Query 018500
Match_columns 355
No_of_seqs 127 out of 150
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 09:32:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018500.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018500hhsearch_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 99.7 5.3E-17 1.1E-21 137.2 3.7 55 299-353 2-56 (111)
2 PF03763 Remorin_C: Remorin, C 62.0 11 0.00024 32.4 3.9 27 302-328 27-53 (111)
3 KOG4326 Mitochondrial F1F0-ATP 54.9 18 0.00039 29.9 3.7 28 316-343 29-56 (81)
4 PF12528 DUF3728: Prepilin pep 47.3 12 0.00026 30.6 1.6 43 34-83 40-82 (84)
5 PF07352 Phage_Mu_Gam: Bacteri 29.9 1E+02 0.0022 27.0 4.8 41 311-351 16-56 (149)
6 PF02370 M: M protein repeat; 29.6 50 0.0011 21.4 2.0 18 335-352 2-19 (21)
7 PRK10332 hypothetical protein; 27.2 40 0.00087 29.3 1.7 42 34-83 63-104 (107)
8 PF11559 ADIP: Afadin- and alp 16.5 2.4E+02 0.0052 24.4 4.4 32 321-352 113-144 (151)
9 PF11105 CCAP: Arthropod cardi 15.8 50 0.0011 29.8 0.0 24 325-350 108-131 (133)
10 PF12856 Apc9: Anaphase-promot 15.2 1.1E+02 0.0025 26.2 2.0 15 323-337 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=99.65 E-value=5.3e-17 Score=137.16 Aligned_cols=55 Identities=42% Similarity=0.487 Sum_probs=52.3
Q ss_pred cccccccCCcchhhhhhhhhhHhhhhHhHHHHHHHhHHHHHHHHHHHHHHhhccc
Q 018500 299 QNVTGTCAPSLDLSEVAASISKLQREEAKITAWENLQRAKAEAAIRKLEVSNFYS 353 (355)
Q Consensus 299 k~~~esra~AWeeaEkaK~~~r~~rEEakI~AWEn~qKAKaEA~mrKlE~Kl~~~ 353 (355)
++.+++++.+||++|++|+++||+|+|++|++|||+||+||||+|+|+|+|||..
T Consensus 2 ~~~~~a~a~aWe~ae~aK~~~r~~ree~~I~aWEn~qkaKaea~m~k~E~klEkk 56 (111)
T PF03763_consen 2 KEEVEAKADAWEEAEKAKINNRYEREEAKIQAWENLQKAKAEAEMRKIEEKLEKK 56 (111)
T ss_pred cHHHHhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678999999999999999999999999999999999999999999999999864
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=62.02 E-value=11 Score=32.38 Aligned_cols=27 Identities=11% Similarity=0.132 Sum_probs=23.7
Q ss_pred ccccCCcchhhhhhhhhhHhhhhHhHH
Q 018500 302 TGTCAPSLDLSEVAASISKLQREEAKI 328 (355)
Q Consensus 302 ~esra~AWeeaEkaK~~~r~~rEEakI 328 (355)
.++++.+||...++|+....++-|.++
T Consensus 27 ee~~I~aWEn~qkaKaea~m~k~E~kl 53 (111)
T PF03763_consen 27 EEAKIQAWENLQKAKAEAEMRKIEEKL 53 (111)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468899999999999999888888765
No 3
>KOG4326 consensus Mitochondrial F1F0-ATP synthase, subunit e [Energy production and conversion]
Probab=54.94 E-value=18 Score=29.92 Aligned_cols=28 Identities=18% Similarity=0.217 Sum_probs=22.4
Q ss_pred hhhhHhhhhHhHHHHHHHhHHHHHHHHH
Q 018500 316 ASISKLQREEAKITAWENLQRAKAEAAI 343 (355)
Q Consensus 316 K~~~r~~rEEakI~AWEn~qKAKaEA~m 343 (355)
-..+++...+.+|..|+.+|||++.|++
T Consensus 29 ~r~~~l~~~~e~~Rei~a~eKav~da~~ 56 (81)
T KOG4326|consen 29 FRLRQLREYHEDIREIDAHEKAVADAEE 56 (81)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHhHHH
Confidence 3456777889999999999999988654
No 4
>PF12528 DUF3728: Prepilin peptidase dependent protein C (DUF3728); InterPro: IPR022204 This family of proteins is found in bacteria. Proteins in this family are typically between 106 and 121 amino acids in length. The family is found in association with PF07963 from PFAM. There are two completely conserved C residues that may be functionally important. This family is frequently annotated as prepilin peptidase dependent protein C however there is little accompanying literature to confirm this.
