Query psy3671
Match_columns 266
No_of_seqs 203 out of 654
Neff 5.6
Searched_HMMs 46136
Date Fri Aug 16 22:39:29 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3671.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3671hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4408|consensus 100.0 1.3E-73 2.9E-78 528.4 15.9 255 12-266 63-347 (386)
2 PRK05461 apaG CO2+/MG2+ efflux 100.0 4.9E-38 1.1E-42 259.4 12.1 96 170-266 2-97 (127)
3 COG2967 ApaG Uncharacterized p 100.0 4.5E-37 9.7E-42 248.1 10.4 95 171-266 2-96 (126)
4 PF04379 DUF525: Protein of un 100.0 6.5E-33 1.4E-37 216.6 8.4 80 186-266 1-80 (90)
5 PRK14129 heat shock protein Hs 99.9 8.5E-28 1.8E-32 190.1 6.8 90 13-139 3-93 (105)
6 COG3785 Uncharacterized conser 99.9 1.4E-26 2.9E-31 183.3 4.3 95 13-144 12-107 (116)
7 TIGR02097 yccV hemimethylated 99.9 1.2E-25 2.6E-30 178.9 5.8 96 13-143 1-96 (101)
8 PF08755 YccV-like: Hemimethyl 99.9 4.9E-25 1.1E-29 175.0 4.6 95 13-143 1-95 (100)
9 PF14263 DUF4354: Domain of un 86.4 3 6.6E-05 34.7 6.8 76 170-248 20-98 (124)
10 PF11611 DUF4352: Domain of un 78.4 12 0.00026 29.2 7.3 76 173-248 8-91 (123)
11 cd05834 HDGF_related The PWWP 74.7 2.8 6.2E-05 32.1 2.6 26 14-44 1-26 (83)
12 smart00293 PWWP domain with co 70.2 3.8 8.3E-05 29.4 2.3 25 16-45 1-25 (63)
13 cd05836 N_Pac_NP60 The PWWP do 68.3 12 0.00026 28.8 4.8 24 16-44 1-24 (86)
14 cd05840 SPBC215_ISWI_like The 63.5 8 0.00017 30.3 3.0 25 16-45 1-25 (93)
15 cd05162 PWWP The PWWP domain, 63.1 11 0.00025 28.3 3.8 26 16-46 1-26 (87)
16 PF00855 PWWP: PWWP domain; I 61.0 5.5 0.00012 29.5 1.7 25 16-45 1-25 (86)
17 cd05835 Dnmt3b_related The PWW 48.9 15 0.00033 28.1 2.4 24 16-44 1-24 (87)
18 cd06080 MUM1_like Mutated mela 41.8 24 0.00051 27.1 2.4 24 16-44 1-24 (80)
19 PF06159 DUF974: Protein of un 39.5 73 0.0016 29.1 5.7 66 196-262 134-210 (249)
20 KOG2804|consensus 34.4 17 0.00038 34.8 0.8 17 108-125 149-165 (348)
21 cd05837 MSH6_like The PWWP dom 34.2 37 0.00081 27.2 2.6 25 14-43 1-25 (110)
22 PF14016 DUF4232: Protein of u 30.5 2.2E+02 0.0049 22.8 6.7 68 172-248 1-72 (131)
23 cd05841 BS69_related The PWWP 25.1 70 0.0015 24.7 2.6 25 15-44 6-30 (83)
24 PF00932 LTD: Lamin Tail Domai 24.9 68 0.0015 24.9 2.6 21 203-225 28-48 (116)
25 PF12690 BsuPI: Intracellular 23.6 3.3E+02 0.0071 20.6 6.8 60 200-260 3-71 (82)
26 cd05838 WHSC1_related The PWWP 22.8 69 0.0015 24.9 2.2 23 17-44 2-24 (95)
27 PF13598 DUF4139: Domain of un 21.2 2.4E+02 0.0052 25.9 5.9 86 173-260 216-314 (317)
28 PF09181 ProRS-C_2: Prolyl-tRN 21.0 33 0.00071 25.5 0.0 17 28-44 24-40 (68)
No 1
>KOG4408|consensus
Probab=100.00 E-value=1.3e-73 Score=528.36 Aligned_cols=255 Identities=65% Similarity=1.059 Sum_probs=235.0
Q ss_pred CCCccCCCceEEecccCcceEEEcCccceeeecCCCCCCCC----------CCCcCCC-------------CCccccCCC
Q psy3671 12 VQGKYSTGQLFLHRVFGYRGIVLFPWLARVYDRDIPNKRDK----------PSDVNGS-------------VGKEVKSKT 68 (266)
Q Consensus 12 ~~~ky~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~d~~~~~~~----------~~~~~~~-------------~~~~~~~~~ 68 (266)
...||+.||.|+|+.|||||||+|||+|+++|+|..++..+ +-....+ ..++++|++
T Consensus 63 ~~~~~etgqsF~h~~f~yvgvv~~~w~arlk~wd~ln~~~~~aal~ega~e~dl~a~e~s~~~kLp~~~r~~yrev~Gq~ 142 (386)
T KOG4408|consen 63 KTQKYETGQSFLHDTFGYVGVVLFPWAARLKDWDDLNKYLEPAALKEGAREPDLDAVEASIGCKLPDDYRCSYREVKGQT 142 (386)
T ss_pred cCCcccccceeeeeecccceEEEEechHhhhhhhhcccccccchhhccCcccchhhhhhcccccCCCccccchhhcCCeE
Confidence 36789999999999999999999999999999997763221 1110111 127789999
Q ss_pred CceEEEEeeCCCcchh--ccccceeeeeccCCCCCcc-ceecCceecccCCcccCCCCCCCcccchhhhhh--hccCCCC
Q psy3671 69 HTFYQVLIDSRDCPYI--RAQTEAVTFLGNQNSNKSL-YAIPGLDYVAHEDILPYSCSHEQPLHHELFDKF--LVHMPDK 143 (266)
Q Consensus 69 q~fYqvLvD~rD~~~~--~~q~~~vt~l~~~~~~~~l-y~i~g~DyV~~~di~py~s~~~~pi~H~l~~~f--f~~~~~~ 143 (266)
++|||||+|.+||+|+ +.|+|+++++||.++...| |+|||||||+|+||+||++++..|++|+||++| +..++.+
T Consensus 143 l~~yqvLi~~~d~sH~~~ev~~e~~t~~~nf~~r~~L~y~ipgld~v~hedilpyts~e~~~g~heLf~~~pdl~r~~~~ 222 (386)
T KOG4408|consen 143 LTFYQVLIDMRDCSHIRSEVQTEAVTFLGNFDSRQGLKYAIPGLDYVSHEDILPYTSSEAVPGQHELFDQFPDLARDPAA 222 (386)
T ss_pred EeehheeeecccCccccchhhhhhhhhhcCcccccchheecccceeEeeccccccccccccccchhhhhhhhhhhcCccc
Confidence 9999999999999999 7999999999998776666 999999999999999999999999999999999 6677778
Q ss_pred CCCccchhHHHHHHh-ccCCccccccceeeccCCeEEEEEeEEecCcCCCCCcceeEEEEEEEEE-CCcccEEEeeeeEE
