Query 023306
Match_columns 284
No_of_seqs 189 out of 336
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 03:01:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023306.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023306hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10513 EPL1: Enhancer of pol 100.0 9.5E-30 2.1E-34 217.8 9.9 143 6-159 1-160 (160)
2 KOG2261 Polycomb enhancer prot 99.5 9.3E-15 2E-19 149.8 2.9 142 98-265 1-145 (716)
3 KOG2261 Polycomb enhancer prot 99.3 2.6E-13 5.7E-18 139.3 1.7 215 1-240 47-286 (716)
4 KOG0954 PHD finger protein [Ge 98.7 2.7E-08 5.9E-13 101.9 6.3 170 75-255 150-344 (893)
5 COG5141 PHD zinc finger-contai 97.5 9.8E-05 2.1E-09 73.6 4.5 97 119-222 128-248 (669)
6 KOG0955 PHD finger protein BR1 97.4 5.9E-05 1.3E-09 81.4 1.7 137 101-250 136-289 (1051)
7 KOG0954 PHD finger protein [Ge 91.3 0.18 4E-06 53.0 3.5 38 182-223 487-524 (893)
8 PF14164 YqzH: YqzH-like prote 55.7 24 0.00052 26.4 4.2 22 141-162 23-44 (64)
9 PF00046 Homeobox: Homeobox do 41.3 1.1E+02 0.0023 20.9 5.6 51 141-215 4-54 (57)
10 COG2896 MoaA Molybdenum cofact 34.2 29 0.00063 33.6 2.3 52 100-156 4-55 (322)
11 TIGR00244 transcriptional regu 32.8 85 0.0019 27.2 4.7 53 141-207 76-132 (147)
12 PF12959 DUF3848: Protein of u 32.6 48 0.001 27.0 2.9 26 182-212 51-76 (101)
13 PF07310 PAS_5: PAS domain; I 30.9 38 0.00083 27.9 2.2 20 201-221 5-24 (137)
14 COG4043 Preprotein translocase 30.5 50 0.0011 27.0 2.7 44 145-215 56-99 (111)
15 PF09862 DUF2089: Protein of u 30.4 1.2E+02 0.0027 25.0 5.1 15 125-139 33-47 (113)
16 PF06252 DUF1018: Protein of u 26.9 68 0.0015 26.0 3.0 36 126-161 1-39 (119)
17 PF10176 DUF2370: Protein of u 25.5 44 0.00096 31.0 1.8 16 201-216 208-223 (233)
18 cd03519 Link_domain_HAPLN_modu 25.0 98 0.0021 24.7 3.4 61 179-245 8-68 (91)
19 cd03515 Link_domain_TSG_6_like 24.6 92 0.002 24.9 3.3 57 181-244 13-69 (93)
20 smart00445 LINK Link (Hyaluron 24.0 87 0.0019 25.0 3.0 30 180-210 13-42 (94)
21 cd03517 Link_domain_CSPGs_modu 23.6 83 0.0018 25.2 2.8 29 181-210 13-41 (95)
22 PRK14066 exodeoxyribonuclease 21.9 2.9E+02 0.0063 21.0 5.4 35 145-193 2-36 (75)
23 cd03520 Link_domain_CSPGs_modu 21.7 1.3E+02 0.0027 24.3 3.5 59 180-245 9-67 (96)
24 cd03518 Link_domain_HAPLN_modu 21.4 1.1E+02 0.0023 24.6 3.1 60 180-246 12-71 (95)
25 cd01102 Link_Domain The link d 20.2 1.2E+02 0.0025 24.2 3.0 31 179-210 11-41 (92)
No 1
>PF10513 EPL1: Enhancer of polycomb-like; InterPro: IPR019542 This domain is found at the N-terminal of EPL1 (Enhancer of polycomb-like) proteins. The EPL1 protein is a member of a histone acetyltransferase complex which is involved in transcriptional activation of selected genes []. It is also present at the N terminus of Jade family proteins.
Probab=99.96 E-value=9.5e-30 Score=217.84 Aligned_cols=143 Identities=38% Similarity=0.632 Sum_probs=109.8
Q ss_pred cCCCCCCCCCCcceeccCCCCCCCCCCCCCCCcccccCCCCCcccccccchhhcCCCCccccccccccccC---------
Q 023306 6 IRPRPLDIHKKLPIVKSFKDFEDDNNDTNPPTSSIAANSTPSATTTRNSHLLRLNSSSFDHDSQEVHQVPS--------- 76 (284)
Q Consensus 6 FR~R~ld~~k~L~I~~~~~dl~d~~~~~~~~~~~~~~~~~pt~~e~~~~~~~~~~~ve~k~Ee~E~hl~~~--------- 76 (284)
||+|+||+++||+||++ .|+++++....-...+.+++++|||++..+.. . + .+.|+|++..
T Consensus 1 fR~~~ld~~~~l~I~~~-~d~~~~~~~~~~~~~~~~~~~~~~gv~~~~~~----~----~-~e~e~~~q~~~~~~~~~~~ 70 (160)
T PF10513_consen 1 FRPRRLDIKKPLPIFRE-EDLDDLDESEDSSNKNQAVPQSPTGVEKEEKL----S----K-QEWEKHLQKPISASQNSKS 70 (160)
T ss_pred CCCCCCCCCCCeeEEec-hhcccccccccccccccccccccCCccchhhc----c----c-cccccccccccchhhhhhc
Confidence 99999999999999998 88888876432111122467777777532110 0 1 1466776442
Q ss_pred --CCCCCCCCCCcceEcCCCccccCCCCCCCCccEEeecchhccCC-CccCCCChhhHHHHHHHhcCC-----CCCCHHH
Q 023306 77 --KKSASEIPTPQFVVVDTYERDYSQTFDQPTSYLRARGARAELGD-FVEYDLDNEDEDWLDEFNRDQ-----KLLPPEK 148 (284)
Q Consensus 77 --~~~~~~IPtP~~~~v~~yd~~Y~~~F~~P~sYIr~s~t~~Ed~~-~veYDMDeeDe~WL~~~N~~r-----~~lsed~ 148 (284)
+.....||+|.++.++ |+..|...|..|.+||||+....+++. +|+||||++|+.||+.+|+++ ..||++.
