Query 028301
Match_columns 211
No_of_seqs 112 out of 360
Neff 5.1
Searched_HMMs 13730
Date Mon Mar 25 15:21:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028301.a3m -d /work/01045/syshi/HHdatabase/scop70.hhm -o /work/01045/syshi/hhsearch_scop/028301hhsearch_scop -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 d1v54b2 f.17.2.1 (B:1-90) Mito 38.7 14 0.00099 25.0 3.5 32 124-155 49-80 (90)
2 d1fftb2 f.17.2.1 (B:27-117) Cy 17.9 16 0.0011 24.6 0.6 14 140-153 66-79 (91)
3 d3dtub2 f.17.2.1 (B:30-129) Ba 17.8 35 0.0025 22.9 2.5 17 139-155 74-90 (100)
4 d3ehbb2 f.17.2.1 (B:1-107) Bac 16.9 43 0.0031 22.8 2.8 17 139-155 80-96 (107)
5 d2ckca1 d.76.2.1 (A:2563-2622) 8.4 1.2E+02 0.0089 18.9 2.7 17 4-20 22-38 (60)
6 d2fm9a1 a.257.1.1 (A:49-263) C 7.3 60 0.0044 25.3 0.8 69 15-86 31-103 (215)
7 d2exna1 b.165.1.1 (A:1-128) Hy 6.2 54 0.0039 22.8 0.0 14 67-80 6-19 (128)
8 d2ckaa1 d.76.2.1 (A:2028-2085) 5.7 2E+02 0.015 17.7 2.7 18 4-21 24-41 (58)
9 d2eyqa2 c.37.1.19 (A:349-465) 4.4 2.2E+02 0.016 18.9 2.4 22 3-24 18-39 (117)
10 d1ekza_ d.50.1.1 (A:) Staufen, 4.2 3E+02 0.022 16.7 2.9 22 2-23 4-25 (76)
No 1
>d1v54b2 f.17.2.1 (B:1-90) Mitochondrial cytochrome c oxidase, subunit II {Cow (Bos taurus) [TaxId: 9913]}
Probab=38.72 E-value=14 Score=24.97 Aligned_cols=32 Identities=22% Similarity=0.447 Sum_probs=20.2
Q ss_pred cccccccccccccchhhhHHHHHHHHHHhCCC
Q 028301 124 NLRSSYMEDKDNFAIYYVVVPCAVLALLIHPS 155 (211)
Q Consensus 124 k~k~TYd~~~Dtf~~~~liip~~vLAli~hp~ 155 (211)
+++..+-.+..+.-....++|+++|..+.-|+
T Consensus 49 ~~~~~~~~~~~~lEiiWTiiP~lILi~ia~PS 80 (90)
T d1v54b2 49 KLTHTSTMDAQEVETIWTILPAIILILIALPS 80 (90)
T ss_dssp SCCCCSCCCCTTHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccccccccchhhHHHHHHHHHHHHHHHHH
Confidence 44433333344444558889988888887775
No 2
>d1fftb2 f.17.2.1 (B:27-117) Cytochrome O ubiquinol oxidase, subunit II {Escherichia coli [TaxId: 562]}
Probab=17.94 E-value=16 Score=24.58 Aligned_cols=14 Identities=21% Similarity=0.318 Sum_probs=8.8
Q ss_pred hhHHHHHHHHHHhC
Q 028301 140 YVVVPCAVLALLIH 153 (211)
Q Consensus 140 ~liip~~vLAli~h 153 (211)
+.++|++++..+.-
T Consensus 66 WtiIP~iil~~iav 79 (91)
T d1fftb2 66 VWTVPILIIIFLAV 79 (91)
