Query 048659
Match_columns 146
No_of_seqs 142 out of 267
Neff 6.0
Searched_HMMs 29240
Date Mon Mar 25 20:34:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048659.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/048659hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3twe_A Alpha4H; unknown functi 76.3 2.3 7.8E-05 22.3 2.5 15 109-123 11-25 (27)
2 4g3b_A Alpha4F3D; alpha helix, 45.9 19 0.00065 18.6 2.5 15 109-123 11-25 (26)
3 3cuq_A Vacuolar-sorting protei 36.5 31 0.0011 27.1 3.7 43 86-134 11-56 (234)
4 1u5t_A Appears to BE functiona 35.4 29 0.00099 27.3 3.3 43 86-133 31-75 (233)
5 3uul_A Utrophin; spectrin repe 31.5 90 0.0031 20.1 4.9 22 109-130 81-102 (118)
6 2ig3_A Group III truncated hae 27.4 70 0.0024 22.2 3.9 55 85-139 9-68 (127)
7 3bee_A Putative YFRE protein; 26.2 1.2E+02 0.004 19.3 4.6 30 89-119 61-90 (93)
8 3uun_A Dystrophin; triple heli 24.1 1.4E+02 0.0049 18.9 4.9 21 109-129 81-101 (119)
9 1wmi_B RELB, hypothetical prot 24.0 1.3E+02 0.0045 18.9 4.2 35 85-119 14-49 (67)
10 1yke_B RNA polymerase II holoe 24.0 2.1E+02 0.0071 20.7 6.7 20 88-107 67-86 (151)
11 1ykh_B RNA polymerase II holoe 23.7 1.9E+02 0.0066 20.3 6.7 21 89-109 68-88 (132)
12 3l34_A Sensor protein; two-com 22.1 2.2E+02 0.0076 20.3 6.9 63 28-97 45-107 (130)
13 2kxa_A Haemagglutinin HA2 chai 21.2 1.1E+02 0.0037 16.5 2.9 17 39-55 4-20 (30)
14 2v6x_B DOA4-independent degrad 21.1 49 0.0017 20.1 1.8 15 105-119 37-51 (54)
15 3v22_V Ribosome modulation fac 21.0 52 0.0018 20.7 1.9 13 24-36 9-21 (61)
16 2jrm_A Ribosome modulation fac 20.5 58 0.002 20.7 2.1 13 24-36 9-21 (65)
No 1
>3twe_A Alpha4H; unknown function; HET: PGE; 1.36A {Synthetic} PDB: 3twf_A* 4g4m_A*
Probab=76.33 E-value=2.3 Score=22.30 Aligned_cols=15 Identities=47% Similarity=0.616 Sum_probs=13.0
Q ss_pred hhHHHHHHHHHHHHH
Q 048659 109 ESVQEIMGALRLKFR 123 (146)
Q Consensus 109 ~~~~~~l~kiR~Kfr 123 (146)
+|+++++.++|.|.|
T Consensus 11 edlqerlrklrkklr 25 (27)
T 3twe_A 11 EDLQERLRKLRKKLR 25 (27)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhc
Confidence 588999999999886
No 2
>4g3b_A Alpha4F3D; alpha helix, de novo designed, fluorinated protein, coiled-C NOVO protein; HET: 6FL; 1.19A {Synthetic} PDB: 4g4l_A* 3twg_A*
Probab=45.86 E-value=19 Score=18.57 Aligned_cols=15 Identities=40% Similarity=0.484 Sum_probs=11.4
Q ss_pred hhHHHHHHHHHHHHH
Q 048659 109 ESVQEIMGALRLKFR 123 (146)
Q Consensus 109 ~~~~~~l~kiR~Kfr 123 (146)
+|.++++.+.|.|.|
T Consensus 11 ed~qerlrk~rkklr 25 (26)
T 4g3b_A 11 EDXQERLRKXRKKLR 25 (26)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhc
Confidence 567788888887776
No 3
>3cuq_A Vacuolar-sorting protein SNF8; ESCRT, MBV, VPS, nucleus, protein transport, transc transcription regulation, transport, endosome; 2.61A {Homo sapiens} PDB: 2zme_A
Probab=36.50 E-value=31 Score=27.08 Aligned_cols=43 Identities=16% Similarity=0.359 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHhhCCCCCCChhhHHHHHH---HHHHHHHHHHHHhCCCCc
Q 048659 86 RVRKGIKQMEELIEKYPVNDPENESVQEIMG---ALRLKFRIIRAALGVKLE 134 (146)
Q Consensus 86 r~~k~i~~L~~Li~~~p~~n~~~~~~~~~l~---kiR~Kfr~i~~~lg~~~~ 134 (146)
.+.+.++.+++.++.|-.. --..|. ..|++|+..|+.+|+.|-
T Consensus 11 ~~~~Ql~~F~~~L~~FA~k------H~~eI~~dp~fR~~F~~mc~siGVDPl 56 (234)
T 3cuq_A 11 QMSKQLDMFKTNLEEFASK------HKQEIRKNPEFRVQFQDMCATIGVDPL 56 (234)
T ss_dssp TTHHHHHHHHHHHHHHHHH------HHHHHHHCHHHHHHHHHHHHHHTCCTT
T ss_pred HHHHHHHHHHHHHHHHHHH------cccccccCHHHHHHHHHHHHHcCCCcc
Confidence 3566778888887766431 111222 379999999999999743
No 4
>1u5t_A Appears to BE functionally related to SNF7; SNF8P; ESCRT, endosomal, trafficking, protein complex, transport protein; 3.60A {Saccharomyces cerevisiae} SCOP: a.4.5.54 a.4.5.54 PDB: 1w7p_A