T Consensus 71 ~~~~~~~~IP~P~~~~~~-~~~~~~~~f~~p~~yi~~~~~~~e~~~~~veYDmDeeD~~wL~~~N~~r~~~~~~~ls~~~ 149 (160)
T PF10513_consen 71 KKKKEKKKIPTPSVRVVD-YEKPYSPPFKRPSSYIRFSEKSVEDLDEGVEYDMDEEDEEWLELLNKKRKSDGLEPLSEED 149 (160)
T ss_pred ccccccccCCCCceEEec-CcCCCCCcccCCccccccccCCHHHhccCcCCCCchHHHHHHHHHHHHhhhcCCCCCCHHH
Confidence 1356789999999888 999999999999999999954334444 999999999999999999863 5899999
Q ss_pred HHHHHHHhhcc
Q 023306 149 FETLMFKLEVL 159 (284)
Q Consensus 149 FE~imd~fEk~ 159 (284)
||.|||+|||+
T Consensus 150 FE~~md~lEke 160 (160)
T PF10513_consen 150 FEIIMDRLEKE 160 (160)
T ss_pred HHHHHHHHhCC
Confidence 99999999984
No 2
>KOG2261 consensus Polycomb enhancer protein, EPC [Transcription]
Probab=99.49 E-value=9.3e-15 Score=149.81 Aligned_cols=142 Identities=21% Similarity=0.222 Sum_probs=117.3
Q ss_pred cCCCCCCCCccEEeecchhccCCCccCCCChhhHHHHHHHhcCCCCCCHHHHHHHHHHhhcccHHHhhhhcCCCCCCCCC
Q 023306 98 YSQTFDQPTSYLRARGARAELGDFVEYDLDNEDEDWLDEFNRDQKLLPPEKFETLMFKLEVLDHKARERAGLITPTLGSP 177 (284)
Q Consensus 98 Y~~~F~~P~sYIr~s~t~~Ed~~~veYDMDeeDe~WL~~~N~~r~~lsed~FE~imd~fEk~~~~~q~r~g~~~P~l~~d 177 (284)
|++.|++|...|+..... -+.++++||||++||.||+. ++.+.+..||.|+|++|+.+.
T Consensus 1 y~~~~k~~r~~~~~~~~~-l~~~~p~yd~D~~de~~~s~----~~~s~~~~~e~~~dR~e~~s~---------------- 59 (716)
T KOG2261|consen 1 YPKAAKMPRQLIHGQPIW-LDREKPRYDHDSEDEDFLSV----QMESKPLKFERMRDRLEKCSS---------------- 59 (716)
T ss_pred CCcccccchhhhcccccc-cCCCCCcccccchhHHHhhh----cccccchhHHHHhcccccCCc----------------
Confidence 678899999999887665 45688999999999999998 578999999999999999762
Q ss_pred CCccCCHHHHHHHHhhhcccCchhHHHHHHHHHHhhhhcCCCCccccccccccc---CCCCeeeeccccCCCCcCCCccC
Q 023306 178 IPILLQLGVAIEALKDQTTVGYAVFQSVYHYWKEKASVNDGRNLYCGVCSLRHQ---LMIPTHIMSSDRGRKLTDSTHEG 254 (284)
Q Consensus 178 ~~~ils~~ea~~~l~~~~~~~~~~~~~VY~YWk~KR~~~gg~pL~~yvCfrRr~---~~~pv~~~r~k~~~~~~~~~~~~ 254 (284)
.+.+++++++..|.+. ....-.||+||.+||....+..|++.|=-..+. ...|+.++|..+++|+|+++++|
T Consensus 60 -~~~i~l~edk~~l~~d----d~~~v~~~e~~veK~~~~e~~~L~p~v~~~~~~~~~s~~py~~~rr~tekmqtrkn~~n 134 (716)
T KOG2261|consen 60 -HQKIYLEEDKKDLDED----DQRSVEVYEYWVEKREEKEVPSLIPPVKTEKRDGSASNKPYVAFRRRTEKMQTRKNRKN 134 (716)
T ss_pred -cceecchhhhhccccc----cceeeeeeehhhhhhhhhccccccCccccccCCccccCCchhhhhhhhhcccccccccc
Confidence 3578899998888874 455569999999999998874477655543333 44499999999999999999999
Q ss_pred CcchhhhhHhh
Q 023306 255 CKGGRITCNHL 265 (284)
Q Consensus 255 ~~~~~~~~~~~ 265 (284)
|++.+..|.++
T Consensus 135 d~aSyek~l~~ 145 (716)
T KOG2261|consen 135 DEASYEKMLKL 145 (716)
T ss_pred chHHHHHHHHH
Confidence 99988777655
No 3
>KOG2261 consensus Polycomb enhancer protein, EPC [Transcription]
Probab=99.34 E-value=2.6e-13 Score=139.28 Aligned_cols=215 Identities=22% Similarity=0.314 Sum_probs=127.1
Q ss_pred CCCcccCCCCCCCCCCcceeccCCCCCCCCCCCCCCCcccccCCCCCcccccccchhhcCCCCccccccccc-cccCCCC
Q 023306 1 MSRLSIRPRPLDIHKKLPIVKSFKDFEDDNNDTNPPTSSIAANSTPSATTTRNSHLLRLNSSSFDHDSQEVH-QVPSKKS 79 (284)
Q Consensus 1 msrlsFR~R~ld~~k~L~I~~~~~dl~d~~~~~~~~~~~~~~~~~pt~~e~~~~~~~~~~~ve~k~Ee~E~h-l~~~~~~ 79 (284)
|+++++|..+++.++++++-.+..||.++ . +..+.+. +.| ++ |.++.|+| |.+....
