Query 032374
Match_columns 142
No_of_seqs 23 out of 25
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 13:16:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032374.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032374hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03469 XH: XH domain; Inter 48.7 9.6 0.00021 29.8 1.2 33 88-120 41-80 (132)
2 COG3165 Uncharacterized protei 47.3 18 0.00038 30.5 2.6 64 69-132 94-162 (204)
3 PF07005 DUF1537: Protein of u 39.2 18 0.00039 28.1 1.4 17 95-111 199-215 (223)
4 TIGR00284 dihydropteroate synt 37.8 84 0.0018 29.1 5.6 119 15-135 349-497 (499)
5 KOG0886 40S ribosomal protein 36.3 35 0.00076 28.0 2.7 22 65-88 1-22 (167)
6 smart00400 ZnF_CHCC zinc finge 32.6 1.1E+02 0.0023 19.4 4.0 35 71-108 7-41 (55)
7 PF07696 7TMR-DISMED2: 7TMR-DI 30.6 53 0.0011 22.8 2.5 29 70-98 111-140 (141)
8 KOG2292 Oligosaccharyltransfer 27.1 25 0.00054 34.3 0.5 14 89-102 78-91 (751)
9 COG1169 MenF Isochorismate syn 26.1 60 0.0013 29.8 2.7 33 69-101 363-400 (423)
10 PF07447 VP40: Matrix protein 22.6 69 0.0015 28.3 2.3 24 84-107 88-117 (295)
No 1
>PF03469 XH: XH domain; InterPro: IPR005379 The XH (rice gene X Homology) domain is found in a family of plant proteins including Oryza sativa (Rice) Q9SBW2 from SWISSPROT. The molecular function of these proteins is unknown, however these proteins usually contain an XS domain (IPR005380 from INTERPRO) that is also found in the PTGS protein SGS3. As the XS and XH domains are fused in most of these proteins, these two domains may interact. The XH domain is between 124 and 145 residues in length and contains a conserved glutamate residue that may be functionally important [].
Probab=48.72 E-value=9.6 Score=29.83 Aligned_cols=33 Identities=18% Similarity=0.340 Sum_probs=25.8
Q ss_pred ceeeeeeeeeecchhHHH-H------HHHHhhhhhHHHHH
Q 032374 88 VYLWYPLSIITGGTTAKI-M------VAAKDNFLGKYIYK 120 (142)
Q Consensus 88 ~~~WYPLsiVtGGttAk~-m------V~a~dn~lgk~iy~ 120 (142)
.+.|+|.-+|++|-..+- + +..++.+||..+|.
T Consensus 41 dp~WhPFkvv~~~g~~~evi~edDekL~~Lk~e~Geevy~ 80 (132)
T PF03469_consen 41 DPEWHPFKVVTVDGKEKEVIDEDDEKLQELKEEWGEEVYN 80 (132)
T ss_pred CCCccceEEeccCCcccccccCchHHHHHHHHHHHHHHHH
Confidence 478999999987544443 3 67899999999996
No 2
>COG3165 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.28 E-value=18 Score=30.49 Aligned_cols=64 Identities=22% Similarity=0.076 Sum_probs=42.9
Q ss_pred CCCCCCCCCcEEEE----EEeecceeeeeeeeeecchhHHHHHHHHhhhhhHHHH-HHHHHHHHHHHhh
Q 032374 69 PKIEDDGNPRFVIF----IRMANVYLWYPLSIITGGTTAKIMVAAKDNFLGKYIY-KDTLARNLAAVIY 132 (142)
Q Consensus 69 Pkid~dgNp~FVIf----iR~~~~~~WYPLsiVtGGttAk~mV~a~dn~lgk~iy-~~TL~rNia~~IY 132 (142)
++++=||.-++++= .++...-.=++|+-++|...|..+|.++++..+---+ -+.+.+|+|..|=
T Consensus 94 g~l~veGD~q~~q~l~~Ll~~~e~D~ae~Lsr~~Gdv~A~~~~~~l~~~~~~l~~~~~~~q~~~Ae~iT 162 (204)
T COG3165 94 GELEVEGDIQLAQNLVALLGSLEPDPAELLSRYFGDVAAQSVVRALRSGSRFLKHGLKQLQRNLAEAIT 162 (204)
T ss_pred CceeecchHHHHHHHHHHHHhcCCCHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 55555555554431 2222222337899999999999999999987443333 3678999998885
No 3
>PF07005 DUF1537: Protein of unknown function, DUF1537; InterPro: IPR010737 This entry represents a conserved region found in a range of Proteobacteria as well as the Gram-positive Oceanobacillus iheyensis. This entry includes YgbK from Escherichia coli, which is dependent upon FlhDC, the master regulator of the flagellar genes. The ygbK gene appears to be regulated by sigmaF [].; PDB: 3DQQ_B 1YZY_B.
