Query gi|254781155|ref|YP_003065568.1| hypothetical protein CLIBASIA_05310 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 35
No_of_seqs 2 out of 4
Neff 1.3
Searched_HMMs 39220
Date Mon May 30 05:17:46 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254781155.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 pfam03634 TCP TCP family trans 25.4 50 0.0013 16.5 2.1 16 18-33 45-60 (123)
2 COG5618 Predicted periplasmic 21.5 31 0.00078 17.5 0.3 17 6-22 144-160 (206)
3 pfam04422 FrhB_FdhB_N Coenzyme 17.9 68 0.0017 15.8 1.4 26 9-34 11-37 (82)
4 PRK09325 coenzyme F420-reducin 12.6 97 0.0025 15.1 1.1 24 11-34 21-44 (283)
5 KOG0338 consensus 11.2 1.7E+02 0.0043 13.9 2.3 32 1-32 199-244 (691)
6 pfam12551 PHBC_N Poly-beta-hyd 10.8 1.3E+02 0.0034 14.4 1.3 12 17-28 30-41 (46)
7 TIGR03289 frhB coenzyme F420 h 10.8 1.3E+02 0.0034 14.4 1.3 24 11-34 18-41 (275)
8 COG1035 FrhB Coenzyme F420-red 9.4 1.7E+02 0.0043 13.9 1.4 23 12-34 69-91 (332)
9 KOG1630 consensus 9.2 1.3E+02 0.0033 14.5 0.8 19 9-27 169-188 (336)
10 pfam05373 Pro_3_hydrox_C L-pro 9.1 1.8E+02 0.0047 13.7 1.5 12 18-29 64-75 (101)
No 1
>pfam03634 TCP TCP family transcription factor. This is a family of TCP plant transcription factors. TCP proteins were named after the first characterized members (TB1, CYC and PCFs) and they are involved in multiple developmental control pathways. This region contains a DNA binding basic-Helix-Loop-Helix (bHLP) structure.
Probab=25.40 E-value=50 Score=16.46 Aligned_cols=16 Identities=31% Similarity=0.615 Sum_probs=10.9
Q ss_pred CHHHHHHHHHHHHHHH
Q ss_conf 3269999999997652
Q gi|254781155|r 18 RKTTAWLVHIFKKNLM 33 (35)
Q Consensus 18 ~~~t~wlvhifk~n~m 33 (35)
++|-+||.--=|.-|-
T Consensus 45 SkTieWLL~qAk~AI~ 60 (123)
T pfam03634 45 SKTIEWLLQQAKPAII 60 (123)
T ss_pred CHHHHHHHHHHHHHHH
T ss_conf 0299999996699999
No 2
>COG5618 Predicted periplasmic lipoprotein [General function prediction only]
Probab=21.53 E-value=31 Score=17.50 Aligned_cols=17 Identities=41% Similarity=0.483 Sum_probs=12.5
Q ss_pred HHHHHHHHHHCCCHHHH
Q ss_conf 03566676425432699
Q gi|254781155|r 6 PYQNQIEHAQGGRKTTA 22 (35)
Q Consensus 6 p~q~qi~~a~gg~~~t~ 22 (35)
-+.|||+|||-|.+-..
T Consensus 144 dFkNQIeyaq~gkAln~ 160 (206)
T COG5618 144 DFKNQIEYAQFGKALNL 160 (206)
T ss_pred HHHHHHHHHHHHHHHHH
T ss_conf 45558899999999988
No 3
>pfam04422 FrhB_FdhB_N Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term. Coenzyme F420 hydrogenase (EC:1.12.99.1) reduces the low-potential two-electron acceptor coenzyme F420. This family contains the N termini of F420 hydrogenase and dehydrogenase beta subunits. The N terminus of Methanobacterium formicicum formate dehydrogenase beta chain (EC:1.2.1.2) is also a member of this family. This region is often found in association with the 4Fe-4S binding domain, fer4 (pfam00037).