T Consensus 47 ~e~~~dR~e~~s~~~~i~l~edk~~l~~d-d-----~~~v~~~--------------e~~-ve-K~~~~e~~~L~p~v~~ 104 (716)
T KOG2261|consen 47 FERMRDRLEKCSSHQKIYLEEDKKDLDED-D-----QRSVEVY--------------EYW-VE-KREEKEVPSLIPPVKT 104 (716)
T ss_pred HHHHhcccccCCccceecchhhhhccccc-c-----ceeeeee--------------ehh-hh-hhhhhccccccCcccc
Confidence 46777777777777777666665555552 2 2223333 336 66 99999999 5443332
Q ss_pred CCCCCCCcceEcC------CCccccC--CCCCCCCccEEeecchhccC-CCccCCCChhhHHHHHHHhcCCCCCCHHHHH
Q 023306 80 ASEIPTPQFVVVD------TYERDYS--QTFDQPTSYLRARGARAELG-DFVEYDLDNEDEDWLDEFNRDQKLLPPEKFE 150 (284)
Q Consensus 80 ~~~IPtP~~~~v~------~yd~~Y~--~~F~~P~sYIr~s~t~~Ed~-~~veYDMDeeDe~WL~~~N~~r~~lsed~FE 150 (284)
++++|..+.-+ .+++.+. .-+..+++|=++-.++.+.. ....|+|+-.++.|.-.++..-..|.++.||
T Consensus 105 --~~~~~~~s~~py~~~rr~tekmqtrkn~~nd~aSyek~l~~~~dl~~a~t~~em~~~~e~tk~~L~~~t~ei~~kr~e 182 (716)
T KOG2261|consen 105 --EKRDGSASNKPYVAFRRRTEKMQTRKNRKNDEASYEKMLKLRRDLSRAYTILEMEKRREKTKRELLEKTSEISEKRFE 182 (716)
T ss_pred --ccCCccccCCchhhhhhhhhccccccccccchHHHHHHHHHHHhhhHHHHHHHHHHhhhhhHHHhhcchhhhhhhhhh
Confidence 55555554333 3333332 12444444444433322211 2234445555555555554444556666666
Q ss_pred HHHHHhhcccHHHhhhhcCCCCCCCCCCC-ccCCHHHHHHHHhhhcccCchhHHHHHHHHHHhhhhcCCCCc-c------
Q 023306 151 TLMFKLEVLDHKARERAGLITPTLGSPIP-ILLQLGVAIEALKDQTTVGYAVFQSVYHYWKEKASVNDGRNL-Y------ 222 (284)
Q Consensus 151 ~imd~fEk~~~~~q~r~g~~~P~l~~d~~-~ils~~ea~~~l~~~~~~~~~~~~~VY~YWk~KR~~~gg~pL-~------ 222 (284)
......|-.++..-++.|.+.|+++.|.. ..++...+...+... .....++.++|+||+.||+-.+|-+. +
T Consensus 183 ~~df~~~~~s~~~~~~~~~~~P~~~~~~~i~~~s~~~~~~~l~~~-~~~~~~~~~~~~y~r~k~~~~~~~~~~~~~~Q~~ 261 (716)
T KOG2261|consen 183 MGDFEGEMSSEVEPERKGAYKPLLSAPFAIILLSPMDTMEALKLR-VLKESFFSSKYDYWREKRKIEGGPKAQMTSQQPL 261 (716)
T ss_pred hcccccccccccchhhhhccCccccCcchhhcCCHHHHHhhhhhh-hhhhhhhhHHHHHHhhhccccCCchhhhhhhcCC
Confidence 66666666666666778888999999865 234445455555543 44566778999999999998877441 1
Q ss_pred -------cccccccccCCCCeeeec
Q 023306 223 -------CGVCSLRHQLMIPTHIMS 240 (284)
Q Consensus 223 -------~yvCfrRr~~~~pv~~~r 240 (284)
+|||||++.++++-+..|
T Consensus 262 ppv~~~~~yv~fr~r~~r~~~~trr 286 (716)
T KOG2261|consen 262 PPVFDADPYVCFRRRESRHSRKTRR 286 (716)
T ss_pred CCCCCCCCceecccccccchhhccc
Confidence 399999999887644333
No 4
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=98.67 E-value=2.7e-08 Score=101.93 Aligned_cols=170 Identities=20% Similarity=0.285 Sum_probs=119.8
Q ss_pred cCCCCCCCCCCCcceEcCCCccccCCCCCCCCccEEeecch-hc----------cCCCccCCCChhhHHHHHHHhcCC--
Q 023306 75 PSKKSASEIPTPQFVVVDTYERDYSQTFDQPTSYLRARGAR-AE----------LGDFVEYDLDNEDEDWLDEFNRDQ-- 141 (284)
Q Consensus 75 ~~~~~~~~IPtP~~~~v~~yd~~Y~~~F~~P~sYIr~s~t~-~E----------d~~~veYDMDeeDe~WL~~~N~~r-- 141 (284)
+..++.-.+|+|.+.+++..-. -...|+.|..||+.+..+ .| ....|.||+|.-|..||+.+|..+
T Consensus 150 Qvpaspd~lpqp~v~~dse~v~-~~~~fs~pkkyivc~~~~~~e~~yn~~~~~lae~tcrydid~~d~awL~~~n~e~~~ 228 (893)
T KOG0954|consen 150 QVPASPDTLPQPSVRVDSEDVQ-PETDFSRPKKYIVCSDGEVPELGYNLLIKDLAESTCRYDIDDMDPAWLQLVNEERAE 228 (893)
T ss_pred cccCCCCcCCCcceeccchhcc-hhhhhcCCcceEEeCCCCCcccchhhhHHHHhhhhhhcccccccHHHHHHhcchHHh
Confidence 3456778899999887652211 235799999999987542 11 246799999999999999999864
Q ss_pred ---CCCCHHHHHHHHHHhhcccHHHhhhhcCCCCCCCC--------CCCccCCHHHH-HHHHhhhcccCchhHHHHHHHH
Q 023306 142 ---KLLPPEKFETLMFKLEVLDHKARERAGLITPTLGS--------PIPILLQLGVA-IEALKDQTTVGYAVFQSVYHYW 209 (284)
Q Consensus 142 ---~~lsed~FE~imd~fEk~~~~~q~r~g~~~P~l~~--------d~~~ils~~ea-~~~l~~~~~~~~~~~~~VY~YW 209 (284)
..|.+-.||.|+..||..++++...+-...-.+++ |+-.....++| ..+|++ .++.+|++++|..-
T Consensus 229 ~G~~~l~~~~~eRiieelE~~c~kqi~~~l~~eeglgie~dedviCDvCrspD~e~~neMVfCd--~Cn~cVHqaCyGIl 306 (893)
T KOG0954|consen 229 MGSLELDEGTFERIIEELERRCKKQINHALETEEGLGIEYDEDVICDVCRSPDSEEANEMVFCD--KCNICVHQACYGIL 306 (893)
T ss_pred hCCcccchHHHHHHHHHHHHHHHHHHHhhhhhcccceeeccccceeceecCCCccccceeEEec--cchhHHHHhhhcee
Confidence 48999999999999999999875442111111111 11222334444 234453 57788999999975
Q ss_pred HHhhhhcCCCCcccccccccccCCCCeeeeccccCCCCcCCCccCC
Q 023306 210 KEKASVNDGRNLYCGVCSLRHQLMIPTHIMSSDRGRKLTDSTHEGC 255 (284)
Q Consensus 210 k~KR~~~gg~pL~~yvCfrRr~~~~pv~~~r~k~~~~~~~~~~~~~ 255 (284)
. ..+.|.+|..|... +.|| |-.|+|.|+.|+..+-+..
