Query gi|254780210|ref|YP_003064623.1| hypothetical protein CLIBASIA_00475 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 57
No_of_seqs 1 out of 3
Neff 1.0
Searched_HMMs 39220
Date Mon May 23 14:39:35 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780210.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1232 consensus 59.2 3.6 9.1E-05 21.7 0.7 18 2-21 202-219 (511)
2 pfam04758 Ribosomal_S30 Riboso 26.7 22 0.00057 17.7 0.5 38 6-43 3-44 (59)
3 PRK12333 nucleoside triphospha 16.3 53 0.0013 15.8 0.6 10 36-45 194-203 (208)
4 KOG0009 consensus 16.2 55 0.0014 15.7 0.7 24 6-29 5-28 (62)
5 pfam03346 consensus 14.6 45 0.0011 16.2 -0.2 21 23-43 45-65 (369)
6 cd00240 TFIIFa Transcription i 12.7 59 0.0015 15.6 -0.0 30 5-34 54-87 (162)
7 pfam10183 ESSS ESSS subunit of 11.0 1.1E+02 0.0028 14.3 0.9 35 4-38 26-62 (151)
8 PRK01061 Na(+)-translocating N 10.2 1.1E+02 0.0029 14.2 0.8 25 14-38 210-234 (244)
9 PRK09336 30S ribosomal protein 9.0 1.9E+02 0.0048 13.1 1.8 39 6-46 4-43 (50)
10 TIGR00444 mazG MazG family pro 8.5 1.7E+02 0.0044 13.3 1.2 13 35-47 213-225 (253)
No 1
>KOG1232 consensus
Probab=59.24 E-value=3.6 Score=21.66 Aligned_cols=18 Identities=61% Similarity=0.953 Sum_probs=14.7
Q ss_pred CCEEECCCCCCCCCCCCCCC
Q ss_conf 50230143222211121044
Q gi|254780210|r 2 SLVRYGSLSDHGKVAGEEAP 21 (57)
Q Consensus 2 slvrygslsdhgkvageeap 21 (57)
.|+||||| ||.|-|-|+-
T Consensus 202 rllRYGsL--HgsvLGle~V 219 (511)
T KOG1232 202 RLLRYGSL--HGSVLGLEVV 219 (511)
T ss_pred EEEEECCC--CCCEEEEEEE
T ss_conf 79986353--4302346998
No 2
>pfam04758 Ribosomal_S30 Ribosomal protein S30.
Probab=26.70 E-value=22 Score=17.69 Aligned_cols=38 Identities=34% Similarity=0.490 Sum_probs=23.4
Q ss_pred ECCCCCCCCCCCCCCCHHHHHCCCCC----CCCHHHHHHHHH
Q ss_conf 01432222111210441222161227----883156688888
Q gi|254780210|r 6 YGSLSDHGKVAGEEAPRKKSEQPKRE----PQPQQENRKFIR 43 (57)
Q Consensus 6 ygslsdhgkvageeaprkkseqpkre----pqpqqenrkfir 43 (57)
-|||.--|||-|...--.|.|.+|.. -.-.|-||.|..