Probab=17.90 E-value=68 Score=15.84 Aligned_cols=26 Identities=35% Similarity=0.495 Sum_probs=21.0
Q ss_pred HHH-HHHHCCCHHHHHHHHHHHHHHHC
Q ss_conf 666-76425432699999999976522
Q gi|254781155|r 9 NQI-EHAQGGRKTTAWLVHIFKKNLME 34 (35)
Q Consensus 9 ~qi-~~a~gg~~~t~wlvhifk~n~me 34 (35)
.+| +.+|-||..|+-|.+.+.+++.+
T Consensus 11 ~~ir~~~qsGG~vTall~~lLe~g~vD 37 (82)
T pfam04422 11 PEIREKAQDGGAVTALLKYLLESGLVD 37 (82)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHCCCCC
T ss_conf 889862563779999999999859966
No 4
>PRK09325 coenzyme F420-reducing hydrogenase subunit beta; Validated
Probab=12.58 E-value=97 Score=15.07 Aligned_cols=24 Identities=25% Similarity=0.479 Sum_probs=20.2
Q ss_pred HHHHHCCCHHHHHHHHHHHHHHHC
Q ss_conf 676425432699999999976522
Q gi|254781155|r 11 IEHAQGGRKTTAWLVHIFKKNLME 34 (35)
Q Consensus 11 i~~a~gg~~~t~wlvhifk~n~me 34 (35)
.+.+|-||..|+-|.+.+.+.+.+
T Consensus 21 r~~~q~GG~VTaLl~~aLe~g~ID 44 (283)
T PRK09325 21 LKKAQDGGIVTALLIYALEEGIID 44 (283)
T ss_pred HHCCCCHHHHHHHHHHHHHCCCCC
T ss_conf 332784899999999999759920
No 5
>KOG0338 consensus
Probab=11.18 E-value=1.7e+02 Score=13.91 Aligned_cols=32 Identities=38% Similarity=0.622 Sum_probs=23.0
Q ss_pred CCCCCHHHHHHH--------------HHHCCCHHHHHHHHHHHHHH
Q ss_conf 976640356667--------------64254326999999999765
Q gi|254781155|r 1 MGFKKPYQNQIE--------------HAQGGRKTTAWLVHIFKKNL 32 (35)
Q Consensus 1 ~gfkkp~q~qi~--------------~a~gg~~~t~wlvhifk~n~ 32 (35)
|||++|-+-|-. -+.|.|+|.++.+-|...-|
T Consensus 199 lGy~~PTpIQ~a~IPvallgkDIca~A~TGsGKTAAF~lPiLERLl 244 (691)
T KOG0338 199 LGYKKPTPIQVATIPVALLGKDICACAATGSGKTAAFALPILERLL 244 (691)
T ss_pred CCCCCCCCHHHHCCCHHHHCCHHHHEECCCCCCHHHHHHHHHHHHH
T ss_conf 3878887403310127752222564011468711456788999985
No 6
>pfam12551 PHBC_N Poly-beta-hydroxybutyrate polymerase N terminal. This domain family is found in bacteria and eukaryotes, and is approximately 50 amino acids in length. The family is found in association with pfam07167, pfam00561. There is a single completely conserved residue W that may be functionally important. PHBC is the third enzyme of the poly-beta-hydroxybutyrate biosynthetic pathway.
Probab=10.79 E-value=1.3e+02 Score=14.40 Aligned_cols=12 Identities=17% Similarity=0.437 Sum_probs=8.9
Q ss_pred CCHHHHHHHHHH
Q ss_conf 432699999999
Q gi|254781155|r 17 GRKTTAWLVHIF 28 (35)
Q Consensus 17 g~~~t~wlvhif 28 (35)
+-+..||++|..
T Consensus 30 ~lA~~DW~~HLa 41 (46)
T pfam12551 30 ALAYLDWALHLA 41 (46)
T ss_pred HHHHHHHHHHHH
T ss_conf 999999999986
No 7
>TIGR03289 frhB coenzyme F420 hydrogenase, subunit beta. This model represents that clade of F420-dependent hydrogenases (FRH) beta subunits found exclusively and universally in methanogenic archaea. The N- and C-terminal domains of this protein are modelled by pfam04422 and pfam04423 respectively.
