Query psy1283
Match_columns 123
No_of_seqs 108 out of 155
Neff 3.1
Searched_HMMs 29240
Date Fri Aug 16 20:54:49 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1283.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/1283hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1nh2_B Transcription initiatio 99.9 7.9E-26 2.7E-30 146.7 6.1 53 5-57 1-53 (53)
2 1nvp_B Transcription initiatio 99.9 2.3E-25 7.9E-30 146.4 5.9 56 1-57 2-57 (57)
3 1rm1_C Transcription initiatio 99.8 1.7E-20 5.7E-25 154.9 7.0 58 5-62 2-59 (286)
4 4egx_A Kinesin-like protein KI 55.1 7.3 0.00025 29.1 2.6 19 34-52 17-35 (184)
5 2kzc_A Uncharacterized protein 49.8 17 0.00059 25.0 3.6 16 18-33 47-62 (85)
6 3vej_A Ubiquitin-like protein 48.1 9.4 0.00032 23.4 1.8 21 26-46 17-38 (41)
7 1ucv_A Ephrin type-A receptor 44.2 15 0.00052 23.6 2.5 39 23-64 21-60 (81)
8 2kg5_A ARF-GAP, RHO-GAP domain 38.5 19 0.00066 24.5 2.4 42 21-65 38-80 (100)
9 1orj_A Flagellar protein FLIS; 35.1 12 0.00043 26.7 1.0 39 9-48 82-120 (130)
10 2e8n_A Ephrin type-A receptor 33.7 11 0.00039 24.6 0.6 41 22-65 25-66 (88)
11 1v38_A SAM-domain protein sams 32.5 18 0.00062 23.3 1.4 50 22-73 25-76 (78)
12 2lnz_A Ubiquitin-like protein 27.8 31 0.0011 22.9 1.9 12 35-46 50-61 (64)
13 3r46_A Coiled coil helix L24D; 26.0 60 0.002 19.1 2.7 18 37-54 14-32 (35)
14 1u9l_A Transcription elongatio 22.7 89 0.0031 20.0 3.4 31 17-47 30-61 (70)
15 2eao_A Ephrin type-B receptor 22.7 39 0.0013 22.5 1.7 41 22-65 35-76 (99)
16 2e8o_A SAM domain and HD domai 20.5 25 0.00084 23.6 0.3 39 24-65 49-87 (103)
No 1
>1nh2_B Transcription initiation factor IIA large chain; transcription/DNA; HET: 5IU; 1.90A {Saccharomyces cerevisiae} SCOP: a.32.1.1 PDB: 1ytf_B*
Probab=99.92 E-value=7.9e-26 Score=146.68 Aligned_cols=53 Identities=36% Similarity=0.715 Sum_probs=45.7
Q ss_pred CCcchHHHHHHHHHHHHHhhHHHHHhcCCCHHHHHHHHHHHHHHHhhcCCCCC
Q psy1283 5 PQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKL 57 (123)
Q Consensus 5 sN~~V~~VY~~VIdDVI~~VReDFeeeGVDE~VLqELK~lWEsKL~qSgva~f 57 (123)
||+.|+++|++||+|||+++|++|+++|+|++||+|||++||+||+++||++|
T Consensus 1 sn~~v~~vY~~VI~dVI~~vr~~F~~~Gvde~vL~eLk~~We~KL~~s~va~F 53 (53)
T 1nh2_B 1 SNAEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKVTTF 53 (53)
T ss_dssp -CHHHHHHHHHHHHHHHHHTHHHHHHTTCCHHHHHHHHHHHHHHHHC------
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHcCCCCC
Confidence 69999999999999999999999999999999999999999999999999987
No 2
>1nvp_B Transcription initiation factor IIA alpha chain; transcription regulation, DNA, complex, transcription/DNA complex; 2.10A {Homo sapiens} SCOP: a.32.1.1
Probab=99.91 E-value=2.3e-25 Score=146.41 Aligned_cols=56 Identities=45% Similarity=0.677 Sum_probs=42.9
Q ss_pred CCCCCCcchHHHHHHHHHHHHHhhHHHHHhcCCCHHHHHHHHHHHHHHHhhcCCCCC
Q psy1283 1 MAGTPQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKL 57 (123)
Q Consensus 1 ma~~sN~~V~~VY~~VIdDVI~~VReDFeeeGVDE~VLqELK~lWEsKL~qSgva~f 57 (123)