Q psy3671 144 DPPFVAQQTLRTWQR-KNHPWLELSDVHKETTENVRVTVIPFYMGCRDSPTSSVYWWRYCIRLEN-LGELTVQLRERHWR 221 (266)
Q Consensus 144 ~~~~v~~etL~~w~e-~~~~~l~~~~~~~~tT~gI~V~V~~~y~~~~s~~~~~~y~f~Y~IrIeN-~~~~~vQL~~RhW~ 221 (266)
.++|+.+++|..|+| +|++||.+++++++||+||+|+|+|+|||++|....+.|||+|+||||| +...+|||.+|||+
T Consensus 223 ~~~f~~q~tl~~W~e~kn~gwl~~~dVh~etTenI~Vtvstfylge~s~~~pp~YwwrY~IRien~l~e~svQLreRhWr 302 (386)
T KOG4408|consen 223 IPPFVIQDTLTAWQESKNHGWLPIRDVHRETTENIRVTVSTFYLGERSSVHPPVYWWRYCIRIENALPEKSVQLRERHWR 302 (386)
T ss_pred CCchhhhHHHHHHHhcCCCCCcChhhCChhhcCCeEEEEEEeeecccccCCCCceEEEEEEEeecCCCCcceEEeEeeEE
Confidence 899999999999999 9999999999999999999999999999999999999999999999999 88999999999999
Q ss_pred EEeCCCcEEEEecCCccCCCceeeCCCCceEEeeceEecCCceeC
Q psy3671 222 IFSLSGTLETVRGRGVVGQEPVLSKSLPAFQYSSHVSLQAPSGHM 266 (266)
Q Consensus 222 I~d~~G~~~~V~G~GVVG~~P~L~pge~~F~Y~S~~~l~t~~G~M 266 (266)
|++.+|.+++|+|+||||++|+|.||+|+|||+||++|+|++|+|
T Consensus 303 I~slng~le~V~G~gVVGk~PiLs~g~paFqYsSc~sl~ttsGhM 347 (386)
T KOG4408|consen 303 IFSLNGTLETVRGRGVVGKEPILSAGRPAFQYSSCVSLQTTSGHM 347 (386)
T ss_pred EEecccchhhccccceeccccccCCCCcceEEeeeeeeccCCccc
Confidence 999999999999999999999999999999999999999999999
No 2
>PRK05461 apaG CO2+/MG2+ efflux protein ApaG; Reviewed
Probab=100.00 E-value=4.9e-38 Score=259.44 Aligned_cols=96 Identities=41% Similarity=0.730 Sum_probs=94.4
Q ss_pred eeeccCCeEEEEEeEEecCcCCCCCcceeEEEEEEEEECCcccEEEeeeeEEEEeCCCcEEEEecCCccCCCceeeCCCC
Q psy3671 170 HKETTENVRVTVIPFYMGCRDSPTSSVYWWRYCIRLENLGELTVQLRERHWRIFSLSGTLETVRGRGVVGQEPVLSKSLP 249 (266)
Q Consensus 170 ~~~tT~gI~V~V~~~y~~~~s~~~~~~y~f~Y~IrIeN~~~~~vQL~~RhW~I~d~~G~~~~V~G~GVVG~~P~L~pge~ 249 (266)
++++|+||+|+|.|.|+|++|+|.+++|+|+|+|||+|.++.+|||++|||+|+|++|++++|+|+||||+||+|.||+
T Consensus 2 ~~~~t~gI~V~V~~~y~~e~S~p~~~~y~f~Y~ItI~N~~~~~vQL~~R~W~I~d~~g~~~~V~G~GVVG~qP~L~PGe- 80 (127)
T PRK05461 2 YSAVTYGIEVSVQPRYLEEQSDPEEGRYVFAYTITIENLGRVPVQLLSRHWLITDANGRVQEVRGEGVVGEQPVLAPGE- 80 (127)
T ss_pred cccccCCEEEEEEEEECcccCCCcCCEEEEEEEEEEEECCCCCEEEEeeeEEEEECCCCEEEEECCceecCCceECCCC-
Confidence 5678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceEEeeceEecCCceeC
Q psy3671 250 AFQYSSHVSLQAPSGHM 266 (266)
Q Consensus 250 ~F~Y~S~~~l~t~~G~M 266 (266)
+|+|+|+|.|+||.|+|
T Consensus 81 ~F~Y~S~~~l~tp~G~M 97 (127)
T PRK05461 81 SFEYTSGAVLETPSGTM 97 (127)
T ss_pred CeEEeCCCCccCCCEEE
Confidence 99999999999999998
No 3
>COG2967 ApaG Uncharacterized protein affecting Mg2+/Co2+ transport [Inorganic ion transport and metabolism]
Probab=100.00 E-value=4.5e-37 Score=248.13 Aligned_cols=95 Identities=37% Similarity=0.680 Sum_probs=93.0
Q ss_pred eeccCCeEEEEEeEEecCcCCCCCcceeEEEEEEEEECCcccEEEeeeeEEEEeCCCcEEEEecCCccCCCceeeCCCCc
Q psy3671 171 KETTENVRVTVIPFYMGCRDSPTSSVYWWRYCIRLENLGELTVQLRERHWRIFSLSGTLETVRGRGVVGQEPVLSKSLPA 250 (266)
Q Consensus 171 ~~tT~gI~V~V~~~y~~~~s~~~~~~y~f~Y~IrIeN~~~~~vQL~~RhW~I~d~~G~~~~V~G~GVVG~~P~L~pge~~ 250 (266)
.+.|..|.|+|.|.|++++|+|.+++|+|+|+|+|+|+++.+|||++|||.|+|++|++++|+|+||||+||+|.||+ .
T Consensus 2 ~~~~~~I~V~V~~~yleeQS~P~~~RyvfaYtitI~N~g~~~vqLlsR~W~ITd~~g~v~eV~G~GVVGeQP~l~PG~-~ 80 (126)
T COG2967 2 MASSPDIEVQVQPRYLEEQSSPEEERYVFAYTVTIRNLGEVPVQLLSRYWLITDGNGRVTEVEGEGVVGEQPLLAPGE-E 80 (126)
T ss_pred CcccCceEEEEeeEEccccCCcccceEEEEEEEEEecCCCccceeeeeEEEEecCCCcEEEEEcCceeccccccCCCC-c
Confidence 456789999999999999999999999999999999999999999999999999999999999999999999999999 9
Q ss_pred eEEeeceEecCCceeC
Q psy3671 251 FQYSSHVSLQAPSGHM 266 (266)
Q Consensus 251 F~Y~S~~~l~t~~G~M 266 (266)
|+|+|+|.|+||.|.|
T Consensus 81 y~YtSg~~l~Tp~G~M 96 (126)
T COG2967 81 YQYTSGCPLDTPSGTM 96 (126)
T ss_pred eEEcCCcCccCCcceE
Confidence 9999999999999998
No 4
>PF04379 DUF525: Protein of unknown function (DUF525); InterPro: IPR007474 This domain is found in the bacterial protein ApaG and at the C termini of some F-box proteins (IPR001810 from INTERPRO). F-box proteins contain a carboxy-terminal domain that interacts with protein substrates []. The ApaG domain is ~125 amino acids in length, and is named after the bacterial ApaG protein, of which it forms the core. The Salmonella typhimurium ApaG domain protein, CorD, is involved in Co(2+) resistance and Mg(2+) efflux. Tertiary structures from different ApaG proteins show a fold of several beta-sheets. The ApaG domain may be involved in protein-protein interactions which could be implicated in substrate-specificity [, , ].; PDB: 2F1E_A 1XVS_A 1TZA_A 1XQ4_D.
