Query 537021.9.peg.252_1
Match_columns 45
No_of_seqs 1 out of 3
Neff 1.0
Searched_HMMs 39220
Date Wed May 25 16:09:16 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i peg_252.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2753 consensus 39.9 10 0.00026 20.0 0.5 22 2-24 264-285 (378)
2 cd01477 vWA_F09G8-8_type VWA F 15.5 83 0.0021 16.0 1.4 23 20-42 4-26 (193)
3 TIGR02582 cas_TM1809 CRISPR-as 13.2 60 0.0015 16.6 0.2 15 16-30 58-72 (248)
4 TIGR01429 AMP_deaminase AMP de 9.3 89 0.0023 15.9 -0.0 16 3-18 320-335 (616)
5 TIGR02404 trehalos_R_Bsub treh 9.2 1.2E+02 0.003 15.4 0.6 26 20-45 208-235 (236)
6 pfam01350 Flavi_NS4A Flaviviru 8.5 89 0.0023 15.9 -0.3 23 3-28 110-132 (145)
7 TIGR01663 PNK-3'Pase polynucle 8.5 1.1E+02 0.0029 15.4 0.2 25 16-40 38-62 (526)
8 pfam10584 Proteasome_A_N Prote 8.4 94 0.0024 15.8 -0.2 11 5-15 4-14 (26)
9 TIGR02639 ClpA ATP-dependent C 7.9 1.1E+02 0.0027 15.5 -0.1 10 6-15 672-681 (774)
10 pfam03852 Vsr DNA mismatch end 6.1 2.2E+02 0.0057 14.1 0.8 16 6-21 1-18 (75)
No 1
>KOG2753 consensus
Probab=39.95 E-value=10 Score=20.03 Aligned_cols=22 Identities=45% Similarity=0.536 Sum_probs=18.8
Q ss_pred CCHHCCCCCHHHHHHHHHHHHHH
Q ss_conf 40010114865620201111000
Q 537021.9.peg.2 2 EFIDSTVFSPEVRNMGKMRSLTD 24 (45)
Q Consensus 2 efidstvfspevrnmgkmrsltd 24 (45)
+|++|--+.-| .||.|||-||=
T Consensus 264 ~Fvqs~gl~~E-~~~~KMRLLTl 285 (378)
T KOG2753 264 GFVQSQGLVHE-QNMAKMRLLTL 285 (378)
T ss_pred HHHHHHCCCHH-HHHHHHHHHHH
T ss_conf 89987064289-99999999999
No 2
>cd01477 vWA_F09G8-8_type VWA F09G8.8 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of mo
Probab=15.49 E-value=83 Score=16.03 Aligned_cols=23 Identities=30% Similarity=0.648 Sum_probs=19.6
Q ss_pred HHHHHHHHHHEEHHHEEEEEEEE
Q ss_conf 11000024300010115556688
Q 537021.9.peg.2 20 RSLTDNRCSRTISRIQLDLRFLL 42 (45)
Q Consensus 20 rsltdnrcsrtisriqldlrfll 42 (45)
-+.||.+|...++.+.||.-|..
T Consensus 4 ~~~tdr~Cg~dl~nLWLDVv~VV 26 (193)
T cd01477 4 AAYTDRECGSDIKNLWLDIVFVV 26 (193)
T ss_pred CCCCCCCCCCCHHHEEEEEEEEE
T ss_conf 54335766875122237899999
No 3
>TIGR02582 cas_TM1809 CRISPR-associated RAMP protein, Csm3 family; InterPro: IPR013412 Members of this CRISPR-associated (cas) gene family are found in the mtube subtype CRISPR/cas locus, and and designated Csm3 for CRISPR/cas Subtype Mtube, protein 3..
Probab=13.23 E-value=60 Score=16.63 Aligned_cols=15 Identities=33% Similarity=0.569 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHE
Q ss_conf 201111000024300
Q 537021.9.peg.2 16 MGKMRSLTDNRCSRT 30 (45)
Q Consensus 16 mgkmrsltdnrcsrt 30 (45)
-||||||-.+.-.+.