|++ ||+.|++||++||+|||+++|+||+++|+|++||+|||++||+||+++||+++
T Consensus 2 ~~~-~~~~v~~vY~~VIedVI~~vr~~F~~~Gvde~vL~eLk~~We~KL~~s~a~~~ 57 (57)
T 1nvp_B 2 NSA-NTNTVPKLYRSVIEDVINDVRDIFLDDGVDEQVLMELKTLWENKLMQSRAVDG 57 (57)
T ss_dssp -------CHHHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHC-------
T ss_pred Ccc-ccchhHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCCC
Confidence 344 89999999999999999999999999999999999999999999999999863
No 3
>1rm1_C Transcription initiation factor IIA large chain; yeast TFIIA, TBP protein, ATA-box DNA, transcription/DNA complex; 2.50A {Saccharomyces cerevisiae}
Probab=99.81 E-value=1.7e-20 Score=154.85 Aligned_cols=58 Identities=34% Similarity=0.658 Sum_probs=56.0
Q ss_pred CCcchHHHHHHHHHHHHHhhHHHHHhcCCCHHHHHHHHHHHHHHHhhcCCCCCCchhh
Q psy1283 5 PQSLTMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKE 62 (123)
Q Consensus 5 sN~~V~~VY~~VIdDVI~~VReDFeeeGVDE~VLqELK~lWEsKL~qSgva~f~~~~~ 62 (123)
||..|++||++||+|||++||++|+++|||++||+|||++||.||+++||++|+|++.
T Consensus 2 Sn~~vskvY~~VIedVI~~VR~dF~deGVDE~VL~ELk~~We~KL~qsgv~~f~~dp~ 59 (286)
T 1rm1_C 2 SNAEASRVYEIIVESVVNEVREDFENAGIDEQTLQDLKNIWQKKLTETKVTTFSWDNQ 59 (286)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHTSSCCTTGGG
T ss_pred CcchHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHhcCcccCCCCcC
Confidence 6899999999999999999999999999999999999999999999999999999863
No 4
>4egx_A Kinesin-like protein KIF1A; FHA domain, transport protein; 2.51A {Homo sapiens}
Probab=55.11 E-value=7.3 Score=29.12 Aligned_cols=19 Identities=37% Similarity=0.688 Sum_probs=16.5
Q ss_pred CHHHHHHHHHHHHHHHhhc
Q psy1283 34 DEQVLQELKHIWEAKLFGI 52 (123)
Q Consensus 34 DE~VLqELK~lWEsKL~qS 52 (123)
.|.-++||.+.|+.||.++
T Consensus 17 ~e~l~~el~~tWeeKl~~t 35 (184)
T 4egx_A 17 TEKIIAELNETWEEKLRRT 35 (184)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhHHHHHHHHH
Confidence 4788999999999999765
No 5
>2kzc_A Uncharacterized protein; DUF1476, JCSG, structutral genomics, PSI-biology, protein ST initiative, structural genomics; NMR {Jannaschia SP}
Probab=49.75 E-value=17 Score=24.99 Aligned_cols=16 Identities=19% Similarity=0.260 Sum_probs=15.1
Q ss_pred HHHHHhhHHHHHhcCC
Q psy1283 18 ADVINNVKEAFQEEGV 33 (123)
Q Consensus 18 dDVI~~VReDFeeeGV 33 (123)
+|||+.++.||...|+
T Consensus 47 edV~rKv~~DL~a~gv 62 (85)
T 2kzc_A 47 EDVMRKVLGDLDGKRP 62 (85)
T ss_dssp SHHHHHHHHHHTTSSC
T ss_pred HHHHHHHHHHHHHcCc
Confidence 6899999999999999
No 6
>3vej_A Ubiquitin-like protein MDY2; alpha helical, dimerization, homodimerization, protein bindi; 1.23A {Saccharomyces cerevisiae}
Probab=48.10 E-value=9.4 Score=23.43 Aligned_cols=21 Identities=24% Similarity=0.585 Sum_probs=15.7
Q ss_pred HHHHhcCCCH-HHHHHHHHHHH
Q psy1283 26 EAFQEEGVDE-QVLQELKHIWE 46 (123)
Q Consensus 26 eDFeeeGVDE-~VLqELK~lWE 46 (123)
..|.+..--. .+|+.||++|+
T Consensus 17 ~~~~d~~~a~~~~L~RLqkGWe 38 (41)
T 3vej_A 17 NNFENDQAAVRQVMERLQKGWS 38 (41)
T ss_dssp HHTTTCHHHHHHHHHHHHHHHH