T Consensus 307 e-----~p~gpWlCr~Calg--~~pp-CvLCPkkGGamK~~~sgT~ 344 (893)
T KOG0954|consen 307 E-----VPEGPWLCRTCALG--IEPP-CVLCPKKGGAMKPTKSGTK 344 (893)
T ss_pred e-----cCCCCeeehhcccc--CCCC-eeeccccCCcccccCCCCe
Confidence 4 33458899999988 3333 9999999999998776553
No 5
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=97.51 E-value=9.8e-05 Score=73.59 Aligned_cols=97 Identities=24% Similarity=0.297 Sum_probs=67.6
Q ss_pred CCCccCCCChhhHHHHHHHhcCC--CCCCHHHHHHHHHHhhcccHHHhhhhcC----CCCCCCCCCCccCCHHHHHHHHh
Q 023306 119 GDFVEYDLDNEDEDWLDEFNRDQ--KLLPPEKFETLMFKLEVLDHKARERAGL----ITPTLGSPIPILLQLGVAIEALK 192 (284)
Q Consensus 119 ~~~veYDMDeeDe~WL~~~N~~r--~~lsed~FE~imd~fEk~~~~~q~r~g~----~~P~l~~d~~~ils~~ea~~~l~ 192 (284)
...|.||||+-|+.||.=+|+.. .++|++-||++|++||++++.-- +|+ +.|.-..| +++++-..+.
T Consensus 128 ~f~v~YdlDe~D~m~l~Ylne~~~~e~vS~e~fEii~t~lE~EWf~~e--~~lp~k~vepi~~~d-----~~d~~C~~c~ 200 (669)
T COG5141 128 FFSVIYDLDEYDTMWLRYLNESAIDENVSEEAFEIIVTRLEKEWFFFE--HGLPDKHVEPIEPSD-----EFDDICTKCT 200 (669)
T ss_pred cCceeecccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHhhh--ccCccccccccCCch-----hhhhhhHhcc
Confidence 35689999999999999999754 57999999999999999998753 233 11322222 3555544433
Q ss_pred hh-----------cccCchhHHHHHH-------HHHHhhhhcCCCCcc
Q 023306 193 DQ-----------TTVGYAVFQSVYH-------YWKEKASVNDGRNLY 222 (284)
Q Consensus 193 ~~-----------~~~~~~~~~~VY~-------YWk~KR~~~gg~pL~ 222 (284)
+. +++.-+|++.+|+ .|.-||=--|...+.
T Consensus 201 ~t~~eN~naiVfCdgC~i~VHq~CYGI~f~peG~WlCrkCi~~~~~i~ 248 (669)
T COG5141 201 STHNENSNAIVFCDGCEICVHQSCYGIQFLPEGFWLCRKCIYGEYQIR 248 (669)
T ss_pred ccccCCcceEEEecCcchhhhhhcccceecCcchhhhhhhccccccee
Confidence 32 1444568889986 899998766655553
No 6
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=97.41 E-value=5.9e-05 Score=81.39 Aligned_cols=137 Identities=22% Similarity=0.214 Sum_probs=89.5
Q ss_pred CCCCCCccEEeecch-hccCCCccCCCChhhHHHHHHHhcCC-----CCCCHHHHHHHHHHhhcccHHHhhhhcCCCCCC
Q 023306 101 TFDQPTSYLRARGAR-AELGDFVEYDLDNEDEDWLDEFNRDQ-----KLLPPEKFETLMFKLEVLDHKARERAGLITPTL 174 (284)
Q Consensus 101 ~F~~P~sYIr~s~t~-~Ed~~~veYDMDeeDe~WL~~~N~~r-----~~lsed~FE~imd~fEk~~~~~q~r~g~~~P~l 174 (284)
.-..|..|.++..+. +.....++||||++|..||..+|..+ ..++.+.||.+||++||+++++..-.|...+ +
T Consensus 136 ~~~~p~~~~~~~~~~~~~~~~e~~y~~de~d~~wl~~~n~~~~~~~~~~v~~~~~~~~~dr~eke~~f~~~e~~~~~~-~ 214 (1051)
T KOG0955|consen 136 APPRPNFYYDEIEKSKETLDEEVEYDLDEEDYSWLDIMNELRTRNGVFDVSIDTFELLVDRLEKESYFKNYELGDPKD-A 214 (1051)
T ss_pred CCCCCCcchhhhccchhhhccccccchHHHHHHHHhhhhHHHhhcCCccccccchhhhhhhHHHHHHhhhhhccCCCc-c
Confidence 345677777776663 35678899999999999999998743 4889999999999999999998644555443 2
Q ss_pred CCCCCccCCHHHHHHHHhhh-----------cccCchhHHHHHHHHHHhhhhcCCCCcccccccccccCCCCeeeecccc
Q 023306 175 GSPIPILLQLGVAIEALKDQ-----------TTVGYAVFQSVYHYWKEKASVNDGRNLYCGVCSLRHQLMIPTHIMSSDR 243 (284)
Q Consensus 175 ~~d~~~ils~~ea~~~l~~~-----------~~~~~~~~~~VY~YWk~KR~~~gg~pL~~yvCfrRr~~~~pv~~~r~k~ 243 (284)
..+ .+.+-.++.+. +.++.++|+.+|+ -+=..-|+| +|.-|+.--.-+ --|.+|+..
