Query psy5407
Match_columns 147
No_of_seqs 142 out of 963
Neff 7.9
Searched_HMMs 29240
Date Fri Aug 16 16:42:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5407.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/5407hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2vqc_A Hypothetical 13.2 kDa p 30.7 6.9 0.00024 25.1 -0.8 27 9-46 31-57 (118)
2 2qho_B E3 ubiquitin-protein li 16.4 96 0.0033 17.3 2.1 19 97-115 17-35 (53)
3 2kii_A Putative uncharacterize 15.6 1.5E+02 0.0051 20.5 3.6 70 52-121 3-78 (181)
4 1fs1_B SKP1, cyclin A/CDK2-ass 15.5 1.6E+02 0.0056 19.4 3.6 21 96-116 117-139 (141)
5 3mp7_B Preprotein translocase 14.1 2.1E+02 0.007 16.5 3.7 28 32-59 24-52 (61)
6 2ksf_A Sensor protein KDPD; me 12.0 69 0.0024 20.5 0.8 14 131-144 62-75 (107)
7 3bqs_A Uncharacterized protein 11.3 1.6E+02 0.0055 18.4 2.4 32 85-117 48-79 (93)
8 3mab_A Uncharacterized protein 10.6 2.1E+02 0.0071 17.9 2.7 26 90-115 52-77 (93)
9 1xrd_A LH-1, light-harvesting 9.5 2.9E+02 0.0099 15.5 3.0 24 35-58 7-31 (52)
10 3g2b_A Coenzyme PQQ synthesis 9.1 2.7E+02 0.0093 17.2 2.9 20 98-117 50-70 (95)
No 1
>2vqc_A Hypothetical 13.2 kDa protein; winged-helix, crenarchaeal, DNA-binding protein, thermo protein, sulfolobus spindle virus; 2.3A {Sulfolobus virus-like particle SSV1} SCOP: a.4.5.78
Probab=30.73 E-value=6.9 Score=25.07 Aligned_cols=27 Identities=22% Similarity=0.321 Sum_probs=19.3
Q ss_pred hhhhhhhhhhhcccccCCCCCCCCCCCCcHHHHHHHHH
Q psy5407 9 VVGDILEQYYQNHINTERPKSPTQEPSWNAIRTFHMSL 46 (147)
Q Consensus 9 ~~gD~iaQ~~~~~~~~~~~~~~~~~~~~D~~Rt~r~~~ 46 (147)
.+-|++||.-... +..|+..|++|+.+
T Consensus 31 sledilaqfeis~-----------~sayniqr~l~~ic 57 (118)
T 2vqc_A 31 TLEDILAQFEISV-----------PSAYNIQRALKAIC 57 (118)
T ss_dssp CHHHHHHHHCCCH-----------HHHHHHHHHHHHHH
T ss_pred cHHHHHHHheecc-----------chHhHHHHHHHHHH
Confidence 3568888874431 35689999999875
No 2
>2qho_B E3 ubiquitin-protein ligase EDD1; protein-protein complex, protein binding/ligase complex; 1.85A {Homo sapiens}
Probab=16.38 E-value=96 Score=17.32 Aligned_cols=19 Identities=16% Similarity=0.160 Sum_probs=15.5
Q ss_pred HHhhcCCChHHHHHHHHHh
Q psy5407 97 LGIMENSSSMDIYNEIYDK 115 (147)
Q Consensus 97 ~~~l~g~~~~~~~~~~~~~ 115 (147)
-.+|+|+|..-|..++++.
T Consensus 17 q~VLqgksR~vIirELqrT 35 (53)
T 2qho_B 17 QVVLQGKSRSVIIRELQRT 35 (53)
T ss_dssp HHHSTTCCHHHHHHHHHHT
T ss_pred HHHhcCCcHHHHHHHHHHh
Confidence 3578999998898888764
No 3
>2kii_A Putative uncharacterized protein; H-NOX, unknown function; HET: HEM; NMR {Shewanella oneidensis} PDB: 2kil_A*
Probab=15.60 E-value=1.5e+02 Score=20.53 Aligned_cols=70 Identities=7% Similarity=-0.094 Sum_probs=45.9
Q ss_pred hhHHhHHHHHhhhhcCCCChhHHHHHHHhhhhhhhHHH------HHHHHHHHHhhcCCChHHHHHHHHHhhHHHhh
Q psy5407 52 GILCHHGYRLLDKLYPGRALSTVFKKVLFDQIFISPVL------ISVFFVTLGIMENSSSMDIYNEIYDKGRRLYM 121 (147)
Q Consensus 52 gp~~~~wy~~L~~~~p~~~~~~~~~Kv~~Dq~v~~P~~------~~~f~~~~~~l~g~~~~~~~~~~~~~~~~~l~ 121 (147)
|-+...|-.+++..++...|..+..+.-++...+.|.. +.-.....+-.-|.|.+++++.+-+.+.....
