Query psy16509
Match_columns 123
No_of_seqs 118 out of 182
Neff 4.0
Searched_HMMs 46136
Date Fri Aug 16 23:07:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16509.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16509hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06367 Drf_FH3: Diaphanous F 99.8 2E-20 4.4E-25 141.4 2.7 87 9-95 10-102 (197)
2 KOG1924|consensus 99.7 9E-18 1.9E-22 154.4 2.1 83 16-98 283-369 (1102)
3 KOG1923|consensus 98.9 3.4E-10 7.4E-15 104.2 1.3 70 9-79 60-131 (830)
4 PF11841 DUF3361: Domain of un 65.4 12 0.00025 29.3 4.2 45 11-57 94-138 (160)
5 TIGR00927 2A1904 K+-dependent 58.3 2.1 4.6E-05 42.0 -1.2 7 111-117 889-895 (1096)
6 KOG3229|consensus 48.9 14 0.0003 30.7 2.2 67 9-75 71-144 (227)
7 PF00598 Flu_M1: Influenza Mat 28.1 1.7E+02 0.0038 22.9 5.2 53 18-70 34-88 (157)
8 PF15039 DUF4530: Domain of un 22.2 31 0.00068 25.6 0.1 8 22-29 51-58 (111)
9 PF12243 CTK3: CTD kinase subu 22.1 1.1E+02 0.0024 23.2 3.1 27 22-49 42-68 (139)
10 PF02459 Adeno_terminal: Adeno 21.9 17 0.00037 33.5 -1.5 8 42-49 230-237 (548)
11 PF13939 TisB_toxin: Toxin Tis 20.6 90 0.002 18.0 1.8 14 36-49 12-25 (28)
12 PF04931 DNA_pol_phi: DNA poly 20.4 18 0.00038 33.7 -1.8 13 66-78 621-633 (784)
No 1
>PF06367 Drf_FH3: Diaphanous FH3 Domain; InterPro: IPR010472 Formin homology (FH) proteins play a crucial role in the reorganisation of the actin cytoskeleton, which mediates various functions of the cell cortex including motility, adhesion, and cytokinesis []. Formins are multidomain proteins that interact with diverse signalling molecules and cytoskeletal proteins, although some formins have been assigned functions within the nucleus. Formins are characterised by the presence of three FH domains (FH1, FH2 and FH3), although members of the formin family do not necessarily contain all three domains []. The proline-rich FH1 domain mediates interactions with a variety of proteins, including the actin-binding protein profilin, SH3 (Src homology 3) domain proteins, and WW domain proteins. The FH2 domain (IPR003104 from INTERPRO) is required to inhibit actin polymerisation. The FH3 domain is less well conserved and is required for directing formins to the correct intracellular location, such the mitotic spindle [], or the projection tip during conjugation []. In addition, some formins can contain a GTPase-binding domain (GBD) (IPR010473 from INTERPRO) required for binding to Rho small GTPases, and a C-terminal conserved Dia-autoregulatory domain (DAD). This entry represents the FH3 domain.; GO: 0003779 actin binding, 0016043 cellular component organization; PDB: 3OBV_A 2BNX_A 3EG5_D 2BAP_B 3O4X_B 1Z2C_B 2F31_A.
Probab=99.80 E-value=2e-20 Score=141.38 Aligned_cols=87 Identities=31% Similarity=0.402 Sum_probs=71.6
Q ss_pred hhhhHhhhccccchHHHHHHhh--hccChhHHHHHHHHhhhhhcCCCCccchhhhhhhhccCCcchhhhcCccccc----
Q psy16509 9 RRPQKTLKNERYRLKVVVDELQ--NAEAVDYQTVILAFINCLIISTPQLNDRIRIRNEFIGVTGPTCVRIKPWANH---- 82 (123)
Q Consensus 9 ~~~fK~~~~Er~RF~~IV~~L~--~~~nv~ykvacMqFINalI~s~edL~fRihLRnEF~~LGL~d~L~~~~~~~~---- 82 (123)
+.+||..++++.||+++|..|+ .+..++|+++||+|||+||++++++++|+|||+||+++||.++|.+.++-..