T ss_pred HHhcChHHHHHHHHHHHHhccc
Confidence 3465655443 89999999998
No 7
>1ucv_A Ephrin type-A receptor 8; receptor oligomerization, developmental regulation, tyrosine kinase, riken structural genomics/proteomics initiative; NMR {Homo sapiens} SCOP: a.60.1.2
Probab=44.18 E-value=15 Score=23.62 Aligned_cols=39 Identities=10% Similarity=0.281 Sum_probs=29.1
Q ss_pred hhHHHHHhcCCC-HHHHHHHHHHHHHHHhhcCCCCCCchhhhh
Q psy1283 23 NVKEAFQEEGVD-EQVLQELKHIWEAKLFGIGVGKLSKRKEWM 64 (123)
Q Consensus 23 ~VReDFeeeGVD-E~VLqELK~lWEsKL~qSgva~f~~~~~~~ 64 (123)
.-.+.|.++|+| -+.|. .+.++-|.+.|+...-.+..++
T Consensus 21 ~Y~~~F~~~~~d~~~~l~---~lt~~DL~~lGI~~~GhrkkIl 60 (81)
T 1ucv_A 21 RYRDHFAAGGYSSLGMVL---RMNAQDVRALGITLMGHQKKIL 60 (81)
T ss_dssp GGHHHHHHTTCCBHHHHT---TCCHHHHHHHTCCCHHHHHHHH
T ss_pred HHHHHHHHcCCChHHHHH---HcCHHHHHhCCCCChhHHHHHH
Confidence 446789999999 44443 4788999999999866666553
No 8
>2kg5_A ARF-GAP, RHO-GAP domain, ANK repeat and PH domain-containing protein 3; SAM domain, helix bundle, cell membrane, cell projection, cytoplasm; NMR {Homo sapiens}
Probab=38.47 E-value=19 Score=24.50 Aligned_cols=42 Identities=14% Similarity=0.352 Sum_probs=31.1
Q ss_pred HHhhHHHHHhcCCC-HHHHHHHHHHHHHHHhhcCCCCCCchhhhhh
Q psy1283 21 INNVKEAFQEEGVD-EQVLQELKHIWEAKLFGIGVGKLSKRKEWMS 65 (123)
Q Consensus 21 I~~VReDFeeeGVD-E~VLqELK~lWEsKL~qSgva~f~~~~~~~~ 65 (123)
...-.+.|.++|+| -..| ..+..+-|.+.|+..+-.+..++.
T Consensus 38 L~qY~~~F~~~gid~~~~L---~~Lt~eDLkeLGIt~~GhRkkIL~ 80 (100)
T 2kg5_A 38 LEQYADTFRRHGLATAGAA---RGLGHEELKQLGISATGHRKRILR 80 (100)
T ss_dssp CGGGHHHHHHTTCCBHHHH---TTCCHHHHHHHTCCCHHHHHHHHH
T ss_pred CHHHHHHHHHcCCChHHHH---HhcCHHHHHHCCCCChhHHHHHHH
Confidence 34456789999998 4444 346788899999998777766654
No 9
>1orj_A Flagellar protein FLIS; flagellin, flagellar export, chaperone, flagellum, four HELI; 2.25A {Aquifex aeolicus} SCOP: a.24.19.1 PDB: 1ory_A
Probab=35.13 E-value=12 Score=26.72 Aligned_cols=39 Identities=18% Similarity=0.365 Sum_probs=27.6
Q ss_pred hHHHHHHHHHHHHHhhHHHHHhcCCCHHHHHHHHHHHHHH
Q psy1283 9 TMKLYQAVIADVINNVKEAFQEEGVDEQVLQELKHIWEAK 48 (123)
Q Consensus 9 V~~VY~~VIdDVI~~VReDFeeeGVDE~VLqELK~lWEsK 48 (123)
..++|..++... .+++.|-+.---=..+|.+|+..|+.=
T Consensus 82 L~~LY~y~~~~L-An~~~d~~~l~ev~~ll~~lreaW~~i 120 (130)
T 1orj_A 82 LDTIYTIILNTL-VKVDKTKEELQKILEILKDLREAWEEV 120 (130)
T ss_dssp HHHHHHHHHHHH-HCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH-hcccCCHHHHHHHHHHHHHHHHHHHHH
Confidence 358999999998 777765322222246789999999864
No 10
>2e8n_A Ephrin type-A receptor 2; cell-free protein synthesis, protein regulation, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=33.71 E-value=11 Score=24.63 Aligned_cols=41 Identities=17% Similarity=0.174 Sum_probs=29.9
Q ss_pred HhhHHHHHhcCCC-HHHHHHHHHHHHHHHhhcCCCCCCchhhhhh
Q psy1283 22 NNVKEAFQEEGVD-EQVLQELKHIWEAKLFGIGVGKLSKRKEWMS 65 (123)
Q Consensus 22 ~~VReDFeeeGVD-E~VLqELK~lWEsKL~qSgva~f~~~~~~~~ 65 (123)
..-.+.|.++|+| -+.| ..+.++-|.+.|+..+-.+..++.
