Query 047048
Match_columns 240
No_of_seqs 108 out of 121
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 07:08:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047048.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047048hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06632 XRCC4: DNA double-str 100.0 4.1E-52 8.9E-57 386.1 21.5 212 5-216 3-248 (342)
2 PF09302 XLF: XLF (XRCC4-like 94.9 0.31 6.7E-06 40.9 10.1 126 6-134 4-144 (171)
3 PF15384 DUF4610: Domain of un 93.0 1 2.2E-05 39.6 9.6 94 15-117 11-111 (197)
4 PF04508 Pox_A_type_inc: Viral 77.1 2.7 5.8E-05 24.9 2.3 19 165-183 3-21 (23)
5 PF07928 Vps54: Vps54-like pro 46.8 46 0.001 27.4 5.1 59 110-168 73-134 (135)
6 PF04576 Zein-binding: Zein-bi 44.4 92 0.002 24.5 6.1 40 140-179 54-93 (94)
7 KOG0526 Nucleosome-binding fac 42.5 17 0.00037 36.7 2.2 42 34-75 280-326 (615)
8 PF06047 SynMuv_product: Ras-i 38.2 1E+02 0.0022 24.7 5.5 38 129-168 65-104 (104)
9 COG3765 WzzB Chain length dete 27.4 5.7E+02 0.012 24.6 9.7 93 97-190 143-238 (347)
10 PF08786 DUF1795: Domain of un 27.3 3E+02 0.0066 21.5 8.0 53 57-109 39-95 (130)
11 PF05470 eIF-3c_N: Eukaryotic 21.8 1.9E+02 0.0042 29.6 5.7 46 138-183 80-132 (595)
12 PF14630 ORC5_C: Origin recogn 21.7 94 0.002 28.0 3.2 31 35-65 240-270 (271)
13 PRK10328 DNA binding protein, 21.2 1.6E+02 0.0035 24.3 4.2 20 157-176 29-48 (134)
14 KOG3915 Transcription regulato 20.7 4E+02 0.0087 27.0 7.4 40 140-182 544-583 (641)
No 1
>PF06632 XRCC4: DNA double-strand break repair and V(D)J recombination protein XRCC4; InterPro: IPR010585 This entry represents the DNA double-strand break repair and V(D)J recombination protein XRCC4, which is found in certain Metazoans, fungi and plants. XRCC4 binds to DNA, and to DNA ligase IV (LIG4) to form the LIG4-XRCC4 complex []. The LIG4-XRCC4 complex is responsible for the ligation step in the non-homologous end joining (NHEJ) pathway of DNA double-strand break repair. XRCC4 enhances the joining activity of LIG4. It is thought that XRCC4 and LIG4 are essential for alignment-based gap filling, as well as for final ligation of the breaks []. Binding of the LIG4-XRCC4 complex to DNA ends is dependent on the assembly of the DNA-dependent protein kinase complex DNA-PK to these DNA ends. ; GO: 0003677 DNA binding, 0006302 double-strand break repair, 0006310 DNA recombination, 0005634 nucleus; PDB: 3RWR_R 1IK9_B 3SR2_E 3Q4F_H 3II6_B 1FU1_A 3MUD_B.
