Query 009522
Match_columns 532
No_of_seqs 114 out of 126
Neff 2.9
Searched_HMMs 46136
Date Thu Mar 28 14:08:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009522.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009522hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03763 Remorin_C: Remorin, C 99.5 3.3E-15 7.2E-20 131.5 3.2 51 462-512 2-52 (111)
2 PF03763 Remorin_C: Remorin, C 49.9 21 0.00046 32.2 3.8 27 486-512 4-30 (111)
3 KOG4326 Mitochondrial F1F0-ATP 42.1 28 0.00062 30.3 3.1 26 481-506 31-56 (81)
4 PF05604 DUF776: Protein of un 33.3 37 0.00081 33.5 2.8 26 270-295 76-101 (178)
5 PF15554 FSIP1: FSIP1 family 26.2 35 0.00075 37.5 1.4 38 483-520 161-201 (425)
6 PF15168 TRIQK: Triple QxxK/R 12.9 2E+02 0.0044 25.4 2.8 13 514-526 57-69 (79)
7 PF10697 DUF2502: Protein of u 12.1 1.2E+02 0.0027 26.8 1.3 25 55-79 3-27 (82)
8 PF02398 Corona_7: Coronavirus 12.0 3E+02 0.0065 25.0 3.7 31 492-522 62-92 (101)
9 PF07352 Phage_Mu_Gam: Bacteri 11.7 3.4E+02 0.0073 25.1 4.1 38 476-513 18-55 (149)
10 PF12856 Apc9: Anaphase-promot 10.7 1.8E+02 0.0038 26.4 1.9 15 486-500 44-58 (100)
No 1
>PF03763 Remorin_C: Remorin, C-terminal region ; InterPro: IPR005516 Remorin binds both simple and complex galaturonides. The N-terminal region of remorin is proline rich, while the C-terminal region has been predicted to form a coiled-coil, that is expected to interact with other macromolecules, most likely DNA. Functional similarities between the behavior of the proteins and viral proteins involved in intercellular communication have been noted [].
Probab=99.53 E-value=3.3e-15 Score=131.52 Aligned_cols=51 Identities=49% Similarity=0.756 Sum_probs=48.9
Q ss_pred hhhhhhcccccccccccchhhhhhhhHHhHHHHHHhHHHHHHHHHHhHHHH
Q 009522 462 KKAADAQTSAWDITESTKTISKIKREELRITAWENLQKAKAEAAIRKLEVL 512 (532)
Q Consensus 462 k~~~esrAaAWEeaEkaK~~~R~qREEaKI~AWEnlQKAKAEA~mrKlEm~ 512 (532)
++.+++++.+||++|++|+++||+|||++|++|||+||+||||+|+|+|++
T Consensus 2 ~~~~~a~a~aWe~ae~aK~~~r~~ree~~I~aWEn~qkaKaea~m~k~E~k 52 (111)
T PF03763_consen 2 KEEVEAKADAWEEAEKAKINNRYEREEAKIQAWENLQKAKAEAEMRKIEEK 52 (111)
T ss_pred cHHHHhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467899999999999999999999999999999999999999999999976
No 2
>PF03763 Remorin_C: Remorin, C-terminal region ; InterPro: IPR005516 Remorin binds both simple and complex galaturonides. The N-terminal region of remorin is proline rich, while the C-terminal region has been predicted to form a coiled-coil, that is expected to interact with other macromolecules, most likely DNA. Functional similarities between the behavior of the proteins and viral proteins involved in intercellular communication have been noted [].
Probab=49.95 E-value=21 Score=32.24 Aligned_cols=27 Identities=30% Similarity=0.416 Sum_probs=23.9
Q ss_pred hhHHhHHHHHHhHHHHHHHHHHhHHHH
Q 009522 486 REELRITAWENLQKAKAEAAIRKLEVL 512 (532)
Q Consensus 486 REEaKI~AWEnlQKAKAEA~mrKlEm~ 512 (532)
.-|++|.|||.-+++|+....++.|..