T Consensus 58 KGK~RsLLE~~~g~~ 72 (248)
T TIGR02582 58 KGKLRSLLEKSLGKE 72 (248)
T ss_pred HHHHHHHHHHHCCCE
T ss_conf 688888888771972
No 4
>TIGR01429 AMP_deaminase AMP deaminase; InterPro: IPR006329 These sequences describe AMP deaminase, a large, well-conserved eukaryotic protein involved in energy metabolism. Most members of the family have an additional, poorly alignable region of 150 amino acids or more N-terminal to the conserved domain which defines this group of sequences.; GO: 0003876 AMP deaminase activity, 0009168 purine ribonucleoside monophosphate biosynthetic process.
Probab=9.30 E-value=89 Score=15.89 Aligned_cols=16 Identities=44% Similarity=0.717 Sum_probs=11.6
Q ss_pred CHHCCCCCHHHHHHHH
Q ss_conf 0010114865620201
Q 537021.9.peg.2 3 FIDSTVFSPEVRNMGK 18 (45)
Q Consensus 3 fidstvfspevrnmgk 18 (45)
+||..||||.||=+=.
T Consensus 320 ~i~~~lfSpn~RWLiQ 335 (616)
T TIGR01429 320 IIDNDLFSPNVRWLIQ 335 (616)
T ss_pred HHHCCCCCCCCCEEEE
T ss_conf 9852655787334776
No 5
>TIGR02404 trehalos_R_Bsub trehalose operon repressor; InterPro: IPR012770 This family consists of repressors of the GntR family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gram-positive lineages and does not include the TreR from Escherichia coli..
Probab=9.24 E-value=1.2e+02 Score=15.38 Aligned_cols=26 Identities=42% Similarity=0.437 Sum_probs=21.7
Q ss_pred HHHHHHHH-HHEEHHHEEEE-EEEEEEC
Q ss_conf 11000024-30001011555-6688739
Q 537021.9.peg.2 20 RSLTDNRC-SRTISRIQLDL-RFLLIRR 45 (45)
Q Consensus 20 rsltdnrc-srtisriqldl-rfllirr 45 (45)
-.|.|++| --|-||-.||- +|.=++|
T Consensus 208 ~~L~Dt~~FqYTESRHRLDKF~f~D~AR 235 (236)
T TIGR02404 208 VYLEDTRLFQYTESRHRLDKFRFVDFAR 235 (236)
T ss_pred EEECCCCCCCCCCCCCCCCCCCEEEEEC
T ss_conf 4502586245512113235254320003
No 6
>pfam01350 Flavi_NS4A Flavivirus non-structural protein NS4A. Flaviviruses encode a single polyprotein. This is cleaved into three structural and seven non-structural proteins. The NS4A protein is small and poorly conserved among the Flaviviruses. NS4A contains multiple hydrophobic potential membrane spanning regions. NS4A has only been found in cells infected by Kunjin virus.
Probab=8.54 E-value=89 Score=15.88 Aligned_cols=23 Identities=43% Similarity=0.577 Sum_probs=16.5
Q ss_pred CHHCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 00101148656202011110000243
Q 537021.9.peg.2 3 FIDSTVFSPEVRNMGKMRSLTDNRCS 28 (45)
Q Consensus 3 fidstvfspevrnmgkmrsltdnrcs 28 (45)
|+=-.|.-|| -||-||-.||+-.
T Consensus 110 filmvVLiPE---pg~QRS~~DN~LA 132 (145)
T pfam01350 110 FLLLVVLIPE---PGKQRSQQDNQLA 132 (145)
T ss_pred HHHHHEECCC---CCCCCCCCCCHHH
T ss_conf 9999604468---8886675443589
No 7
>TIGR01663 PNK-3'Pase polynucleotide kinase 3'-phosphatase; InterPro: IPR006550 These sequences represent the metazoan 5'-polynucleotide-kinase-3'-phosphatase, PNKP, which is believed to be involved in repair of oxidative DNA damage. Removal of 3'-phosphates is essential for the further processing of the break by DNA polymerases , . The central phosphatase domain is a member of the IIIA subfamily (IPR006549 from INTERPRO) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. As is common in this superfamily, the enzyme is magnesium dependent. A difference between this enzyme and other HAD-superfamily phosphatases is in the third conserved catalytic motif which usually contains two conserved aspartate residues believed to be involved in binding the magnesium ion. Here, the second aspartate is replaced by a conserved arginine residue which may indicate an interaction with the phosphate backbone of the substrate. Very close relatives of this domain are also found separate from the N- and C-terminal domains seen here, as in the 3'-phosphatase found in plants. The larger family of these domains is described by IPR006551 from INTERPRO. Outside of the phosphatase domain is a P-loop ATP-binding motif associated with the kinase activity. The entry for the mouse homolog appears to be missing a large piece of sequence corresponding to the first conserved catalytic motif of the phosphatase domain as well as the conserved threonine of the second motif. Either this is a sequencing artifact or this may represent a pseudo- or non-functional gene. .
