVSS-IPPVTEAFFWQEGWRSQ 216 (231)
Q Consensus 158 ---~~~~-----~~~---------~~~~fiC~~C~~k~~~L~~y~~~~~~~~~---~~~~~~-~~~~~~~~f~~~~wr~~ 216 (231)
...| +++ ....-.|..+.++.++.......-..... ..+.++ ..+..+++||+.+||..
T Consensus 168 ~~~~~yp~~~~~D~e~~k~e~~se~~a~~~c~~~i~~~~~~e~~~~e~~~~~~~~~~e~~~k~~~~~d~~~~~~~~wR~~ 247 (345)
T KOG2752|consen 168 TFLEDYPEQGKDDAEEVKPEQNSEKCAGSSCSEDIQDVPKNESLNDESESGCKLQLLENFRKQLKKKDGAAFWTNNWRSK 247 (345)
T ss_pred chhhccccccccccccCCccccCccccccccHHHHHhcccCCCCccccccCCcHHHHHhhHhhcccCCcccchhhhHHHh
Confidence 1122 222 23334455566666666644422111111 111111 22356889999999999
Q ss_pred cCCcccccccc
Q psy16699 217 LCSCEKCLDQQ 227 (231)
Q Consensus 217 LC~C~~C~~~~ 227 (231)
||+|++|+++|
T Consensus 248 LC~Ce~Cl~mY 258 (345)
T KOG2752|consen 248 LCTCEDCLEMY 258 (345)
T ss_pred hcchHHhhhhh
Confidence 99999999998
No 2
>PF02207 zf-UBR: Putative zinc finger in N-recognin (UBR box); InterPro: IPR003126 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. The N-end rule-based degradation signal, which targets a protein for ubiquitin-dependent proteolysis, comprises a destabilising amino-terminal residue and a specific internal lysine residue. This entry describes a putative zinc finger in N-recognin, a recognition component of the N-end rule pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0004842 ubiquitin-protein ligase activity, 0008270 zinc ion binding; PDB: 3NY1_B 3NIS_F 3NIM_A 3NIK_A 3NII_A 3NIH_A 3NIL_D 3NIN_B 3NIJ_A 3NIT_A ....
Probab=99.12 E-value=1.8e-11 Score=90.01 Aligned_cols=62 Identities=40% Similarity=0.900 Sum_probs=42.4
Q ss_pred CCccccCcccccceeecccCCCCCCCCceeeccc-cchhcCCcccccccccc---cCCCCCCCCcc--ceee
Q psy16699 35 NCTYSQGYMKRQALYACLTCTPDICDPAGFCLAC-NYHCHEGHNIVELYTKR---CDCGNSKFGEK--KCNL 100 (231)
Q Consensus 35 ~CTy~~gy~~rQ~~y~C~TC~~~~~~~~gvC~~C-s~~CH~gH~lvel~~kR---CDCG~~~~~~~--~C~L 100 (231)
.|||..+.. |.+|.|+||..+ ...+||..| +..||.||+++.+++.+ ||||+...... .|++
T Consensus 2 ~C~~~~~~~--q~~y~C~tC~~~--~~~~iC~~CF~~~~H~gH~~~~~~~~~~~~CDCG~~~~~k~~~~C~~ 69 (71)
T PF02207_consen 2 KCTYVWTSG--QIFYRCLTCSLD--ESSGICEECFANSCHEGHRVVYYRSSSGGCCDCGDPEAWKKEGFCKK 69 (71)
T ss_dssp SS--B--TT---EEEEETTTBSS--TT-BBEHHHHCTSGGGGSSEEEEE--SCEBB-TT-GGGBSS--S-TT
T ss_pred cCCCCCcCC--CEEEECccCCCC--CCEEEchhhCCCCCcCCCcEEEEEeCCCeEEeCCCCccccCCCCCCC
Confidence 588875554 999999999874 479999999 99999999999999984 99999887432 3654
No 3
>smart00396 ZnF_UBR1 Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway. Domain is involved in recognition of N-end rule substrates in yeast Ubr1p
Probab=98.90 E-value=1.2e-09 Score=80.72 Aligned_cols=61 Identities=38% Similarity=0.822 Sum_probs=48.2
Q ss_pred CCccccCcccccceeecccCCCCCCCCceeeccccc-hhcCCcccccccccc----cCCCCCCC--Cccceee
Q psy16699 35 NCTYSQGYMKRQALYACLTCTPDICDPAGFCLACNY-HCHEGHNIVELYTKR----CDCGNSKF--GEKKCNL 100 (231)
Q Consensus 35 ~CTy~~gy~~rQ~~y~C~TC~~~~~~~~gvC~~Cs~-~CH~gH~lvel~~kR----CDCG~~~~--~~~~C~L 100 (231)
.|+|..++. +.+|.|+||..++ ..+||..|.. .||.||++ .+++.| ||||++.. +...|++
T Consensus 2 ~C~~~~~~~--~~~y~C~tC~~~~--~~~iC~~Cf~~~~H~gH~~-~~~~~~~~~~CDCG~~~~~~~~~~C~~ 69 (71)
T smart00396 2 VCTYKFTGG--EVIYRCKTCGLDP--TCVLCSDCFRSNCHKGHDY-SLKTSRGSGICDCGDKEAWNEDLKCKA 69 (71)
T ss_pred CCCCccCCC--CEEEECcCCCCCC--CEeEChHHCCCCCCCCCCE-EEEEecCCEEECCCChhccCCCccccc
Confidence 699998877 6679999998744 7899999999 99999994 566665 99999853 3334654
No 4
>PF00628 PHD: PHD-finger; InterPro: IPR019787 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 PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=98.64 E-value=5e-09 Score=71.26 Aligned_cols=50 Identities=26% Similarity=0.733 Sum_probs=36.4
Q ss_pred eE-EeCCCCCCCCCCCCccceeccccccccccCCCCCCCCCCCCCccccccccccccc
Q psy16699 121 YC-TCARPYPDEENPNCDEMIQCALCEDWFHSGHLGLDSPIPDGEDYSEMSCASCINM 177 (231)
Q Consensus 121 YC-~C~~pYpdpe~~~~~~MIQC~~CEDWFH~~Clg~~~~~~~~~~~~~fiC~~C~~k 177 (231)
|| +|+++. + ++.||+|+.|..|||..|++++.. +.......|+|+.|..+
T Consensus 1 ~C~vC~~~~--~----~~~~i~C~~C~~~~H~~C~~~~~~-~~~~~~~~w~C~~C~~~ 51 (51)
T PF00628_consen 1 YCPVCGQSD--D----DGDMIQCDSCNRWYHQECVGPPEK-AEEIPSGDWYCPNCRPK 51 (51)
T ss_dssp EBTTTTSSC--T----TSSEEEBSTTSCEEETTTSTSSHS-HHSHHSSSBSSHHHHHC
T ss_pred eCcCCCCcC--C----CCCeEEcCCCChhhCcccCCCChh-hccCCCCcEECcCCcCc
Confidence 57 888843 2 689999999999999999998311 11112238999999754
No 5
>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 KOG1777|consensus
Probab=98.51 E-value=1.9e-08 Score=96.83 Aligned_cols=82 Identities=27% Similarity=0.697 Sum_probs=65.1
Q ss_pred HHHHHHHHHHHHHHHcCCCCCCCCccc---cCcccccceeecccCCCCCCCCceeeccccchhcCCcccccccccc--cC
Q psy16699 13 VLALQDHLEESAVAVLGAADDKNCTYS---QGYMKRQALYACLTCTPDICDPAGFCLACNYHCHEGHNIVELYTKR--CD 87 (231)
Q Consensus 13 ~l~~q~~le~eA~~~l~~~d~~~CTy~---~gy~~rQ~~y~C~TC~~~~~~~~gvC~~Cs~~CH~gH~lvel~~kR--CD 87 (231)
+.+.++..|+..+ ...|.|. ..+.|+..+|+|.||+.++ ..+||.+|...||+||++.-+...| ||
T Consensus 530 iydN~D~vekAik-------~GqCLfkvSs~~syPMHnFYRC~TCNttd--RNAIC~nCI~~CH~GH~Vefir~Drffcd 600 (625)
T KOG1777|consen 530 IYDNLDHVEKAIK-------KGQCLFKVSSYTSYPMHNFYRCITCNTTD--RNAICVNCIKRCHEGHDVEFIRHDRFFCD 600 (625)
T ss_pred cccchHHHHHHhh-------cCceEEEecCCCcccccceeEeeecCCcc--ccHHHHHHHHHhcCCCceEEEeeceEEEe
Confidence 4445555554432 4579997 3344589999999998754 8899999999999999999888888 99
Q ss_pred CCCCCCCccceeecCCC
Q psy16699 88 CGNSKFGEKKCNLEPNK 104 (231)
Q Consensus 88 CG~~~~~~~~C~L~~~k 104 (231)
||++.... .|.|....
