Query 016372
Match_columns 390
No_of_seqs 99 out of 118
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 06:15:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016372.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016372hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05542 DUF760: Protein of un 99.9 8.1E-26 1.7E-30 184.8 9.2 85 119-249 1-86 (86)
2 PF05542 DUF760: Protein of un 97.7 0.00013 2.8E-09 60.1 7.5 76 303-379 2-77 (86)
3 PF08763 Ca_chan_IQ: Voltage g 76.9 3 6.5E-05 30.0 2.9 25 218-242 3-27 (35)
4 TIGR01010 BexC_CtrB_KpsE polys 41.7 1.1E+02 0.0024 30.7 7.8 67 84-155 241-307 (362)
5 PRK04750 ubiB putative ubiquin 28.1 41 0.00088 36.5 2.4 27 77-103 69-95 (537)
6 PF15546 DUF4653: Domain of un 26.4 1.4E+02 0.0031 29.3 5.4 53 85-140 151-212 (239)
7 TIGR01982 UbiB 2-polyprenylphe 25.6 52 0.0011 34.3 2.6 29 74-102 64-92 (437)
8 PF07439 DUF1515: Protein of u 24.4 2.2E+02 0.0048 25.4 5.8 50 89-140 3-55 (112)
9 PF12037 DUF3523: Domain of un 23.8 1.1E+02 0.0025 30.9 4.4 26 309-334 27-60 (276)
10 PF10691 DUF2497: Protein of u 22.9 84 0.0018 25.8 2.8 25 76-100 46-71 (73)
11 KOG3088 Secretory carrier memb 22.3 1.8E+02 0.0039 30.0 5.4 16 121-136 76-91 (313)
12 PF08278 DnaG_DnaB_bind: DNA p 20.8 4.1E+02 0.009 22.3 6.7 18 120-137 98-115 (127)
No 1
>PF05542 DUF760: Protein of unknown function (DUF760); InterPro: IPR008479 This entry contains uncharacterised proteins.
Probab=99.93 E-value=8.1e-26 Score=184.84 Aligned_cols=85 Identities=29% Similarity=0.409 Sum_probs=80.3
Q ss_pred hhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhCCccccCCcccccCCccccCCccchhhcccCchHHHHHHHHHHHHH
Q 016372 119 GPLHRRIAQLKEHECQTAVEDVMYMLILYKFSEIRVQLVPKLSRCIYNGRLEIWPSKDWELESIHEFEVLEMIREHISTV 198 (390)
Q Consensus 119 ~~LyrRIAevKe~Err~alEdImY~lIv~KF~e~~V~mvP~ls~~~~~Grl~~wP~~~~~Le~ihS~Ev~emI~~hl~~v 198 (390)
++||++|++++. |+..+++| +|||||+|+|++||.+|
T Consensus 1 n~L~~yi~~l~p-e~~~~l~~------------------------------------------~~s~ev~e~m~~~v~~l 37 (86)
T PF05542_consen 1 NDLLQYIQSLKP-ERIQQLSE------------------------------------------PASPEVLEAMKQHVSGL 37 (86)
T ss_pred ChHHHHHHHCCH-HHHHHhhc------------------------------------------cCCHHHHHHHHHHHHHH
Confidence 479999999999 99999998 89999999999999999
Q ss_pred hccc-cCCCCCCCcceeeechhhhhHHHHHHhhHhHHHhhHHHHHHHHHHHh
Q 016372 199 IGLR-ANCSVTDSWATTEIQRLRLGRVYVASILYGYFLKSASLRYYLEECLA 249 (390)
Q Consensus 199 LG~~-~~~~~~~~~~~~~isr~~Lg~vYAASmMyGYFLr~~eqR~qLE~sl~ 249 (390)
||++ |++.|+ ++++++|++||+||+++||||||||++|+|++||++|+
T Consensus 38 lG~l~p~~~~~---~~i~~s~~~La~L~~~~mm~GYfLr~~E~R~~Le~sL~ 86 (86)
T PF05542_consen 38 LGNLSPSDQFN---VTIQTSRENLAQLLAWSMMTGYFLRNAEQRLELERSLK 86 (86)
T ss_pred HcCCCCcccCc---ceeEECHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhcC
Confidence 9999 887664 89999999999999999999999999999999999985
No 2
>PF05542 DUF760: Protein of unknown function (DUF760); InterPro: IPR008479 This entry contains uncharacterised proteins.
