Query 024962
Match_columns 260
No_of_seqs 94 out of 96
Neff 3.8
Searched_HMMs 29240
Date Mon Mar 25 17:32:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024962.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/024962hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3d8l_A ORF12; lactococcal phag 25.0 15 0.00052 27.9 0.0 23 216-238 2-25 (91)
2 1i27_A Transcription factor II 13.7 46 0.0016 25.0 0.4 21 6-26 5-25 (73)
3 1u07_A TONB protein; beta-hair 12.7 33 0.0011 24.7 -0.7 43 89-131 13-55 (90)
4 1nha_A TFIIF-alpha, transcript 11.2 61 0.0021 24.8 0.4 20 7-26 15-34 (82)
5 2ofg_X Zinc-transporting ATPas 9.0 1.1E+02 0.0039 22.2 1.2 11 34-44 100-110 (111)
6 2k9k_A TONB2; metal transport; 8.2 61 0.0021 23.9 -0.6 43 89-131 28-70 (106)
7 2ip6_A PAPB, PEDB; immunity pr 7.9 81 0.0028 25.4 -0.1 23 10-40 75-98 (112)
8 3iuo_A ATP-dependent DNA helic 7.8 1.3E+02 0.0046 23.2 1.2 14 88-101 33-46 (122)
9 2rfp_A Putative NTP pyrophosph 7.4 2.3E+02 0.0077 24.2 2.5 21 232-252 131-151 (171)
10 1nkz_B Light-harvesting protei 7.4 1.2E+02 0.0041 20.3 0.6 10 11-20 3-12 (41)
No 1
>3d8l_A ORF12; lactococcal phage P2, viral protein; 2.90A {Lactococcus phage SK1}
Probab=25.04 E-value=15 Score=27.92 Aligned_cols=23 Identities=35% Similarity=0.673 Sum_probs=18.9
Q ss_pred CCCcchh-hhhhccCCCCCCCCcc
Q 024962 216 EKPLSNA-KLREMSGSNIFADEKV 238 (260)
Q Consensus 216 eK~lS~A-KlkEmSG~dIFAdgk~ 238 (260)
+|+||.| |++-++|.|+|-..|+
T Consensus 2 akqlstarkfkmitgkdlfqqqka 25 (91)
T 3d8l_A 2 AKQLSTARKFKMITGKDLFQQQKA 25 (91)
T ss_dssp CCCCCHHHHHHHHHSSCHHHHHHH
T ss_pred cchhhhhhhhhhhccHHHHHHHHH
Confidence 4889987 8999999999975544
No 2
>1i27_A Transcription factor IIF; general transcription factor, RAP74, RAP30, TFIIF, RNA polymerase II, winged-helix domain; 1.02A {Homo sapiens} SCOP: a.4.5.30 PDB: 1j2x_A 2k7l_A*
Probab=13.70 E-value=46 Score=25.00 Aligned_cols=21 Identities=19% Similarity=0.053 Sum_probs=17.9
Q ss_pred eeecccchhhhhhhcccCCCC
Q 024962 6 VITYLSSSKIVQCDEFRKPCS 26 (260)
Q Consensus 6 ~~~~~~~~ee~~~l~krkpcS 26 (260)
-..++||||++...+.|||-.
T Consensus 5 ~~~~~iTEe~VrryL~rkPmT 25 (73)
T 1i27_A 5 SGDVQVTEDAVRRYLTRKPMT 25 (73)
T ss_dssp CCCSSCCHHHHHHHHHHSCBC
T ss_pred ccCCCcCHHHHHHHHHcCCcc
Confidence 356899999999999999965
No 3
>1u07_A TONB protein; beta-hairpin, protein transport; 1.13A {Escherichia coli} SCOP: d.212.1.2 PDB: 2gsk_B* 1ihr_A 1qxx_A
Probab=12.67 E-value=33 Score=24.72 Aligned_cols=43 Identities=12% Similarity=0.305 Sum_probs=34.9
Q ss_pred ChhHHhhhhhcccccccchhhhhhcccchhhhhhhccCCCCCC
Q 024962 89 SVPEVAKQRELSGSLQSESDLKTKKQISDAKFKEISGHDIFSP 131 (260)
Q Consensus 89 s~~evAkqrELsgt~ese~d~k~kKqiS~aK~KELSGsdIFap 131 (260)
..|+.|+++.+.|++.=.-.....-.+.+.++.+=+|+.+|..
