Query 032019
Match_columns 148
No_of_seqs 33 out of 35
Neff 2.9
Searched_HMMs 29240
Date Mon Mar 25 13:33:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032019.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/032019hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1jb0_X Photosystem I subunit P 69.8 1.3 4.6E-05 27.4 0.7 21 21-41 11-32 (35)
2 2ee7_A Sperm flagellar protein 62.9 4.7 0.00016 30.0 2.7 17 97-113 10-26 (127)
3 1ois_A DNA topoisomerase I; DN 60.9 5.3 0.00018 33.0 2.8 34 105-138 95-128 (223)
4 2klq_A CBD, P105MCM, DNA repli 48.9 16 0.00055 26.3 3.5 35 103-141 37-71 (114)
5 2b9s_A Topoisomerase I-like pr 41.0 12 0.0004 33.3 2.0 34 105-138 105-138 (432)
6 1ik9_A DNA repair protein XRCC 36.0 12 0.00042 29.7 1.2 48 96-143 113-169 (213)
7 1a31_A Protein (topoisomerase 30.0 30 0.001 32.0 2.8 34 105-138 129-162 (591)
8 4f4l_A ION transport protein; 24.5 32 0.0011 23.9 1.6 16 24-39 79-94 (112)
9 3lcn_C MRNA transport factor G 23.6 35 0.0012 20.2 1.4 8 102-109 16-23 (29)
10 4h51_A Aspartate aminotransfer 21.8 14 0.00048 30.9 -0.8 9 31-39 47-55 (420)
No 1
>1jb0_X Photosystem I subunit PSAX; membrane protein, multiprotein-pigment complex, photosynthes; HET: CL1 PQN BCR LHG LMG; 2.50A {Synechococcus elongatus} SCOP: f.23.20.1 PDB: 3pcq_X*
Probab=69.84 E-value=1.3 Score=27.37 Aligned_cols=21 Identities=33% Similarity=0.879 Sum_probs=15.7
Q ss_pred hhhHHHH-HHHHHhhcceeeee
Q 032019 21 YKPIWRI-LLISNLALGGYMFA 41 (148)
Q Consensus 21 YK~iwp~-LLavNL~vGaYlF~ 41 (148)
||..|-+ ||+.|+-|+||-|-
T Consensus 11 frt~WalllLaINflVAayYFh 32 (35)
T 1jb0_X 11 FRTFWAVLLLAINFLVAAYYFA 32 (35)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 4556764 67789999999873
No 2
>2ee7_A Sperm flagellar protein 1; all alpha protein, CH domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=62.94 E-value=4.7 Score=29.97 Aligned_cols=17 Identities=18% Similarity=0.608 Sum_probs=15.0
Q ss_pred CCCCHHHHHHHHHHHHH
Q 032019 97 EPIPEDQQRELFKWILE 113 (148)
Q Consensus 97 ~PIpeDeQrel~KWiLE 113 (148)
..+.++|.++|++|+.+
T Consensus 10 ~~l~~ee~~el~~WL~~ 26 (127)
T 2ee7_A 10 SSVDEEALHQLYLWVDN 26 (127)
T ss_dssp SSCCHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHc
Confidence 46899999999999984
No 3
>1ois_A DNA topoisomerase I; DNA-binding protein; HET: DNA; 1.90A {Saccharomyces cerevisiae} SCOP: e.15.1.1
Probab=60.86 E-value=5.3 Score=32.96 Aligned_cols=34 Identities=24% Similarity=0.407 Sum_probs=27.0
Q ss_pred HHHHHHHHHhhhcCCCCChHhhhhchHHHHHHHH
Q 032019 105 RELFKWILEEKRKVKPKDPKEKKRIDEEKAILKQ 138 (148)
Q Consensus 105 rel~KWiLEEKRKikpkd~~EKkridEeKalLK~ 138 (148)
..+|.|..++|-+-|-...+||++|-|||.-|.+
T Consensus 95 s~i~~~~~~~~e~kk~~skEEKk~~Keek~~~~~ 128 (223)
T 1ois_A 95 TKMFDYFQLQKEQKKQLTSQEKKQIRLEREKFEE 128 (223)
T ss_dssp HHHHHHHHHHHHHHTTC---CHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHh
Confidence 5789999999888889999999999999987754
No 4
>2klq_A CBD, P105MCM, DNA replication licensing factor MCM6; PRE-RC, CDT1, CBD structure, ATP-BIND cycle, DNA-binding, nucleotide-binding, nucleus; HET: DNA; NMR {Homo sapiens}
Probab=48.95 E-value=16 Score=26.33 Aligned_cols=35 Identities=23% Similarity=0.510 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHhhhcCCCCChHhhhhchHHHHHHHHHHh
Q 032019 103 QQRELFKWILEEKRKVKPKDPKEKKRIDEEKAILKQFIR 141 (148)
Q Consensus 103 eQrel~KWiLEEKRKikpkd~~EKkridEeKalLK~fIR 141 (148)
.|.+|..|.|+++- .+-.--..+.+|+.|++..|+
T Consensus 37 ~~~eLv~WYLeq~e----~~i~seeel~~e~~lv~kVI~ 71 (114)
T 2klq_A 37 KRSELVNWYLKEIE----SEIDSEEELINKKRIIEKVIH 71 (114)
T ss_dssp CHHHHHHHHHHHHT----TTCCSHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHh----ccCCCHHHHHHHHHHHHHHHH
Confidence 47899999999964 121122346677766655553
No 5
>2b9s_A Topoisomerase I-like protein; vanadate complex, isomerase/DNA complex; HET: DNA; 2.27A {Leishmania donovani}
Probab=41.05 E-value=12 Score=33.34 Aligned_cols=34 Identities=24% Similarity=0.480 Sum_probs=29.0