Probab=8.47 E-value=1.1e+02 Score=15.42 Aligned_cols=25 Identities=20% Similarity=0.513 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHEEHHHEEEEEE
Q ss_conf 2011110000243000101155566
Q 537021.9.peg.2 16 MGKMRSLTDNRCSRTISRIQLDLRF 40 (45)
Q Consensus 16 mgkmrsltdnrcsrtisriqldlrf 40 (45)
-|.....+|..|||+--.+|.|+.-
T Consensus 38 R~~~T~~~D~KCS~~Q~~L~~D~~~ 62 (526)
T TIGR01663 38 RSRLTQVRDRKCSKRQVELVVDLKK 62 (526)
T ss_pred CCCCCCCCCCCCCCCEEEEEEECCC
T ss_conf 5755651004224320357770030
No 8
>pfam10584 Proteasome_A_N Proteasome subunit A N-terminal signature. This domain is conserved in the A subunits of the proteasome complex proteins.
Probab=8.40 E-value=94 Score=15.78 Aligned_cols=11 Identities=45% Similarity=0.570 Sum_probs=8.0
Q ss_pred HCCCCCHHHHH
Q ss_conf 10114865620
Q 537021.9.peg.2 5 DSTVFSPEVRN 15 (45)
Q Consensus 5 dstvfspevrn 15 (45)
+.|+|||+-|-
T Consensus 4 ~~ttFSPdGrL 14 (26)
T pfam10584 4 SLTTFSPDGRL 14 (26)
T ss_pred CCEEECCCCCE
T ss_conf 76058899805
No 9
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit ClpA; InterPro: IPR013461 Proteins in this entry are related to ClpA () from Escherichia coli. ClpA is an ATP-dependent chaperone and part of the ClpAP protease that participates in regulatory protein degradation and the dissolution and degradation of protein aggregates . ClpA recognises sequences in specific proteins, which it then unfolds in an ATP-dependent manner and transports into the degradation chamber of the associated ClpP protein , . A small adaptor-like protein, ClpS, modulates the activity of ClpA and is an important regulatory factor for this protein . It protects ClpA from autodegradation and appears to redirect its activity away from soluble proteins and toward aggregated proteins..
Probab=7.86 E-value=1.1e+02 Score=15.52 Aligned_cols=10 Identities=60% Similarity=1.032 Sum_probs=7.3
Q ss_pred CCCCCHHHHH
Q ss_conf 0114865620
Q 537021.9.peg.2 6 STVFSPEVRN 15 (45)
Q Consensus 6 stvfspevrn 15 (45)
...||||-||
T Consensus 672 kk~F~PEFRN 681 (774)
T TIGR02639 672 KKLFSPEFRN 681 (774)
T ss_pred HHHCCCCCCC
T ss_conf 7315874201
No 10
>pfam03852 Vsr DNA mismatch endonuclease Vsr.
Probab=6.15 E-value=2.2e+02 Score=14.13 Aligned_cols=16 Identities=44% Similarity=0.731 Sum_probs=0.0
Q ss_pred CCCCCHHHH--HHHHHHH
Q ss_conf 011486562--0201111
Q 537021.9.peg.2 6 STVFSPEVR--NMGKMRS 21 (45)
Q Consensus 6 stvfspevr--nmgkmrs 21 (45)
|.+|+||.| +|.+.+|
T Consensus 1 tD~~t~~~RS~~M~~irs 18 (75)
T pfam03852 1 TDVLTPAKRSKNMQAIRS 18 (75)
T ss_pred CCCCCHHHHHHHHHHHCC
T ss_conf 983888999999972137
Done!