T Consensus 10 ~~~~~~~~~e~~RF~~lv~~l~~~~~~~~e~~~~~l~~IN~li~~~~d~~~R~~lr~e~~~~GL~~il~~l~~~~~~~L~ 89 (197)
T PF06367_consen 10 FDNFKEVKGERGRFQSLVGALESVDSSDIEYKTACLQFINSLINSPEDLNFRVHLRNEFERLGLLDILEKLRNLEDDDLQ 89 (197)
T ss_dssp HHHHHHHHT-S-TTHHHHHHCS--TTS-HHHHHHHHHHHHHHHTT-SSHHHHHHHHHHHHHTTHHHHHHHHTTS--HHHH
T ss_pred HHHHHHHhCCcccHHHHHHHHHccccCcHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCcHHHHHHHHhcchHHHH
Confidence 6999999999999999999998 5678999999999999999999999999999999999999998887665533
Q ss_pred cceeecccchhhh
Q psy16509 83 MFFYLFSTEEEEE 95 (123)
Q Consensus 83 ~~f~lfs~eeE~~ 95 (123)
.++..|....+++
T Consensus 90 ~Qi~~f~~~~~~D 102 (197)
T PF06367_consen 90 EQIDIFEENEEED 102 (197)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhh
Confidence 5777776655433
No 2
>KOG1924|consensus
Probab=99.68 E-value=9e-18 Score=154.42 Aligned_cols=83 Identities=24% Similarity=0.330 Sum_probs=72.8
Q ss_pred hccccchHHHHHHhhhccChhHHHHHHHHhhhhhcCCCCccchhhhhhhhccCCcchhhhcCcccc----ccceeecccc
Q psy16509 16 KNERYRLKVVVDELQNAEAVDYQTVILAFINCLIISTPQLNDRIRIRNEFIGVTGPTCVRIKPWAN----HMFFYLFSTE 91 (123)
Q Consensus 16 ~~Er~RF~~IV~~L~~~~nv~ykvacMqFINalI~s~edL~fRihLRnEF~~LGL~d~L~~~~~~~----~~~f~lfs~e 91 (123)
.+...||+|||++|+..+.+.++||||||||||+++++||+||+|||+||++.||.++|......+ .++|.+|...
T Consensus 283 ~~~veRF~piv~gl~~~e~~~l~vacmq~INal~t~p~dldfRlhlR~E~mr~gL~~~l~~l~~i~n~~ldvqlkvfdE~ 362 (1102)
T KOG1924|consen 283 AKPVERFRPIVEGLDFLEKQQLQVACMQFINALVTSPSDLDFRLHLRSEFMRDGLHKYLPDLTEINNDILDVQLKVFDEH 362 (1102)
T ss_pred hcchhhhhhHHHHHhccchHHHHHHHHHHHHHhcCCHHHhhHHHHHHHHHHHHhHHHHHHHhhhhccHHHHHHHHHHhhh
Confidence 467899999999999999999999999999999999999999999999999999999988554433 3799999988
Q ss_pred hhhhhhh
Q psy16509 92 EEEEEEE 98 (123)
Q Consensus 92 eE~~~~~ 98 (123)
-|++=++
T Consensus 363 ~e~Dl~e 369 (1102)
T KOG1924|consen 363 KEDDLEE 369 (1102)
T ss_pred hhhhHHH
Confidence 7665443
No 3
>KOG1923|consensus
Probab=98.91 E-value=3.4e-10 Score=104.17 Aligned_cols=70 Identities=14% Similarity=0.148 Sum_probs=63.6
Q ss_pred hhhhHhhhccccchHHHHHHhhh--ccChhHHHHHHHHhhhhhcCCCCccchhhhhhhhccCCcchhhhcCcc
Q psy16509 9 RRPQKTLKNERYRLKVVVDELQN--AEAVDYQTVILAFINCLIISTPQLNDRIRIRNEFIGVTGPTCVRIKPW 79 (123)
Q Consensus 9 ~~~fK~~~~Er~RF~~IV~~L~~--~~nv~ykvacMqFINalI~s~edL~fRihLRnEF~~LGL~d~L~~~~~ 79 (123)
-.+|+.+|+++.||+++|..+.. .-|+++++|||||+|.+++ +++++||+|++|||+.+||+.+|+....
T Consensus 60 ~~~f~~v~qe~~rf~~lm~~~s~~~~fn~df~~a~lQf~~ifv~-v~d~n~rvhlQye~t~lgld~yi~~~~e 131 (830)
T KOG1923|consen 60 APVFSKVNQEPRRFNTLMYVHSLPPFFNADFSAAKLQFYDVFVG-VPDENFRVHLQYEATHLGLDKYIDAPPE 131 (830)
T ss_pred CcchhhhhcCccccccccccccCccccChHHHHHHHHHHHHHhc-chhhhhHHHhhhHHHHHhhhhhhhcchh
Confidence 37899999999999999998853 4589999999999999999 9999999999999999999999986553
No 4
>PF11841 DUF3361: Domain of unknown function (DUF3361)
Probab=65.38 E-value=12 Score=29.28 Aligned_cols=45 Identities=20% Similarity=0.282 Sum_probs=35.9
Q ss_pred hhHhhhccccchHHHHHHhhhccChhHHHHHHHHhhhhhcCCCCccc
Q psy16509 11 PQKTLKNERYRLKVVVDELQNAEAVDYQTVILAFINCLIISTPQLND 57 (123)
Q Consensus 11 ~fK~~~~Er~RF~~IV~~L~~~~nv~ykvacMqFINalI~s~edL~f 57 (123)
.|+.+.+ .-.+..|+.-|+. .+.+.++.+|++|||++...++=+.