T Consensus 3 G~I~~~~~~~v~~~~G~e~w~~i~~~a~~~~~~f~~~~~Y~D~~~~~lv~a~s~~~g~~~~~ll~~fG~~~~~~~~ 78 (181)
T 2kii_A 3 GIIFNVLEDMVVAQCGMSVWNELLEKHAPKDRVYVSAKSYAESELFSIVQDVAQRLNMPIQDVVKAFGQFLFNGLA 78 (181)
T ss_dssp CHHHHHHHHHHHHHTCHHHHHHHHHHHCCSSCCCCSSCCTTTTHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred ehHHHHHHHHHHHHcCHHHHHHHHHHhCCCCCceeeccccCHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 66677888888888877777788888877666665542 22333333444588888888776555554443
No 4
>1fs1_B SKP1, cyclin A/CDK2-associated P45; F-BOX, LRR, leucine-rich repeat, SCF, ubiquitin, ubiquitin protein ligase; 1.80A {Homo sapiens} SCOP: a.157.1.1 d.42.1.1 PDB: 1fs2_B 1ldk_D
Probab=15.47 E-value=1.6e+02 Score=19.42 Aligned_cols=21 Identities=10% Similarity=0.173 Sum_probs=12.0
Q ss_pred HHHhhcCCChHHHHHH--HHHhh
Q psy5407 96 TLGIMENSSSMDIYNE--IYDKG 116 (147)
Q Consensus 96 ~~~~l~g~~~~~~~~~--~~~~~ 116 (147)
+...++|+|.+|+++. ++++|
T Consensus 117 vA~~ikgkt~eeiR~~f~I~~d~ 139 (141)
T 1fs1_B 117 VANMIKGKTPEEIRKTFNIKNDF 139 (141)
T ss_dssp HHHHHTTCCHHHHHHHTC-----
T ss_pred HHHHHcCCCHHHHHHHcCCCCCC
Confidence 3456789999998774 34554
No 5
>3mp7_B Preprotein translocase subunit SECE; protein transport, membrane protein complex, preprotein TRAN membrane insertion,; 2.90A {Pyrococcus furiosus}
Probab=14.09 E-value=2.1e+02 Score=16.50 Aligned_cols=28 Identities=11% Similarity=-0.018 Sum_probs=21.9
Q ss_pred CCCCCcHHHHHHHHHHHhh-hhhHHhHHH
Q psy5407 32 QEPSWNAIRTFHMSLSGAS-VGILCHHGY 59 (147)
Q Consensus 32 ~~~~~D~~Rt~r~~~~G~~-~gp~~~~wy 59 (147)
++..=++.++++....|++ +|-+.+.-+
T Consensus 24 KPd~~Ef~~iak~~~iG~~i~G~iGf~Ik 52 (61)
T 3mp7_B 24 KPNWATYKRAAKITGLGIILIGLIGMLIR 52 (61)
T ss_dssp CCCTTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566788999999999986 677766544
No 6
>2ksf_A Sensor protein KDPD; methods development, histidine kinase receptor, membrane domain, four-helical bundle, cell-free synthesis, ATP- binding; NMR {Escherichia coli}
Probab=12.04 E-value=69 Score=20.49 Aligned_cols=14 Identities=7% Similarity=0.456 Sum_probs=9.9
Q ss_pred hhhhhhcccCCccc
Q psy5407 131 QVINFYFLSTKYRV 144 (147)
Q Consensus 131 ~~inF~~VP~~~Rv 144 (147)
-..||.|+||.|..