Probab=99.98 E-value=6.5e-33 Score=216.55 Aligned_cols=80 Identities=43% Similarity=0.742 Sum_probs=71.1
Q ss_pred ecCcCCCCCcceeEEEEEEEEECCcccEEEeeeeEEEEeCCCcEEEEecCCccCCCceeeCCCCceEEeeceEecCCcee
Q psy3671 186 MGCRDSPTSSVYWWRYCIRLENLGELTVQLRERHWRIFSLSGTLETVRGRGVVGQEPVLSKSLPAFQYSSHVSLQAPSGH 265 (266)
Q Consensus 186 ~~~~s~~~~~~y~f~Y~IrIeN~~~~~vQL~~RhW~I~d~~G~~~~V~G~GVVG~~P~L~pge~~F~Y~S~~~l~t~~G~ 265 (266)
+|++|+|.+++|+|+|+|||+|.++.+|||++|||+|+|++|++++|+|+||||++|+|.||+ +|+|+|+|.|+||.|+
T Consensus 1 ~~e~S~p~~~~y~f~Y~I~I~N~~~~~vqL~sR~W~I~d~~g~~~~V~G~GVVG~~P~L~pGe-~f~Y~S~~~l~t~~G~ 79 (90)
T PF04379_consen 1 VPEQSDPSQNRYVFAYRIRIENHSDESVQLLSRHWIITDADGHVEEVEGEGVVGQQPVLAPGE-SFEYTSGCPLSTPSGS 79 (90)
T ss_dssp -GGG-BGGGTBEEEEEEEEEEE-SSS-EEEEEEEEEEEETTS-EEEEEEESBTTB--EE-TTE-EEEEEEEEEESSSEEE
T ss_pred CccccCCCCCeEEEEEEEEEEECCCCCEEEEccEEEEEeCCCCEEEEECCceEccCceECCCC-cEEEcCCCCcCCCCEE
Confidence 589999999999999999999999999999999999999999999999999999999999999 9999999999999999
Q ss_pred C
Q psy3671 266 M 266 (266)
Q Consensus 266 M 266 (266)
|
T Consensus 80 M 80 (90)
T PF04379_consen 80 M 80 (90)
T ss_dssp E
T ss_pred E
Confidence 8
No 5
>PRK14129 heat shock protein HspQ; Provisional
Probab=99.94 E-value=8.5e-28 Score=190.11 Aligned_cols=90 Identities=21% Similarity=0.375 Sum_probs=83.1
Q ss_pred CCccCCCceEEecccCcceEEEcCccceeeecCCCCCCCCCCCcCCCCCccccCCCCceEEEEeeCCCcchhcccccee-
Q psy3671 13 QGKYSTGQLFLHRVFGYRGIVLFPWLARVYDRDIPNKRDKPSDVNGSVGKEVKSKTHTFYQVLIDSRDCPYIRAQTEAV- 91 (266)
Q Consensus 13 ~~ky~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~d~~~~~~~~~~~~~~~~~~~~~~~q~fYqvLvD~rD~~~~~~q~~~v- 91 (266)
.+||.+||+|+||+||||||| +|+||.|.++++|| .+++++++.|+|||||||+++.|..| |
T Consensus 3 ~akF~IGQ~VrHrl~~yrGVV--------~DVDP~fs~~e~w~--~~ia~~~p~kdqPwYHvl~en~~~~~-------v~ 65 (105)
T PRK14129 3 ASKFGIGQQVRHSLLGYLGVV--------VDIDPEYSLEEPSP--DELAVNDELRAAPWYHVVMEDDDGQP-------VH 65 (105)
T ss_pred cccccCCcEEEEeecCCCeEE--------EeeCCCcCCCchhH--HhhccCCCccCCCceEEEEEcCCCce-------EE
Confidence 689999999999999999999 99999999999999 77788888999999999999999874 5
Q ss_pred eeeccCCCCCccceecCceecccCCcccCCCCCCCcccchhhhhhhcc
Q psy3671 92 TFLGNQNSNKSLYAIPGLDYVAHEDILPYSCSHEQPLHHELFDKFLVH 139 (266)
Q Consensus 92 t~l~~~~~~~~ly~i~g~DyV~~~di~py~s~~~~pi~H~l~~~ff~~ 139 (266)
|| |||+||+++++ ++|+.||.++++|..
T Consensus 66 tY------------------VaE~nL~~d~s--~epi~hP~l~elf~~ 93 (105)
T PRK14129 66 TY------------------LAEAQLSSELQ--DEHPEQPSMDELAES 93 (105)
T ss_pred EE------------------eeecccCCCCC--CCCCCCCCHHHHHHH
Confidence 85 59999999998 899999999999975
No 6
>COG3785 Uncharacterized conserved protein [Function unknown]
Probab=99.93 E-value=1.4e-26 Score=183.33 Aligned_cols=95 Identities=19% Similarity=0.433 Sum_probs=87.6
Q ss_pred CCccCCCceEEecccCcceEEEcCccceeeecCCCCCCCCCCCcCCCCCcc-ccCCCCceEEEEeeCCCcchhcccccee
Q psy3671 13 QGKYSTGQLFLHRVFGYRGIVLFPWLARVYDRDIPNKRDKPSDVNGSVGKE-VKSKTHTFYQVLIDSRDCPYIRAQTEAV 91 (266)
Q Consensus 13 ~~ky~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~d~~~~~~~~~~~~~~~~~~-~~~~~q~fYqvLvD~rD~~~~~~q~~~v 91 (266)
.+||.+||+|+||+||||||| ||+||++.++|+|| .+++.+ ++.|+|||||+|+++.|.+ ++
T Consensus 12 ~aKF~IGQvVRHrlfpfrGVV--------~DvDPeyanteew~--~~ip~~~rp~rdqPfYHllaEnde~~-------yv 74 (116)
T COG3785 12 AAKFGIGQVVRHRLFPFRGVV--------FDVDPEYANTEEWP--DEIPVNIRPLRDQPFYHLLAENDETE-------YV 74 (116)
T ss_pred HhhcchhhhhhhhhcccceEE--------EecCcccccCccCh--hhccccccccccCCceeeeeecCCcc-------ce
Confidence 689999999999999999999 99999999999999 777777 6899999999999999988 58
Q ss_pred eeeccCCCCCccceecCceecccCCcccCCCCCCCcccchhhhhhhccCCCCC
Q psy3671 92 TFLGNQNSNKSLYAIPGLDYVAHEDILPYSCSHEQPLHHELFDKFLVHMPDKD 144 (266)
Q Consensus 92 t~l~~~~~~~~ly~i~g~DyV~~~di~py~s~~~~pi~H~l~~~ff~~~~~~~ 144 (266)
||| |++||+++.+ .+|+.||.+|++|+..++|.