Probab=100.00 E-value=4.1e-52 Score=386.11 Aligned_cols=212 Identities=35% Similarity=0.539 Sum_probs=162.6
Q ss_pred ceeEEeecCCCCCc-EEEEEEEe---CCeeEEEEecCCcceEEeecHHHHHHHhhccCCCHHHHHHHHHHHhc-CCCCCc
Q 047048 5 QTCLKLEIPHATDP-IFVKGTWF---QSHFDLSITDGLNAWLCNASEEQVKDRAALWDQPVTEYIKLAERYLG-FQQPGC 79 (240)
Q Consensus 5 ~t~~Ri~~~~~~~~-~~lkv~w~---~s~f~L~~TDG~~~w~g~vs~~~i~~rA~~~~~s~eey~~~l~~aL~-~~~p~~ 79 (240)
++|.||+++++|+. |||+|+|. |+||.|++|||++||+|+|++.+|+.+|++|+|+.++|+++|++||+ +++|++
T Consensus 3 ~~~~~i~~~s~p~~~yfL~~~W~~~~~~~F~i~lTDG~saW~g~vs~~ei~~~A~~~~~~~~eYv~~l~kaL~~~~~~~~ 82 (342)
T PF06632_consen 3 RKVRRIHISSEPDSIYFLQVSWEKDLGSGFDITLTDGQSAWSGTVSEEEIRQRAKDWDMEVEEYVQELKKALTGQQQPSS 82 (342)
T ss_dssp EEEEEEEETTSCSSEEEEEEEESSSGGGEEEEEEESSSSEEEEEEEHHHHHHHHHHTTS-HHHHHHHHHHHHTSSSSSSS
T ss_pred ceeeeeecCCCCCceEEEEEEeccCCCCceEEEEecCCCceeeecCHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCC
Confidence 68999999999988 99999994 47999999999999999999999999999999999999999999995 668999
Q ss_pred eeeEEe--cCCCCceEEEEEEeeceeEEEEEe---eecCCCCcchHHHHHHHHhhHhhhhh--------------H--HH
Q 047048 80 VYGFTD--AADGCKRLSWTFEKEGTKLEWRWK---CGPAPNSKKVPAGILDFLMDANIRLS--------------A--EK 138 (240)
Q Consensus 80 ~y~~~~--~~~~~~~l~~t~eK~~~~I~~rl~---l~~~~d~~e~~~eL~d~l~~~n~~L~--------------~--E~ 138 (240)
.|.|++ ..+++..|+|||+|++++|+|||| |..+++|.++|++||+||++.+.+|. . ++
T Consensus 83 ~y~f~~~~~~~~~~~l~~t~~K~~~~it~rLGsv~L~~~~~p~e~i~el~d~~l~~~~~l~~~~~~L~~enerL~~e~~~ 162 (342)
T PF06632_consen 83 EYSFDLTEDRESNKSLSFTIEKRLKDITFRLGSVKLKQVDNPAEVIRELFDWCLDANSRLQAENEHLQKENERLESEANK 162 (342)
T ss_dssp EEEEEE-----ETTTTEEEEEEEESSEEEEEEEEE-EE-S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cceEEEeeccCCCceEEEEEEEecCCceEEEeeEECCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999988 344667899999999999999975 55688998889999999866444442 2 37
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHHHhhhcccchhhhcc------cccCCCC--CCCCCCcc
Q 047048 139 CLAQSERFKNEKLEFESAIYAKFLGVLNSKKSKLRELQDKLSKQAVMGDLQQEEEES------TDETESF--DEGTDDDK 210 (240)
Q Consensus 139 l~~qlEe~v~~K~e~E~~Ly~KFv~vLNEKK~KIRelq~~L~~~~~~~~~~~~e~~~------~~~~~~~--~~~~~~~~ 210 (240)
|++|||+||++|++||.+||+||++||||||+|||+||++|..++...+.++.+.+. ..+.++- +++|+|++
T Consensus 163 ~~~qlE~~v~~K~~~E~~L~~KF~~vLNeKK~KIR~lq~~L~~~~~~~~~~~~~~~~~~~~d~~~~~e~~~D~g~Stdee 242 (342)
T PF06632_consen 163 LLKQLEKFVNAKEEHEEDLYAKFVLVLNEKKAKIRELQRLLASAKEEEKSPKQEREDSASSDKSPDEESEYDYGESTDEE 242 (342)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhhccccchhhhhcccccccCCcccccccccccccccc
Confidence 899999999999999999999999999999999999999999999988776644332 1222332 23677777
Q ss_pred ccCCcc
Q 047048 211 SEEEPA 216 (240)
Q Consensus 211 ~~~~~~ 216 (240)
++.++.
