Query 024266
Match_columns 270
No_of_seqs 48 out of 50
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 03:19:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024266.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024266hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10070 DUF2309: Uncharacteri 25.2 25 0.00054 37.8 0.2 47 175-244 655-701 (788)
2 PHA00456 hypothetical protein 23.1 23 0.00051 24.4 -0.3 7 249-255 26-32 (34)
3 COG4936 PocR Predicted sensor 22.5 35 0.00076 30.6 0.5 14 227-240 85-98 (169)
4 PF04676 CwfJ_C_2: Protein sim 20.3 35 0.00077 26.9 0.1 10 187-196 89-98 (98)
5 PF12617 LdpA_C: Iron-Sulfur b 15.7 50 0.0011 30.0 -0.0 22 245-266 86-108 (183)
6 PF10731 Anophelin: Thrombin i 15.5 94 0.002 24.2 1.4 19 217-235 32-50 (65)
7 KOG0420 Ubiquitin-protein liga 14.2 1.5E+02 0.0032 27.2 2.5 20 81-102 84-103 (184)
8 PF12419 DUF3670: SNF2 Helicas 13.5 31 0.00067 28.9 -1.8 44 186-245 66-111 (141)
9 PF09026 CENP-B_dimeris: Centr 12.6 69 0.0015 26.8 0.0 19 212-230 26-44 (101)
10 PF10446 DUF2457: Protein of u 12.6 1.1E+02 0.0025 31.3 1.5 29 203-252 94-125 (458)
No 1
>PF10070 DUF2309: Uncharacterized protein conserved in bacteria (DUF2309); InterPro: IPR018752 Members of this family of hypothetical bacterial proteins have no known function.
Probab=25.24 E-value=25 Score=37.81 Aligned_cols=47 Identities=28% Similarity=0.444 Sum_probs=29.7
Q ss_pred CCcchhhhhcccccccccccccccccccccccCcccCccccCCCCccccccceeeecccceecccCccCC
Q 024266 175 PGLSQMKRFASGRDAFSSFDWTAQQIAPETDRGAYYSYEERGDSDEEQDEDRVIIPFSAPIAVVKGVALQ 244 (270)
Q Consensus 175 P~LgqMKRFaSGR~af~dFDWk~~qvap~e~~~~yys~~er~~~d~de~ee~~iipfSAPl~~~ggv~~~ 244 (270)
|--=+--.|-.||.=|-||||+.. -|+ .-=| .| .+||+||+.+||+|
T Consensus 655 pR~~Trg~dL~gR~FLHsYD~~~D-------------------~dg-~~Le-~I--ltaP~vVa~WINlq 701 (788)
T PF10070_consen 655 PRSLTRGLDLDGRAFLHSYDWRQD-------------------PDG-SILE-LI--LTAPMVVAQWINLQ 701 (788)
T ss_pred chhhccCCCCCCccccccCCCCcC-------------------cCC-cHHH-HH--Hcccchhhccccce
Confidence 333344457788999999999882 000 0011 12 47899999988876
No 2
>PHA00456 hypothetical protein
Probab=23.09 E-value=23 Score=24.38 Aligned_cols=7 Identities=86% Similarity=1.592 Sum_probs=5.3
Q ss_pred hhccccC
Q 024266 249 VNLWKRR 255 (270)
Q Consensus 249 VNLWkRR 255 (270)
-||||+|
T Consensus 26 y~lWk~R 32 (34)
T PHA00456 26 YNLWKRR 32 (34)
T ss_pred HHHHHHc
Confidence 4788887
No 3
>COG4936 PocR Predicted sensor domain [Signal transduction mechanisms / Transcription]
Probab=22.48 E-value=35 Score=30.58 Aligned_cols=14 Identities=43% Similarity=0.465 Sum_probs=11.3
Q ss_pred eeeecccceecccC
Q 024266 227 VIIPFSAPIAVVKG 240 (270)
Q Consensus 227 ~iipfSAPl~~~gg 240 (270)
+++-|||||||+|-
T Consensus 85 GLtDFs~Pivv~gq 98 (169)
T COG4936 85 GLTDFSAPIVVGGQ 98 (169)
T ss_pred CccccccceEEcce
Confidence 67889999998653
No 4
>PF04676 CwfJ_C_2: Protein similar to CwfJ C-terminus 2; InterPro: IPR006767 This group of sequences contain a conserved C-terminal domain which is found in the Schizosaccharomyces pombe (Fission yeast) protein Cwf19 (Q09909 from SWISSPROT) and its homologues. Cwf19 is part of the Cdc5p complex involved in mRNA splicing []. This domain is found in association with IPR006768 from INTERPRO, which is generally N-terminal and adjacent to this domain.
Probab=20.30 E-value=35 Score=26.92 Aligned_cols=10 Identities=60% Similarity=1.381 Sum_probs=7.8
Q ss_pred cccccccccc
Q 024266 187 RDAFSSFDWT 196 (270)
Q Consensus 187 R~af~dFDWk 196 (270)
|.+|..||||
T Consensus 89 k~~f~~fD~T 98 (98)
T PF04676_consen 89 KKAFKPFDWT 98 (98)
T ss_pred HHHccCcCCC
Confidence 5678888886
No 5
>PF12617 LdpA_C: Iron-Sulfur binding protein C terminal; InterPro: IPR021039 This entry represents the C-terminal region of the iron-sulphur protein LdpA (Light dependent period), which is found in phototropic organisms. LdpA was originally identified in cyanobacteria where it is involved in light-dependent modulation of the circadian clock. The presence of iron-sulphur clusters on LdpA suggests that it may modulate the circadian clock as an indirect function of light intensity by sensing changes in cellular physiology [].