T Consensus 4 ~~~a~a~aWe~ae~aK~~~r~~ree~~ 30 (111)
T PF03763_consen 4 EVEAKADAWEEAEKAKINNRYEREEAK 30 (111)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHhH
Confidence 458999999999999999999988754
No 3
>KOG4326 consensus Mitochondrial F1F0-ATP synthase, subunit e [Energy production and conversion]
Probab=42.11 E-value=28 Score=30.35 Aligned_cols=26 Identities=19% Similarity=0.226 Sum_probs=20.7
Q ss_pred hhhhhhhHHhHHHHHHhHHHHHHHHH
Q 009522 481 ISKIKREELRITAWENLQKAKAEAAI 506 (532)
Q Consensus 481 ~~R~qREEaKI~AWEnlQKAKAEA~m 506 (532)
.++++..+.+|..|+.+|||++.|+.
T Consensus 31 ~~~l~~~~e~~Rei~a~eKav~da~~ 56 (81)
T KOG4326|consen 31 LRQLREYHEDIREIDAHEKAVADAEE 56 (81)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHhHHH
Confidence 45667778999999999999987543
No 4
>PF05604 DUF776: Protein of unknown function (DUF776); InterPro: IPR008494 This family consists of several highly related Mus musculus and Homo sapiens proteins of unknown function.
Probab=33.29 E-value=37 Score=33.50 Aligned_cols=26 Identities=42% Similarity=0.538 Sum_probs=22.4
Q ss_pred CCCCCCCCCCCCCCCCCccccCCCCc
Q 009522 270 QRRPKSKSGPLGPPGLAYYSLYSPAM 295 (532)
Q Consensus 270 ~RRPKSKSGPLgPPG~~~Ys~~Spsv 295 (532)
|||.+|||--|=||-..|++...|+-
T Consensus 76 QRRRRSKSPVLhPPKFt~Cst~a~s~ 101 (178)
T PF05604_consen 76 QRRRRSKSPVLHPPKFTHCSTKAPSS 101 (178)
T ss_pred ccccccCCcccCCCcceeeccCCCCc
Confidence 89999999999999999998877654
No 5
>PF15554 FSIP1: FSIP1 family
Probab=26.22 E-value=35 Score=37.53 Aligned_cols=38 Identities=34% Similarity=0.479 Sum_probs=32.4
Q ss_pred hhhhhHHhHHHHHHhHHHHHHHHHHhHHHHh---hHHHHHH
Q 009522 483 KIKREELRITAWENLQKAKAEAAIRKLEVLH---SFFCLLF 520 (532)
Q Consensus 483 R~qREEaKI~AWEnlQKAKAEA~mrKlEm~~---~f~~~~~ 520 (532)
|-|+.|+.|+=||.||-||.+-.++.-|... -|.+|.+
T Consensus 161 KkQglemr~kLweEL~~~k~~~~~~s~ee~eNT~kFLaLt~ 201 (425)
T PF15554_consen 161 KKQGLEMRIKLWEELKSAKNEEDLESNEESENTKKFLALTP 201 (425)
T ss_pred HHHHHHHHHHHHHHHHhcccccccccchhhhcchhhhhccC
Confidence 4488899999999999999998888887766 7888765
No 6
>PF15168 TRIQK: Triple QxxK/R motif-containing protein family
Probab=12.90 E-value=2e+02 Score=25.38 Aligned_cols=13 Identities=23% Similarity=0.585 Sum_probs=8.7
Q ss_pred hHHHHHHHhhccc
Q 009522 514 SFFCLLFVCYSWN 526 (532)
Q Consensus 514 ~f~~~~~~~~~~~ 526 (532)
--+||||.||..-
T Consensus 57 ail~lL~a~Ya~f 69 (79)
T PF15168_consen 57 AILVLLLAFYAFF 69 (79)
T ss_pred HHHHHHHHHHHHH
Confidence 4567788888653
No 7
>PF10697 DUF2502: Protein of unknown function (DUF2502); InterPro: IPR019638 This entry represents proteins mainly found in Gammaproteobacteria. The function is not known.