T Consensus 601 cgagtl~~-~c~lq~ep 616 (625)
T KOG1777|consen 601 CGAGTLSN-VCDLQGEP 616 (625)
T ss_pred cCCceecc-eeeccCCc
Confidence 99999875 79988664
No 7
>KOG2752|consensus
Probab=98.50 E-value=7.4e-08 Score=89.05 Aligned_cols=152 Identities=14% Similarity=0.131 Sum_probs=109.6
Q ss_pred eeeccccchhcCCcccccccccccCCCCCCCCccceeecCCCCcCCCCCCcCCCCcceeEEeCCCCCCCCCCCCccceec
Q psy16699 63 GFCLACNYHCHEGHNIVELYTKRCDCGNSKFGEKKCNLEPNKDALNVNNTYNQNFKGKYCTCARPYPDEENPNCDEMIQC 142 (231)
Q Consensus 63 gvC~~Cs~~CH~gH~lvel~~kRCDCG~~~~~~~~C~L~~~k~~~n~~N~Yn~Nf~g~YC~C~~pYpdpe~~~~~~MIQC 142 (231)
+++..++..+|- .+-..+++++++.+...-+.|.+.+++.+..++|+.++.+.+++|-+++|+| +.|++|
T Consensus 2 ~~~~~e~ee~~~-----tiT~~e~vE~~~~lE~~a~~vL~~~~~~~CTy~~Gy~~rQ~l~sClTC~P~~-----~~agvC 71 (345)
T KOG2752|consen 2 DDGVEETEEIAP-----TITLGEYVEQIDELEDEADVVLGTQNPDVCTYAKGYKKRQALFSCLTCTPAP-----EMAGVC 71 (345)
T ss_pred Ccchhcchhccc-----cccHHHHHHhHHHHHHHHHhhcCCCCCcccccccCcccccceeEeecccCCh-----hhceeE
Confidence 345556666654 1122239999999998889999999999999999999999999999999865 499999
Q ss_pred cccccccccCCCCCC------------------------------------------------CCCCCCC----------
Q psy16699 143 ALCEDWFHSGHLGLD------------------------------------------------SPIPDGE---------- 164 (231)
Q Consensus 143 ~~CEDWFH~~Clg~~------------------------------------------------~~~~~~~---------- 164 (231)
..|..|+|..|+.+. ...|++.
T Consensus 72 ~~C~~~CH~~H~lveL~tKR~FrCDCg~sk~g~~sc~l~~~~~~~n~~N~YNhNfqG~~C~Cd~~Ypdp~~~~e~~m~QC 151 (345)
T KOG2752|consen 72 YACSLSCHDGHELVELYTKRNFRCDCGNSKFGRCSCNLLEDKDAENSENLYNHNFQGLFCKCDTPYPDPVRTEEGEMLQC 151 (345)
T ss_pred EEeeeeecCCceeeeccccCCcccccccccccccccccccccccccchhhhhhhhcceeEEecCCCCCccccccceeeeE
Confidence 999999999998651 0112211
Q ss_pred --cccccccccccccCcccccccccccCCCc-------cC------------CCC------CCCCCCcceeecchhhhcc
Q psy16699 165 --DYSEMSCASCINMYPVLKLYPHLLECPIK-------DK------------DVS------SIPPVTEAFFWQEGWRSQL 217 (231)
Q Consensus 165 --~~~~fiC~~C~~k~~~L~~y~~~~~~~~~-------~~------------~~~------~~~~~~~~~f~~~~wr~~L 217 (231)
--|-|+|-.|++..+|+..|+..-..++. |. +++ .+.....+++-.+++|+.|
T Consensus 152 ~iCEDWFHce~c~~~~~~~~~yp~~~~~D~e~~k~e~~se~~a~~~c~~~i~~~~~~e~~~~e~~~~~~~~~~e~~~k~~ 231 (345)
T KOG2752|consen 152 VICEDWFHCEGCMQAKTFLEDYPEQGKDDAEEVKPEQNSEKCAGSSCSEDIQDVPKNESLNDESESGCKLQLLENFRKQL 231 (345)
T ss_pred EeccchhcccccCcccchhhccccccccccccCCccccCccccccccHHHHHhcccCCCCccccccCCcHHHHHhhHhhc
Confidence 13457788999999999999943222211 00 011 0223456677888999999
Q ss_pred CCccccc
Q psy16699 218 CSCEKCL 224 (231)
Q Consensus 218 C~C~~C~ 224 (231)
+++..+.
T Consensus 232 ~~~d~~~ 238 (345)
T KOG2752|consen 232 KKKDGAA 238 (345)
T ss_pred ccCCccc
Confidence 9998854
No 8
>KOG1973|consensus
Probab=98.36 E-value=2.8e-07 Score=83.64 Aligned_cols=57 Identities=25% Similarity=0.568 Sum_probs=42.8
Q ss_pred CCCcCCCCcceeEEeCCCCCCCCCCCCccceeccc--cc-cccccCCCCCCCCCCCCCcccccccccccccC
Q psy16699 110 NNTYNQNFKGKYCTCARPYPDEENPNCDEMIQCAL--CE-DWFHSGHLGLDSPIPDGEDYSEMSCASCINMY 178 (231)
Q Consensus 110 ~N~Yn~Nf~g~YC~C~~pYpdpe~~~~~~MIQC~~--CE-DWFH~~Clg~~~~~~~~~~~~~fiC~~C~~k~ 178 (231)
.......-...||+|.+.- .+.||.|+. |. +|||..|||+. .+ ..+.++|+.|....