T Consensus 215 ~~~------~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg---i~~ipeg~W--lCr~Cl~s~~~~-v~c~~cp~~ 282 (1051)
T KOG0955|consen 215 LLE------EDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYG---IPFIPEGQW--LCRRCLQSPQRP-VRCLLCPSK 282 (1051)
T ss_pred ccC------CCccceeecccccCCCceEEEcCCCcchhhhhccC---CCCCCCCcE--eehhhccCcCcc-cceEeccCC
Confidence 222 22222222221 2566789999998 222333333 455555433322 348889888
Q ss_pred CCCCcCC
Q 023306 244 GRKLTDS 250 (284)
Q Consensus 244 ~~~~~~~ 250 (284)
++++-.-
T Consensus 283 ~gAFkqt 289 (1051)
T KOG0955|consen 283 GGAFKQT 289 (1051)
T ss_pred CCcceec
Confidence 8875443
No 7
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=91.28 E-value=0.18 Score=53.03 Aligned_cols=38 Identities=21% Similarity=0.279 Sum_probs=26.8
Q ss_pred CCHHHHHHHHhhhcccCchhHHHHHHHHHHhhhhcCCCCccc
Q 023306 182 LQLGVAIEALKDQTTVGYAVFQSVYHYWKEKASVNDGRNLYC 223 (284)
Q Consensus 182 ls~~ea~~~l~~~~~~~~~~~~~VY~YWk~KR~~~gg~pL~~ 223 (284)
..+++..+.|. . ...++-+||+||+.||+.++++||+|
T Consensus 487 v~~~diae~l~-~---~e~~vs~iynywklkrks~~n~~lip 524 (893)
T KOG0954|consen 487 VRNEDIAELLS-M---PEFAVSAIYNYWKLKRKSRFNKELIP 524 (893)
T ss_pred hhHHHHHHHhc-C---chHHHHHHHHHHHHhhhccCCCcCCC
Confidence 34445444444 1 13455599999999999999999975
No 8
>PF14164 YqzH: YqzH-like protein
Probab=55.66 E-value=24 Score=26.40 Aligned_cols=22 Identities=18% Similarity=0.202 Sum_probs=17.4
Q ss_pred CCCCCHHHHHHHHHHhhcccHH
Q 023306 141 QKLLPPEKFETLMFKLEVLDHK 162 (284)
Q Consensus 141 r~~lsed~FE~imd~fEk~~~~ 162 (284)
..+||+++|+.++..+....+.
T Consensus 23 ~~pls~~E~~~L~~~i~~~~~~ 44 (64)
T PF14164_consen 23 CMPLSDEEWEELCKHIQERKNE 44 (64)
T ss_pred CCCCCHHHHHHHHHHHHHHHhc
Confidence 4699999999999888765433
No 9
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=41.33 E-value=1.1e+02 Score=20.93 Aligned_cols=51 Identities=10% Similarity=0.016 Sum_probs=35.5
Q ss_pred CCCCCHHHHHHHHHHhhcccHHHhhhhcCCCCCCCCCCCccCCHHHHHHHHhhhcccCchhHHHHHHHHHHhhhh
Q 023306 141 QKLLPPEKFETLMFKLEVLDHKARERAGLITPTLGSPIPILLQLGVAIEALKDQTTVGYAVFQSVYHYWKEKASV 215 (284)
Q Consensus 141 r~~lsed~FE~imd~fEk~~~~~q~r~g~~~P~l~~d~~~ils~~ea~~~l~~~~~~~~~~~~~VY~YWk~KR~~ 215 (284)
+..+|.++.+.|...|+.. +-++.++...+...+ ..-...|..+..++|.+
T Consensus 4 r~~~t~~q~~~L~~~f~~~--------------------~~p~~~~~~~la~~l----~l~~~~V~~WF~nrR~k 54 (57)
T PF00046_consen 4 RTRFTKEQLKVLEEYFQEN--------------------PYPSKEEREELAKEL----GLTERQVKNWFQNRRRK 54 (57)
T ss_dssp SSSSSHHHHHHHHHHHHHS--------------------SSCHHHHHHHHHHHH----TSSHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHh--------------------ccccccccccccccc----cccccccccCHHHhHHH
Confidence 4678999999999999862 345666666666654 22234788888888865
No 10
>COG2896 MoaA Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]
Probab=34.23 E-value=29 Score=33.59 Aligned_cols=52 Identities=21% Similarity=0.327 Sum_probs=35.8
Q ss_pred CCCCCCCccEEeecchhccCCCccCCCChhhHHHHHHHhcCCCCCCHHHHHHHHHHh
Q 023306 100 QTFDQPTSYLRARGARAELGDFVEYDLDNEDEDWLDEFNRDQKLLPPEKFETLMFKL 156 (284)
Q Consensus 100 ~~F~~P~sYIr~s~t~~Ed~~~veYDMDeeDe~WL~~~N~~r~~lsed~FE~imd~f 156 (284)
..|.+|-+|+|.|-|. .=.-.|-|+|-+.+..|+.. ..-||.++.+.+++.|
T Consensus 4 D~~gR~~~~LRiSvTd-rCNfrC~YCm~eg~~~~~~~----~~~Ls~eei~~~~~~~ 55 (322)
T COG2896 4 DRFGRPVRYLRISVTD-RCNFRCTYCMPEGPLAFLPK----EELLSLEEIRRLVRAF 55 (322)
T ss_pred cccCCEeceEEEEEec-CcCCcccccCCCCCcccCcc----cccCCHHHHHHHHHHH
Confidence 3589999999999774 22256899999997777763 1245555555555544
No 11
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=32.83 E-value=85 Score=27.16 Aligned_cols=53 Identities=21% Similarity=0.296 Sum_probs=35.3
Q ss_pred CCCCCHHHHHHHHHHhhcccHHHhhhhcCCCCCCCCCCCccCCHHHH----HHHHhhhcccCchhHHHHHH
Q 023306 141 QKLLPPEKFETLMFKLEVLDHKARERAGLITPTLGSPIPILLQLGVA----IEALKDQTTVGYAVFQSVYH 207 (284)
Q Consensus 141 r~~lsed~FE~imd~fEk~~~~~q~r~g~~~P~l~~d~~~ils~~ea----~~~l~~~~~~~~~~~~~VY~ 207 (284)
+.++|.++.|.+++.+|...... | ...++-.+. .+.|.+++.+-+-.|+.||-
T Consensus 76 KRpVs~e~ie~~v~~Ie~~l~~~----~----------~~EI~S~~IGe~Vm~~L~~lD~VAYVRFASVYr 132 (147)
T TIGR00244 76 KRPVSFDDLEHAINHIEAQLRAQ----G----------EREVPSELIGQMVMQYLKKLDEVAYIRFASVYR 132 (147)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHc----C----------CCcccHHHHHHHHHHHHhhcCcchhhhhhhhcC
Confidence 46899999999999999876443 2 123333332 34455555555677889984
No 12
>PF12959 DUF3848: Protein of unknown function (DUF3848); InterPro: IPR024380 This domain is found in a family of uncharacterised proteins found by clustering human gut metagenomic sequences[].