T Consensus 243 ~e~~~~ 248 (342)
T PF06632_consen 243 SENPPS 248 (342)
T ss_dssp ------
T ss_pred cccccc
Confidence 766643
No 2
>PF09302 XLF: XLF (XRCC4-like factor); InterPro: IPR015381 XLF (also called Cernunnos) interacts with the XRCC4-DNA ligase IV complex to promote DNA non-homologous end-joining. It directly interacts with the XRCC4-Ligase IV complex and siRNA-mediated downregulation of XLF in human cell lines leads to radio-sensitivity and impaired DNA non-homologous end-joining []. XLF is homologous to the yeast non-homologous end-joining factor Nej1 []. ; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z56_A 3RWR_D 3Q4F_A 3SR2_H 2R9A_A 2QM4_C.
Probab=94.95 E-value=0.31 Score=40.90 Aligned_cols=126 Identities=17% Similarity=0.266 Sum_probs=71.2
Q ss_pred eeEEeecCCCCCcEEEEEEEeCCeeE----EEEecCCc--ceEEeecHHHHHHHhhccCCCHH----HHHHHHHHHhc--
Q 047048 6 TCLKLEIPHATDPIFVKGTWFQSHFD----LSITDGLN--AWLCNASEEQVKDRAALWDQPVT----EYIKLAERYLG-- 73 (240)
Q Consensus 6 t~~Ri~~~~~~~~~~lkv~w~~s~f~----L~~TDG~~--~w~g~vs~~~i~~rA~~~~~s~e----ey~~~l~~aL~-- 73 (240)
..+.|..+.+ ++++++....++.. |.+||-.+ .|+-.++...|..||+..+.+.+ .+...|...+.
T Consensus 4 ~~~~i~~~~~--~~l~~~~~~~~sy~~~~~i~ltDl~~~~vw~E~l~~~~i~~ra~~~n~~i~~~~~~~~~lL~~i~~~~ 81 (171)
T PF09302_consen 4 KPLPISGSGG--PLLAKYEFTSSSYEDLFQIHLTDLANKQVWSERLDRNDIIQRAKELNTRIDPSPEQFRVLLDKILEAL 81 (171)
T ss_dssp EEEEBSSSE----EEEEEEEETTEEE---TCEEE-SSTTTCCCCCCCHHHHHHHCCCCCTCCCCHCCCCHCCCHHHHCHC
T ss_pred EEEecCCccc--hheEEEEcCCCCccceeEEEEeccccceeeEEecCHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHhhc
Confidence 3444444333 56666666656655 99999998 99999999999999987765444 55555544442
Q ss_pred -CCCCCceeeEEecCC-CCceEEEEEEeece-eEEEEEeeecCCCCcchHHHHHHHHhhHhhhh
Q 047048 74 -FQQPGCVYGFTDAAD-GCKRLSWTFEKEGT-KLEWRWKCGPAPNSKKVPAGILDFLMDANIRL 134 (240)
Q Consensus 74 -~~~p~~~y~~~~~~~-~~~~l~~t~eK~~~-~I~~rl~l~~~~d~~e~~~eL~d~l~~~n~~L 134 (240)
....+....+...+. ++..++++++-.+. .+.|.+.|.+.+.. .+..+|+-.+......+
T Consensus 82 ~~~~~~~~~~L~~~~~~~~l~l~~~~~l~~~~p~~w~~~L~~~~~~-~~~~~L~~Pll~~~~~l 144 (171)
T PF09302_consen 82 DSGSRSTSVTLSNEKKDDSLILSLKSKLPGPLPLKWDFHLTKQPPS-QFLSHLNSPLLRMSSAL 144 (171)
T ss_dssp CCCCCCCCCCCCCCCCCCCCCCCCEEEETTE-EEEEEEEEEE--HH-HHHHHTHHHHHHHHHHH
T ss_pred cCCCCCcEEEEEecCCCCceEEEEEEEcCCCCCcccceeeecCcHH-HHHHHHHHHHHHHHHHH
Confidence 222333344432222 33345555544443 56777777765543 45566666665544443
No 3
>PF15384 DUF4610: Domain of unknown function (DUF4610)
Probab=92.97 E-value=1 Score=39.59 Aligned_cols=94 Identities=15% Similarity=0.151 Sum_probs=63.6
Q ss_pred CCCcEEEEEEEeC------CeeEEEEecCCcceEEeecHHHHH-HHhhccCCCHHHHHHHHHHHhcCCCCCceeeEEecC
Q 047048 15 ATDPIFVKGTWFQ------SHFDLSITDGLNAWLCNASEEQVK-DRAALWDQPVTEYIKLAERYLGFQQPGCVYGFTDAA 87 (240)
Q Consensus 15 ~~~~~~lkv~w~~------s~f~L~~TDG~~~w~g~vs~~~i~-~rA~~~~~s~eey~~~l~~aL~~~~p~~~y~~~~~~ 87 (240)
++..|+.++.-.+ ..|.|.+|||...|...++.+.+. .+|..---+.+.|+...+.|+.++. .++....