T Consensus 210 ~~~~~d~~e~~yC~Cnqvs-------yg~Mi~CDn~~C~~eWFH~~CVGL~--~~---PkgkWyC~~C~~~~ 269 (274)
T KOG1973|consen 210 SEEAVDPDEPTYCICNQVS-------YGKMIGCDNPGCPIEWFHFTCVGLK--TK---PKGKWYCPRCKAEN 269 (274)
T ss_pred cccccCCCCCEEEEecccc-------cccccccCCCCCCcceEEEeccccc--cC---CCCcccchhhhhhh
Confidence 3344444567999999542 699999997 98 99999999993 32 23459999997653
No 9
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.92 E-value=6.3e-06 Score=74.56 Aligned_cols=47 Identities=30% Similarity=0.834 Sum_probs=38.3
Q ss_pred cceeEEeCCCCCCCCCCCCccceeccc--c-ccccccCCCCCCCCCCCCCcccccccccccc
Q psy16699 118 KGKYCTCARPYPDEENPNCDEMIQCAL--C-EDWFHSGHLGLDSPIPDGEDYSEMSCASCIN 176 (231)
Q Consensus 118 ~g~YC~C~~pYpdpe~~~~~~MIQC~~--C-EDWFH~~Clg~~~~~~~~~~~~~fiC~~C~~ 176 (231)
..+||.|+++- -+.||.|+. | .+|||..|||+. ..|. ..|+|+.|..
T Consensus 220 e~lYCfCqqvS-------yGqMVaCDn~nCkrEWFH~~CVGLk-~pPK----G~WYC~eCk~ 269 (271)
T COG5034 220 EELYCFCQQVS-------YGQMVACDNANCKREWFHLECVGLK-EPPK----GKWYCPECKK 269 (271)
T ss_pred ceeEEEecccc-------cccceecCCCCCchhheeccccccC-CCCC----CcEeCHHhHh
Confidence 46999999984 589999995 9 899999999994 2222 4789999964
No 10
>KOG1632|consensus
Probab=97.56 E-value=3e-05 Score=72.83 Aligned_cols=69 Identities=26% Similarity=0.585 Sum_probs=54.2
Q ss_pred CCCcCCCCcceeEEeCCCCCCCCCCCCccceeccccccccccCC--CCCCCCCCCCCcccccccccccccCccccccc
Q psy16699 110 NNTYNQNFKGKYCTCARPYPDEENPNCDEMIQCALCEDWFHSGH--LGLDSPIPDGEDYSEMSCASCINMYPVLKLYP 185 (231)
Q Consensus 110 ~N~Yn~Nf~g~YC~C~~pYpdpe~~~~~~MIQC~~CEDWFH~~C--lg~~~~~~~~~~~~~fiC~~C~~k~~~L~~y~ 185 (231)
......+....||.|.+++ +| +.+|+||+.|++|||+.| +|+ ...++...+.++|..|.....-+..+.
T Consensus 51 ~~~~~~a~~~~~~~~~~~~-~p----~~~~~~cd~C~~~~~~ec~~v~~--~~~e~p~~~~~~c~~c~~~~~~~~~~~ 121 (345)
T KOG1632|consen 51 RGGLLKALTQRYCKCYKPC-DP----DDLMEQCDLCEDWYHGECWEVGT--AEKEAPKEDPKVCDECKEAQDGMSESD 121 (345)
T ss_pred cccccHhhhhchhhccccc-Cc----hhhhhccccccccccccccccCc--hhhcCCccccccccccchhhhhhhhhc
Confidence 3344455566799999998 45 459999999999999999 998 566778899999999987765555443
No 11
>KOG4323|consensus
Probab=97.49 E-value=5.1e-05 Score=73.69 Aligned_cols=71 Identities=20% Similarity=0.412 Sum_probs=54.2
Q ss_pred CCCcCCCCcceeEEeCCCCCCCCCCCCccceeccccccccccCCCCC-CCCCCCCCcccccccccccccCcccccccc
Q psy16699 110 NNTYNQNFKGKYCTCARPYPDEENPNCDEMIQCALCEDWFHSGHLGL-DSPIPDGEDYSEMSCASCINMYPVLKLYPH 186 (231)
Q Consensus 110 ~N~Yn~Nf~g~YC~C~~pYpdpe~~~~~~MIQC~~CEDWFH~~Clg~-~~~~~~~~~~~~fiC~~C~~k~~~L~~y~~ 186 (231)
+-.+--|.+-.||.|.+|-. ++ -||||..|..|||..|..- .+.....|.+.+|+|..|..+..++.+...
T Consensus 162 D~~~~~n~qc~vC~~g~~~~-----~N-rmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~~~r~t~ 233 (464)
T KOG4323|consen 162 DSGHKVNLQCSVCYCGGPGA-----GN-RMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKKVPRLTL 233 (464)
T ss_pred CccccccceeeeeecCCcCc-----cc-eeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccchhhcccccc
Confidence 45566676778999998853 34 9999999999999999853 223345678999999999998877765443
No 12
>KOG0943|consensus
Probab=96.27 E-value=0.0012 Score=70.60 Aligned_cols=55 Identities=27% Similarity=0.678 Sum_probs=42.9
Q ss_pred CCCccc---cCcccccceeecccCCCCCCCCceeeccccchhcCCcccccccccc---cCCCCC
Q psy16699 34 KNCTYS---QGYMKRQALYACLTCTPDICDPAGFCLACNYHCHEGHNIVELYTKR---CDCGNS 91 (231)
Q Consensus 34 ~~CTy~---~gy~~rQ~~y~C~TC~~~~~~~~gvC~~Cs~~CH~gH~lvel~~kR---CDCG~~ 91 (231)
+.|+|+ ...| .|.+|-|+||+... +...|.-|+.+||.||+-.=..|.- |||=-+
T Consensus 1241 DtCSFTWTGadHI-NQDIfECkTCGL~~--SLCCCsECAltCHk~HDCkLKRTSPTAYCDCWEK 1301 (3015)
T KOG0943|consen 1241 DTCSFTWTGADHI-NQDIFECKTCGLLE--SLCCCSECALTCHKGHDCKLKRTSPTAYCDCWEK 1301 (3015)
T ss_pred Cccceeecchhhc-cchhhhhcccccch--hhhhhHHHHHHhccCCccceeccCCcceeehhhc
Confidence 469998 4588 99999999998854 7789999999999999953222211 999755
No 13
>KOG1776|consensus
Probab=95.33 E-value=0.007 Score=61.87 Aligned_cols=57 Identities=16% Similarity=0.115 Sum_probs=47.5
Q ss_pred CCCccc---cCcccccceeecccCCCCCCCCceeeccccchhcCCcccccccccc---cCCCCCCCC