Probab=32.62 E-value=48 Score=26.96 Aligned_cols=26 Identities=27% Similarity=0.401 Sum_probs=18.1
Q ss_pred CCHHHHHHHHhhhcccCchhHHHHHHHHHHh
Q 023306 182 LQLGVAIEALKDQTTVGYAVFQSVYHYWKEK 212 (284)
Q Consensus 182 ls~~ea~~~l~~~~~~~~~~~~~VY~YWk~K 212 (284)
+|-.+|..+|+. +..+++||.+|..+
T Consensus 51 l~~~qa~ALl~s-----p~PL~~iY~~w~~~ 76 (101)
T PF12959_consen 51 LPDQQAKALLKS-----PSPLADIYREWEKK 76 (101)
T ss_pred CCHHHHHHHHcC-----CChHHHHHHHHHhc
Confidence 444555555552 66788999999965
No 13
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=30.91 E-value=38 Score=27.93 Aligned_cols=20 Identities=10% Similarity=0.328 Sum_probs=14.8
Q ss_pred hHHHHHHHHHHhhhhcCCCCc
Q 023306 201 VFQSVYHYWKEKASVNDGRNL 221 (284)
Q Consensus 201 ~~~~VY~YWk~KR~~~gg~pL 221 (284)
...++|+||.++|...+ -|.
T Consensus 5 ~~~~l~~yW~~~r~~~~-~P~ 24 (137)
T PF07310_consen 5 SLRALLAYWRSLRGGRG-MPS 24 (137)
T ss_pred HHHHHHHHHHHhcCCCC-CCc
Confidence 45689999999987643 354
No 14
>COG4043 Preprotein translocase subunit Sec61beta [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.49 E-value=50 Score=27.02 Aligned_cols=44 Identities=18% Similarity=0.184 Sum_probs=28.5
Q ss_pred CHHHHHHHHHHhhcccHHHhhhhcCCCCCCCCCCCccCCHHHHHHHHhhhcccCchhHHHHHHHHHHhhhh
Q 023306 145 PPEKFETLMFKLEVLDHKARERAGLITPTLGSPIPILLQLGVAIEALKDQTTVGYAVFQSVYHYWKEKASV 215 (284)
Q Consensus 145 sed~FE~imd~fEk~~~~~q~r~g~~~P~l~~d~~~ils~~ea~~~l~~~~~~~~~~~~~VY~YWk~KR~~ 215 (284)
+-+.|+.|+ ++. |+-.++ +.+.|++++.... ..+|+-|+.+|--
T Consensus 56 ~Y~tF~~ml---ree------------piE~v~-p~~~S~ee~l~~~-----------~~~Y~~~kE~~yG 99 (111)
T COG4043 56 VYDTFEEML---REE------------PIENVL-PDVPSFEEGLRRY-----------RNFYPSEKEKRYG 99 (111)
T ss_pred ehhHHHHHH---Hhc------------ChhhhC-CCCccHHHHHHHH-----------HHhCcHhHhhccc
Confidence 457788876 333 333333 3578899885444 4789999988753
No 15
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=30.39 E-value=1.2e+02 Score=25.00 Aligned_cols=15 Identities=20% Similarity=0.417 Sum_probs=12.5
Q ss_pred CCChhhHHHHHHHhc
Q 023306 125 DLDNEDEDWLDEFNR 139 (284)
Q Consensus 125 DMDeeDe~WL~~~N~ 139 (284)
.|+.||-+|+..|=.
T Consensus 33 ~L~~E~~~Fi~~Fi~ 47 (113)
T PF09862_consen 33 RLSPEQLEFIKLFIK 47 (113)
T ss_pred cCCHHHHHHHHHHHH
Confidence 489999999998843
No 16
>PF06252 DUF1018: Protein of unknown function (DUF1018); InterPro: IPR009363 This family consists of several bacterial and phage proteins, related to Gp16 of phage Mu, of unknown function.
Probab=26.94 E-value=68 Score=25.97 Aligned_cols=36 Identities=22% Similarity=0.314 Sum_probs=27.1
Q ss_pred CChhhHH-HHHHHhcC--CCCCCHHHHHHHHHHhhcccH
Q 023306 126 LDNEDED-WLDEFNRD--QKLLPPEKFETLMFKLEVLDH 161 (284)
Q Consensus 126 MDeeDe~-WL~~~N~~--r~~lsed~FE~imd~fEk~~~ 161 (284)
||+|+.. +|....++ ...||..+++.+|+.|+..-+
T Consensus 1 lddd~YR~~L~~~~Gk~S~k~lt~~el~~vl~~l~~~G~ 39 (119)
T PF06252_consen 1 LDDDTYRALLQRVTGKSSSKDLTEAELEKVLDELKRLGF 39 (119)
T ss_pred CCHHHHHHHHHHHhChhhHHHCCHHHHHHHHHHHHHccC
Confidence 6777755 66665443 369999999999999998644
No 17
>PF10176 DUF2370: Protein of unknown function (DUF2370); InterPro: IPR019325 Proteins in this family are conserved from fungi to humans. They include the human NEDD4 family-interacting proteins and the yeast BSD2 metal homeostatis proteins.
Probab=25.46 E-value=44 Score=30.97 Aligned_cols=16 Identities=25% Similarity=0.625 Sum_probs=14.0
Q ss_pred hHHHHHHHHHHhhhhc
Q 023306 201 VFQSVYHYWKEKASVN 216 (284)
Q Consensus 201 ~~~~VY~YWk~KR~~~ 216 (284)
++.+|++||+-||.++
T Consensus 208 ~irsi~dY~rVKR~Er 223 (233)
T PF10176_consen 208 FIRSIIDYWRVKRMER 223 (233)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5669999999999886
No 18
>cd03519 Link_domain_HAPLN_module_2 Link_domain_HAPLN_module_2; this link domain is found in the second link module of proteins similar to the vertebrate HAPLN (hyaluronan/HA and proteoglycan binding link) protein family which includes cartilage link protein. The link domain is a HA-binding domain. HAPLNs contain two contiguous link modules. Both link modules of cartilage link protein are involved in interaction with HA. In cartilage, a chondroitin sulfate proteoglycan core protein (CSPG) aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggregates with other CSPGs substituting for aggregan may contribute to the structural integrity of many different tissues. Members of the vertebrate HAPLN gene family are physically linked adjacent to CSPG genes.