T Consensus 11 ~~~ryvCyce~~~~~~~~~g~~~i~vTDg~dvW~t~~t~dsL~~~k~~~~L~~~Edy~~rfR~Ac~~~~----vtvtlqe 86 (197)
T PF15384_consen 11 GPPRYVCYCEGEGSGDGDAGVWNIYVTDGADVWSTCFTPDSLAALKARFGLSSAEDYFSRFRAACEQQA----VTVTLQE 86 (197)
T ss_pred CCCcEEEEEeCCCCCCCCCCeeEEEecccHHhhhhccCHHHHHHHHhhcccchHHHHHHHHHHHhhcCe----eEEEEec
Confidence 4344777766663 249999999999999999999976 5787766678899999999994332 1233223
Q ss_pred CCCceEEEEEEeeceeEEEEEeeecCCCCc
Q 047048 88 DGCKRLSWTFEKEGTKLEWRWKCGPAPNSK 117 (240)
Q Consensus 88 ~~~~~l~~t~eK~~~~I~~rl~l~~~~d~~ 117 (240)
+ +.++|+-.....|++.| .++++++
T Consensus 87 d---~a~Ltls~g~s~L~~dL--~k~p~~E 111 (197)
T PF15384_consen 87 D---RASLTLSGGPSALTFDL--SKVPAPE 111 (197)
T ss_pred C---eEEEEecCCCccceEEh--hhCCCch
Confidence 3 35666655555666554 4555553
No 4
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=77.06 E-value=2.7 Score=24.88 Aligned_cols=19 Identities=21% Similarity=0.478 Sum_probs=16.7
Q ss_pred HhchhHHHHHHHHHHHHHh
Q 047048 165 LNSKKSKLRELQDKLSKQA 183 (240)
Q Consensus 165 LNEKK~KIRelq~~L~~~~ 183 (240)
+|..|.+|++|.++|+.+.
T Consensus 3 ~~rlr~rI~dLer~L~~C~ 21 (23)
T PF04508_consen 3 MNRLRNRISDLERQLSECR 21 (23)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 6788999999999998764
No 5
>PF07928 Vps54: Vps54-like protein; InterPro: IPR012501 This family contains various proteins that are homologues of the yeast Vps54 protein, such as the rat homologue (Q9JMK8 from SWISSPROT), the human homologue (Q86YF7 from SWISSPROT), and the mouse homologue (Q8R3X1 from SWISSPROT). In yeast, Vps54 associates with Vps52 and Vps53 proteins to form a trimolecular complex that is involved in protein transport between Golgi, endosomal, and vacuolar compartments []. All Vps54 homologues contain a coiled coil region (not found in the region featured in this family) and multiple dileucine motifs []. ; GO: 0042147 retrograde transport, endosome to Golgi; PDB: 3N1E_B 3N1B_B.