Probab=12.05 E-value=1.2e+02 Score=26.81 Aligned_cols=25 Identities=28% Similarity=0.410 Sum_probs=22.0
Q ss_pred ccccccccccccccccccCCCCCCC
Q 009522 55 SLASEISLHLGERERQESLSGSGGP 79 (532)
Q Consensus 55 s~~s~~sl~~~~~~~~~~~~~~~~~ 79 (532)
.|+-.|||||..+|.-+-+|-+..|
T Consensus 3 ~l~Pgv~l~iGdrd~rGyYWDG~~W 27 (82)
T PF10697_consen 3 TLVPGVSLHIGDRDRRGYYWDGYRW 27 (82)
T ss_pred ccccceEEecccccCCcccCCCCcc
Confidence 3677899999999999999998887
No 8
>PF02398 Corona_7: Coronavirus protein 7; InterPro: IPR003449 This is a family of proteins from Coronavirus, which may function in the formation of membrane-bound replication complexes or in viral assembly.
Probab=12.04 E-value=3e+02 Score=25.03 Aligned_cols=31 Identities=26% Similarity=0.356 Sum_probs=26.2
Q ss_pred HHHHHhHHHHHHHHHHhHHHHhhHHHHHHHh
Q 009522 492 TAWENLQKAKAEAAIRKLEVLHSFFCLLFVC 522 (532)
Q Consensus 492 ~AWEnlQKAKAEA~mrKlEm~~~f~~~~~~~ 522 (532)
...-.+|++-||..+-|+-+.-.|+.+|+.|
T Consensus 62 lDfniL~RslaetRLLk~~lrviFlvlL~f~ 92 (101)
T PF02398_consen 62 LDFNILYRSLAETRLLKVVLRVIFLVLLGFC 92 (101)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456789999999999999999999988664
No 9
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=11.74 E-value=3.4e+02 Score=25.09 Aligned_cols=38 Identities=26% Similarity=0.293 Sum_probs=27.9
Q ss_pred cccchhhhhhhhHHhHHHHHHhHHHHHHHHHHhHHHHh
Q 009522 476 ESTKTISKIKREELRITAWENLQKAKAEAAIRKLEVLH 513 (532)
Q Consensus 476 EkaK~~~R~qREEaKI~AWEnlQKAKAEA~mrKlEm~~ 513 (532)
+.+.+.+.++.+-+.|++|-.-+.+..+++|..||=.-
T Consensus 18 ~~~~i~~~~~~~I~~i~~~~~~~~~~l~~~i~~l~~~l 55 (149)
T PF07352_consen 18 EIARIEAEANDEIARIKEWYEAEIAPLQNRIEYLEGLL 55 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455567778888888888888888888887777443
No 10
>PF12856 Apc9: Anaphase-promoting complex subunit 9; InterPro: IPR024274 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. All APC subunits are members of the cullin family proteins, which bind to a ring-finger subunit via a conserved cullin domain [].The APC can be divided in four parts, the third of which is a tetratricopeptide repeat arm (TPR) that contains multiple subunits, including Apc9 []. This entry represents Apc9, one of the subunits of the anaphase-promoting complex.
Probab=10.73 E-value=1.8e+02 Score=26.41 Aligned_cols=15 Identities=33% Similarity=0.576 Sum_probs=11.7
Q ss_pred hhHHhHHHHHHhHHH
Q 009522 486 REELRITAWENLQKA 500 (532)
Q Consensus 486 REEaKI~AWEnlQKA 500 (532)
-.|.||.+||.-++|
T Consensus 44 l~eSkI~~~l~sEra 58 (100)
T PF12856_consen 44 LRESKIKAWLSSERA 58 (100)
T ss_pred HHHHHHHHHHHHHHH
Confidence 459999999976554
Done!