Probab=47.31 E-value=12 Score=30.60 Aligned_cols=43 Identities=28% Similarity=0.620 Sum_probs=33.5
Q ss_pred CCCCCCCCCCcccCCCCCCCcccccccccccCCCCCCCCCccccccceec
Q 018500 34 PGAPKGWSSERVPHPTSSSRRHISAASLTPFYSGRALPSKWEDAERWICS 83 (355)
Q Consensus 34 PGtpKGWsSERVp~~s~~~rR~~~~a~l~Pfn~GRtlPSKWEDAERWI~S 83 (355)
++.|+||..+++.-...++=+.+.+...+|.+ +.-...||+|+
T Consensus 40 ~~~~~gWq~~~~~~~~~~~C~~itvtv~tP~~-------~~a~LsRw~C~ 82 (84)
T PF12528_consen 40 SGPPPGWQYSRQQTSIQGGCRSITVTVTTPQN-------QQAQLSRWFCP 82 (84)
T ss_pred cCCCCCceeeeeeeccCCCeEEEEEEEecCCC-------ccccceeeecC
Confidence 46779999999976556666777677778987 55678899996
No 5
>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=29.90 E-value=1e+02 Score=27.03 Aligned_cols=41 Identities=24% Similarity=0.202 Sum_probs=33.7
Q ss_pred hhhhhhhhhHhhhhHhHHHHHHHhHHHHHHHHHHHHHHhhc
Q 018500 311 LSEVAASISKLQREEAKITAWENLQRAKAEAAIRKLEVSNF 351 (355)
Q Consensus 311 eaEkaK~~~r~~rEEakI~AWEn~qKAKaEA~mrKlE~Kl~ 351 (355)
..+.+.+.+.++.+.+.|+.|-..+.+..++++..+|-.+.
T Consensus 16 ~~~~~~i~~~~~~~I~~i~~~~~~~~~~l~~~i~~l~~~l~ 56 (149)
T PF07352_consen 16 QREIARIEAEANDEIARIKEWYEAEIAPLQNRIEYLEGLLQ 56 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556777888899999999999999999999998886553
No 6
>PF02370 M: M protein repeat; InterPro: IPR003345 This short repeat is found in multiple copies in bacterial M proteins. The M proteins bind to IgA and are closely associated with virulence. The M protein has been postulated to be a major group A streptococcal (GAS) virulence factor because of its contribution to the bacterial resistance to opsonophagocytosis [].; PDB: 2KK9_A.