T Consensus 62 l~~nffF~~P~~sf 75 (107)
T 2ksf_A 62 VSFDLFFIAPRGTL 75 (107)
T ss_dssp HHHHHTTSCSSCTT
T ss_pred HHHHHhhcCCCccc
Confidence 35688888887753
No 7
>3bqs_A Uncharacterized protein; 10114F, NYSGXRC, PSI-2, structural genomics, protein structure initiative; 1.42A {Listeria monocytogenes str} PDB: 3bqt_A 3mab_A
Probab=11.26 E-value=1.6e+02 Score=18.37 Aligned_cols=32 Identities=9% Similarity=0.005 Sum_probs=21.5
Q ss_pred hhHHHHHHHHHHHHhhcCCChHHHHHHHHHhhH
Q psy5407 85 ISPVLISVFFVTLGIMENSSSMDIYNEIYDKGR 117 (147)
Q Consensus 85 ~~P~~~~~f~~~~~~l~g~~~~~~~~~~~~~~~ 117 (147)
..|+. -.|+.+-+.++|..|.+..++-|+.+.
T Consensus 48 ~~~c~-~~L~aL~gAi~G~~w~~l~~~~K~~L~ 79 (93)
T 3bqs_A 48 SSVCM-SELYALEGAVQGIRWHGLDEAKKIELK 79 (93)
T ss_dssp TTCCH-HHHHHHHHHHHTSCGGGSCHHHHHHHH
T ss_pred CCCCH-HHHHHHHHHHcCCCHHHCCHHHHHHHH
Confidence 34555 567788899999998766555555443
No 8
>3mab_A Uncharacterized protein; NYSGXRC, PSI-2, structural genomics; 1.42A {Listeria monocytogenes} PDB: 3bqt_A
Probab=10.55 E-value=2.1e+02 Score=17.87 Aligned_cols=26 Identities=8% Similarity=0.041 Sum_probs=18.7
Q ss_pred HHHHHHHHHhhcCCChHHHHHHHHHh
Q psy5407 90 ISVFFVTLGIMENSSSMDIYNEIYDK 115 (147)
Q Consensus 90 ~~~f~~~~~~l~g~~~~~~~~~~~~~ 115 (147)
.-.++.+-+.++|..+.++.++-|++
T Consensus 52 ~~~L~aL~gAi~G~~w~~l~~~~K~~ 77 (93)
T 3mab_A 52 MSELYALEGAVQGIRWHGLDEAKKIE 77 (93)
T ss_dssp HHHHHHHHHHHHTSCGGGSCHHHHHH
T ss_pred HHHHHHHHHHHcCCcHHHCCHHHHHH
Confidence 46678888999999886655555543
No 9
>1xrd_A LH-1, light-harvesting protein B-880, alpha chain; membrane spanning helix, pigment binding, photosynthesis, membrane protein; NMR {Rhodospirillum rubrum} SCOP: f.3.1.1
Probab=9.53 E-value=2.9e+02 Score=15.47 Aligned_cols=24 Identities=8% Similarity=-0.017 Sum_probs=15.7
Q ss_pred CCcHHHHHHHHHHHhh-hhhHHhHH
Q psy5407 35 SWNAIRTFHMSLSGAS-VGILCHHG 58 (147)
Q Consensus 35 ~~D~~Rt~r~~~~G~~-~gp~~~~w 58 (147)
-+|.+|++.-.....+ .+-..|+-
T Consensus 7 ~fDPrr~Lva~~~fl~vlAl~IHfi 31 (52)
T 1xrd_A 7 LFDPRQALVGLATFLFVLALLIHFI 31 (52)
T ss_dssp TSSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred EEchhHHHHHHHHHHHHHHHHHHHH
Confidence 4799998766554443 57766664
No 10
>3g2b_A Coenzyme PQQ synthesis protein D; helix-turn-helix, PQQ biosynthesis, biosynthetic protein; 1.66A {Xanthomonas campestris PV}
Probab=9.09 E-value=2.7e+02 Score=17.17 Aligned_cols=20 Identities=10% Similarity=-0.024 Sum_probs=16.0
Q ss_pred HhhcC-CChHHHHHHHHHhhH
Q psy5407 98 GIMEN-SSSMDIYNEIYDKGR 117 (147)
Q Consensus 98 ~~l~g-~~~~~~~~~~~~~~~ 117 (147)
.+++| +|.++|.+.+.++|.
T Consensus 50 ~l~DG~rtv~eIv~~L~~~y~ 70 (95)
T 3g2b_A 50 QRYDGTQSLAQIAQTLAAEFD 70 (95)
T ss_dssp HHCCSSSCHHHHHHHHHHHTT
T ss_pred HHccCCCCHHHHHHHHHHHcC
Confidence 56677 688999999988885
Done!