T Consensus 13 ~YP~~a~~~~~~G~V~v~~~i~~~G~v~~~~v~~ssg~~~ld~ 55 (90)
T 1u07_A 13 QYPARAQALRIEGQVKVKFDVTPDGRVDNVQILSAKPANMFER 55 (90)
T ss_dssp CCCHHHHHHTCCEEEEEEEEECTTSCEEEEEEEEEESSSSSHH
T ss_pred CCcHHHHHCCCceEEEEEEEECCCCCEEEEEEEecCCcHHHHH
Confidence 4578899999999998666667778889999988889887764
No 4
>1nha_A TFIIF-alpha, transcription initiation factor IIF, alpha subunit; transcription factor, human general transcription factor TFIIF, RAP74; NMR {Homo sapiens} SCOP: a.4.5.30 PDB: 1onv_A
Probab=11.23 E-value=61 Score=24.82 Aligned_cols=20 Identities=20% Similarity=0.072 Sum_probs=16.9
Q ss_pred eecccchhhhhhhcccCCCC
Q 024962 7 ITYLSSSKIVQCDEFRKPCS 26 (260)
Q Consensus 7 ~~~~~~~ee~~~l~krkpcS 26 (260)
..++||+|++...+.|||-.
T Consensus 15 ~~~~iTEe~VRryL~rkPmT 34 (82)
T 1nha_A 15 GDVQVTEDAVRRYLTRKPMT 34 (82)
T ss_dssp -CCCCCHHHHHHHHHHSCBC
T ss_pred CCCCCCHHHHHHHHHhCCcc
Confidence 56899999999999999865
No 5
>2ofg_X Zinc-transporting ATPase; ferredoxin-like fold, beta-alpha-beta-BETA-alpha-beta, struc genomics, hydrolase, membrane protein; NMR {Synechocystis SP} PDB: 2ofh_X
Probab=8.96 E-value=1.1e+02 Score=22.20 Aligned_cols=11 Identities=36% Similarity=0.600 Sum_probs=8.0
Q ss_pred ccCCcccCCCC
Q 024962 34 NGSGIFVANGE 44 (260)
Q Consensus 34 tGsgIF~~~~e 44 (260)
.|.|||+++.|
T Consensus 100 h~~~~~~~~~e 110 (111)
T 2ofg_X 100 HGAGEFNLKQE 110 (111)
T ss_dssp CCCCCCCCCCC
T ss_pred ccccccCCccc
Confidence 34589998876
No 6
>2k9k_A TONB2; metal transport; NMR {Listonella anguillarum}
Probab=8.23 E-value=61 Score=23.91 Aligned_cols=43 Identities=16% Similarity=0.236 Sum_probs=34.6
Q ss_pred ChhHHhhhhhcccccccchhhhhhcccchhhhhhhccCCCCCC
Q 024962 89 SVPEVAKQRELSGSLQSESDLKTKKQISDAKFKEISGHDIFSP 131 (260)
Q Consensus 89 s~~evAkqrELsgt~ese~d~k~kKqiS~aK~KELSGsdIFap 131 (260)
..|+-|+++.+.|++.=.-.....-.+++.++.+=||+.+|..