Q psy16699 34 KNCTYS---QGYMKRQALYACLTCTPDICDPAGFCLACNYHCHEGHNIVELYTKR---CDCGNSKFG 94 (231)
Q Consensus 34 ~~CTy~---~gy~~rQ~~y~C~TC~~~~~~~~gvC~~Cs~~CH~gH~lvel~~kR---CDCG~~~~~ 94 (231)
..|||. +-|+ -|.+|.|.||...- ...|+|..||+.||.+|++- +.+. ||||-++.+
T Consensus 765 ~~~T~Kkk~q~~m-~n~~~q~~k~~M~~-~~gG~~kV~s~t~H~~~~i~--~S~~~~~C~C~Es~~~ 827 (1110)
T KOG1776|consen 765 RDETEKKKKQMAM-LNREKQLTKMRMKV-GTGGQIKVSSRTLHNEPSID--DSDSLPCCICRESVIS 827 (1110)
T ss_pred HHHHHhhhhhHHH-HHHHhhhhhheeee-ccCceEEEeeecccCCCCcc--ccCCCceeeccccccc
Confidence 359997 4588 99999999998752 24699999999999999996 5566 999998876
No 14
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=85.49 E-value=0.52 Score=30.42 Aligned_cols=29 Identities=31% Similarity=0.734 Sum_probs=25.3
Q ss_pred ceeecccCCCCCCCCceeeccccchhcCCcccccc
Q psy16699 47 ALYACLTCTPDICDPAGFCLACNYHCHEGHNIVEL 81 (231)
Q Consensus 47 ~~y~C~TC~~~~~~~~gvC~~Cs~~CH~gH~lvel 81 (231)
..|-|.+|. ..||..|...=|.+|.++.|
T Consensus 14 ~~~~C~~C~------~~~C~~C~~~~H~~H~~~~i 42 (42)
T PF00643_consen 14 LSLFCEDCN------EPLCSECTVSGHKGHKIVPI 42 (42)
T ss_dssp EEEEETTTT------EEEEHHHHHTSTTTSEEEEC
T ss_pred eEEEecCCC------CccCccCCCCCCCCCEEeEC
Confidence 788999995 58999999888999998864
No 15
>KOG1844|consensus
Probab=84.83 E-value=0.77 Score=44.35 Aligned_cols=64 Identities=22% Similarity=0.371 Sum_probs=49.2
Q ss_pred cCCCCCCcCCCC--cceeEEeCCCCCCCCCCCCccceeccccccccccCCCCCCCCCCCCCcccccccccccccC
Q psy16699 106 ALNVNNTYNQNF--KGKYCTCARPYPDEENPNCDEMIQCALCEDWFHSGHLGLDSPIPDGEDYSEMSCASCINMY 178 (231)
Q Consensus 106 ~~n~~N~Yn~Nf--~g~YC~C~~pYpdpe~~~~~~MIQC~~CEDWFH~~Clg~~~~~~~~~~~~~fiC~~C~~k~ 178 (231)
..+....++-+. ...-|+|+.-.. . ++.||||..|..|=|.-|+|. +.. ..-+.|.|..|..+.
T Consensus 71 ~~~~~~~~~~~~~~~~~~c~c~~~~~-~----~g~~i~c~~c~~Wqh~~C~g~---~~~-~~p~~y~c~~c~~~~ 136 (508)
T KOG1844|consen 71 LLSLNGSEAGSEAREISRCDCGLEDD-M----EGLMIQCDWCGRWQHKICCGS---FKS-TKPDKYVCEICTPRN 136 (508)
T ss_pred cccccccccccCcCcccccccccccC-C----CceeeCCcccCcccCceeeee---cCC-CCchhceeeeecccc
Confidence 355566777666 677899998762 2 589999999999999999986 222 226899999998765
No 16
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=83.20 E-value=0.23 Score=32.22 Aligned_cols=34 Identities=24% Similarity=0.660 Sum_probs=18.3
Q ss_pred ccceeccccccccccCCCCCCCCCCCCCcccccccccc
Q psy16699 137 DEMIQCALCEDWFHSGHLGLDSPIPDGEDYSEMSCASC 174 (231)
Q Consensus 137 ~~MIQC~~CEDWFH~~Clg~~~~~~~~~~~~~fiC~~C 174 (231)
..||+|..|.=..|.+|-|+.. .++ .+.|+|..|
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~-~~~---~~~W~C~~C 35 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSE-VPD---GDDWLCDRC 35 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS---S---S-----HHH
T ss_pred CceEEeCCCCCcCChhhCCccc-CCC---CCcEECCcC
Confidence 4799999999999999999832 222 223888877
No 17
>KOG0825|consensus
Probab=82.04 E-value=0.81 Score=47.93 Aligned_cols=46 Identities=24% Similarity=0.523 Sum_probs=34.2
Q ss_pred EeCCCCCCCCCCCCccceeccccccc-cccCCCCCCCCCCCCCccccccccccccc
Q psy16699 123 TCARPYPDEENPNCDEMIQCALCEDW-FHSGHLGLDSPIPDGEDYSEMSCASCINM 177 (231)
Q Consensus 123 ~C~~pYpdpe~~~~~~MIQC~~CEDW-FH~~Clg~~~~~~~~~~~~~fiC~~C~~k 177 (231)
||..+ || .+.||-|+.|.+= ||..||..+ . ..--+..|+|..|+-.
T Consensus 220 IC~~~--Dp----EdVLLLCDsCN~~~YH~YCLDPd--l-~eiP~~eWYC~NC~dL 266 (1134)
T KOG0825|consen 220 ICTVH--DP----EDVLLLCDSCNKVYYHVYCLDPD--L-SESPVNEWYCTNCSLL 266 (1134)
T ss_pred eeccC--Ch----HHhheeecccccceeeccccCcc--c-ccccccceecCcchhh
Confidence 56666 34 4799999999766 999999862 1 1234678999999854
No 18
>KOG1632|consensus
Probab=81.19 E-value=0.24 Score=46.77 Aligned_cols=54 Identities=20% Similarity=0.386 Sum_probs=36.9
Q ss_pred CcceeEEeCCCCCCCCCCCCccceeccccccccccCCCCCCCCCCCCCcccc----cccccccc
Q psy16699 117 FKGKYCTCARPYPDEENPNCDEMIQCALCEDWFHSGHLGLDSPIPDGEDYSE----MSCASCIN 176 (231)
Q Consensus 117 f~g~YC~C~~pYpdpe~~~~~~MIQC~~CEDWFH~~Clg~~~~~~~~~~~~~----fiC~~C~~ 176 (231)
..+.+|..-..-. .. ..+||.|.+|+.|||+.|+.+ .......... |+|+.|..