T Consensus 94 ly~~V~~-evt~~~Li~hLq~-~~~~iq~naiaLinAL~~kA~~~~r 138 (160)
T PF11841_consen 94 LYQLVEQ-EVTLESLIRHLQV-SNQEIQTNAIALINALFLKADDSKR 138 (160)
T ss_pred HHHHHhc-cCCHHHHHHHHHc-CCHHHHHHHHHHHHHHHhcCChHHH
Confidence 3666665 4568889988876 8889999999999999988876443
No 5
>TIGR00927 2A1904 K+-dependent Na+/Ca+ exchanger.
Probab=58.27 E-value=2.1 Score=41.99 Aligned_cols=7 Identities=57% Similarity=0.672 Sum_probs=2.9
Q ss_pred hhhhhhh
Q psy16509 111 EEEEVFS 117 (123)
Q Consensus 111 ~~~~~~~ 117 (123)
++++.++
T Consensus 889 eee~~~~ 895 (1096)
T TIGR00927 889 ENEEPLS 895 (1096)
T ss_pred ccccccc
Confidence 3444443
No 6
>KOG3229|consensus
Probab=48.87 E-value=14 Score=30.66 Aligned_cols=67 Identities=16% Similarity=0.171 Sum_probs=43.1
Q ss_pred hhhhHhhhccccchHHHHHHhhh-------ccChhHHHHHHHHhhhhhcCCCCccchhhhhhhhccCCcchhhh
Q psy16509 9 RRPQKTLKNERYRLKVVVDELQN-------AEAVDYQTVILAFINCLIISTPQLNDRIRIRNEFIGVTGPTCVR 75 (123)
Q Consensus 9 ~~~fK~~~~Er~RF~~IV~~L~~-------~~nv~ykvacMqFINalI~s~edL~fRihLRnEF~~LGL~d~L~ 75 (123)
+.+++.....+.-..+|.-.|+. ..+..=-+.+|+.+|.||--|+=-..=..+-.|+|..|+++=+.
T Consensus 71 rk~v~Rly~sKAqlnSv~M~l~eqla~~r~~G~lqkStevMk~v~sLvk~Pel~~TMrelSkEmmKaGIIEEmv 144 (227)
T KOG3229|consen 71 RKAVKRLYESKAQLNSVSMQLKEQLATLRVAGSLQKSTEVMKAVNSLVKLPELAATMRELSKEMMKAGIIEEMV 144 (227)
T ss_pred HHHHHHHHHhHHHHhhHHHHHHHHHHHHHHHhhHHhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444432 22344557789999999988876666667889999999976443
No 7
>PF00598 Flu_M1: Influenza Matrix protein (M1); InterPro: IPR001561 Matrix protein (M1) of Influenza virus is a bifunctional membrane/RNA-binding protein that mediates the encapsidation of RNA-nucleoprotein cores into the membrane envelope. It is therefore required that M1 binds both membrane and RNA simultaneously []. M1 is comprised of two domains connected by a linker sequence. The N-terminal domain has a multi-helical structure that can be divided into two subdomains []. The C-terminal domain also contains alpha-helical structure.; GO: 0003723 RNA binding, 0005198 structural molecule activity; PDB: 3MD2_C 4D9J_L 1EA3_B 1AA7_A 3VDX_C 1HHI_F 2Z16_B.