Probab=25.00 E-value=98 Score=24.69 Aligned_cols=61 Identities=16% Similarity=0.148 Sum_probs=38.2
Q ss_pred CccCCHHHHHHHHhhhcccCchhHHHHHHHHHHhhhhcCCCCcccccccccccCCCCeeeeccccCC
Q 023306 179 PILLQLGVAIEALKDQTTVGYAVFQSVYHYWKEKASVNDGRNLYCGVCSLRHQLMIPTHIMSSDRGR 245 (284)
Q Consensus 179 ~~ils~~ea~~~l~~~~~~~~~~~~~VY~YWk~KR~~~gg~pL~~yvCfrRr~~~~pv~~~r~k~~~ 245 (284)
+.-|+|+||+.++.+. +.......++|.=|+- . |--.=.+=++--.-++.|+..||++=++
T Consensus 8 ~~~l~f~eA~~aC~~~-ga~lAs~~QL~aAw~~----~-Gld~C~aGWL~DgsvryPi~~Pr~~CGg 68 (91)
T cd03519 8 PGKLTFSEAVAACQRD-GAQIAKVGQLFAAWKF----H-GLDRCDAGWLADGSVRYPISRPRPRCGP 68 (91)
T ss_pred ccccCHHHHHHHHHHc-CCEeCCHHHHHHHHHh----C-CCcccCcccCcCCCEecccccCcccCCC
Confidence 3579999999999987 5567778899999971 0 2111001112333356677777766554
No 19
>cd03515 Link_domain_TSG_6_like This is the extracellular link domain of the type found in human TSG-6. The link domain is a hyaluronan (HA)-binding domain. TSG-6 is the protein product of tumor necrosis factor-stimulated gene-6. TSG-6 is up-regulated in inflammatory lesions and in the ovary during ovulation. It has a strong anti-inflammatory and chondroprotective effect in models of acute inflammation and autoimmune arthritis and plays an essential role in female fertility. Also included in this group are the stabilins: stabilin-1 (FEEL-1, CLEVER-1) and stabilin-2 (FEEL-2). Stabilin-2 functions as the major liver and lymph node-scavenging receptor for HA and related glycosaminoglycans. Stabilin-2 is a scavenger receptor with a broad range of ligands including advanced glycation end (AGE) products, acetylated low density lipoprotein and procollagen peptides. In contrast, stabilin-1 does not bind HA, but binds acetylated low density lipoprotein and AGEs with lower affinity. As AGEs accum
Probab=24.63 E-value=92 Score=24.89 Aligned_cols=57 Identities=16% Similarity=0.092 Sum_probs=36.7
Q ss_pred cCCHHHHHHHHhhhcccCchhHHHHHHHHHHhhhhcCCCCcccccccccccCCCCeeeeccccC
Q 023306 181 LLQLGVAIEALKDQTTVGYAVFQSVYHYWKEKASVNDGRNLYCGVCSLRHQLMIPTHIMSSDRG 244 (284)
Q Consensus 181 ils~~ea~~~l~~~~~~~~~~~~~VY~YWk~KR~~~gg~pL~~yvCfrRr~~~~pv~~~r~k~~ 244 (284)
-++|+||+.++.+. +.......++|.=|+ .|--.=.+=++--.-+..|+..||+.=+
T Consensus 13 ~l~f~eA~~aC~~~-ga~lAs~~QL~~Aw~------~G~d~C~~GWL~DgsvryPi~~pr~~Cg 69 (93)
T cd03515 13 KLTYTEAKAACEAE-GAHLATYSQLSAAQQ------LGFHLCAAGWLAKGRVGYPIVFPSANCG 69 (93)
T ss_pred ccCHHHHHHHHHHc-CCccCCHHHHHHHHH------cCccccCcccccCCeEEcccccCccccC
Confidence 69999999999987 556777889999998 2322200111222334556666666555
No 20
>smart00445 LINK Link (Hyaluronan-binding).
Probab=23.98 E-value=87 Score=25.03 Aligned_cols=30 Identities=27% Similarity=0.371 Sum_probs=26.0
Q ss_pred ccCCHHHHHHHHhhhcccCchhHHHHHHHHH
Q 023306 180 ILLQLGVAIEALKDQTTVGYAVFQSVYHYWK 210 (284)
Q Consensus 180 ~ils~~ea~~~l~~~~~~~~~~~~~VY~YWk 210 (284)
.-|+|+||+.++.+. +....-..++|.=|+
T Consensus 13 y~l~f~eA~~aC~~~-ga~lAs~~QL~~Aw~ 42 (94)
T smart00445 13 YKLTFAEAREACRAQ-GATLATVGQLYAAWQ 42 (94)
T ss_pred CccCHHHHHHHHHHc-CCEeCCHHHHHHHHH
Confidence 569999999999987 556777889999998
No 21
>cd03517 Link_domain_CSPGs_modules_1_3 Link_domain_CSPGs_modules_1_3; this extracellular link domain is found in the first and third link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan. In addition, it is found in the first link module of three other CSPGs: versican, neurocan, and brevican. The link domain is a hyaluronan (HA)-binding domain. CSPGs are characterized by an N-terminal globular domain (G1 domain) containing two contiguous link modules (modules 1 and 2). Both link modules of the G1 domain of aggrecan are involved in interaction with HA. In addition, aggrecan contains a second globular domain (G2) which contains link modules 3 and 4. G2 appears to lack HA-binding activity. In cartilage, aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggregates having other CSPGs substituting for aggrecan may contribute to the structural integrity of many different tissues.
Probab=23.55 E-value=83 Score=25.21 Aligned_cols=29 Identities=17% Similarity=0.096 Sum_probs=25.3
Q ss_pred cCCHHHHHHHHhhhcccCchhHHHHHHHHH
Q 023306 181 LLQLGVAIEALKDQTTVGYAVFQSVYHYWK 210 (284)
Q Consensus 181 ils~~ea~~~l~~~~~~~~~~~~~VY~YWk 210 (284)
.|+|+||+.++.+. +.......++|.-|+
T Consensus 13 ~l~f~eA~~aC~~~-ga~lAs~~QL~~Aw~ 41 (95)
T cd03517 13 ALTFPRAQRACLDI-SAQIATPEQLLAAYE 41 (95)
T ss_pred eECHHHHHHHHHHc-CCEeCCHHHHHHHHH
Confidence 68999999999987 556777889999999
No 22
>PRK14066 exodeoxyribonuclease VII small subunit; Provisional
Probab=21.85 E-value=2.9e+02 Score=20.99 Aligned_cols=35 Identities=34% Similarity=0.357 Sum_probs=24.3
Q ss_pred CHHHHHHHHHHhhcccHHHhhhhcCCCCCCCCCCCccCCHHHHHHHHhh
Q 023306 145 PPEKFETLMFKLEVLDHKARERAGLITPTLGSPIPILLQLGVAIEALKD 193 (284)
Q Consensus 145 sed~FE~imd~fEk~~~~~q~r~g~~~P~l~~d~~~ils~~ea~~~l~~ 193 (284)
++..||..|.+||.....-. +.-++++++..++..