T Consensus 28 ~YP~~A~~~~~eG~V~v~f~I~~~G~v~~~~v~~ssg~~~ld~ 70 (106)
T 2k9k_A 28 VYPSRALKRGVEGFVTLSFTIDTTGKAVDINVVDANPKRMFER 70 (106)
T ss_dssp CCCSHHHHHCCCCEEEEEEEEETTTEEEEEEEEEESSSSSSHH
T ss_pred CCCHHHHHcCCeeEEEEEEEECCCCcEEEEEEEEcCCcHHHHH
Confidence 4567799999999987666667778889999988889887763
No 7
>2ip6_A PAPB, PEDB; immunity protein to the pediocin PP-1, antimicrobial protein; 1.35A {Pediococcus pentosaceus}
Probab=7.88 E-value=81 Score=25.37 Aligned_cols=23 Identities=9% Similarity=-0.048 Sum_probs=15.3
Q ss_pred ccchhhhhhhcccCCCCcccccccccC-Cccc
Q 024962 10 LSSSKIVQCDEFRKPCSGYKLKEINGS-GIFV 40 (260)
Q Consensus 10 ~~~~ee~~~l~krkpcS~~K~KEmtGs-gIF~ 40 (260)
-+++||++.|. +++|+++| |+|+
T Consensus 75 hl~~eE~~~L~--------~I~~ia~S~~~WG 98 (112)
T 2ip6_A 75 HFTAEENKVLA--------AINELAHSQKGWG 98 (112)
T ss_dssp CCCHHHHHHHH--------HHHHHTTC-----
T ss_pred cCCHHHHHHHH--------HHHHHhccccccc
Confidence 36788888874 68999999 8984
No 8
>3iuo_A ATP-dependent DNA helicase RECQ; C-terminal, GI PSI, MCSG, structural genomics, midwest center for structur genomics; 1.60A {Porphyromonas gingivalis}
Probab=7.81 E-value=1.3e+02 Score=23.20 Aligned_cols=14 Identities=14% Similarity=0.192 Sum_probs=12.2
Q ss_pred CChhHHhhhhhccc
Q 024962 88 TSVPEVAKQRELSG 101 (260)
Q Consensus 88 ts~~evAkqrELsg 101 (260)
.|+.|+|++|.|+-
T Consensus 33 ~sleeIA~~R~L~~ 46 (122)
T 3iuo_A 33 VALDDIAVSHGLDF 46 (122)
T ss_dssp CCHHHHHHHTTCCH
T ss_pred CCHHHHHHHcCCCH
Confidence 58999999999974
No 9
>2rfp_A Putative NTP pyrophosphohydrolase; structural genomics, joint center for structural genomics, JCSG, protein structure initiative; 1.74A {Exiguobacterium sibiricum} PDB: 3mqu_A 3nl9_A
Probab=7.44 E-value=2.3e+02 Score=24.17 Aligned_cols=21 Identities=29% Similarity=0.213 Sum_probs=17.8
Q ss_pred CCCCCcccccccCCCcccCCC
Q 024962 232 IFADEKVESRDYFGGVRKPPG 252 (260)
Q Consensus 232 IFAdgk~~~rd~~gg~rkpPG 252 (260)
+|.|||+-.|..-|=|-||||
T Consensus 131 l~~dGkp~~r~~dgKvlK~~~ 151 (171)
T 2rfp_A 131 LGPDGQPIFRESDQKVMKPDG 151 (171)
T ss_dssp CCTTSSCCBCTTTCCBCCCTT
T ss_pred cCCCCCeeecCCCCceeCCCC
Confidence 788999988877778899987
No 10
>1nkz_B Light-harvesting protein B-800/850, beta chain; light harvesting complex II, trans-membrane helices, rhodopi glucoside; HET: CXM RG1 BOG BCL; 2.00A {Rhodoblastus acidophilus} SCOP: f.3.1.1 PDB: 1kzu_B* 2fkw_B* 1ijd_B*
Probab=7.40 E-value=1.2e+02 Score=20.33 Aligned_cols=10 Identities=0% Similarity=-0.200 Sum_probs=7.8
Q ss_pred cchhhhhhhc
Q 024962 11 SSSKIVQCDE 20 (260)
Q Consensus 11 ~~~ee~~~l~ 20 (260)
+|+|||+.+-
T Consensus 3 LT~~EA~EfH 12 (41)
T 1nkz_B 3 LTAEQSEELH 12 (41)
T ss_dssp CCHHHHHHHH
T ss_pred CCHHHHHHHH
Confidence 6888988764
Done!