Probab=39.24 E-value=18 Score=28.06 Aligned_cols=17 Identities=41% Similarity=0.550 Sum_probs=13.9
Q ss_pred eeeecchhHHHHHHHHh
Q 032374 95 SIITGGTTAKIMVAAKD 111 (142)
Q Consensus 95 siVtGGttAk~mV~a~d 111 (142)
=++|||.||..+++++.
T Consensus 199 li~tGGDTa~av~~~Lg 215 (223)
T PF07005_consen 199 LILTGGDTASAVLKALG 215 (223)
T ss_dssp EEEESHHHHHHHHHHCT
T ss_pred EEEeCChHHHHHHHHhC
Confidence 36899999999888764
No 4
>TIGR00284 dihydropteroate synthase-related protein. This protein has been found so far only in the Archaea, and in particular in those archaea that lack a bacterial-type dihydropteroate synthase. The central region of this protein shows considerable homology to the amino-terminal half of dihydropteroate synthases, while the carboxyl-terminal region shows homology to the small, uncharacterized protein slr0651 of Synechocystis PCC6803.
Probab=37.75 E-value=84 Score=29.08 Aligned_cols=119 Identities=18% Similarity=0.180 Sum_probs=64.0
Q ss_pred ccccc-cccccccccccccc--------CCCcccccc-eeEEEEecCCCcccccc-cCCCCCCCC-CCCCCCCCCcEEEE
Q 032374 15 RTHED-VLVKHSPFSSRTTQ--------KPNGRERQR-RVLVVQAKGKRGLQARQ-FQRPPPPSL-PKIEDDGNPRFVIF 82 (142)
Q Consensus 15 ~~~~~-~~~r~sl~s~~t~~--------~~~~~~~~r-~v~~vkaKGK~g~~~r~-~q~q~~p~~-Pkid~dgNp~FVIf 82 (142)
|.||. .-.|+|....+.+. ....+..-| .+++.|-|-++..+.-. .......+. +..||-| -|.|+
T Consensus 349 rvhd~S~k~r~sV~E~~~A~~m~~~~~~~~~~PKdlg~~Ll~lkdkr~~~~~~~~~~~i~~~~~~~~~~Dp~G--~f~I~ 426 (499)
T TIGR00284 349 YVVEDSYKSYRSTAEAAEAAKMASAARKLNSLPKDIGTRLFVVKDKRRPPEPVEPPGERINVDYIEPSMDRTG--YAKIQ 426 (499)
T ss_pred EEcCCcccccccHHHHHHHHHHHHHHHhcCCCCCCCCccceEEecCccCCCCCCCchhhhhhcccccccCCCC--CEEEE
Confidence 77885 55566665555444 122245556 88888888776543211 111111122 2334433 59999
Q ss_pred EE--eecc-eeeee-----eeeeecchhHHHHHHHHh----hh------hhHHHHHHHHHHHHHHHhhhhh
Q 032374 83 IR--MANV-YLWYP-----LSIITGGTTAKIMVAAKD----NF------LGKYIYKDTLARNLAAVIYRVS 135 (142)
Q Consensus 83 iR--~~~~-~~WYP-----LsiVtGGttAk~mV~a~d----n~------lgk~iy~~TL~rNia~~IYkD~ 135 (142)