T Consensus 237 ~~~~~~~~cg~~~---~~-~~~~~~~~~~e~w~~~~~v~~--~~a~~~~~~~~~~~~~c~~~~~ 294 (345)
T KOG1632|consen 237 YSKLICDPCGLSD---AN-KKFEICCDLCESWFHGDCVQI--FEARKRLNEIRNEVYKCPHCTV 294 (345)
T ss_pred cccccccccCcch---HH-HHHHHHHHHHHHHhccccccc--ccchhhhhhhhccceecCceee
Confidence 4456676554421 11 379999999999999999998 2222233444 99999976
No 19
>KOG4443|consensus
Probab=78.29 E-value=0.73 Score=47.06 Aligned_cols=54 Identities=28% Similarity=0.685 Sum_probs=37.9
Q ss_pred ceeEE-eCCCCCCCCCCCCccceeccccccccccCCCCCCCCCCCCCccc-cccccccc
Q psy16699 119 GKYCT-CARPYPDEENPNCDEMIQCALCEDWFHSGHLGLDSPIPDGEDYS-EMSCASCI 175 (231)
Q Consensus 119 g~YC~-C~~pYpdpe~~~~~~MIQC~~CEDWFH~~Clg~~~~~~~~~~~~-~fiC~~C~ 175 (231)
+.||- |.+-|-+.| ...|++|.+|.-|-|..|.++.......-..| .|-|..|.
T Consensus 145 ~~~cPvc~~~Y~~~e---~~~~~~c~~c~rwsh~~c~~~sdd~~~q~~vD~~~~CS~CR 200 (694)
T KOG4443|consen 145 LSYCPVCLIVYQDSE---SLPMVCCSICQRWSHGGCDGISDDKYMQAQVDLQYKCSTCR 200 (694)
T ss_pred cccCchHHHhhhhcc---chhhHHHHHhcccccCCCCccchHHHHHHhhhhhcccceee
Confidence 45664 777786442 46899999999999999999842211111234 88999997
No 20
>smart00336 BBOX B-Box-type zinc finger.
Probab=71.17 E-value=2.9 Score=26.36 Aligned_cols=30 Identities=37% Similarity=0.728 Sum_probs=23.5
Q ss_pred cceeecccCCCCCCCCceeeccccchhcCCcccccc
Q psy16699 46 QALYACLTCTPDICDPAGFCLACNYHCHEGHNIVEL 81 (231)
Q Consensus 46 Q~~y~C~TC~~~~~~~~gvC~~Cs~~CH~gH~lvel 81 (231)
...|-|.+|. ..||..|...=|.+|.++.|
T Consensus 13 ~~~~~C~~c~------~~iC~~C~~~~H~~H~~~~l 42 (42)
T smart00336 13 PAEFFCEECG------ALLCRTCDEAEHRGHTVVLL 42 (42)
T ss_pred ceEEECCCCC------cccccccChhhcCCCceecC
Confidence 3456688884 48999999889999988654
No 21
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=70.08 E-value=3.3 Score=33.15 Aligned_cols=21 Identities=24% Similarity=0.474 Sum_probs=17.6
Q ss_pred CcceeEEeCCCCCCCCCCCCccceec
Q psy16699 117 FKGKYCTCARPYPDEENPNCDEMIQC 142 (231)
Q Consensus 117 f~g~YC~C~~pYpdpe~~~~~~MIQC 142 (231)
-...+|+|+.+|| | +..||||
T Consensus 101 ~~~d~~~Ce~~yn-~----~~~~~~c 121 (121)
T cd04714 101 DGVDFYYCAGTYN-P----DTGMLKC 121 (121)
T ss_pred cCCCEEEEeccCC-C----CcCcccC
Confidence 3567999999996 6 6799998
No 22
>KOG1512|consensus
Probab=67.94 E-value=2.9 Score=39.32 Aligned_cols=49 Identities=24% Similarity=0.523 Sum_probs=35.4
Q ss_pred EeCCCCCCCCCCCCccceeccccccccccCCCCCCCCCCCCCcccccccc-cc-cccCcccc
Q psy16699 123 TCARPYPDEENPNCDEMIQCALCEDWFHSGHLGLDSPIPDGEDYSEMSCA-SC-INMYPVLK 182 (231)
Q Consensus 123 ~C~~pYpdpe~~~~~~MIQC~~CEDWFH~~Clg~~~~~~~~~~~~~fiC~-~C-~~k~~~L~ 182 (231)
||.+|.- +++|+-|+.|..=||.-|+|+. ..|. ..+||. .| .+..+|-+
T Consensus 319 IC~~P~~------E~E~~FCD~CDRG~HT~CVGL~-~lP~----G~WICD~~C~~~~~~t~R 369 (381)
T KOG1512|consen 319 ICLGPVI------ESEHLFCDVCDRGPHTLCVGLQ-DLPR----GEWICDMRCREATLNTTR 369 (381)
T ss_pred ccCCccc------chheeccccccCCCCccccccc-cccC----ccchhhhHHHHhcCCCCh
Confidence 6888762 5799999999999999999984 3444 478888 24 44444433
No 23
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=58.23 E-value=4.7 Score=31.04 Aligned_cols=37 Identities=27% Similarity=0.496 Sum_probs=29.4
Q ss_pred CCCcCCCCcceeEEeCCCCCCCCCCCCccceeccc--cccccccCCC
Q psy16699 110 NNTYNQNFKGKYCTCARPYPDEENPNCDEMIQCAL--CEDWFHSGHL 154 (231)
Q Consensus 110 ~N~Yn~Nf~g~YC~C~~pYpdpe~~~~~~MIQC~~--CEDWFH~~Cl 154 (231)
.+....++...-.+|++. .+..|||.. |..+||..|.
T Consensus 47 ~~i~~~~~~~~C~iC~~~--------~G~~i~C~~~~C~~~fH~~CA 85 (110)
T PF13832_consen 47 SNIPPSRFKLKCSICGKS--------GGACIKCSHPGCSTAFHPTCA 85 (110)
T ss_pred eeecchhcCCcCcCCCCC--------CceeEEcCCCCCCcCCCHHHH
Confidence 344444577788899987 378999998 9999999996
No 24
>cd00021 BBOX B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
Probab=56.38 E-value=6.4 Score=24.41 Aligned_cols=30 Identities=33% Similarity=0.579 Sum_probs=22.8
Q ss_pred cceeecccCCCCCCCCceeeccccchhcCCcccccc
Q psy16699 46 QALYACLTCTPDICDPAGFCLACNYHCHEGHNIVEL 81 (231)
Q Consensus 46 Q~~y~C~TC~~~~~~~~gvC~~Cs~~CH~gH~lvel 81 (231)
...|-|.+|. ..||..|...=|.+|..+.+
T Consensus 10 ~~~~fC~~~~------~~iC~~C~~~~H~~H~~~~i 39 (39)
T cd00021 10 PLSLFCETDR------ALLCVDCDLSVHSGHRRVPL 39 (39)
T ss_pred ceEEEeCccC------hhhhhhcChhhcCCCCEeeC
Confidence 3466788885 47999998666999998753
No 25
>KOG0383|consensus
Probab=46.84 E-value=9.3 Score=39.59 Aligned_cols=37 Identities=24% Similarity=0.592 Sum_probs=27.1
Q ss_pred CccceeccccccccccCCCCCCCCCCCCCccccccccccc
Q psy16699 136 CDEMIQCALCEDWFHSGHLGLDSPIPDGEDYSEMSCASCI 175 (231)
Q Consensus 136 ~~~MIQC~~CEDWFH~~Clg~~~~~~~~~~~~~fiC~~C~ 175 (231)
.+.-|-|+.|-.|||..|++.+ .......+ |+|+.|.