Probab=46.76 E-value=46 Score=27.37 Aligned_cols=59 Identities=12% Similarity=0.282 Sum_probs=28.9
Q ss_pred eecCCCCcchHHHHHHHHhhHhhhh-h--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhch
Q 047048 110 CGPAPNSKKVPAGILDFLMDANIRL-S--AEKCLAQSERFKNEKLEFESAIYAKFLGVLNSK 168 (240)
Q Consensus 110 l~~~~d~~e~~~eL~d~l~~~n~~L-~--~E~l~~qlEe~v~~K~e~E~~Ly~KFv~vLNEK 168 (240)
|.+++.+-+.+..++-++...-.+. . ...+..++++..+.=.+|+.+++.||+.++.++
T Consensus 73 LALasq~L~~~~~lip~i~~~~~~~~~~~~~~~~~~fd~v~~dy~~H~~eI~~Klv~Im~~r 134 (135)
T PF07928_consen 73 LALASQSLSFIISLIPYIREFFERHLPSKQQSLLREFDKVKRDYQDHQNEIFSKLVSIMSDR 134 (135)
T ss_dssp -----------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4456666666667777765544333 2 335689999999999999999999999998764
No 6
>PF04576 Zein-binding: Zein-binding; InterPro: IPR007656 This is a family of uncharacterised proteins.
Probab=44.42 E-value=92 Score=24.49 Aligned_cols=40 Identities=20% Similarity=0.413 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHH
Q 047048 140 LAQSERFKNEKLEFESAIYAKFLGVLNSKKSKLRELQDKL 179 (240)
Q Consensus 140 ~~qlEe~v~~K~e~E~~Ly~KFv~vLNEKK~KIRelq~~L 179 (240)
-.||.+++..|..+..+-+..+-.||-.+-.-|..|...|
T Consensus 54 A~Qy~Rm~EEk~~yD~e~ie~L~~~l~~rE~e~~~Le~el 93 (94)
T PF04576_consen 54 ARQYQRMAEEKAEYDQEAIESLKDILYKREKEIQSLEAEL 93 (94)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 6789999999999999999999999999999999988765
No 7
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=42.50 E-value=17 Score=36.74 Aligned_cols=42 Identities=14% Similarity=0.121 Sum_probs=28.2
Q ss_pred EecCCcceEEeecHHHHHH-----HhhccCCCHHHHHHHHHHHhcCC
Q 047048 34 ITDGLNAWLCNASEEQVKD-----RAALWDQPVTEYIKLAERYLGFQ 75 (240)
Q Consensus 34 ~TDG~~~w~g~vs~~~i~~-----rA~~~~~s~eey~~~l~~aL~~~ 75 (240)
.+|-.-----+++.+.+.. .-++|.++.-|-+.++-++|.+.
T Consensus 280 ~kDee~e~eLslsdE~l~~k~~~kL~k~ysg~i~Ev~s~V~k~L~~r 326 (615)
T KOG0526|consen 280 GKDEEVELELSLSDEELEEKYKGKLKKEYSGPIYEVFSIVMKALCGR 326 (615)
T ss_pred ccccceeEeecccHHHHhhhhcchhhhhcCccHHHHHHHHHHHHhCc
Confidence 3444433344566666654 24688999999999999999544
No 8
>PF06047 SynMuv_product: Ras-induced vulval development antagonist; InterPro: IPR009269 This is a family of eukaryotic proteins with undetermined function.