Probab=10.76 E-value=1.3e+02 Score=14.43 Aligned_cols=24 Identities=25% Similarity=0.497 Sum_probs=20.1
Q ss_pred HHHHHCCCHHHHHHHHHHHHHHHC
Q ss_conf 676425432699999999976522
Q gi|254781155|r 11 IEHAQGGRKTTAWLVHIFKKNLME 34 (35)
Q Consensus 11 i~~a~gg~~~t~wlvhifk~n~me 34 (35)
.+.+|-||..|+-|.+.+.+.+.+
T Consensus 18 r~~~q~GG~VTall~~~Le~g~VD 41 (275)
T TIGR03289 18 LKKAQDGGIVSAILIYALEENIID 41 (275)
T ss_pred HHHCCCHHHHHHHHHHHHHCCCCC
T ss_conf 760684899999999999759943
No 8
>COG1035 FrhB Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]
Probab=9.37 E-value=1.7e+02 Score=13.89 Aligned_cols=23 Identities=30% Similarity=0.394 Sum_probs=19.7
Q ss_pred HHHHCCCHHHHHHHHHHHHHHHC
Q ss_conf 76425432699999999976522
Q gi|254781155|r 12 EHAQGGRKTTAWLVHIFKKNLME 34 (35)
Q Consensus 12 ~~a~gg~~~t~wlvhifk~n~me 34 (35)
..||-||..|+-|.+.+.++|.+
T Consensus 69 ~~aqdGG~VT~il~yaLe~gliD 91 (332)
T COG1035 69 KGAQDGGVVTAILAYALEEGLID 91 (332)
T ss_pred CCCCCCCHHHHHHHHHHHCCCCE
T ss_conf 26777563999999999759820
No 9
>KOG1630 consensus
Probab=9.22 E-value=1.3e+02 Score=14.49 Aligned_cols=19 Identities=47% Similarity=0.824 Sum_probs=14.1
Q ss_pred HHHHHHHC-CCHHHHHHHHH
Q ss_conf 66676425-43269999999
Q gi|254781155|r 9 NQIEHAQG-GRKTTAWLVHI 27 (35)
Q Consensus 9 ~qi~~a~g-g~~~t~wlvhi 27 (35)
..|+|.+| |-|.-+|++|-
T Consensus 169 rsi~Yq~g~gaKhLAW~lHc 188 (336)
T KOG1630 169 RSIEYQPGPGAKHLAWLLHC 188 (336)
T ss_pred HCCCCCCCCCHHHHHHHHHH
T ss_conf 05667888528899999987
No 10
>pfam05373 Pro_3_hydrox_C L-proline 3-hydroxylase, C-terminal. Iron (II)/2-oxoglutarate (2-OG)-dependent oxygenases catalyse oxidative reactions in a range of metabolic processes. Proline 3-hydroxylase hydroxylates proline at position 3, the first of a 2-OG oxygenase catalysing oxidation of a free alpha-amino acid. The structure contains conserved motifs present in other 2-OG oxygenases including a jelly roll strand core and residues binding iron and 2-oxoglutarate, consistent with divergent evolution within the extended family. The structure differs significantly from many other 2-OG oxygenases in possessing a discrete C-terminal helical domain.
Probab=9.08 E-value=1.8e+02 Score=13.73 Aligned_cols=12 Identities=42% Similarity=0.866 Sum_probs=0.0
Q ss_pred CHHHHHHHHHHH
Q ss_conf 326999999999
Q gi|254781155|r 18 RKTTAWLVHIFK 29 (35)
Q Consensus 18 ~~~t~wlvhifk 29 (35)
+.+-|||+.|-|
T Consensus 64 ~~~ydWL~ei~k 75 (101)
T pfam05373 64 REMYDWLIEICK 75 (101)
T ss_pred HHHHHHHHHHHH
T ss_conf 999999999998
Done!