T Consensus 56 ~g~~l~c~tC~~s~h~~cl~~p--l~~~p~~~-~~c~Rc~ 92 (696)
T KOG0383|consen 56 GGELLWCDTCPASFHASCLGPP--LTPQPNGE-FICPRCF 92 (696)
T ss_pred CCcEEEeccccHHHHHHccCCC--CCcCCccc-eeeeeec
Confidence 3667789999999999999863 22222233 9999994
No 26
>KOG2626|consensus
Probab=41.18 E-value=24 Score=35.56 Aligned_cols=65 Identities=18% Similarity=0.240 Sum_probs=42.9
Q ss_pred CCcceeEEeCCCCCCCCCCCCccceeccccccccccCCCCCCC---CCCCCCcccccccccccccC--ccccccc
Q psy16699 116 NFKGKYCTCARPYPDEENPNCDEMIQCALCEDWFHSGHLGLDS---PIPDGEDYSEMSCASCINMY--PVLKLYP 185 (231)
Q Consensus 116 Nf~g~YC~C~~pYpdpe~~~~~~MIQC~~CEDWFH~~Clg~~~---~~~~~~~~~~fiC~~C~~k~--~~L~~y~ 185 (231)
+-.+.+|+|+..-+ + ...-+||-.|-.|||..++-... +...-..-..|+|..|.... .|..+.+
T Consensus 17 ~~~~~~~y~e~~r~-l----~~~elqcs~clk~~~~~~~~~~~~~~s~~pf~t~y~fvc~~c~~~~~e~f~~~~a 86 (544)
T KOG2626|consen 17 MKQATVCYCEGERN-L----GIVELQCSTCLKWFHLPTLEAFHLIKSSLPFMTSYEFVCKECTPSGREHFERKQA 86 (544)
T ss_pred ccCccccccccccc-c----CceeeEeeecccccccccccccccccccCCcccceeEEeccccCcchhhhhhccc
Confidence 45578999988764 2 45679999999999987653210 11112345689999998773 3444433
No 27
>KOG0957|consensus
Probab=40.43 E-value=15 Score=37.05 Aligned_cols=46 Identities=22% Similarity=0.519 Sum_probs=35.3
Q ss_pred EeCCCCCCCCCCCCccceeccccccccccCCCCCCCC-CCCCCcccccccccc
Q psy16699 123 TCARPYPDEENPNCDEMIQCALCEDWFHSGHLGLDSP-IPDGEDYSEMSCASC 174 (231)
Q Consensus 123 ~C~~pYpdpe~~~~~~MIQC~~CEDWFH~~Clg~~~~-~~~~~~~~~fiC~~C 174 (231)
||++..+ ....+||+.|.--||..||+-+-+ .|.-.....|+|..|
T Consensus 549 iCkks~d------QHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsEC 595 (707)
T KOG0957|consen 549 ICKKSTD------QHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSEC 595 (707)
T ss_pred eeccchh------hHHHhhcchhhceeeccccCCccccCcccccCcceeeccc
Confidence 6887753 688999999999999999975322 234344668999999
No 28
>PRK00965 tetrahydromethanopterin S-methyltransferase subunit B; Provisional
Probab=34.50 E-value=63 Score=25.58 Aligned_cols=46 Identities=17% Similarity=0.146 Sum_probs=33.6
Q ss_pred ccCcccHHHHHHHHHHHHHHHHHHcCCCCCCCCccccCcccccceee
Q psy16699 4 EEGTVTLGDVLALQDHLEESAVAVLGAADDKNCTYSQGYMKRQALYA 50 (231)
Q Consensus 4 ~~~~vt~~d~l~~q~~le~eA~~~l~~~d~~~CTy~~gy~~rQ~~y~ 50 (231)
+--.+++..+.++.++||.-|++++.--|+. =++-..|-.|-..|.
T Consensus 27 dvi~~s~~pi~E~i~kLe~~addL~nsLdP~-~~~l~S~PgREg~~~ 72 (96)
T PRK00965 27 DIIVVDMDPIEEEINKLEALADDLENSLDPR-NPPLNSYPGREGTYY 72 (96)
T ss_pred CeEEEechHHHHHHHHHHHHHHHHHhccCCC-CChhhcCCCCcceee
Confidence 3445789999999999999999999766654 455555655655543
No 29
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=33.69 E-value=37 Score=33.60 Aligned_cols=63 Identities=22% Similarity=0.556 Sum_probs=40.0
Q ss_pred eEEeCCCCCCCCCCCCccceeccccccccccCC-CCC-----CCCC--CCCCcccccccccccccCcccccccc
Q psy16699 121 YCTCARPYPDEENPNCDEMIQCALCEDWFHSGH-LGL-----DSPI--PDGEDYSEMSCASCINMYPVLKLYPH 186 (231)
Q Consensus 121 YC~C~~pYpdpe~~~~~~MIQC~~CEDWFH~~C-lg~-----~~~~--~~~~~~~~fiC~~C~~k~~~L~~y~~ 186 (231)
-|+|.+ |++.-+ .-..|.|++|.-|=|..| |.. ..+. +-...--.|.|..|-.....|-..+.
T Consensus 131 C~iC~k-fD~~~n--~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~seLlG~vk~ 201 (446)
T PF07227_consen 131 CCICSK-FDDNKN--TCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKTSELLGFVKK 201 (446)
T ss_pred ccccCC-cccCCC--CeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCChhhHHHHHHH
Confidence 567776 543322 578999999999999999 321 0011 11122348999999988765544333
No 30
>KOG1245|consensus
Probab=31.88 E-value=11 Score=42.09 Aligned_cols=48 Identities=23% Similarity=0.343 Sum_probs=36.4
Q ss_pred EeCCCCCCCCCCCCccceeccccccccccCCCCCCCCCCCCCcccccccccccccCc
Q psy16699 123 TCARPYPDEENPNCDEMIQCALCEDWFHSGHLGLDSPIPDGEDYSEMSCASCINMYP 179 (231)
Q Consensus 123 ~C~~pYpdpe~~~~~~MIQC~~CEDWFH~~Clg~~~~~~~~~~~~~fiC~~C~~k~~ 179 (231)
+|++.-. ...|+-|+.|..|||.-|+.. ......+..+.|+.|...+.