T Consensus 2 ~~~~fEeal~~LE~IV~~LE--------------~g~l~Leesl~lyee 36 (75)
T PRK14066 2 AVEKFETALKKLEEVVKKLE--------------GGELSLDDSLKAFEE 36 (75)
T ss_pred ccccHHHHHHHHHHHHHHHH--------------CCCCCHHHHHHHHHH
Confidence 34569999999998764331 235788888777765
No 23
>cd03520 Link_domain_CSPGs_modules_2_4 Link_domain_CSPGs_modules_2_4; this link domain is found in the second and fourth link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan and, in the second link module of three other CSPGs: versican, neurocan, and brevican. The link domain is a hyaluronan (HA)-binding domain. CSPGs are characterized by an N-terminal globular domain (G1 domain) containing two contiguous link modules (modules 1 and 2). Both link modules of the G1 domain of aggrecan are involved in interaction with HA. Aggrecan in addition contains a second globular domain (G2) having link modules 3 and 4 which lack HA-binding activity. In cartilage, aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggregates having other CSPGs substituting for aggregan may contribute to the structural integrity of many different tissues. Members of the vertebrate HPLN (hyaluronan/HA and
Probab=21.68 E-value=1.3e+02 Score=24.28 Aligned_cols=59 Identities=12% Similarity=0.082 Sum_probs=38.1
Q ss_pred ccCCHHHHHHHHhhhcccCchhHHHHHHHHHHhhhhcCCCCcccccccccccCCCCeeeeccccCC
Q 023306 180 ILLQLGVAIEALKDQTTVGYAVFQSVYHYWKEKASVNDGRNLYCGVCSLRHQLMIPTHIMSSDRGR 245 (284)
Q Consensus 180 ~ils~~ea~~~l~~~~~~~~~~~~~VY~YWk~KR~~~gg~pL~~yvCfrRr~~~~pv~~~r~k~~~ 245 (284)
.-++|+||..++.+. +....-..++|.=|+ .|--.=.+=++--.-++.|+-.||+.=++
T Consensus 9 ~~l~f~eA~~aC~~~-ga~lAs~~QL~~Aw~------~Gld~C~~GWL~DgsvryPi~~pr~~Cgg 67 (96)
T cd03520 9 EKFTFQEARAECRSL-GAVLATTGQLYAAWR------QGLDQCDPGWLADGSVRYPISTPRPQCGG 67 (96)
T ss_pred CCcCHHHHHHHHHHc-CCEeCCHHHHHHHHH------hccccccCccccccceeccccCCcccCCC
Confidence 469999999999987 555777889999998 23222001112233355677777766554
No 24
>cd03518 Link_domain_HAPLN_module_1 Link_domain_HAPLN_module_1; this link domain is found in the first link module of proteins similar to the vertebrate HAPLN (hyaluronan/HA and proteoglycan binding link) protein family which includes cartilage link protein. The link domain is a HA-binding domain. HAPLNs contain two contiguous link modules. Both link modules of cartilage link protein are involved in interaction with HA. In cartilage, a chondroitin sulfate proteoglycan core protein (CSPG) aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggregates with other CSPGs substituting for aggregan may contribute to the structural integrity of many different tissues. Members of the vertebrate HAPLN gene family are physically linked adjacent to CSPG genes.
Probab=21.44 E-value=1.1e+02 Score=24.61 Aligned_cols=60 Identities=20% Similarity=0.259 Sum_probs=39.2
Q ss_pred ccCCHHHHHHHHhhhcccCchhHHHHHHHHHHhhhhcCCCCcccccccccccCCCCeeeeccccCCC
Q 023306 180 ILLQLGVAIEALKDQTTVGYAVFQSVYHYWKEKASVNDGRNLYCGVCSLRHQLMIPTHIMSSDRGRK 246 (284)
Q Consensus 180 ~ils~~ea~~~l~~~~~~~~~~~~~VY~YWk~KR~~~gg~pL~~yvCfrRr~~~~pv~~~r~k~~~~ 246 (284)
--|+|.||.+++.+. +.......++|.=|+ .|--.=.+=++--.-+..|+..||+.=++.
T Consensus 12 Y~l~f~eA~~aC~~~-ga~lAs~~QL~~Aw~------~Gld~C~~GWL~DgsvryPi~~pr~~Cgg~ 71 (95)
T cd03518 12 YNLNFHEAQQACEEQ-DATLASFEQLYQAWT------EGLDWCNAGWLSDGTVQYPITKPREPCGGK 71 (95)
T ss_pred cccCHHHHHHHHHHc-CCeeCCHHHHHHHHH------cCccccCcccccCCCEEcccccCccccCCC
Confidence 368999999999987 556777889999998 342220011122333566777777666643
No 25
>cd01102 Link_Domain The link domain is a hyaluronan (HA)-binding domain. It functions to mediate adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It is found in the CD44 receptor and in human TSG-6. TSG-6 is the protein product of the tumor necrosis factor-stimulated gene-6. TSG-6 has a strong anti-inflammatory effect in models of acute inflammation and autoimmune arthritis and plays an essential role in female fertility. This group also contains the link domains of the chondroitin sulfate proteoglycan core proteins (CSPG) including aggrecan, versican, neurocan, and brevican and the link domains of the vertebrate HAPLN (HA and proteoglycan binding link) protein family. In cartilage, aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggregates in which other CSPGs substitute for aggregan might contribute to the structural integrity of many different tissues. Members of
Probab=20.16 E-value=1.2e+02 Score=24.21 Aligned_cols=31 Identities=19% Similarity=0.133 Sum_probs=26.4
Q ss_pred CccCCHHHHHHHHhhhcccCchhHHHHHHHHH
Q 023306 179 PILLQLGVAIEALKDQTTVGYAVFQSVYHYWK 210 (284)
Q Consensus 179 ~~ils~~ea~~~l~~~~~~~~~~~~~VY~YWk 210 (284)
..-|+|+||..++.+. +....-..++|.=|+
T Consensus 11 ~y~l~f~eA~~aC~~~-ga~lAs~~QL~~Aw~ 41 (92)
T cd01102 11 RYKLTFAEAALACKAR-GAHLATPGQLEAAWQ 41 (92)
T ss_pred CcccCHHHHHHHHHHc-CCEeCCHHHHHHHHH
Confidence 3579999999999987 556777889999998
Done!