T Consensus 75 aYv------------------sEqnL~~d~s--dep~~~Pqidelf~~~~~g~ 107 (116)
T COG3785 75 AYV------------------SEQNLVSDLS--DEPPRHPQIDELFDKIRKGL 107 (116)
T ss_pred eee------------------hhhhcccccc--CCCCCCCCHHHHHHhhhccc
Confidence 855 9999999998 89999999999999888774
No 7
>TIGR02097 yccV hemimethylated DNA binding domain. This model describes the small protein from E. coli YccV and its homologs in other Proteobacteria. YccV is now described as a hemimethylated DNA binding protein. The model also describes a domain in longer eukaryotic proteins.
Probab=99.92 E-value=1.2e-25 Score=178.92 Aligned_cols=96 Identities=26% Similarity=0.442 Sum_probs=82.6
Q ss_pred CCccCCCceEEecccCcceEEEcCccceeeecCCCCCCCCCCCcCCCCCccccCCCCceEEEEeeCCCcchhccccceee
Q psy3671 13 QGKYSTGQLFLHRVFGYRGIVLFPWLARVYDRDIPNKRDKPSDVNGSVGKEVKSKTHTFYQVLIDSRDCPYIRAQTEAVT 92 (266)
Q Consensus 13 ~~ky~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~d~~~~~~~~~~~~~~~~~~~~~~~q~fYqvLvD~rD~~~~~~q~~~vt 92 (266)
.+||++||+|+||+||||||| +|.|+.+.++|+|+....... .+.|+||||+||+|+++.. ..+|
T Consensus 1 ~~kf~IGqvvrHr~~~yrGVI--------~gwDp~~~~~eeW~~~~~~~~-~p~~~qPfYhvLv~~~~~~------~~~a 65 (101)
T TIGR02097 1 AAKFRIGQVVRHKLFGYRGVV--------IDVDPEYSNTEEWLDAIPVEI-RPLRDQPFYHVLAEDDEGL------PYVA 65 (101)
T ss_pred CceecCCCEEEecccCCCEEE--------EeEChhccCChHHHHhhhccc-CcccCCCceEEEEeCCCCc------ceeE
Confidence 479999999999999999999 889999999999994443332 5569999999999999866 1467
Q ss_pred eeccCCCCCccceecCceecccCCcccCCCCCCCcccchhhhhhhccCCCC
Q psy3671 93 FLGNQNSNKSLYAIPGLDYVAHEDILPYSCSHEQPLHHELFDKFLVHMPDK 143 (266)
Q Consensus 93 ~l~~~~~~~~ly~i~g~DyV~~~di~py~s~~~~pi~H~l~~~ff~~~~~~ 143 (266)
|||++||++..+ +.||+||.+++||....++
T Consensus 66 ------------------YVaE~nL~~~~~--~~~i~hP~~~~~F~~~~~~ 96 (101)
T TIGR02097 66 ------------------YVAEQNLLYDDS--DEPIEHPQVDELFDGFDEG 96 (101)
T ss_pred ------------------EeehhhcccCCC--CCCCCCCCHHHHHhhhccC
Confidence 559999999987 7999999999999988865
No 8
>PF08755 YccV-like: Hemimethylated DNA-binding protein YccV like; InterPro: IPR011722 This entry describes the small protein from Escherichia coli YccV and its homologs in other Proteobacteria. YccV is now described as a hemimethylated DNA binding protein []. The model entry describes a domain in longer eukaryotic proteins.; PDB: 1VBV_A.
Probab=99.91 E-value=4.9e-25 Score=175.00 Aligned_cols=95 Identities=29% Similarity=0.548 Sum_probs=49.6
Q ss_pred CCccCCCceEEecccCcceEEEcCccceeeecCCCCCCCCCCCcCCCCCccccCCCCceEEEEeeCCCcchhccccceee
Q psy3671 13 QGKYSTGQLFLHRVFGYRGIVLFPWLARVYDRDIPNKRDKPSDVNGSVGKEVKSKTHTFYQVLIDSRDCPYIRAQTEAVT 92 (266)
Q Consensus 13 ~~ky~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~d~~~~~~~~~~~~~~~~~~~~~~~q~fYqvLvD~rD~~~~~~q~~~vt 92 (266)
++||++||+|+||+||||||| ++.|+.++++++|++....... +.++||||+||+|.+|++ .++
T Consensus 1 ~~~f~vGqvv~Hr~~~y~GVI--------vgwD~~~~~~~~W~~~~~~~~~-~~~~qPfY~vLv~~~~~~-------~~~ 64 (100)
T PF08755_consen 1 NVKFRVGQVVRHRRYGYRGVI--------VGWDPECQAPEEWIEQMGVDNL-PRRNQPFYHVLVDDRDSP-------PVR 64 (100)
T ss_dssp --SS-TT-EEEETTT--EEEE--------EEEE-------------------------EEEEEEE-SS---------EEE
T ss_pred CcccccCCEEEEeeeCccEEE--------ECcccccCCCchHHHhcccccc-ccCCCCcEEEEEecCCcc-------ceE
Confidence 479999999999999999999 5666788889999955554433 349999999999999986 345
Q ss_pred eeccCCCCCccceecCceecccCCcccCCCCCCCcccchhhhhhhccCCCC
Q psy3671 93 FLGNQNSNKSLYAIPGLDYVAHEDILPYSCSHEQPLHHELFDKFLVHMPDK 143 (266)
Q Consensus 93 ~l~~~~~~~~ly~i~g~DyV~~~di~py~s~~~~pi~H~l~~~ff~~~~~~ 143 (266)
||+|+||+|..+ +.+++||.+++||+..+.+
T Consensus 65 ------------------YVaEenL~~~~~--~~~i~hp~i~~yF~~fd~~ 95 (100)
T PF08755_consen 65 ------------------YVAEENLEPDST--PEPINHPEIGRYFKRFDGG 95 (100)
T ss_dssp ------------------EEEGGGEEE-----S--TT-HHHHHHHHHHTT-
T ss_pred ------------------EecccccccCCC--CCCcCChHHHHHHHhhCCC
Confidence 669999999876 8899999999999988865
No 9
>PF14263 DUF4354: Domain of unknown function (DUF4354); PDB: 3NRF_B 3SB3_A.