T Consensus 3 HGSLaRAGKVk~QTPkv~kqeKkk~~~GRAkkR~~YnrRfvn 44 (59)
T pfam04758 3 HGSLARAGKVRNQTPKVAKQEKKKKPTGRAKKRLQYNRRFVN 44 (59)
T ss_pred CHHHHHCCCCCCCCCCCCHHHHCCCCCCHHHHHHHHHHHHEE
T ss_conf 404555165357899742444134655148888775301113
No 3
>PRK12333 nucleoside triphosphate pyrophosphohydrolase; Reviewed
Probab=16.30 E-value=53 Score=15.83 Aligned_cols=10 Identities=10% Similarity=0.175 Sum_probs=5.6
Q ss_pred HHHHHHHHHH
Q ss_conf 5668888876
Q gi|254780210|r 36 QENRKFIRRS 45 (57)
Q Consensus 36 qenrkfirrs 45 (57)
+-|+|||||+
T Consensus 194 ~an~Kf~~r~ 203 (208)
T PRK12333 194 KRTLKALAQG 203 (208)
T ss_pred HHHHHHHCCC
T ss_conf 9999987548
No 4
>KOG0009 consensus
Probab=16.20 E-value=55 Score=15.75 Aligned_cols=24 Identities=42% Similarity=0.576 Sum_probs=15.5
Q ss_pred ECCCCCCCCCCCCCCCHHHHHCCC
Q ss_conf 014322221112104412221612
Q gi|254780210|r 6 YGSLSDHGKVAGEEAPRKKSEQPK 29 (57)
Q Consensus 6 ygslsdhgkvageeaprkkseqpk 29 (57)
-|||...|||-+...--.|.|.+|
T Consensus 5 hgslarAGKVr~QTPKv~kqeK~k 28 (62)
T KOG0009 5 HGSLARAGKVRGQTPKVEKQEKKK 28 (62)
T ss_pred EEEHHHCCCCCCCCCCCHHHHHCC
T ss_conf 642332362035688624444112
No 5
>pfam03346 consensus
Probab=14.57 E-value=45 Score=16.19 Aligned_cols=21 Identities=43% Similarity=0.637 Sum_probs=14.9
Q ss_pred HHHHCCCCCCCCHHHHHHHHH
Q ss_conf 222161227883156688888
Q gi|254780210|r 23 KKSEQPKREPQPQQENRKFIR 43 (57)
Q Consensus 23 kkseqpkrepqpqqenrkfir 43 (57)
-|.||||.|-.||.++-|--.
T Consensus 45 PkAeqPKkEeaPqAd~pKae~ 65 (369)
T pfam03346 45 PKAEQPKKEEAPQADSPKAEK 65 (369)
T ss_pred CCCCCCCCCCCCCCCCCCCCC
T ss_conf 656686422266566863337
No 6
>cd00240 TFIIFa Transcription initiation factor IIF, alpha subunit, N-terminal region of RAP74. Subunit of transcription initiation complex involved in initiation, elongation and promoter escape.Tetramer of 2 alpha and 2 beta TFIIF subunits interacts directly with RNA polymerase II. TFIIF inhibits non-specific transcription initiation by PolII and recruits the polymerase to the preinitiation complex on promoter DNA for site-specific transcription initiation. The PolII/TFIIF-complex attaches through direct interactions of TFIIF with promoter DNA, TFIIB and the TAF250 subunit of TFIID, and provides scaffolding for addition of TFIIE and TFIIH. Together with TFIIE, TFIIF participates in DNA strand separation (open complex formation). N-terminal domains of RAP30 and RAP74 co-fold to form a single core structure, a triple barrel heterodimer, and has pseudo-2-fold symmetry.
Probab=12.68 E-value=59 Score=15.61 Aligned_cols=30 Identities=37% Similarity=0.501 Sum_probs=21.6
Q ss_pred EECCCCCCCCCCCCCCCHHH----HHCCCCCCCC
Q ss_conf 30143222211121044122----2161227883
Q gi|254780210|r 5 RYGSLSDHGKVAGEEAPRKK----SEQPKREPQP 34 (57)
Q Consensus 5 rygslsdhgkvageeaprkk----seqpkrepqp 34 (57)
.||.-|.-|.-+-|||-||| +..-+-+-||
T Consensus 54 ~fGaGSE~gr~~reeArrKK~g~~~~k~~~e~qP 87 (162)
T cd00240 54 EFGAGSEYNRSLREEARRKKFGIAQRKYRPENQP 87 (162)
T ss_pred CCCCCCHHHHHHHHHHHHHHHCHHHHHCCCCCCC
T ss_conf 5377433538889998761201122215866898
No 7
>pfam10183 ESSS ESSS subunit of NADH:ubiquinone oxidoreductase (complex I). This subunit is part of the mitochondrial NADH:ubiquinone oxidoreductase (complex I). It carries mitochondrial import sequences.