Probab=38.17 E-value=1e+02 Score=24.71 Aligned_cols=38 Identities=32% Similarity=0.414 Sum_probs=26.0
Q ss_pred hHhhhhhHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHhch
Q 047048 129 DANIRLSAE--KCLAQSERFKNEKLEFESAIYAKFLGVLNSK 168 (240)
Q Consensus 129 ~~n~~L~~E--~l~~qlEe~v~~K~e~E~~Ly~KFv~vLNEK 168 (240)
.+|+-.++| .++..+-. .++...|..++..|..++|+|
T Consensus 65 KEnQvysaeekral~~~~~--eer~krE~~i~~~fr~lv~~k 104 (104)
T PF06047_consen 65 KENQVYSAEEKRALAMFNK--EERAKRENKILSQFRELVNRK 104 (104)
T ss_pred HHHhhccHHHHHHHHHHhH--HHHHHHHHHHHHHHHHHHhcC
Confidence 355555554 33444332 456778999999999999987
No 9
>COG3765 WzzB Chain length determinant protein [Cell envelope biogenesis, outer membrane]
Probab=27.37 E-value=5.7e+02 Score=24.65 Aligned_cols=93 Identities=10% Similarity=0.080 Sum_probs=49.2
Q ss_pred EEeeceeEEEEEeeec-CCCCcchHHHHHHHHhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhchhHHHHH
Q 047048 97 FEKEGTKLEWRWKCGP-APNSKKVPAGILDFLMDANIRLSAEKCLAQSERFKNEKLEFESAIYAK-FLGVLNSKKSKLRE 174 (240)
Q Consensus 97 ~eK~~~~I~~rl~l~~-~~d~~e~~~eL~d~l~~~n~~L~~E~l~~qlEe~v~~K~e~E~~Ly~K-Fv~vLNEKK~KIRe 174 (240)
+...+.+..-.+.+.. ++.+..+-.-|=.|++..++... ..++..+..=+..+...+.+=++. =+-+-|.++.+|..
T Consensus 143 ~~~~~~~~~~~~~vs~~a~t~edAq~~L~gyI~~~s~~v~-~el~~~l~~~~~~rt~~~~~kl~~~~~~ak~~~d~rI~q 221 (347)
T COG3765 143 FKPGGFDLATNLTVSFTAETAEDAQDLLRGYIAFVSQKVA-QELLDNLKDAIALRTRQLKDKLKRQEEVAKAQKDVRIQQ 221 (347)
T ss_pred ccCCccccchhheeeeecCCcHHHHHHHHHHHHHHhHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555554454442 33333322222234444444442 334444444444444433333333 34456889999999
Q ss_pred HHHHHHHHhhhc-ccch
Q 047048 175 LQDKLSKQAVMG-DLQQ 190 (240)
Q Consensus 175 lq~~L~~~~~~~-~~~~ 190 (240)
++..|.=+...+ +.|+
T Consensus 222 l~~Al~iA~~agI~kp~ 238 (347)
T COG3765 222 LKEALKIANAAGIKKPV 238 (347)
T ss_pred HHHHHHHHHhcCCCCCC
Confidence 999998887777 4554
No 10
>PF08786 DUF1795: Domain of unknown function (DUF1795); InterPro: IPR014894 This is a bacterial protein of unknown function. It forms an antiparallel beta sheet structure and contains some alpha helical regions. ; PDB: 1TU1_A 3LYD_A.
Probab=27.29 E-value=3e+02 Score=21.46 Aligned_cols=53 Identities=19% Similarity=0.250 Sum_probs=35.7
Q ss_pred cCCCHHHHHHHHHHHhcCCCCCcee----eEEecCCCCceEEEEEEeeceeEEEEEe
Q 047048 57 WDQPVTEYIKLAERYLGFQQPGCVY----GFTDAADGCKRLSWTFEKEGTKLEWRWK 109 (240)
Q Consensus 57 ~~~s~eey~~~l~~aL~~~~p~~~y----~~~~~~~~~~~l~~t~eK~~~~I~~rl~ 109 (240)
.+.+.++|++..-..|..+.++... .+...+.....+.++|+..+..|.++.-
T Consensus 39 ~g~tl~~~~~~q~~~l~~~l~~~~~~~~~~~~l~~~~a~~l~~~~~~~g~~v~Q~q~ 95 (130)
T PF08786_consen 39 DGETLEDYLQRQLAQLRKQLPGFQLVERQPITLGGRPARELEYSFRSGGQPVYQRQA 95 (130)
T ss_dssp TTS-HHHHHHHHHHHHHCCSTT-EEEEEEEEEETTEEEEEEEEEEEETTCEEEEEEE
T ss_pred CCCCHHHHHHHHHHHHHhhCCCcEEEeeEEEEeCCCCeEEEEEEEeeCCEEEEEEEE
Confidence 4678999999999888767676532 2333444334577788888889998743
No 11
>PF05470 eIF-3c_N: Eukaryotic translation initiation factor 3 subunit 8 N-terminus; InterPro: IPR008905 The largest of the mammalian translation initiation factors, eIF3, consists of at least eight subunits ranging in mass from 35 to 170 kDa. eIF3 binds to the 40 S ribosome in an early step of translation initiation and promotes the binding of methionyl-tRNAi and mRNA [].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation, 0005852 eukaryotic translation initiation factor 3 complex
Probab=21.78 E-value=1.9e+02 Score=29.61 Aligned_cols=46 Identities=26% Similarity=0.361 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHH---HHHHHHHHHHHHHHhchhHHHHHH----HHHHHHHh
Q 047048 138 KCLAQSERFKNEKL---EFESAIYAKFLGVLNSKKSKLREL----QDKLSKQA 183 (240)
Q Consensus 138 ~l~~qlEe~v~~K~---e~E~~Ly~KFv~vLNEKK~KIRel----q~~L~~~~ 183 (240)
+++.+||.||++.- +-=..|-+.=.--||.=|.|||-. +..|....