Probab=86.35 E-value=3 Score=34.70 Aligned_cols=76 Identities=16% Similarity=0.200 Sum_probs=54.2
Q ss_pred eeeccCCeEEEEEeEEecCcCCCCCcceeEEEEEEEEECCcccEEEeeeeEEEEeCCCcEEEEec---CCccCCCceeeC
Q psy3671 170 HKETTENVRVTVIPFYMGCRDSPTSSVYWWRYCIRLENLGELTVQLRERHWRIFSLSGTLETVRG---RGVVGQEPVLSK 246 (266)
Q Consensus 170 ~~~tT~gI~V~V~~~y~~~~s~~~~~~y~f~Y~IrIeN~~~~~vQL~~RhW~I~d~~G~~~~V~G---~GVVG~~P~L~p 246 (266)
...++++|.|-....=.+.-|..++..|-=+|.|.+.|++.+++.|-.=..+-++.+|+.--.++ .=.-| .|.|
T Consensus 20 ~a~~~d~i~V~At~~~~Gs~sv~~k~~ytktF~V~vaN~s~~~idLsk~Cf~a~~~~gk~f~ldTVd~~L~~g---~lK~ 96 (124)
T PF14263_consen 20 NASAPDNIAVYATEKSQGSVSVGGKSFYTKTFDVTVANLSDKDIDLSKMCFKAYSPDGKEFKLDTVDEELTSG---TLKP 96 (124)
T ss_dssp -----SSEEEEEEEEEEEEEEETTEEEEEEEEEEEEEE-SSS-EE-TT-EEEEEETTS-EEEEEEE-GGGG-S---EE-T
T ss_pred hhccCCCeEEEEEecCCccEeecCccceEEEEEEEEecCCCCccccccchhhhccccCCEEEecccchhhhhc---cccC
Confidence 34567899999999999999999999999999999999999999999999999999987544433 22223 7888
Q ss_pred CC
Q psy3671 247 SL 248 (266)
Q Consensus 247 ge 248 (266)
|+
T Consensus 97 g~ 98 (124)
T PF14263_consen 97 GE 98 (124)
T ss_dssp T-
T ss_pred CC
Confidence 86
No 10
>PF11611 DUF4352: Domain of unknown function (DUF4352); InterPro: IPR021652 This entry is represented by Bacteriophage A118, Gp32. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a group of putative lipoproteins of unknown function.; PDB: 3CFU_A.
Probab=78.38 E-value=12 Score=29.16 Aligned_cols=76 Identities=9% Similarity=0.081 Sum_probs=43.8
Q ss_pred ccCCeEEEEEeE-EecC---cCCCCCcceeEEEEEEEEECCcccEEEeeeeEEEEeCCCcEEEEecCC--cc--CCCcee
Q psy3671 173 TTENVRVTVIPF-YMGC---RDSPTSSVYWWRYCIRLENLGELTVQLRERHWRIFSLSGTLETVRGRG--VV--GQEPVL 244 (266)
Q Consensus 173 tT~gI~V~V~~~-y~~~---~s~~~~~~y~f~Y~IrIeN~~~~~vQL~~RhW~I~d~~G~~~~V~G~G--VV--G~~P~L 244 (266)
.+.+++|+|... +... ...+.....+..=.++|+|.+++++.+-.-.+.+.|.+|+.-...... .. ...=.|
T Consensus 8 ~~~~~~vtV~~v~~~~~~~~~~~~~~g~~fv~v~v~v~N~~~~~~~~~~~~f~l~d~~g~~~~~~~~~~~~~~~~~~~~i 87 (123)
T PF11611_consen 8 SVGGIEVTVNSVEKTDGSNEYSKPKEGNKFVVVDVTVKNNGDEPLDFSPSDFKLYDSDGNKYDPDFSASSNDNDLFSETI 87 (123)
T ss_dssp EETTEEEEEEEE-EEE-SS-BEES---SEEEEEEEEEEE-SSS-EEEEGGGEEEE-TT--B--EEE-CCCTTTB--EEEE
T ss_pred EECCEEEEEEEEEeecCCccccccCCCCEEEEEEEEEEECCCCcEEecccceEEEeCCCCEEcccccchhccccccccEE
Confidence 358999999988 3322 123345566788899999999999999999999999988765543211 11 112278
Q ss_pred eCCC
Q psy3671 245 SKSL 248 (266)
Q Consensus 245 ~pge 248 (266)
.||+
T Consensus 88 ~pG~ 91 (123)
T PF11611_consen 88 KPGE 91 (123)
T ss_dssp -TT-
T ss_pred CCCC
Confidence 8887
No 11
>cd05834 HDGF_related The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2, HPR3, HPR4, respectively) and lens epithelium-derived growth factor, LEDGF. Members of the HDGF family have been linked to human diseases, and HDGF is a prognostic factor in several types of cancer. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=74.66 E-value=2.8 Score=32.08 Aligned_cols=26 Identities=35% Similarity=0.731 Sum_probs=23.5
Q ss_pred CccCCCceEEecccCcceEEEcCccceeeec
Q psy3671 14 GKYSTGQLFLHRVFGYRGIVLFPWLARVYDR 44 (266)
Q Consensus 14 ~ky~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~ 44 (266)
++|.+|++|.-|+=||. +|||++++.
T Consensus 1 ~~f~~GdlVwaK~kGyp-----~WPa~I~~~ 26 (83)
T cd05834 1 KQFKAGDLVFAKVKGYP-----AWPARVDEP 26 (83)
T ss_pred CCCCCCCEEEEecCCCC-----CCCEEEecc
Confidence 47999999999999987 899999995
No 12
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=70.20 E-value=3.8 Score=29.43 Aligned_cols=25 Identities=24% Similarity=0.490 Sum_probs=22.5
Q ss_pred cCCCceEEecccCcceEEEcCccceeeecC
Q psy3671 16 YSTGQLFLHRVFGYRGIVLFPWLARVYDRD 45 (266)
Q Consensus 16 y~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~d 45 (266)
|++|++|.-|+-||. .|||++++.+
T Consensus 1 f~~GdlVwaK~~G~p-----~WPa~V~~~~ 25 (63)
T smart00293 1 FKPGDLVWAKMKGFP-----WWPALVVSPK 25 (63)
T ss_pred CCCCCEEEEECCCCC-----CCCeEEcCcc
Confidence 789999999999997 7999999964
No 13
>cd05836 N_Pac_NP60 The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the nucleus. In addition to the PWWP domain, NP60 also contains an AT-hook and a C-terminal NAD-binding domain. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding proteins, that function as transcription factors regulating a variety of developmental processes.