Probab=28.13 E-value=1.7e+02 Score=22.88 Aligned_cols=53 Identities=21% Similarity=0.244 Sum_probs=38.2
Q ss_pred cccchHHHHHHhhhcc-ChhHHHHHHHHhhhhhcCCCC-ccchhhhhhhhccCCc
Q psy16509 18 ERYRLKVVVDELQNAE-AVDYQTVILAFINCLIISTPQ-LNDRIRIRNEFIGVTG 70 (123)
Q Consensus 18 Er~RF~~IV~~L~~~~-nv~ykvacMqFINalI~s~ed-L~fRihLRnEF~~LGL 70 (123)
.-.-..++++||++.. --+++-+++.|+-|+.-..+. ...|-.+|+-+.+.|-
T Consensus 34 kn~DLd~llEWlK~r~~Ls~l~K~iiG~~~~~~~P~e~g~~rRrFi~~aL~GnG~ 88 (157)
T PF00598_consen 34 KNTDLDSLLEWLKNRPILSPLTKGIIGFVFTLTVPKEQGEQRRRFIQNALNGNGD 88 (157)
T ss_dssp S---HHHHHHHHHT-SSS-HHHHHHHHHHHHHHSS-STTB-B-HHHHHHHSCTT-
T ss_pred cccCHHHHHHHHhcCcccchHHHhhhheEEEEeccccccchhhhhhhccccCCCC
Confidence 3445889999998765 378899999999998877766 8999999999999885
No 8
>PF15039 DUF4530: Domain of unknown function (DUF4530)
Probab=22.16 E-value=31 Score=25.60 Aligned_cols=8 Identities=38% Similarity=0.422 Sum_probs=3.4
Q ss_pred hHHHHHHh
Q psy16509 22 LKVVVDEL 29 (123)
Q Consensus 22 F~~IV~~L 29 (123)
.--|+++|
T Consensus 51 Llwiweel 58 (111)
T PF15039_consen 51 LLWIWEEL 58 (111)
T ss_pred HHHHHHHh
Confidence 33444444
No 9
>PF12243 CTK3: CTD kinase subunit gamma CTK3
Probab=22.13 E-value=1.1e+02 Score=23.18 Aligned_cols=27 Identities=19% Similarity=0.442 Sum_probs=24.0
Q ss_pred hHHHHHHhhhccChhHHHHHHHHhhhhh
Q psy16509 22 LKVVVDELQNAEAVDYQTVILAFINCLI 49 (123)
Q Consensus 22 F~~IV~~L~~~~nv~ykvacMqFINalI 49 (123)
|..|++.|.+. +..-.+.+|+||-++.
T Consensus 42 ~~cIle~le~~-~lN~R~nI~~fID~l~ 68 (139)
T PF12243_consen 42 WSCILEQLEKE-NLNTRINIFYFIDSLC 68 (139)
T ss_pred HHHHHHHHhcc-chhhHHHHHHHHHHHH
Confidence 88999999776 8888999999999977
No 10
>PF02459 Adeno_terminal: Adenoviral DNA terminal protein; InterPro: IPR003391 The genome of adenovirus contains a protein covalently bound to the 5' end of each strand of the linear DNA molecule []. Since adenovirus DNA replication is initiated at the termini of the DNA molecule it has been proposed that the terminal protein serves as the primer for initiation of replication. However, the priming function now appears to reside in the precursor form of the terminal protein (pTP) found on the 5' ends of nascent DNA strands replicated in vitro [, ] and as a component of DNA-protein complexes isolated from virions of the protease-deficient adenovirus serotype 2 (Ad2) mutant tsl. The pTP is encoded by the leftward-transcribed strand of the viral genome and comprises part of a transcription unit that also encodes the single-strand DNA binding protein [].; GO: 0003677 DNA binding, 0006260 DNA replication
Probab=21.94 E-value=17 Score=33.53 Aligned_cols=8 Identities=25% Similarity=0.966 Sum_probs=3.9
Q ss_pred HHHhhhhh
Q psy16509 42 LAFINCLI 49 (123)
Q Consensus 42 MqFINalI 49 (123)
.+.++|++
T Consensus 230 ~~~~~~i~ 237 (548)
T PF02459_consen 230 QTLIKCIV 237 (548)
T ss_pred HHHHHHHH
Confidence 34455555
No 11
>PF13939 TisB_toxin: Toxin TisB, type I toxin-antitoxin system
Probab=20.60 E-value=90 Score=18.03 Aligned_cols=14 Identities=7% Similarity=0.422 Sum_probs=11.9
Q ss_pred hHHHHHHHHhhhhh
Q psy16509 36 DYQTVILAFINCLI 49 (123)
Q Consensus 36 ~ykvacMqFINalI 49 (123)
.+++|.||+..|++
T Consensus 12 kl~va~lqlldavl 25 (28)
T PF13939_consen 12 KLIVAVLQLLDAVL 25 (28)
T ss_pred HHHHHHHHHHHHHH
Confidence 46899999999886
No 12
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=20.45 E-value=18 Score=33.72 Aligned_cols=13 Identities=0% Similarity=-0.230 Sum_probs=7.3
Q ss_pred ccCCcchhhhcCc
Q psy16509 66 IGVTGPTCVRIKP 78 (123)
Q Consensus 66 ~~LGL~d~L~~~~ 78 (123)
+.-||..+|+.+.
T Consensus 621 t~~~l~~ll~vl~ 633 (784)
T PF04931_consen 621 TESGLQLLLDVLD 633 (784)
T ss_pred CHHHHHHHHHHhc
Confidence 3344555666666
Done!