Probab=10.95 E-value=1.1e+02 Score=14.28 Aligned_cols=35 Identities=23% Similarity=0.427 Sum_probs=23.8
Q ss_pred EEECCCCCCCCCCCCCCCHHH--HHCCCCCCCCHHHH
Q ss_conf 230143222211121044122--21612278831566
Q gi|254780210|r 4 VRYGSLSDHGKVAGEEAPRKK--SEQPKREPQPQQEN 38 (57)
Q Consensus 4 vrygslsdhgkvageeaprkk--seqpkrepqpqqen 38 (57)
+++-|-+++-.+++-....|. .-+..-.|+|.++|
T Consensus 26 ~~~~s~~~~~~~a~~~~~~k~~p~~~~~e~p~~ee~~ 62 (151)
T pfam10183 26 LRWSSSASRAVVAPKAVAAKEEPTTPWQEDPEPEEVN 62 (151)
T ss_pred EEEECCCCHHHCCCHHHHCCCCCCCHHHHCCCHHHHH
T ss_conf 3743267630106033422568886444268835543
No 8
>PRK01061 Na(+)-translocating NADH-quinone reductase subunit E; Provisional
Probab=10.17 E-value=1.1e+02 Score=14.17 Aligned_cols=25 Identities=8% Similarity=0.034 Sum_probs=20.7
Q ss_pred CCCCCCCCHHHHHCCCCCCCCHHHH
Q ss_conf 1112104412221612278831566
Q gi|254780210|r 14 KVAGEEAPRKKSEQPKREPQPQQEN 38 (57)
Q Consensus 14 kvageeaprkkseqpkrepqpqqen 38 (57)
+.++++||...++|+-.+-|||...
T Consensus 210 ~l~~~~~~~~~~~~~~~~~~~~~~~ 234 (244)
T PRK01061 210 DISKPSAKETAFVENITNDSKQPSS 234 (244)
T ss_pred CCCCCCCCCCHHHHHCCCCCCCCCC
T ss_conf 7799999841267630568999875
No 9
>PRK09336 30S ribosomal protein S30e; Provisional
Probab=9.00 E-value=1.9e+02 Score=13.09 Aligned_cols=39 Identities=33% Similarity=0.577 Sum_probs=22.7
Q ss_pred ECCCCCCCCCCCCCCCHHHHHCCCCCCCCHHHHH-HHHHHHH
Q ss_conf 0143222211121044122216122788315668-8888764
Q gi|254780210|r 6 YGSLSDHGKVAGEEAPRKKSEQPKREPQPQQENR-KFIRRSE 46 (57)
Q Consensus 6 ygslsdhgkvageeaprkkseqpkrepqpqqenr-kfirrse 46 (57)
-|||..-|||-|... |-..+|+...-|.-.|| .|.||-.
T Consensus 4 HGSLtkAGKVR~QTP--Ki~~k~kk~~~pR~rnr~~y~rr~~ 43 (50)
T PRK09336 4 HGSLTKAGKVRNQTP--KIPAKPRKNLPPRVRNRREYKRRVL 43 (50)
T ss_pred CCCHHHCCCCCCCCC--CCCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf 630444143147799--8874101366677888999999999
No 10
>TIGR00444 mazG MazG family protein; InterPro: IPR011551 This group of prokaryotic proteins has no known function. It includes the uncharacterised protein MazG in Escherichia coli..
Probab=8.51 E-value=1.7e+02 Score=13.28 Aligned_cols=13 Identities=38% Similarity=0.629 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHH
Q ss_conf 1566888887643
Q gi|254780210|r 35 QQENRKFIRRSEI 47 (57)
Q Consensus 35 qqenrkfirrsei 47 (57)
+.-|.||+||-..
T Consensus 213 ~~aN~kF~rRf~~ 225 (253)
T TIGR00444 213 RKANEKFERRFRL 225 (253)
T ss_pred HHHHHHHHHHHHH
T ss_conf 8854999999999
Done!