T ss_dssp TTHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 56677776665543
No 3
>d3dtub2 f.17.2.1 (B:30-129) Bacterial aa3 type cytochrome c oxidase subunit II {Rhodobacter sphaeroides [TaxId: 1063]}
Probab=17.81 E-value=35 Score=22.93 Aligned_cols=17 Identities=24% Similarity=0.333 Sum_probs=12.1
Q ss_pred hhhHHHHHHHHHHhCCC
Q 028301 139 YYVVVPCAVLALLIHPS 155 (211)
Q Consensus 139 ~~liip~~vLAli~hp~ 155 (211)
.+.++|++++..+.-|+
T Consensus 74 iWTviP~lILi~l~~pS 90 (100)
T d3dtub2 74 AWTIVPIVILVAIGAFS 90 (100)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 47788888877776554
No 4
>d3ehbb2 f.17.2.1 (B:1-107) Bacterial aa3 type cytochrome c oxidase subunit II {Paracoccus denitrificans [TaxId: 266]}
Probab=16.93 E-value=43 Score=22.83 Aligned_cols=17 Identities=24% Similarity=0.333 Sum_probs=11.2
Q ss_pred hhhHHHHHHHHHHhCCC
Q 028301 139 YYVVVPCAVLALLIHPS 155 (211)
Q Consensus 139 ~~liip~~vLAli~hp~ 155 (211)
.+.++|+++|..+.-|+
T Consensus 80 ~WTviP~lIL~~laipS 96 (107)
T d3ehbb2 80 IWTLVPVLILVAIGAFS 96 (107)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 46777777777666554
No 5
>d2ckca1 d.76.2.1 (A:2563-2622) Chromodomain-helicase-DNA-binding protein 7, CHD7 {Human (Homo sapiens) [TaxId: 9606]}
Probab=8.36 E-value=1.2e+02 Score=18.89 Aligned_cols=17 Identities=12% Similarity=0.413 Sum_probs=13.9
Q ss_pred CCCcHHHHHHHHhhCCC
Q 028301 4 PKRPIHAVSTWVRRQPP 20 (211)
Q Consensus 4 ~~~~~~~~~~~l~~~~~ 20 (211)
.-+.+..+..||++|++
T Consensus 22 ~AP~~~~L~~WL~~hP~ 38 (60)
T d2ckca1 22 DAPKNKDLVEWLKLHPT 38 (60)
T ss_dssp SSCBHHHHHHHHHHCTT
T ss_pred CCcCHHHHHHHHHHCCC
Confidence 35678889999999986
No 6
>d2fm9a1 a.257.1.1 (A:49-263) Cell invasion protein SipA, N-terminal domain {Salmonella typhimurium [TaxId: 90371]}
Probab=7.28 E-value=60 Score=25.25 Aligned_cols=69 Identities=19% Similarity=0.163 Sum_probs=32.1
Q ss_pred HhhCCCceeeHHHHHHHHHHHHHHHHHHhcCcHHHHHhhHHHHHHH--HHHHH-Hhhccccccc-cccchhHHHHH
Q 028301 15 VRRQPPKVKAFLAVVSGMAALVLLRFIVHDHDNLFVAAEAVHSIGI--SVLIY-KLMKEKTCAG-LSLKSQELTAI 86 (211)
Q Consensus 15 l~~~~~~v~~~~~~~~~~~~~~~~~~~~~d~n~f~llgdl~Hl~s~--~iLl~-KI~~~KS~~G-iSlKTQ~Ly~i 86 (211)
+=.+++|+-.=..+.=+.= +.+-...+.+...-.++...=.+- --.+. -=.+.||+-| -+-||--.++.