|= .-.. --+|| -.+++|-+.-.+....++ +. ||++|.|--++..+++--=||+
T Consensus 427 vd~~~~~i~~~~~~~~~~~~~~~~g~~~~~l~~~i~~~~~~~~~~HA~YLG~EL~kAe~Al~~gk~Y~QD~ 497 (499)
T TIGR00284 427 VDHERGVIMLTFYPAGGEPVVTIEGKKPTSILRALIRRFPVSSLEHAGYIGYELAKAEIALALGKTYVQDS 497 (499)
T ss_pred EecCCCEEEEEEecCCCcceeEEEcCCHHHHHHHHHhcCCCCChhHHHHHHHHHHHHHHHHHhCCCccCCC
Confidence 92 2222 34675 456666555444444433 22 6888888777777766555553
No 5
>KOG0886 consensus 40S ribosomal protein S2 [Translation, ribosomal structure and biogenesis]
Probab=36.32 E-value=35 Score=27.99 Aligned_cols=22 Identities=27% Similarity=0.467 Sum_probs=18.2
Q ss_pred CCCCCCCCCCCCCcEEEEEEeecc
Q 032374 65 PPSLPKIEDDGNPRFVIFIRMANV 88 (142)
Q Consensus 65 ~p~~Pkid~dgNp~FVIfiR~~~~ 88 (142)
||+.|+.|| |+-=+||.|+...
T Consensus 1 mp~~pkfdP--~eiK~vylrc~Gg 22 (167)
T KOG0886|consen 1 MPPKPKFDP--NEIKVVYLRCTGG 22 (167)
T ss_pred CCCCCCCCc--cceEEEEEEeecC
Confidence 678899988 7888999998643
No 6
>smart00400 ZnF_CHCC zinc finger.
Probab=32.60 E-value=1.1e+02 Score=19.42 Aligned_cols=35 Identities=11% Similarity=0.291 Sum_probs=22.0
Q ss_pred CCCCCCCcEEEEEEeecceeeeeeeeeecchhHHHHHH
Q 032374 71 IEDDGNPRFVIFIRMANVYLWYPLSIITGGTTAKIMVA 108 (142)
Q Consensus 71 id~dgNp~FVIfiR~~~~~~WYPLsiVtGGttAk~mV~ 108 (142)
.-+|-+|+|.|..+ +| .||=-+-=.||++-.++-+
T Consensus 7 fh~d~~pSf~v~~~-kn--~~~Cf~cg~gGd~i~fv~~ 41 (55)
T smart00400 7 FHGEKTPSFSVSPD-KQ--FFHCFGCGAGGNVISFLMK 41 (55)
T ss_pred CCCCCCCCEEEECC-CC--EEEEeCCCCCCCHHHHHHH
Confidence 44567999999764 33 3444344468887766543
No 7
>PF07696 7TMR-DISMED2: 7TMR-DISM extracellular 2; InterPro: IPR011622 This entry represents one of two distinct types of extracellular domain found in the 7TM-DISM (7TM Receptors with Diverse Intracellular Signalling Modules) bacterial transmembrane proteins []. It is possible that this domain adopts a jelly roll fold and acts as a receptor for carbohydrates and their derivatives [].; PDB: 2XBZ_B 3JYB_A.