T Consensus 1113 ~cr~k~~------~~~m~lc~~c~~~~h~~C~rp---~~~~~~~~dW~C~~c~~e~~ 1160 (1404)
T KOG1245|consen 1113 VCRRKKQ------DEKMLLCDECLSGFHLFCLRP---ALSSVPPGDWMCPSCRKEHR 1160 (1404)
T ss_pred hhhhccc------chhhhhhHhhhhhHHHHhhhh---hhccCCcCCccCCccchhhh
Confidence 4666542 469999999999999999965 22334566799999997764
No 31
>KOG1886|consensus
Probab=29.46 E-value=36 Score=33.79 Aligned_cols=53 Identities=4% Similarity=-0.187 Sum_probs=39.6
Q ss_pred CCcCCCCcceeEEeCCCCCCCCCCCCccceeccccccccccCCCCCCCCCCCCCcccccccccc
Q psy16699 111 NTYNQNFKGKYCTCARPYPDEENPNCDEMIQCALCEDWFHSGHLGLDSPIPDGEDYSEMSCASC 174 (231)
Q Consensus 111 N~Yn~Nf~g~YC~C~~pYpdpe~~~~~~MIQC~~CEDWFH~~Clg~~~~~~~~~~~~~fiC~~C 174 (231)
..+..-..+.|+.++++++| ...|.||..+.+|+|..+++.. . ....++|..+
T Consensus 163 ~~~~~~~~~~~~~~~k~e~d-----~~~~kt~~~~~~~~~p~~~~t~--~----~~~~~~~~~~ 215 (464)
T KOG1886|consen 163 SKLRKLRDGDFGDGQKLEID-----MLVPKTGPRRGTLPDPKKVQTL--N----AAASKRSQQK 215 (464)
T ss_pred ccccCccccchhcccccCCc-----cchhhhcccCCCCCCccccccc--c----ccccceeccc
Confidence 33345556889999999963 5799999999999999999862 1 3445566655
No 32
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=28.94 E-value=43 Score=28.37 Aligned_cols=27 Identities=22% Similarity=0.321 Sum_probs=18.4
Q ss_pred cccCCCCCCCCCCCCCcccccccccccccC
Q psy16699 149 FHSGHLGLDSPIPDGEDYSEMSCASCINMY 178 (231)
Q Consensus 149 FH~~Clg~~~~~~~~~~~~~fiC~~C~~k~ 178 (231)
||..||.- +.... .-..++||.|..+.
T Consensus 2 ~H~~CL~P--pl~~~-P~g~W~Cp~C~~~~ 28 (148)
T cd04718 2 FHLCCLRP--PLKEV-PEGDWICPFCEVEK 28 (148)
T ss_pred cccccCCC--CCCCC-CCCCcCCCCCcCCC
Confidence 89999974 22222 22579999998664
No 33
>PF07496 zf-CW: CW-type Zinc Finger; InterPro: IPR011124 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a CW-type zinc finger motif, named for its conserved cysteine and tryptophan residues. It is predicted to be a highly specialised mononuclear four-cysteine (C4) zinc finger that plays a role in DNA binding and/or promoting protein-protein interactions in complicated eukaryotic processes including chromatin methylation status and early embryonic development. Weak homology to members of IPR001965 from INTERPRO further evidences these predictions. The domain is found exclusively in vertebrates, vertebrate-infecting parasites and higher plants []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2RR4_A 2E61_A 2L7P_A.
Probab=28.92 E-value=25 Score=24.02 Aligned_cols=34 Identities=21% Similarity=0.284 Sum_probs=14.6
Q ss_pred cceeccccccccccCCCCCCCCCCCCCcccccccccc
Q psy16699 138 EMIQCALCEDWFHSGHLGLDSPIPDGEDYSEMSCASC 174 (231)
Q Consensus 138 ~MIQC~~CEDWFH~~Clg~~~~~~~~~~~~~fiC~~C 174 (231)
.-|||+.|..|=... .++.... ....+.|+|..-
T Consensus 2 ~WVQCd~C~KWR~lp-~~~~~~~--~~~~d~W~C~~n 35 (50)
T PF07496_consen 2 YWVQCDSCLKWRRLP-EEVDPIR--EELPDPWYCSMN 35 (50)
T ss_dssp EEEE-TTT--EEEE--CCHHCTS--CCSSTT--GGGS
T ss_pred eEEECCCCCceeeCC-hhhCccc--ccCCCeEEcCCC
Confidence 458999999998766 2221001 122337788653
No 34
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=28.84 E-value=16 Score=34.86 Aligned_cols=40 Identities=33% Similarity=0.641 Sum_probs=17.0
Q ss_pred cceeecccCCCCCCCCceeeccccchhcCCcccccc-cccc---cC-CCCC
Q psy16699 46 QALYACLTCTPDICDPAGFCLACNYHCHEGHNIVEL-YTKR---CD-CGNS 91 (231)
Q Consensus 46 Q~~y~C~TC~~~~~~~~gvC~~Cs~~CH~gH~lvel-~~kR---CD-CG~~ 91 (231)
=.++.|.+|+-....+...|.. .+|+|.-. -.|| |. ||+.
T Consensus 250 ~kav~C~~C~yt~~~~~~~C~~------~~H~l~~~~a~KRFFkC~~C~~R 294 (344)
T PF09332_consen 250 CKAVTCKQCKYTAFKPSDRCKE------EGHPLKWHDAVKRFFKCKDCGNR 294 (344)
T ss_dssp EEEEEETTT--EESS--HHHHH------TT--EEEEEEE-EEEE-T-TS-E
T ss_pred EEEEEcCCCCCcccCcchhHHh------cCCceEEeeeeeeeEECCCCCCe
Confidence 4578899996543333333332 55665421 2356 87 8873
No 35
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=28.00 E-value=53 Score=21.79 Aligned_cols=32 Identities=25% Similarity=0.660 Sum_probs=24.1
Q ss_pred cccccceeecccCCCCCCCCceeeccccch-hcCCcccc
Q psy16699 42 YMKRQALYACLTCTPDICDPAGFCLACNYH-CHEGHNIV 79 (231)
Q Consensus 42 y~~rQ~~y~C~TC~~~~~~~~gvC~~Cs~~-CH~gH~lv 79 (231)
.| ....|.|.+|. ..-+|..|... -|..|+.+
T Consensus 9 ~i-~G~ry~C~~C~-----d~dLC~~C~~~~~H~~H~f~ 41 (43)
T cd02340 9 PI-VGVRYKCLVCP-----DYDLCESCEAKGVHPEHAML 41 (43)
T ss_pred cC-cCCeEECCCCC-----CccchHHhhCcCCCCCCCEE
Confidence 66 77889999995 36789888544 67777765
No 36
>PF14047 DCR: Dppa2/4 conserved region
Probab=26.99 E-value=31 Score=25.62 Aligned_cols=19 Identities=21% Similarity=0.469 Sum_probs=15.2
Q ss_pred CCCCCcccccccccccccC
Q psy16699 160 IPDGEDYSEMSCASCINMY 178 (231)
Q Consensus 160 ~~~~~~~~~fiC~~C~~k~ 178 (231)
+|....-|.|+|+.|++++
T Consensus 47 fpppgleDNmLCp~Cv~rN 65 (66)
T PF14047_consen 47 FPPPGLEDNMLCPECVKRN 65 (66)
T ss_pred CCCCCccccccCHhHhhcc
Confidence 4556677899999999775
No 37