Probab=97.73 E-value=0.00013 Score=60.12 Aligned_cols=76 Identities=26% Similarity=0.369 Sum_probs=69.1
Q ss_pred hhhhhhhcCCHHHHHHHhhhhhHHHHHHHHHHhhhhcCCCCCCCCCCCceEEechhhHHHHHHHHHHhhhhhhhhhh
Q 016372 303 NLKCYVMGFDPETLQRCAKLRSREAVNLVEKHSCALFGDGQTGLLDTDEVILTSFSSLKRLVLEAIAFGSFLWDAEE 379 (390)
Q Consensus 303 ~Lr~YVmsfD~eTLqr~AtirSkEAv~lIEkht~ALFG~~~~g~~~~dE~i~isfs~LkrLVLEAvAFGSFLwDvEs 379 (390)
.|..||.+.+|+++++.+++-|.|++.+|++|+..+-|.-. -....+-.|.++=..|-+|..=++.+|=|||.+|-
T Consensus 2 ~L~~yi~~l~pe~~~~l~~~~s~ev~e~m~~~v~~llG~l~-p~~~~~~~i~~s~~~La~L~~~~mm~GYfLr~~E~ 77 (86)
T PF05542_consen 2 DLLQYIQSLKPERIQQLSEPASPEVLEAMKQHVSGLLGNLS-PSDQFNVTIQTSRENLAQLLAWSMMTGYFLRNAEQ 77 (86)
T ss_pred hHHHHHHHCCHHHHHHhhccCCHHHHHHHHHHHHHHHcCCC-CcccCcceeEECHHHHHHHHHHHHHHhHHHHHHHH
Confidence 58899999999999999999999999999999999999875 23346678999999999999999999999999985
No 3
>PF08763 Ca_chan_IQ: Voltage gated calcium channel IQ domain; InterPro: IPR014873 Ca2+ ions are unique in that they not only carry charge but they are also the most widely used of diffusible second messengers. Voltage-dependent Ca2+ channels (VDCC) are a family of molecules that allow cells to couple electrical activity to intracellular Ca2+ signalling. The opening and closing of these channels by depolarizing stimuli, such as action potentials, allows Ca2+ ions to enter neurons down a steep electrochemical gradient, producing transient intracellular Ca2+ signals. Many of the processes that occur in neurons, including transmitter release, gene transcription and metabolism are controlled by Ca2+ influx occurring simultaneously at different cellular locales. The pore is formed by the alpha-1 subunit which incorporates the conduction pore, the voltage sensor and gating apparatus, and the known sites of channel regulation by second messengers, drugs, and toxins []. The activity of this pore is modulated by 4 tightly-coupled subunits: an intracellular beta subunit; a transmembrane gamma subunit; and a disulphide-linked complex of alpha-2 and delta subunits, which are proteolytically cleaved from the same gene product. Properties of the protein including gating voltage-dependence, G protein modulation and kinase susceptibility can be influenced by these subunits. Voltage-gated calcium channels are classified as T, L, N, P, Q and R, and are distinguished by their sensitivity to pharmacological blocks, single-channel conductance kinetics, and voltage-dependence. On the basis of their voltage activation properties, the voltage-gated calcium classes can be further divided into two broad groups: the low (T-type) and high (L, N, P, Q and R-type) threshold-activated channels. The voltage-gated calcium channel alpha 1 subunit contains an IQ domain, named for its isoleucine-glutamine (IQ) motif, which interacts with hydrophobic pockets of Ca2+/calmodulin []. The interaction regulates two self-regulatory calcium dependent feedback mechanisms, calcium dependent inactivation (CDI), and calcium-dependent facilitation (CDF). ; PDB: 3OXQ_F 2F3Z_B 3G43_E 2F3Y_B 2BE6_D 3DVM_B 3BXK_D 2VAY_B 3DVK_B 3BXL_B ....
Probab=76.94 E-value=3 Score=29.98 Aligned_cols=25 Identities=16% Similarity=0.433 Sum_probs=20.5
Q ss_pred hhhhhHHHHHHhhHhHHHhhHHHHH
Q 016372 218 RLRLGRVYVASILYGYFLKSASLRY 242 (390)
Q Consensus 218 r~~Lg~vYAASmMyGYFLr~~eqR~ 242 (390)
..++|++|||-|++-||-+.-..|.
T Consensus 3 ~~TVGK~YAt~lI~dyfr~~K~rk~ 27 (35)
T PF08763_consen 3 EVTVGKFYATLLIQDYFRQFKKRKE 27 (35)
T ss_dssp -CCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHH
Confidence 4578999999999999987766665
No 4
>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family. This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.
Probab=41.71 E-value=1.1e+02 Score=30.68 Aligned_cols=67 Identities=16% Similarity=0.156 Sum_probs=52.6
Q ss_pred cccchHHHHHHHHHHHHHhHHHHHHhccCCCCCCchhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhCCc
Q 016372 84 QRQYFNLAVSDELKLLANDRDAAVARMSLSSGSDEGPLHRRIAQLKEHECQTAVEDVMYMLILYKFSEIRVQ 155 (390)
Q Consensus 84 ~PhLf~~Av~~qLe~L~~drdaa~~~~~~s~~s~e~~LyrRIAevKe~Err~alEdImY~lIv~KF~e~~V~ 155 (390)
||.+ .+++.|++.|....++...+... +....+=...++..+.+|..++.+-+|...+.++.++++.