T Consensus 31 i~~~S~N~~aK~~i~EFa~---v~~s~~~~~~~~~~a~~~L~ki~~qYta~i~kDgL~ekSAFGPWt~~tkK~~~~ 103 (215)
T d2fm9a1 31 VFTNSNNVAGKKAIMEFAG---LFRSALNATSDSPEAKTLLMKVGAEYTAQIIKDGLKEKSAFGPWLPETKKAEAK 103 (215)
T ss_dssp HHHHCCCHHHHHHHHHHHH---HHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHHHCCCSSCSSSTTSCCSHHHHHH
T ss_pred HHhcCccHHHHHHHHHHHH---HHHHHHhcCCCChhHHHHHHHHHHHHHHHHHHccccccccCCCCCccchHHHHH
Confidence 3445666644333322222 233344555555555555443221 11222 2235677777 56666555544
No 7
>d2exna1 b.165.1.1 (A:1-128) Hypothetical protein BB0938 {Bordetella bronchiseptica [TaxId: 518]}
Probab=6.19 E-value=54 Score=22.83 Aligned_cols=14 Identities=7% Similarity=0.159 Sum_probs=10.6
Q ss_pred hhccccccccccch
Q 028301 67 LMKEKTCAGLSLKS 80 (211)
Q Consensus 67 I~~~KS~~GiSlKT 80 (211)
++-=|||.|+|+..
T Consensus 6 ~~PIKsc~g~~~~~ 19 (128)
T d2exna1 6 YQPIAECGATTQSE 19 (128)
T ss_dssp EEEETTTEEECCGG
T ss_pred eecccccCCccccc
Confidence 34559999999854
No 8
>d2ckaa1 d.76.2.1 (A:2028-2085) Chromodomain-helicase-dna-binding protein 8, CHD8 {Human (Homo sapiens) [TaxId: 9606]}
Probab=5.73 E-value=2e+02 Score=17.69 Aligned_cols=18 Identities=11% Similarity=0.313 Sum_probs=14.3
Q ss_pred CCCcHHHHHHHHhhCCCc
Q 028301 4 PKRPIHAVSTWVRRQPPK 21 (211)
Q Consensus 4 ~~~~~~~~~~~l~~~~~~ 21 (211)
.-+.+..+..||..|++=
T Consensus 24 ~AP~~~~L~~WL~~nP~y 41 (58)
T d2ckaa1 24 DAPRRAELEMWLQGHPEF 41 (58)
T ss_dssp SSCBHHHHHHHHHHCTTE
T ss_pred CCcCHHHHHHHHHHCCCC
Confidence 356788899999999863
No 9
>d2eyqa2 c.37.1.19 (A:349-465) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}
Probab=4.43 E-value=2.2e+02 Score=18.91 Aligned_cols=22 Identities=18% Similarity=0.253 Sum_probs=17.0
Q ss_pred CCCCcHHHHHHHHhhCCCceee
Q 028301 3 APKRPIHAVSTWVRRQPPKVKA 24 (211)
Q Consensus 3 ~~~~~~~~~~~~l~~~~~~v~~ 24 (211)
+.++|.+++.+|+++...+|-+
T Consensus 18 ~~~~p~~~L~~~i~~~~~~Vli 39 (117)
T d2eyqa2 18 QQKAPLDALRKFLETFDGPVVF 39 (117)
T ss_dssp SSSSTTHHHHHHHTTCCSCCCE
T ss_pred chhcHHHHHHHHHHhCCCeEEE
Confidence 4578999999999887766543
No 10
>d1ekza_ d.50.1.1 (A:) Staufen, domain III {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}
Probab=4.24 E-value=3e+02 Score=16.68 Aligned_cols=22 Identities=23% Similarity=0.197 Sum_probs=17.2
Q ss_pred CCCCCcHHHHHHHHhhCCCcee
Q 028301 2 RAPKRPIHAVSTWVRRQPPKVK 23 (211)
Q Consensus 2 ~~~~~~~~~~~~~l~~~~~~v~ 23 (211)
+..++|...+.+|.++++.++.
T Consensus 4 ~~~k~Pvs~L~E~~q~~~~~~~ 25 (76)
T d1ekza_ 4 GDKKSPISQVHEIGIKRNMTVH 25 (76)
T ss_dssp CCCSCHHHHHHHHHHHTTCCCE
T ss_pred CCCCCHHHHHHHHHHhCCCCCe
Confidence 4458899999999988877654
Done!