>cd02669 Peptidase_C19M A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=25.67 E-value=45 Score=32.07 Aligned_cols=29 Identities=34% Similarity=0.646 Sum_probs=23.7
Q ss_pred HHHHcCCCCCCCCccccCcccccceeecccCC
Q psy16699 24 AVAVLGAADDKNCTYSQGYMKRQALYACLTCT 55 (231)
Q Consensus 24 A~~~l~~~d~~~CTy~~gy~~rQ~~y~C~TC~ 55 (231)
-|.+|-..++++|+-. +.+..+|+|++|+
T Consensus 7 ~r~~ldfd~e~~C~~~---~~~~n~~~CL~cg 35 (440)
T cd02669 7 NRSVLDFDFEKVCSVS---LSNLNVYACLVCG 35 (440)
T ss_pred hhhhcccccccccccc---CCCCcEEEEcccC
Confidence 4678888899999744 3488999999998
No 38
>PF05440 MtrB: Tetrahydromethanopterin S-methyltransferase subunit B; InterPro: IPR008690 The N5-methyltetrahydromethanopterin: coenzyme M (2.1.1.86 from EC) of Methanosarcina mazei Go1 is a membrane-associated, corrinoid-containing protein that uses a transmethylation reaction to drive an energy-conserving sodium ion pump [].; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=25.13 E-value=1.1e+02 Score=24.26 Aligned_cols=42 Identities=19% Similarity=0.313 Sum_probs=31.6
Q ss_pred cccHHHHHHHHHHHHHHHHHHcCCCCCCCCccccCccccccee
Q psy16699 7 TVTLGDVLALQDHLEESAVAVLGAADDKNCTYSQGYMKRQALY 49 (231)
Q Consensus 7 ~vt~~d~l~~q~~le~eA~~~l~~~d~~~CTy~~gy~~rQ~~y 49 (231)
.+|+..+.++.++||+-|++++.--|+. =++-..|-.|-..|
T Consensus 29 ~~s~~pi~eqi~kLe~~addl~nsLdP~-~~~l~S~PgREg~~ 70 (97)
T PF05440_consen 29 VVSMDPINEQIDKLEKAADDLVNSLDPR-TPPLNSFPGREGTY 70 (97)
T ss_pred EEechHHHHHHHHHHHHHHHHHhccCCC-CCccccCCCCccce
Confidence 5788999999999999999999655553 44555565565554
No 39
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=24.09 E-value=39 Score=29.41 Aligned_cols=60 Identities=15% Similarity=0.437 Sum_probs=36.9
Q ss_pred CccCcccHHHHHHHH-HHHHHHHHHHcCCCCCCCCccccCcccccceeecccCCCCCCCCceeeccccchhcCCcccccc
Q psy16699 3 DEEGTVTLGDVLALQ-DHLEESAVAVLGAADDKNCTYSQGYMKRQALYACLTCTPDICDPAGFCLACNYHCHEGHNIVEL 81 (231)
Q Consensus 3 ~~~~~vt~~d~l~~q-~~le~eA~~~l~~~d~~~CTy~~gy~~rQ~~y~C~TC~~~~~~~~gvC~~Cs~~CH~gH~lvel 81 (231)
|+.+..||.|+++-. -+|+...++++. .. ..+++.|..|... .-||.-| +.+ +++-.
T Consensus 109 ~~~~~YSl~DL~~v~~G~L~~~L~~l~~------------~~-~~HV~~C~lC~~k----GfiCe~C----~~~-~~IfP 166 (202)
T PF13901_consen 109 EDPHLYSLADLVQVKSGQLLPQLEKLVQ------------FA-EKHVYSCELCQQK----GFICEIC----NSD-DIIFP 166 (202)
T ss_pred hCCceEcHHHHHHHhhchHHHHHHHHHH------------HH-HHHHHHhHHHHhC----CCCCccC----CCC-CCCCC
Confidence 456778899988843 356666665552 22 5677788888653 2467444 444 66655
Q ss_pred ccc
Q psy16699 82 YTK 84 (231)
Q Consensus 82 ~~k 84 (231)
|..
T Consensus 167 F~~ 169 (202)
T PF13901_consen 167 FQI 169 (202)
T ss_pred CCC
Confidence 554
No 40
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=22.60 E-value=38 Score=24.88 Aligned_cols=37 Identities=22% Similarity=0.339 Sum_probs=26.9
Q ss_pred CCcCCCCcceeEEeCCCCCCCCCCCCccceeccc--cccccccCCCC
Q psy16699 111 NTYNQNFKGKYCTCARPYPDEENPNCDEMIQCAL--CEDWFHSGHLG 155 (231)
Q Consensus 111 N~Yn~Nf~g~YC~C~~pYpdpe~~~~~~MIQC~~--CEDWFH~~Clg 155 (231)
+.....+..+--+|++++ +-.|+|.. |...||..|.-
T Consensus 29 ~~~~~~~~~~C~~C~~~~--------Ga~i~C~~~~C~~~fH~~CA~ 67 (90)
T PF13771_consen 29 KEIKRRRKLKCSICKKKG--------GACIGCSHPGCSRSFHVPCAR 67 (90)
T ss_pred HHHHHHhCCCCcCCCCCC--------CeEEEEeCCCCCcEEChHHHc
Confidence 333344445566788774 68899996 99999999963
No 41
>COG1931 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.28 E-value=77 Score=26.74 Aligned_cols=40 Identities=28% Similarity=0.351 Sum_probs=27.1
Q ss_pred cccHHHHHHHHHHHHHHHHHHcC-CCCCCCCccccCcccccceee
Q psy16699 7 TVTLGDVLALQDHLEESAVAVLG-AADDKNCTYSQGYMKRQALYA 50 (231)
Q Consensus 7 ~vt~~d~l~~q~~le~eA~~~l~-~~d~~~CTy~~gy~~rQ~~y~ 50 (231)
.-++.++|..|.-| +.||.+|- |..++.= .=|+..|++|.
T Consensus 51 L~~l~elLr~qrIl-DtAR~~l~kG~~~~~v---~f~lnKQAA~v 91 (140)
T COG1931 51 LERLRELLRKQRIL-DTARMVLEKGLTGNEV---TFYLNKQAAYV 91 (140)
T ss_pred HHHHHHHHHHhHHH-HHHHHHHHccccCCeE---EEEEehhhhhc
Confidence 34577899988877 88888882 2222222 33788999998
No 42
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=20.83 E-value=42 Score=26.81 Aligned_cols=12 Identities=67% Similarity=1.218 Sum_probs=8.4
Q ss_pred cccccc-c-CCCCC
Q psy16699 80 ELYTKR-C-DCGNS 91 (231)
Q Consensus 80 el~~kR-C-DCG~~ 91 (231)
||+||| | .||+.
T Consensus 5 elGtKR~Cp~CG~k 18 (108)
T PF09538_consen 5 ELGTKRTCPSCGAK 18 (108)
T ss_pred ccCCcccCCCCcch
Confidence 678888 8 46654
No 43
>PHA01740 putative single-stranded DNA-binding protein
Probab=20.02 E-value=42 Score=28.42 Aligned_cols=16 Identities=25% Similarity=0.945 Sum_probs=13.4
Q ss_pred CCCCcceeecchhhhc
Q psy16699 201 PPVTEAFFWQEGWRSQ 216 (231)
Q Consensus 201 ~~~~~~~f~~~~wr~~ 216 (231)
.+..|..||.++|+++
T Consensus 30 InI~G~~yw~SGW~~~ 45 (158)
T PHA01740 30 VDIRGTVYWLAGWRQE 45 (158)
T ss_pred EeeCCEEEEeeccccc
Confidence 3578999999999975
Done!