T Consensus 241 ~P~v--~~l~~~i~~l~~~i~~e~~~i~~---~~~~~l~~~~~~~~~L~re~~~a~~~y~~~l~r~~~a~~~ 307 (362)
T TIGR01010 241 NPQV--PSLQARIKSLRKQIDEQRNQLSG---GLGDSLNEQTADYQRLVLQNELAQQQLKAALTSLQQTRVE 307 (362)
T ss_pred CCch--HHHHHHHHHHHHHHHHHHHHhhc---CCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7776 45677888888888776666432 2233567788899999999999999999999999999865
No 5
>PRK04750 ubiB putative ubiquinone biosynthesis protein UbiB; Reviewed
Probab=28.11 E-value=41 Score=36.52 Aligned_cols=27 Identities=30% Similarity=0.551 Sum_probs=23.5
Q ss_pred HHHHHhhcccchHHHHHHHHHHHHHhH
Q 016372 77 LSRVLQNQRQYFNLAVSDELKLLANDR 103 (390)
Q Consensus 77 Ls~iL~~~PhLf~~Av~~qLe~L~~dr 103 (390)
|.|+|-++|+|||..+.++|.+||++-
T Consensus 69 lGQ~LStR~DllP~~~~~eL~~Lqd~v 95 (537)
T PRK04750 69 FGQMLSTRRDLFPPDIADELALLQDRV 95 (537)
T ss_pred HHHHHHcCcccCCHHHHHHHHHHHcCC
Confidence 566666999999999999999999864
No 6
>PF15546 DUF4653: Domain of unknown function (DUF4653)
Probab=26.36 E-value=1.4e+02 Score=29.33 Aligned_cols=53 Identities=15% Similarity=0.134 Sum_probs=35.5
Q ss_pred ccchHHHHHHHHHHHHHh-HHHHHHhccCCCCCCchhHHHHHHHH--------hHHHHHHHHHHH
Q 016372 85 RQYFNLAVSDELKLLAND-RDAAVARMSLSSGSDEGPLHRRIAQL--------KEHECQTAVEDV 140 (390)
Q Consensus 85 PhLf~~Av~~qLe~L~~d-rdaa~~~~~~s~~s~e~~LyrRIAev--------Ke~Err~alEdI 140 (390)
|+-+.-+|.+..++|++. |....++.. .--.+|.|||+|-+ |-.+.+.-|+|-
T Consensus 151 ~d~l~psva~Avq~Lq~~Er~KeqEkEK---Hhv~LvMYRRLALl~Wir~LQ~~~~dQQ~RLQeS 212 (239)
T PF15546_consen 151 PDPLLPSVAEAVQQLQAQERYKEQEKEK---HHVHLVMYRRLALLRWIRGLQHQLVDQQNRLQES 212 (239)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHhh---hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 666667788888888864 444444422 34578999999987 445556666654
No 7
>TIGR01982 UbiB 2-polyprenylphenol 6-hydroxylase. This model represents the enzyme (UbiB) which catalyzes the first hydroxylation step in the ubiquinone biosynthetic pathway in bacteria. It is believed that the reaction is 2-polyprenylphenol - 6-hydroxy-2-polyprenylphenol. This model finds hits primarily in the proteobacteria. The gene is also known as AarF in certain species.
Probab=25.58 E-value=52 Score=34.27 Aligned_cols=29 Identities=17% Similarity=0.274 Sum_probs=24.5
Q ss_pred hhHHHHHHhhcccchHHHHHHHHHHHHHh
Q 016372 74 GKFLSRVLQNQRQYFNLAVSDELKLLAND 102 (390)
Q Consensus 74 GqfLs~iL~~~PhLf~~Av~~qLe~L~~d 102 (390)
---|.|+|-++|+|||...-++|+.||++
T Consensus 64 fiKlGQ~lS~r~dllp~~~~~~L~~Lqd~ 92 (437)
T TIGR01982 64 FIKFGQTLSTRADLLPADIAEELSLLQDR 92 (437)
T ss_pred hHHHhHHHHhCcccCCHHHHHHHHHHhcC
Confidence 34466777799999999999999999975
No 8
>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length. Members of this family seem to be found exclusively in Rhizobium species. The function of this family is unknown.