Q ss_pred HHHHHHHHHhhhcCCCCChHhhhhchHHHHHHHH
Q 032019 105 RELFKWILEEKRKVKPKDPKEKKRIDEEKAILKQ 138 (148)
Q Consensus 105 rel~KWiLEEKRKikpkd~~EKkridEeKalLK~ 138 (148)
..+|+|..++|-+-|-...+||++|-|||.-|.+
T Consensus 105 ~~i~~~~~~~~e~kk~~~~eek~~~k~~~~~~~~ 138 (432)
T 2b9s_A 105 EPIYQWHLVQREKKLSRTKEEKKAIKEKQDAEAE 138 (432)
T ss_dssp HHHHHHHHHHHHHHHTSCTTHHHHHHHHHHHHHG
T ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHh
Confidence 4689999888888888899999999999987654
No 6
>1ik9_A DNA repair protein XRCC4; DNA END joining, double-strand break repair, V(D)J recombination, protein-protein complex, coiled coil; HET: DNA; 2.30A {Homo sapiens} SCOP: b.59.1.1 h.1.11.1 PDB: 3ii6_A* 1fu1_A* 3rwr_A*
Probab=36.04 E-value=12 Score=29.75 Aligned_cols=48 Identities=15% Similarity=0.279 Sum_probs=28.6
Q ss_pred cCCCCHHHH--HHHHHHHHHhh----hcC---CCCChHhhhhchHHHHHHHHHHhhc
Q 032019 96 REPIPEDQQ--RELFKWILEEK----RKV---KPKDPKEKKRIDEEKAILKQFIRAE 143 (148)
Q Consensus 96 ~~PIpeDeQ--rel~KWiLEEK----RKi---kpkd~~EKkridEeKalLK~fIRak 143 (148)
+.+.+.+.| ++||.|.++-= +++ ..++..-...+++=++-|++||.+|
T Consensus 113 L~~~~d~~e~i~elfd~~~~~~~~~~~~~~~L~~e~~~l~~~~~~l~~qlE~~v~~K 169 (213)
T 1ik9_A 113 LEKVENPAEVIRELIAYALDTIAENQAKNEHLQKENERLLRDWNDVQGRFEKAVSAK 169 (213)
T ss_dssp CEECSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred eecCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778888 79999999881 111 1111223334445556677777665
No 7
>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA, isomerase/DNA complex; HET: DNA 5IU PTR; 2.10A {Homo sapiens} SCOP: d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A* 1sc7_A* 1t8i_A* 1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A* 1rrj_A* 1nh3_A* 1lpq_A* 1rr8_C* 1ej9_A*
Probab=30.01 E-value=30 Score=32.02 Aligned_cols=34 Identities=21% Similarity=0.293 Sum_probs=28.8
Q ss_pred HHHHHHHHHhhhcCCCCChHhhhhchHHHHHHHH
Q 032019 105 RELFKWILEEKRKVKPKDPKEKKRIDEEKAILKQ 138 (148)
Q Consensus 105 rel~KWiLEEKRKikpkd~~EKkridEeKalLK~ 138 (148)
..+|.|..++|-+-|-...+||++|-||+.-|.+
T Consensus 129 ~~i~~~~~~~~e~kk~~s~eEK~~~k~~~~~~~~ 162 (591)
T 1a31_A 129 TQMSQYFKAQTEARKQMSKEEKLKIKEENEKLLK 162 (591)
T ss_dssp HHHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHh
Confidence 3578999888888888899999999999987754
No 8
>4f4l_A ION transport protein; alpha helical membrane protein, voltage-gated sodium channel membrane, metal transport; 3.49A {Magnetococcus marinus}
Probab=24.46 E-value=32 Score=23.95 Aligned_cols=16 Identities=19% Similarity=0.293 Sum_probs=11.2
Q ss_pred HHHHHHHHHhhcceee
Q 032019 24 IWRILLISNLALGGYM 39 (148)
Q Consensus 24 iwp~LLavNL~vGaYl 39 (148)
+...+++.||++|.-+
T Consensus 79 ~i~~fi~lNLfiaVi~ 94 (112)
T 4f4l_A 79 MLTTFTVLNLFIGIIV 94 (112)
T ss_dssp HHHHHHHHHHHTTTC-
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3455678899999754
No 9
>3lcn_C MRNA transport factor GFD1; nuclear mRNA export, metal-binding, nucleus, RNA-binding, ZI finger, membrane, nuclear pore complex; 2.00A {Saccharomyces cerevisiae}
Probab=23.58 E-value=35 Score=20.22 Aligned_cols=8 Identities=38% Similarity=0.904 Sum_probs=6.1
Q ss_pred HHHHHHHH
Q 032019 102 DQQRELFK 109 (148)
Q Consensus 102 DeQrel~K 109 (148)
+|||++|.
T Consensus 16 EEQr~i~~ 23 (29)
T 3lcn_C 16 EEQREILQ 23 (29)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 58999874
No 10
>4h51_A Aspartate aminotransferase; ssgcid, structural genomics, seattle struc genomics center for infectious disease, aspartate aminotran transferase; HET: LLP; 1.85A {Leishmania major}
Probab=21.80 E-value=14 Score=30.90 Aligned_cols=9 Identities=44% Similarity=0.925 Sum_probs=8.0
Q ss_pred HHhhcceee
Q 032019 31 SNLALGGYM 39 (148)
Q Consensus 31 vNL~vGaYl 39 (148)
+|||||+|.
T Consensus 47 inLgvG~y~ 55 (420)
T 4h51_A 47 ANLVIGAYR 55 (420)
T ss_dssp EECCSCCCB
T ss_pred EEeecCccc
Confidence 799999984
Done!