T Consensus 80 r~l~~Led~v~e~~~~ke~~Kkms~~nakaln~lkQklkK~~k~~e~~i~~yr 132 (595)
T PF05470_consen 80 RALVELEDFVNETWADKEAKKKMSKNNAKALNTLKQKLKKYNKEYEAQIAKYR 132 (595)
T ss_pred HHHHHHHHHHHHHHhhhHhhhhcCHHhHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence 67999999999832 222344444456677778888766 44444443
No 12
>PF14630 ORC5_C: Origin recognition complex (ORC) subunit 5 C-terminus
Probab=21.74 E-value=94 Score=27.96 Aligned_cols=31 Identities=32% Similarity=0.529 Sum_probs=27.9
Q ss_pred ecCCcceEEeecHHHHHHHhhccCCCHHHHH
Q 047048 35 TDGLNAWLCNASEEQVKDRAALWDQPVTEYI 65 (240)
Q Consensus 35 TDG~~~w~g~vs~~~i~~rA~~~~~s~eey~ 65 (240)
-||..=|+|+|+.+.|...|+.++.+.++|+
T Consensus 240 Ld~~~k~rcnvs~e~i~~iA~sv~f~l~~YL 270 (271)
T PF14630_consen 240 LDGSPKWRCNVSWEFIREIAKSVGFDLDEYL 270 (271)
T ss_pred cCCCCceEEECCHHHHHHHHHHcCcCHHHhc
Confidence 4665679999999999999999999999996
No 13
>PRK10328 DNA binding protein, nucleoid-associated; Provisional
Probab=21.24 E-value=1.6e+02 Score=24.33 Aligned_cols=20 Identities=20% Similarity=0.293 Sum_probs=10.3
Q ss_pred HHHHHHHHHhchhHHHHHHH
Q 047048 157 IYAKFLGVLNSKKSKLRELQ 176 (240)
Q Consensus 157 Ly~KFv~vLNEKK~KIRelq 176 (240)
++.||-.|++|++......+
T Consensus 29 ~~ekl~~vv~er~~~~~~~~ 48 (134)
T PRK10328 29 MLEKFRVVTKERREEEEQQQ 48 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34466666666555444333
No 14
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=20.70 E-value=4e+02 Score=27.02 Aligned_cols=40 Identities=10% Similarity=0.025 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHHH
Q 047048 140 LAQSERFKNEKLEFESAIYAKFLGVLNSKKSKLRELQDKLSKQ 182 (240)
Q Consensus 140 ~~qlEe~v~~K~e~E~~Ly~KFv~vLNEKK~KIRelq~~L~~~ 182 (240)
.+-||+.+..-..+-.-+-++|.- |||.||+-||.+.-+.
T Consensus 544 reslekql~~ErklR~~~qkr~kk---Ekk~k~k~qe~L~~~s 583 (641)
T KOG3915|consen 544 RESLEKQLAMERKLRAIVQKRLKK---EKKAKRKLQEALEFES 583 (641)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhhhcc
Confidence 444555444433333333334443 9999999888776443
Done!