Probab=24.43 E-value=2.2e+02 Score=25.39 Aligned_cols=50 Identities=20% Similarity=0.276 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHhHHHHHHh---ccCCCCCCchhHHHHHHHHhHHHHHHHHHHH
Q 016372 89 NLAVSDELKLLANDRDAAVAR---MSLSSGSDEGPLHRRIAQLKEHECQTAVEDV 140 (390)
Q Consensus 89 ~~Av~~qLe~L~~drdaa~~~---~~~s~~s~e~~LyrRIAevKe~Err~alEdI 140 (390)
.+.+.||++.|+.+.+...+. .+.-+..+....||||-|+- +|-.++|--
T Consensus 3 ~a~~~~q~~~l~~~v~~lRed~r~SEdrsa~SRa~mhrRlDElV--~Rv~~lEs~ 55 (112)
T PF07439_consen 3 DAGLHQQLGTLNAEVKELREDIRRSEDRSAASRASMHRRLDELV--ERVTTLESS 55 (112)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHhHHHHH--HHHHHHHHH
Confidence 467788888888877654422 22223345779999999974 456666633
No 9
>PF12037 DUF3523: Domain of unknown function (DUF3523); InterPro: IPR021911 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 257 to 277 amino acids in length. This domain is found associated with PF00004 from PFAM. This domain has a conserved LER sequence motif.
Probab=23.79 E-value=1.1e+02 Score=30.86 Aligned_cols=26 Identities=46% Similarity=0.787 Sum_probs=19.7
Q ss_pred hcCCHHHHHHHhhhh--------hHHHHHHHHHH
Q 016372 309 MGFDPETLQRCAKLR--------SREAVNLVEKH 334 (390)
Q Consensus 309 msfD~eTLqr~Atir--------SkEAv~lIEkh 334 (390)
-+|||+.|.|.|+-- .|+|.+|+-+|
T Consensus 27 ~~FDP~aLERaAkAlrel~~S~~Ak~afel~k~Q 60 (276)
T PF12037_consen 27 SGFDPEALERAAKALRELNSSPHAKKAFELMKKQ 60 (276)
T ss_pred CCCCcHHHHHHHHHHHHHhcChhHHHHHHHHHHH
Confidence 479999999999852 46667766555
No 10
>PF10691 DUF2497: Protein of unknown function (DUF2497) ; InterPro: IPR019632 Members of this family belong to the Alphaproteobacteria. The function of the family is not known.
Probab=22.94 E-value=84 Score=25.75 Aligned_cols=25 Identities=20% Similarity=0.298 Sum_probs=22.2
Q ss_pred HHHHHHhhc-ccchHHHHHHHHHHHH
Q 016372 76 FLSRVLQNQ-RQYFNLAVSDELKLLA 100 (390)
Q Consensus 76 fLs~iL~~~-PhLf~~Av~~qLe~L~ 100 (390)
+|.+-|..| |.|++..|+.+++++.
T Consensus 46 mLkeWLD~nLP~lVErlVr~EIeRi~ 71 (73)
T PF10691_consen 46 MLKEWLDENLPGLVERLVREEIERIA 71 (73)
T ss_pred HHHHHHHhccHHHHHHHHHHHHHHHh
Confidence 677888888 9999999999999875
No 11
>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.26 E-value=1.8e+02 Score=29.97 Aligned_cols=16 Identities=31% Similarity=0.389 Sum_probs=12.6
Q ss_pred HHHHHHHHhHHHHHHH
Q 016372 121 LHRRIAQLKEHECQTA 136 (390)
Q Consensus 121 LyrRIAevKe~Err~a 136 (390)
|=||-+|+|.+||..+
T Consensus 76 L~Rke~ELdRREr~~a 91 (313)
T KOG3088|consen 76 LRRKEQELDRRERALA 91 (313)
T ss_pred HHHHHHHHhHHHHHHh
Confidence 6688889998888654
No 12
>PF08278 DnaG_DnaB_bind: DNA primase DnaG DnaB-binding ; InterPro: IPR013173 Eubacterial DnaG primases interact with several factors to form the replisome. One of these factors is DnaB, a helicase. This domain has been demonstrated to be responsible for the interaction between DnaG and DnaB []. This domain has a multi-helical structure that forms an orthogonal bundle [].; GO: 0003896 DNA primase activity, 0006269 DNA replication, synthesis of RNA primer; PDB: 2HAJ_A 1T3W_B.
Probab=20.83 E-value=4.1e+02 Score=22.34 Aligned_cols=18 Identities=33% Similarity=0.512 Sum_probs=13.3
Q ss_pred hHHHHHHHHhHHHHHHHH
Q 016372 120 PLHRRIAQLKEHECQTAV 137 (390)
Q Consensus 120 ~LyrRIAevKe~Err~al 137 (390)
.+-+||+++|.+.++..+
T Consensus 98 ~~~~~i~~L~~k~~~~~L 115 (127)
T PF08278_consen 98 ALERRIEELKAKPRRGGL 115 (127)
T ss_dssp HHHHHHHHHHHHHTTT--
T ss_pred HHHHHHHHHHHhhccCCc
Confidence 478899999999886544
Done!