Probab=30.60 E-value=53 Score=22.76 Aligned_cols=29 Identities=17% Similarity=0.372 Sum_probs=15.3
Q ss_pred CCCCCCCCcEEEEEEeec-ceeeeeeeeee
Q 032374 70 KIEDDGNPRFVIFIRMAN-VYLWYPLSIIT 98 (142)
Q Consensus 70 kid~dgNp~FVIfiR~~~-~~~WYPLsiVt 98 (142)
+++-+.++.-.+|||.+. .++++|+.|.+
T Consensus 111 ~~~l~~~~~~~~yirv~s~~~~~~p~~l~s 140 (141)
T PF07696_consen 111 PLTLPPGETYTLYIRVKSNGPLNFPLRLWS 140 (141)
T ss_dssp EE---SSS-EEEEEEEEESS-EEEE-----
T ss_pred EEEeCCCCEEEEEEEEEcCCcccccccccC
Confidence 344444778999999995 56999988754
No 8
>KOG2292 consensus Oligosaccharyltransferase, STT3 subunit [Posttranslational modification, protein turnover, chaperones]
Probab=27.11 E-value=25 Score=34.32 Aligned_cols=14 Identities=57% Similarity=1.134 Sum_probs=12.3
Q ss_pred eeeeeeeeeecchh
Q 032374 89 YLWYPLSIITGGTT 102 (142)
Q Consensus 89 ~~WYPLsiVtGGtt 102 (142)
-.||||+=|.|||.
T Consensus 78 RaWYPLGRiiGGTv 91 (751)
T KOG2292|consen 78 RAWYPLGRIIGGTV 91 (751)
T ss_pred ccccccceeecccc
Confidence 37999999999974
No 9
>COG1169 MenF Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=26.08 E-value=60 Score=29.77 Aligned_cols=33 Identities=30% Similarity=0.464 Sum_probs=27.6
Q ss_pred CCCCCCCCCcEEEEEEeecc-----eeeeeeeeeecch
Q 032374 69 PKIEDDGNPRFVIFIRMANV-----YLWYPLSIITGGT 101 (142)
Q Consensus 69 Pkid~dgNp~FVIfiR~~~~-----~~WYPLsiVtGGt 101 (142)
==+|..||-+|++=|||+.+ .+|-=++||-|-+
T Consensus 363 Gw~D~~GngEf~VaIRsA~i~~~~~rlfAGaGIV~~Sd 400 (423)
T COG1169 363 GWCDSEGNGEFVVAIRSALISGNQVRLFAGAGIVAGSD 400 (423)
T ss_pred eeeccCCCeEEEEEEEEEEEeCCEEEEEccCcccCCCC
Confidence 34688899999999999966 6888899998853
No 10
>PF07447 VP40: Matrix protein VP40; InterPro: IPR008986 Ebola virus sp. are non-segmented, negative-strand RNA viruses that causes severe haemorrhagic fever in humans with high rates of mortality. The virus matrix protein VP40 is a major structural protein that plays a central role in virus assembly and budding at the plasma membrane of infected cells. VP40 proteins associate with cellular membranes, interact with the cytoplasmic tails of glycoproteins, and bind to the ribonucleoprotein complex. The VP40 monomer consists of two domains, the N-terminal oligomerization domain and the C-terminal membrane-binding domain, connected by a flexible linker. Both the N- and C-terminal domains fold into beta sandwich structures of similar topology []. Within the N-terminal domain are two overlapping L-domains with the sequences PTAP and PPEY at residues 7 to13, which are required for efficient budding []. L-domains are thought to mediate their function in budding through their interaction with specific host cellular proteins, such as tsg101 and vps-4 []. ; PDB: 1H2D_B 1H2C_A 1ES6_A.
Probab=22.59 E-value=69 Score=28.33 Aligned_cols=24 Identities=38% Similarity=0.677 Sum_probs=16.8
Q ss_pred Eeecceeeeeeeeeecc------hhHHHHH
Q 032374 84 RMANVYLWYPLSIITGG------TTAKIMV 107 (142)
Q Consensus 84 R~~~~~~WYPLsiVtGG------ttAk~mV 107 (142)
=+|.++.|.||+|..-- |+|-+|.
T Consensus 88 lmK~iP~WLPLGva~q~~YsfdsT~aAim~ 117 (295)
T PF07447_consen 88 LMKQIPIWLPLGVADQKTYSFDSTTAAIML 117 (295)
T ss_dssp EEEEEEEEEEEEEEETTTS-HHHHHHHHHC
T ss_pred hhhcCceeeeccccccceecchhHHHHHhh
Confidence 35667999999998653 4555554
Done!