Probab=68.26 E-value=12 Score=28.76 Aligned_cols=24 Identities=25% Similarity=0.653 Sum_probs=21.4
Q ss_pred cCCCceEEecccCcceEEEcCccceeeec
Q psy3671 16 YSTGQLFLHRVFGYRGIVLFPWLARVYDR 44 (266)
Q Consensus 16 y~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~ 44 (266)
|.+||+|.-|+=||+ .|||++++.
T Consensus 1 f~~GDlVwaK~~g~P-----~WPa~V~~~ 24 (86)
T cd05836 1 LKLGDLVWAKMKGFP-----PWPGRIVKP 24 (86)
T ss_pred CCCCCEEEEeCCCCC-----CCCEEEech
Confidence 789999999999987 799999983
No 14
>cd05840 SPBC215_ISWI_like The PWWP domain is a component of the S. pombe hypothetical protein SPBC215, as well as ISWI complex protein 4. The ISWI (imitation switch) proteins are ATPases responsible for chromatin remodeling in eukaryotes, and SPBC215 is proposed to also bind chromatin. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=63.53 E-value=8 Score=30.26 Aligned_cols=25 Identities=28% Similarity=0.594 Sum_probs=22.5
Q ss_pred cCCCceEEecccCcceEEEcCccceeeecC
Q psy3671 16 YSTGQLFLHRVFGYRGIVLFPWLARVYDRD 45 (266)
Q Consensus 16 y~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~d 45 (266)
|.+|++|.-|+=||. .|||+|++.+
T Consensus 1 f~~GDlVwaK~~GyP-----wWPA~V~~~~ 25 (93)
T cd05840 1 FQPGDRVLAKVKGFP-----AWPAIVVPEE 25 (93)
T ss_pred CCCCCEEEEeCCCCC-----CCCEEECChH
Confidence 789999999999997 8999999853
No 15
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. The function of the PWWP domain is still not known precisely; however, based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.
Probab=63.13 E-value=11 Score=28.33 Aligned_cols=26 Identities=31% Similarity=0.477 Sum_probs=22.7
Q ss_pred cCCCceEEecccCcceEEEcCccceeeecCC
Q psy3671 16 YSTGQLFLHRVFGYRGIVLFPWLARVYDRDI 46 (266)
Q Consensus 16 y~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~d~ 46 (266)
|.+||+|.=|+-|| -.|||++++.+.
T Consensus 1 f~~GdlVwaK~~g~-----pwWPa~V~~~~~ 26 (87)
T cd05162 1 FRPGDLVWAKMKGY-----PWWPALVVDPPK 26 (87)
T ss_pred CCCCCEEEEeCCCC-----CCCCEEEccccc
Confidence 78999999999999 589999999643
No 16
>PF00855 PWWP: PWWP domain; InterPro: IPR000313 Upon characterisation of WHSC1, a gene mapping to the Wolf-Hirschhornsyndrome critical region and at its C terminus similar to the Drosophila melanogaster ASH1/trithorax group proteins, a novel protein domain designated PWWP domain was identified []. The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. It is present in proteins of nuclear origin and plays a role in cell growth and differentiation. Due to its position, the composition of amino acids close to the PWWP motif and the pattern of other domains present it has been suggested that the domain is involved in protein-protein interactions [].; PDB: 3LYI_B 2L89_A 2NLU_A 1RI0_A 1KHC_A 3QKJ_C 2DAQ_A 1N27_A 3PFS_B 3QJ6_A ....
Probab=60.95 E-value=5.5 Score=29.54 Aligned_cols=25 Identities=40% Similarity=0.736 Sum_probs=21.0
Q ss_pred cCCCceEEecccCcceEEEcCccceeeecC
Q psy3671 16 YSTGQLFLHRVFGYRGIVLFPWLARVYDRD 45 (266)
Q Consensus 16 y~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~d 45 (266)
|++|++|..|+-||. -|||++++.+
T Consensus 1 f~~GdlVWaK~~g~p-----wWPa~V~~~~ 25 (86)
T PF00855_consen 1 FRPGDLVWAKLKGYP-----WWPARVCDPD 25 (86)
T ss_dssp -STTEEEEEEETTSE-----EEEEEEEECC
T ss_pred CCCCCEEEEEeCCCC-----CCceEEeecc
Confidence 789999999999994 6889889864
No 17
>cd05835 Dnmt3b_related The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in the inactivation of tumor suppressor genes. In addition, a point mutation in the PWWP domain of Dnmt3b has been identified in patients with ICF syndrome (immunodeficiency, centromeric instability, and facial anomalies), a rare autosomal recessive disorder characterized by hypomethylation of classical satellite DNA. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=48.91 E-value=15 Score=28.10 Aligned_cols=24 Identities=25% Similarity=0.574 Sum_probs=21.8
Q ss_pred cCCCceEEecccCcceEEEcCccceeeec
Q psy3671 16 YSTGQLFLHRVFGYRGIVLFPWLARVYDR 44 (266)
Q Consensus 16 y~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~ 44 (266)
|.+|++|.=|+-||. .||++|++.
T Consensus 1 f~vGDlVWaK~kg~p-----wWP~~V~~~ 24 (87)
T cd05835 1 FNVGDLVWGKIKGFP-----WWPGRVVSI 24 (87)
T ss_pred CCCCCEEEEecCCCC-----CCCeEEech
Confidence 689999999999997 799999985
No 18
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=41.84 E-value=24 Score=27.12 Aligned_cols=24 Identities=21% Similarity=0.451 Sum_probs=21.3
Q ss_pred cCCCceEEecccCcceEEEcCccceeeec
Q psy3671 16 YSTGQLFLHRVFGYRGIVLFPWLARVYDR 44 (266)
Q Consensus 16 y~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~ 44 (266)
|++|++|-.|+-||. .|||++.+.
T Consensus 1 f~~gdlVWaK~~g~P-----~WPa~I~~~ 24 (80)
T cd06080 1 FEKNDLVWAKIQGYP-----WWPAVIKSI 24 (80)
T ss_pred CCCCCEEEEeCCCCC-----CCCEEEeee
Confidence 789999999999997 799988774
No 19
>PF06159 DUF974: Protein of unknown function (DUF974); InterPro: IPR010378 This is a family of uncharacterised eukaryotic proteins.