T Consensus 25 ~~Y~~~F~~~~~~~~~~l---~~lt~~dL~~lGI~~~GhRkkIl~ 66 (88)
T 2e8n_A 25 QQYTEHFMAAGYTAIEKV---VQMTNDDVKRIGVRLPGHQKRIAY 66 (88)
T ss_dssp GGGHHHHHHHTCSSHHHH---TTSCTTHHHHTTCCSHHHHHHHHH
T ss_pred HHHHHHHHHcCCChHHHH---HhCCHHHHHHCCCCChhHHHHHHH
Confidence 3456789999998 4444 456888899999998766665543
No 11
>1v38_A SAM-domain protein samsn-1; structural genomics, hypothetical protein, riken structural genomics/proteomics initiative, RSGI, signaling protein; NMR {Mus musculus} SCOP: a.60.1.2
Probab=32.47 E-value=18 Score=23.28 Aligned_cols=50 Identities=20% Similarity=0.314 Sum_probs=33.9
Q ss_pred HhhHHHHHhcCCCHHHHHHHHHHHHHHHhhcCCCCCCchhhhhh--HhhhccCC
Q psy1283 22 NNVKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEWMS--KCYRSSNI 73 (123)
Q Consensus 22 ~~VReDFeeeGVDE~VLqELK~lWEsKL~qSgva~f~~~~~~~~--~~~~~~~~ 73 (123)
..-.+.|.+.|+|. ++.+..+-++-|.+.|+.....+..++. +..+....
T Consensus 25 ~~Y~~~F~~~gy~~--~~~~~~lt~~DL~~lGI~~~ghrkkil~ai~~L~~~~~ 76 (78)
T 1v38_A 25 QEYTSTLLLNGYET--LDDLKDIKESHLIELNIADPEDRARLLSAAESLLSGPS 76 (78)
T ss_dssp GGGHHHHHHHTCCB--HHHHTTCCHHHHHHTTTCCHHHHHHHHHHHHHHHSCCC
T ss_pred HHHHHHHHHcCCCC--HHHHhhcCHHHHHHcCCCCHHHHHHHHHHHHHHHhccc
Confidence 34567899999974 4555567788899999998766665544 33444433
No 12
>2lnz_A Ubiquitin-like protein MDY2; dimerization, homodimerization, protein binding; NMR {Saccharomyces cerevisiae}
Probab=27.80 E-value=31 Score=22.93 Aligned_cols=12 Identities=33% Similarity=0.761 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHH
Q psy1283 35 EQVLQELKHIWE 46 (123)
Q Consensus 35 E~VLqELK~lWE 46 (123)
-.+|+.||++|+
T Consensus 50 ~~~LqRLQKGWe 61 (64)
T 2lnz_A 50 RQVMERLQKGWS 61 (64)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHhhhc
Confidence 378999999997
No 13
>3r46_A Coiled coil helix L24D; coiled coil domain, parallel hexamer, KIH interactions, HYDR channel, synthetic biology, de novo protein; 1.75A {Synthetic} PDB: 3r48_A 3r47_A 3r3k_A* 3r48_B 3r4a_A
Probab=25.96 E-value=60 Score=19.07 Aligned_cols=18 Identities=44% Similarity=0.800 Sum_probs=13.1
Q ss_pred HHHHHHHH-HHHHHhhcCC
Q psy1283 37 VLQELKHI-WEAKLFGIGV 54 (123)
Q Consensus 37 VLqELK~l-WEsKL~qSgv 54 (123)
+-.|||.+ ||.|-.+.|+
T Consensus 14 iakelkaiawedkaiaqga 32 (35)
T 3r46_A 14 IAKELKAIAWEDKAIAQGA 32 (35)
T ss_dssp HHHHHHHHHHHHHHHHHC-
T ss_pred HHHHHHHHHhhHHHHHccc
Confidence 45667765 9999988775
No 14
>1u9l_A Transcription elongation protein NUSA; escherichia coli NUSA, phage lambda protein N, regulation of RNA binding, transcription antitermination, X-RAY crystallography; 1.90A {Escherichia coli} SCOP: a.60.4.2 PDB: 1wcl_A
Probab=22.73 E-value=89 Score=20.02 Aligned_cols=31 Identities=19% Similarity=0.329 Sum_probs=24.0
Q ss_pred HHHHHHhhHHHHHh-cCCCHHHHHHHHHHHHH
Q psy1283 17 IADVINNVKEAFQE-EGVDEQVLQELKHIWEA 47 (123)
Q Consensus 17 IdDVI~~VReDFee-eGVDE~VLqELK~lWEs 47 (123)
+++|...-+.++.+ .|+||...++|+.-=..