Probab=29.56 E-value=50 Score=21.36 Aligned_cols=18 Identities=28% Similarity=0.298 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHhhcc
Q 018500 335 QRAKAEAAIRKLEVSNFY 352 (355)
Q Consensus 335 qKAKaEA~mrKlE~Kl~~ 352 (355)
.|-+.||+.+|||.+..+
T Consensus 2 akk~lEa~~qkLe~e~q~ 19 (21)
T PF02370_consen 2 AKKQLEADHQKLEAEKQI 19 (21)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHhh
Confidence 356788888888877644
No 7
>PRK10332 hypothetical protein; Provisional
Probab=27.16 E-value=40 Score=29.26 Aligned_cols=42 Identities=19% Similarity=0.351 Sum_probs=32.1
Q ss_pred CCCCCCCCCCcccCCCCCCCcccccccccccCCCCCCCCCccccccceec
Q 018500 34 PGAPKGWSSERVPHPTSSSRRHISAASLTPFYSGRALPSKWEDAERWICS 83 (355)
Q Consensus 34 PGtpKGWsSERVp~~s~~~rR~~~~a~l~Pfn~GRtlPSKWEDAERWI~S 83 (355)
+.-|.||--||+.- ..++=+.+.+...+|++ ..-+..||+|+
T Consensus 63 ~~~~~gWq~~~~~~-~~~gC~~itv~v~~P~~-------~~a~lsRw~C~ 104 (107)
T PRK10332 63 ISPPANWQVNRMQT-SQAGCVSISVTLVSPGG-------RQGQMTRLHCP 104 (107)
T ss_pred CCCCCCceeeeeec-CCCCcEEEEEEEecCCC-------chhhceeeccC
Confidence 44569999999987 44556777677778988 45678899996
No 8
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=16.49 E-value=2.4e+02 Score=24.44 Aligned_cols=32 Identities=19% Similarity=0.081 Sum_probs=26.4
Q ss_pred hhhhHhHHHHHHHhHHHHHHHHHHHHHHhhcc
Q 018500 321 LQREEAKITAWENLQRAKAEAAIRKLEVSNFY 352 (355)
Q Consensus 321 ~~rEEakI~AWEn~qKAKaEA~mrKlE~Kl~~ 352 (355)
.+.|-.|...|....+++.+.+|||.|..++.
T Consensus 113 ~kee~~klk~~~~~~~tq~~~e~rkke~E~~k 144 (151)
T PF11559_consen 113 EKEELQKLKNQLQQRKTQYEHELRKKEREIEK 144 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556788899999999999999999976543
No 9
>PF11105 CCAP: Arthropod cardioacceleratory peptide 2a; InterPro: IPR024276 Crustacean cardioactive peptide (CCAP), also known as cardioacceleratory peptide 2a, exerts a reversible and dose-dependent cardio-stimulatory effect on the semi-isolated heart of experimental beetles. CCAP also increases free hemolymph sugar concentration in young larvae and adults of the meal-worm beetle [].; PDB: 1Y49_A 1V46_A.
Probab=15.84 E-value=50 Score=29.80 Aligned_cols=24 Identities=38% Similarity=0.541 Sum_probs=0.0
Q ss_pred HhHHHHHHHhHHHHHHHHHHHHHHhh
Q 018500 325 EAKITAWENLQRAKAEAAIRKLEVSN 350 (355)
Q Consensus 325 EakI~AWEn~qKAKaEA~mrKlE~Kl 350 (355)
|||| ||..|.|++|-..||-+.|.
T Consensus 108 eaKl--wEaIqEA~~Ei~r~k~~~~~ 131 (133)
T PF11105_consen 108 EAKL--WEAIQEASMEIFRQKQKQKQ 131 (133)
T ss_dssp --------------------------
T ss_pred HHHH--HHHHHHHHHHHHHHHHHHHh
Confidence 5555 99999999998888877665
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=15.17 E-value=1.1e+02 Score=26.19 Aligned_cols=15 Identities=47% Similarity=0.702 Sum_probs=12.3
Q ss_pred hhHhHHHHHHHhHHH
Q 018500 323 REEAKITAWENLQRA 337 (355)
Q Consensus 323 rEEakI~AWEn~qKA 337 (355)
-.|.||.+||..++|
T Consensus 44 l~eSkI~~~l~sEra 58 (100)
T PF12856_consen 44 LRESKIKAWLSSERA 58 (100)
T ss_pred HHHHHHHHHHHHHHH
Confidence 568999999987765
Done!