Probab=39.50 E-value=73 Score=29.10 Aligned_cols=66 Identities=15% Similarity=0.108 Sum_probs=44.2
Q ss_pred ceeEEEEEEEEECCcccEEEeee------eEEEEeCCCcEEEEecCCcc-----CCCceeeCCCCceEEeeceEecCC
Q psy3671 196 VYWWRYCIRLENLGELTVQLRER------HWRIFSLSGTLETVRGRGVV-----GQEPVLSKSLPAFQYSSHVSLQAP 262 (266)
Q Consensus 196 ~y~f~Y~IrIeN~~~~~vQL~~R------hW~I~d~~G~~~~V~G~GVV-----G~~P~L~pge~~F~Y~S~~~l~t~ 262 (266)
+--|.=.+.|+|.+..++.|-+= .|...+.+.......+.+.. +..|+|.|++ ..||-=+.....+
T Consensus 134 ~~~~~LEaqlqN~s~~pl~Le~v~lep~~~~~~~~ln~~~~~~~~~~~~~~~~~~~~~~L~P~d-~~qylF~l~~~~~ 210 (249)
T PF06159_consen 134 RERVFLEAQLQNISSGPLFLEKVKLEPSPGFKVTDLNWEPSGESSDGEFGGISSGSRPYLQPGD-VRQYLFCLTPKPE 210 (249)
T ss_pred ceeEEEEEEEEecCCCceEEEEEEeecCCCceeEecccccccccccccccccccCCcceeCCCC-EEEEEEEEEECCc
Confidence 33567799999999887776553 46677766433333333333 4679999999 9999766665543
No 20
>KOG2804|consensus
Probab=34.35 E-value=17 Score=34.76 Aligned_cols=17 Identities=47% Similarity=0.962 Sum_probs=13.9
Q ss_pred CceecccCCcccCCCCCC
Q psy3671 108 GLDYVAHEDILPYSCSHE 125 (266)
Q Consensus 108 g~DyV~~~di~py~s~~~ 125 (266)
-+|+|||+|| ||.+.+.
T Consensus 149 KIDfVAHDdI-PY~s~gs 165 (348)
T KOG2804|consen 149 KIDFVAHDDI-PYVSAGS 165 (348)
T ss_pred ccceeeccCc-cccCCCc
Confidence 3899999997 9997544
No 21
>cd05837 MSH6_like The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been linked to increased cancer susceptibility, particularly in hereditary nonpolyposis colorectal cancer in humans. The role of the PWWP domain in MSH6 is not clear; MSH6 orthologs found in S. cerevisiae, Caenorhabditis elegans and Arabidopsis thaliana lack the PWWP domain. Histone methyltransferases (HMTases) induce the posttranslational methylation of lysine residues in histones and play a role in apoptosis. In the HMTase Whistle, the PWWP domain is necessary for HMTase activity. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain pro
Probab=34.22 E-value=37 Score=27.15 Aligned_cols=25 Identities=36% Similarity=0.635 Sum_probs=22.1
Q ss_pred CccCCCceEEecccCcceEEEcCccceeee
Q psy3671 14 GKYSTGQLFLHRVFGYRGIVLFPWLARVYD 43 (266)
Q Consensus 14 ~ky~~GQ~f~Hr~fgYRGVIl~~w~~~~~d 43 (266)
.+|.+|++|.-|+-||- .|||.+++
T Consensus 1 ~~~~~GdlVWaK~~g~P-----wWPa~V~~ 25 (110)
T cd05837 1 SKYQVGDLVWAKVSGYP-----WWPCMVCS 25 (110)
T ss_pred CCCCCCCEEEEeCCCCC-----CCCEEEec
Confidence 37999999999999983 79999996
No 22
>PF14016 DUF4232: Protein of unknown function (DUF4232)
Probab=30.48 E-value=2.2e+02 Score=22.80 Aligned_cols=68 Identities=16% Similarity=0.107 Sum_probs=40.6
Q ss_pred eccCCeEEEEEeEEecCcCCCCCcceeEEEEEEEEECCcccEEEeeeeEEE-EeCCCc---EEEEecCCccCCCceeeCC
Q psy3671 172 ETTENVRVTVIPFYMGCRDSPTSSVYWWRYCIRLENLGELTVQLRERHWRI-FSLSGT---LETVRGRGVVGQEPVLSKS 247 (266)
Q Consensus 172 ~tT~gI~V~V~~~y~~~~s~~~~~~y~f~Y~IrIeN~~~~~vQL~~RhW~I-~d~~G~---~~~V~G~GVVG~~P~L~pg 247 (266)
|.+.+++|++.+. .. ...+- .+.|++.|.+..+|.|...==.- .|++|. ...++..+ .+..=+|.||
T Consensus 1 C~~~~L~~~~~~~----~~--~~g~~--~~~l~~tN~s~~~C~l~G~P~v~~~~~~g~~~~~~~~~~~~-~~~~vtL~PG 71 (131)
T PF14016_consen 1 CTAADLSVTVGPV----DA--GAGQR--HATLTFTNTSDTPCTLYGYPGVALVDADGAPLGVPAVREGP-PPRPVTLAPG 71 (131)
T ss_pred CCcccEEEEEecc----cC--CCCcc--EEEEEEEECCCCcEEeccCCcEEEECCCCCcCCccccccCC-CCCcEEECCC
Confidence 3456777777432 11 11222 78999999999999998764333 367776 22222222 2333378999
Q ss_pred C
Q psy3671 248 L 248 (266)
Q Consensus 248 e 248 (266)
+
T Consensus 72 ~ 72 (131)
T PF14016_consen 72 G 72 (131)
T ss_pred C
Confidence 8
No 23
>cd05841 BS69_related The PWWP domain is part of BS69 protein, a nuclear protein that specifically binds adenoviral E1A and Epstein-Barr viral EBNA2 proteins, suppressing their transactivation functions. BS69 is a multi-domain protein, containing bromo, PHD, PWWP, and MYND domains. The specific role of the PWWP domain within BS69 is not clearly identified, but BS69 functions in chromatin remodeling, consistent with other PWWP-containing proteins. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=25.15 E-value=70 Score=24.72 Aligned_cols=25 Identities=20% Similarity=0.343 Sum_probs=22.0
Q ss_pred ccCCCceEEecccCcceEEEcCccceeeec
Q psy3671 15 KYSTGQLFLHRVFGYRGIVLFPWLARVYDR 44 (266)
Q Consensus 15 ky~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~ 44 (266)
-+.+|++|.-|+-||. +|||++.+.
T Consensus 6 c~~p~dLVwAK~kGyp-----~WPAkV~~~ 30 (83)
T cd05841 6 CRPPHELVWAKLKGFP-----YWPAKVMRV 30 (83)
T ss_pred cCCCCCEEEEeCCCCC-----CCCEEEeec
Confidence 4789999999999997 799999873
No 24
>PF00932 LTD: Lamin Tail Domain; InterPro: IPR001322 Intermediate filaments (IF) are primordial components of the cytoskeleton and the nuclear envelope []. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups, type I: acidic cytokeratins, type II: basic cytokeratins, type III: vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin, type IV: neurofilaments L, H and M, alpha-internexin and nestin, and type V: nuclear lamins A, B1, B2 and C. The lamins are components of the nuclear lamina, a fibrous layer on the nucleoplasmic side of the inner nuclear membrane that may provide a framework for the nuclear envelope and may interact with chromatin. All IF proteins are structurally similar in that they consist of a central rod domain arranged in coiled-coil alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. The C-terminal domain has been charcterised for the lamins.; PDB: 3UMN_A 2KPW_A 3JT0_A 2LLL_A 1UFG_A 3GEF_D 1IFR_A 1IVT_A.