Probab=15.70 E-value=50 Score=30.03 Aligned_cols=22 Identities=36% Similarity=0.652 Sum_probs=17.3
Q ss_pred cccchhcccc-CCCCCCCCcccc
Q 024266 245 PRKEVNLWKR-RPMNPPAPLQLN 266 (270)
Q Consensus 245 PRKEVNLWkR-RtM~PP~PLqL~ 266 (270)
=|--|.||.+ +++.||.||||-
T Consensus 86 t~aaV~l~~~v~~~~~PG~vQLA 108 (183)
T PF12617_consen 86 TRAAVKLAQKVLSAKPPGPVQLA 108 (183)
T ss_pred HHHHHHHHHHHhhcCCCCceEec
Confidence 3556888865 568999999995
No 6
>PF10731 Anophelin: Thrombin inhibitor from mosquito; InterPro: IPR018932 Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=15.49 E-value=94 Score=24.15 Aligned_cols=19 Identities=37% Similarity=0.651 Sum_probs=10.6
Q ss_pred CCCccccccceeeecccce
Q 024266 217 DSDEEQDEDRVIIPFSAPI 235 (270)
Q Consensus 217 ~~d~de~ee~~iipfSAPl 235 (270)
.+|+|+++|+-++|+|.-+
T Consensus 32 ~YDEdd~dde~l~phsss~ 50 (65)
T PF10731_consen 32 SYDEDDDDDEPLKPHSSSI 50 (65)
T ss_pred CcCcccCcccccccCCCCC
Confidence 3444444444778877543
No 7
>KOG0420 consensus Ubiquitin-protein ligase [Posttranslational modification, protein turnover, chaperones]
Probab=14.18 E-value=1.5e+02 Score=27.21 Aligned_cols=20 Identities=30% Similarity=0.708 Sum_probs=15.1
Q ss_pred CCCCCCCCCCCCceeeecchhh
Q 024266 81 HQSLANQEPTSPKISCMGQIKH 102 (270)
Q Consensus 81 ~~~~~~~EPtSPKVSCiGQVK~ 102 (270)
...+|+.|| |||-|.-+|=|
T Consensus 84 v~~~Yp~~P--PKVkCltkV~H 103 (184)
T KOG0420|consen 84 VPNAYPHEP--PKVKCLTKVYH 103 (184)
T ss_pred CCCCCCCCC--Ceeeeeecccc
Confidence 346677777 99999988755
No 8
>PF12419 DUF3670: SNF2 Helicase protein ; InterPro: IPR022138 This domain family is found in bacteria, archaea and eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF00271 from PFAM, PF00176 from PFAM. Most of the proteins in this family are annotated as SNF2 helicases but there is little accompanying literature to confirm this.
Probab=13.54 E-value=31 Score=28.93 Aligned_cols=44 Identities=27% Similarity=0.565 Sum_probs=27.5
Q ss_pred cccccccccccccccccccccCcccCccccCCCCccccccceeeecccceecccC--ccCCc
Q 024266 186 GRDAFSSFDWTAQQIAPETDRGAYYSYEERGDSDEEQDEDRVIIPFSAPIAVVKG--VALQP 245 (270)
Q Consensus 186 GR~af~dFDWk~~qvap~e~~~~yys~~er~~~d~de~ee~~iipfSAPl~~~gg--v~~~P 245 (270)
|-|++-+|||..+ |-.++. ..|| =+-++--..|||-..| |-+-|
T Consensus 66 gl~~l~~f~W~la-lGd~~L--------------s~eE-f~~L~~~~~~LV~~rg~WV~ld~ 111 (141)
T PF12419_consen 66 GLDQLLDFDWELA-LGDEEL--------------SEEE-FEQLVEQKRPLVRFRGRWVELDP 111 (141)
T ss_pred ChHHHhcceEEEE-ECCEEC--------------CHHH-HHHHHHcCCCeEEECCEEEEECH
Confidence 5678899999995 533222 1122 1236666789998888 54444
No 9
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=12.62 E-value=69 Score=26.78 Aligned_cols=19 Identities=42% Similarity=0.786 Sum_probs=0.0
Q ss_pred ccccCCCCccccccceeee
Q 024266 212 YEERGDSDEEQDEDRVIIP 230 (270)
Q Consensus 212 ~~er~~~d~de~ee~~iip 230 (270)
++|..|.|+|+|+|++-||
T Consensus 26 dEEedDddddee~de~p~p 44 (101)
T PF09026_consen 26 DEEEDDDDDDEEEDEVPVP 44 (101)
T ss_dssp -------------------
T ss_pred cccccccccccccccccch
No 10
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=12.59 E-value=1.1e+02 Score=31.35 Aligned_cols=29 Identities=28% Similarity=0.533 Sum_probs=0.0
Q ss_pred ccccCc-ccCccccC--CCCccccccceeeecccceecccCccCCcccchhcc
Q 024266 203 ETDRGA-YYSYEERG--DSDEEQDEDRVIIPFSAPIAVVKGVALQPRKEVNLW 252 (270)
Q Consensus 203 ~e~~~~-yys~~er~--~~d~de~ee~~iipfSAPl~~~ggv~~~PRKEVNLW 252 (270)
.+++.. |-+|+|-| +||+++|++ .|.+||
T Consensus 94 ~~~~ddG~~TDnE~GFAdSDDEdD~~---------------------sd~~~W 125 (458)
T PF10446_consen 94 FDSDDDGNETDNEAGFADSDDEDDDG---------------------SDYEFW 125 (458)
T ss_pred ccccccCccCcccccccccccccccc---------------------ccceee
Done!