T Consensus 30 ve~vA~~~~~eL~~I~G~dE~~a~~l~~~A~~ 61 (70)
T 1u9l_A 30 LEELAYVPMKELLEIEGLDEPTVEALRERAKN 61 (70)
T ss_dssp HHHHHHSCHHHHTTSTTCCHHHHHHHHHHHHH
T ss_pred HHHHHcCCHHHHhhccCCCHHHHHHHHHHHHH
Confidence 46666677778887 89999999999875443
No 15
>2eao_A Ephrin type-B receptor 1; cell-free protein synthesis, protein regulation, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=22.72 E-value=39 Score=22.49 Aligned_cols=41 Identities=17% Similarity=0.355 Sum_probs=29.3
Q ss_pred HhhHHHHHhcCCC-HHHHHHHHHHHHHHHhhcCCCCCCchhhhhh
Q psy1283 22 NNVKEAFQEEGVD-EQVLQELKHIWEAKLFGIGVGKLSKRKEWMS 65 (123)
Q Consensus 22 ~~VReDFeeeGVD-E~VLqELK~lWEsKL~qSgva~f~~~~~~~~ 65 (123)
..-.+.|.++|+| -+.| ..+.++-|.+.|+...-.+..++.
T Consensus 35 ~~Y~~~F~~~~~~~~~~L---~~lt~~DL~~lGI~~~GhRkkIl~ 76 (99)
T 2eao_A 35 VQYRDSFLTAGFTSLQLV---TQMTSEDLLRIGITLAGHQKKILN 76 (99)
T ss_dssp GGGHHHHHHHTCCBHHHH---TTCCHHHHHHHTCCCHHHHHHHHH
T ss_pred HHHHHHHHHcCCChHHHH---hhCCHHHHHHCCCCChhHHHHHHH
Confidence 3446789999999 4444 346778899999998666665543
No 16
>2e8o_A SAM domain and HD domain-containing protein 1; cell-free protein synthesis, protein regulation, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=20.51 E-value=25 Score=23.61 Aligned_cols=39 Identities=26% Similarity=0.464 Sum_probs=32.6
Q ss_pred hHHHHHhcCCCHHHHHHHHHHHHHHHhhcCCCCCCchhhhhh
Q psy1283 24 VKEAFQEEGVDEQVLQELKHIWEAKLFGIGVGKLSKRKEWMS 65 (123)
Q Consensus 24 VReDFeeeGVDE~VLqELK~lWEsKL~qSgva~f~~~~~~~~ 65 (123)
..+.|.+++||-.+|-+|. ++.|.+.|+..+-.+..++.
T Consensus 49 y~~~F~~~~I~G~~Ll~Lt---~~dLkeLGI~~~G~R~kil~ 87 (103)
T 2e8o_A 49 LLKNIRENEITGALLPCLD---ESRFENLGVSSLGERKKLLS 87 (103)
T ss_dssp HHHHHHHTTCCTTTTTTCC---HHHHHHTTCCCHHHHHHHHH
T ss_pred HHHHHHHcCCCHHHHHhCC---HHHHHHcCCCCHHHHHHHHH
Confidence 5677999999999999888 67888999988877776654
Done!