Probab=24.89 E-value=68 Score=24.89 Aligned_cols=21 Identities=33% Similarity=0.659 Sum_probs=15.9
Q ss_pred EEEEECCcccEEEeeeeEEEEeC
Q psy3671 203 IRLENLGELTVQLRERHWRIFSL 225 (266)
Q Consensus 203 IrIeN~~~~~vQL~~RhW~I~d~ 225 (266)
|.|.|.++.+|.|.. |+|.|.
T Consensus 28 VEl~N~~~~~vdL~g--w~L~~~ 48 (116)
T PF00932_consen 28 VELYNPGDSTVDLSG--WKLVDS 48 (116)
T ss_dssp EEEEE-SSS-EEGTT---EEEEE
T ss_pred EEEEECCCCcEeecc--EEEEEC
Confidence 899999999999975 888886
No 25
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=23.56 E-value=3.3e+02 Score=20.57 Aligned_cols=60 Identities=17% Similarity=0.180 Sum_probs=33.4
Q ss_pred EEEEEEEECCcccEEEeeee-----EEEEeCCCcEEEEecCCccC----CCceeeCCCCceEEeeceEec
Q psy3671 200 RYCIRLENLGELTVQLRERH-----WRIFSLSGTLETVRGRGVVG----QEPVLSKSLPAFQYSSHVSLQ 260 (266)
Q Consensus 200 ~Y~IrIeN~~~~~vQL~~Rh-----W~I~d~~G~~~~V~G~GVVG----~~P~L~pge~~F~Y~S~~~l~ 260 (266)
...+++.|.++.++.|.-+. -.|.|.+|+..---..|=.= +.=.|.||| +-.|.=-..+.
T Consensus 3 ~~~l~v~N~s~~~v~l~f~sgq~~D~~v~d~~g~~vwrwS~~~~FtQal~~~~l~pGe-~~~~~~~~~~~ 71 (82)
T PF12690_consen 3 EFTLTVTNNSDEPVTLQFPSGQRYDFVVKDKEGKEVWRWSDGKMFTQALQEETLEPGE-SLTYEETWDLK 71 (82)
T ss_dssp EEEEEEEE-SSS-EEEEESSS--EEEEEE-TT--EEEETTTT-------EEEEE-TT--EEEEEEEESS-
T ss_pred EEEEEEEeCCCCeEEEEeCCCCEEEEEEECCCCCEEEEecCCchhhheeeEEEECCCC-EEEEEEEECCC
Confidence 46789999999999887543 66778887765554433211 133899998 88887544443
No 26
>cd05838 WHSC1_related The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as plasmacytoma. WHCS1 proteins typically contain two copies of the PWWP domain. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=22.80 E-value=69 Score=24.95 Aligned_cols=23 Identities=22% Similarity=0.403 Sum_probs=20.7
Q ss_pred CCCceEEecccCcceEEEcCccceeeec
Q psy3671 17 STGQLFLHRVFGYRGIVLFPWLARVYDR 44 (266)
Q Consensus 17 ~~GQ~f~Hr~fgYRGVIl~~w~~~~~d~ 44 (266)
.+|++|.-|+=||+ .|||+++|.
T Consensus 2 ~~GdlVWaK~~g~p-----wWPa~V~~~ 24 (95)
T cd05838 2 LYGDIVWAKLGNFR-----WWPAIICDP 24 (95)
T ss_pred CcCCEEEEECCCCC-----CCCeEEcCh
Confidence 57999999999988 899999985
No 27
>PF13598 DUF4139: Domain of unknown function (DUF4139)
Probab=21.23 E-value=2.4e+02 Score=25.91 Aligned_cols=86 Identities=13% Similarity=0.067 Sum_probs=45.1
Q ss_pred ccCCeEEEEEeEEecCcCC--CCCcceeEEEEEEEEECCcccEEE--ee-----eeEEEE----eCCCcEEEEecCCccC
Q psy3671 173 TTENVRVTVIPFYMGCRDS--PTSSVYWWRYCIRLENLGELTVQL--RE-----RHWRIF----SLSGTLETVRGRGVVG 239 (266)
Q Consensus 173 tT~gI~V~V~~~y~~~~s~--~~~~~y~f~Y~IrIeN~~~~~vQL--~~-----RhW~I~----d~~G~~~~V~G~GVVG 239 (266)
.-.+|+|+-...--.+... ....++-+.|+|+|+|..+.++.| .. +++.|. .... -..-+-.|++=
T Consensus 216 ~d~~v~v~r~~~~~~~~~g~~~~~~~~~~~~~itv~N~~~~~v~v~v~d~iPvs~~~~I~V~~~~~~~-~~~~~~~g~~~ 294 (317)
T PF13598_consen 216 VDPDVRVERKLLKKEEERGFFGKSQRRTYEYTITVRNNKDEPVTVTVEDQIPVSEDEDIKVELLEPPE-PNEDEKDGILE 294 (317)
T ss_pred cCCCEEEEEEecceecccccccccEEEEEEEEEEEECCCCCCEEEEEEeCCCCCCCceEEEEEcCCCC-CcccCCCCEEE
Confidence 3356777665554311111 124678899999999999766654 33 345553 1110 01112344444
Q ss_pred CCceeeCCCCceEEeeceEec
Q psy3671 240 QEPVLSKSLPAFQYSSHVSLQ 260 (266)
Q Consensus 240 ~~P~L~pge~~F~Y~S~~~l~ 260 (266)
=.=.|.||+ .-+-.-...+.
T Consensus 295 W~~~l~~g~-~~~l~~~y~v~ 314 (317)
T PF13598_consen 295 WKVTLPPGE-SRTLEFSYEVE 314 (317)
T ss_pred EEEEECCCC-EEEEEEEEEEE
Confidence 444677776 55444443333
No 28
>PF09181 ProRS-C_2: Prolyl-tRNA synthetase, C-terminal; InterPro: IPR015264 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This domain is found predominantly found in prolyl-tRNA synthetases from archaeal Methanococci species. It contains a zinc binding site, and adopts a structure consisting of alpha helices and antiparallel beta sheets arranged in 2 layers, in a beta-alpha-beta-alpha-beta motif []. ; GO: 0000166 nucleotide binding, 0004827 proline-tRNA ligase activity, 0005524 ATP binding, 0006433 prolyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1NJ8_C.
Probab=21.02 E-value=33 Score=25.51 Aligned_cols=17 Identities=29% Similarity=0.796 Sum_probs=10.3
Q ss_pred CcceEEEcCccceeeec
Q psy3671 28 GYRGIVLFPWLARVYDR 44 (266)
Q Consensus 28 gYRGVIl~~w~~~~~d~ 44 (266)
.=|||||.|++..+|..
T Consensus 24 ekrgviLiPy~e~iYnE 40 (68)
T PF09181_consen 24 EKRGVILIPYDESIYNE 40 (68)
T ss_dssp TT-SEEEEE--GGG-SH
T ss_pred hcCCEEEEeCcHHHhhH
Confidence 45999999988777764
Done!