Probab=35.39 E-value=29 Score=27.25 Aligned_cols=43 Identities=16% Similarity=0.334 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHhhCCCCCCCh--hhHHHHHHHHHHHHHHHHHHhCCCC
Q 048659 86 RVRKGIKQMEELIEKYPVNDPEN--ESVQEIMGALRLKFRIIRAALGVKL 133 (146)
Q Consensus 86 r~~k~i~~L~~Li~~~p~~n~~~--~~~~~~l~kiR~Kfr~i~~~lg~~~ 133 (146)
.+.+.++.+++.++.|-..--.+ .+ ...|++|+..|+.+|+.|
T Consensus 31 ~l~~Ql~~F~~~L~~FA~kHk~eI~~d-----p~fR~~F~~mc~siGVDP 75 (233)
T 1u5t_A 31 ELRDQLMVFQERLVEFAKKHNSELQAS-----PEFRSKFMHMCSSIGIDP 75 (233)
T ss_dssp HHHHHHHHHHHHHHHHHHHCTTTTTTC-----HHHHHHHHHHHHHHTCCH
T ss_pred HHHHHHHHHHHHHHHHHHHhHhhcccC-----HHHHHHHHHHHHHcCCCC
Confidence 35556666666666665321110 01 037999999999999974
No 5
>3uul_A Utrophin; spectrin repeat, structural protein, cytoskeletal, helical bundle; 1.95A {Rattus norvegicus} PDB: 3uum_A
Probab=31.54 E-value=90 Score=20.08 Aligned_cols=22 Identities=23% Similarity=0.256 Sum_probs=17.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHhC
Q 048659 109 ESVQEIMGALRLKFRIIRAALG 130 (146)
Q Consensus 109 ~~~~~~l~kiR~Kfr~i~~~lg 130 (146)
..+...+..|+.++..||..+.
T Consensus 81 ~~i~~~l~~l~~rw~~L~~~~~ 102 (118)
T 3uul_A 81 FEIQEQMTLLNARWEALRVESM 102 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4588889999999988887653
No 6
>2ig3_A Group III truncated haemoglobin; truncated hemoglobin, 2-ON-2 globin, oxygen storage-transpor; HET: HEM; 2.15A {Campylobacter jejuni}
Probab=27.44 E-value=70 Score=22.22 Aligned_cols=55 Identities=18% Similarity=0.129 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHHhhCCCCCCChhhHH----HHHHHHHHHHH-HHHHHhCCCCcCCCCC
Q 048659 85 ARVRKGIKQMEELIEKYPVNDPENESVQ----EIMGALRLKFR-IIRAALGVKLEYDGYP 139 (146)
Q Consensus 85 ~r~~k~i~~L~~Li~~~p~~n~~~~~~~----~~l~kiR~Kfr-~i~~~lg~~~~~~~~p 139 (146)
+.+.+-++.+.+.+..-|.-.|--.... +.+...+.|.. -+|+.||=+..|+|.|
T Consensus 9 ~~i~~LV~~FY~~v~~Dp~l~p~F~~~~~~~~~d~~~~~~~l~~F~~~~lgGp~~Y~G~p 68 (127)
T 2ig3_A 9 ESIAKLMEIFYEKVRKDKDLGPIFNNAIGTSDEEWKEHKAKIGNFWAGMLLGEGDYNGQP 68 (127)
T ss_dssp HHHHHHHHHHHHHHHHCTTHHHHHHHHHCSSHHHHHHHHHHHHHHHHHHHTSCSCCCSCH
T ss_pred HHHHHHHHHHHHHHHhChhHHHHHhccccccccCHHHHHHHHHHHHHHHhCCCCCCCCCC
Confidence 3466667777777776654322111111 14666666664 4889999999998865
No 7
>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}
Probab=26.16 E-value=1.2e+02 Score=19.27 Aligned_cols=30 Identities=10% Similarity=0.176 Sum_probs=14.3
Q ss_pred HHHHHHHHHHhhCCCCCCChhhHHHHHHHHH
Q 048659 89 KGIKQMEELIEKYPVNDPENESVQEIMGALR 119 (146)
Q Consensus 89 k~i~~L~~Li~~~p~~n~~~~~~~~~l~kiR 119 (146)
+.|..+..+++.-|- +|.-..+...|.++|
T Consensus 61 ~Ai~~w~~~l~~~p~-~~~~~~i~~~I~~A~ 90 (93)
T 3bee_A 61 EAIDTWVLLLDSNDP-NLDRVTIIESINKAK 90 (93)
T ss_dssp HHHHHHHHHHTCCCT-TCCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhCCC-CccHHHHHHHHHHHH
Confidence 344444455554444 444444555554444
No 8
>3uun_A Dystrophin; triple helical, cell structure and stability, cytoskeletal, structural protein; 2.30A {Homo sapiens}
Probab=24.05 E-value=1.4e+02 Score=18.93 Aligned_cols=21 Identities=33% Similarity=0.431 Sum_probs=16.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHh
Q 048659 109 ESVQEIMGALRLKFRIIRAAL 129 (146)
Q Consensus 109 ~~~~~~l~kiR~Kfr~i~~~l 129 (146)
..+...+..|+.++..++..+
T Consensus 81 ~~i~~~l~~l~~rw~~L~~~~ 101 (119)
T 3uun_A 81 TEVQEQMNLLNSRWECLRVAS 101 (119)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 468888888888888877665
No 9
>1wmi_B RELB, hypothetical protein PHS014; toxin-antitoxin complex, hydrolase-hydrolase inhibitor compl; 2.30A {Pyrococcus horikoshii} SCOP: a.137.13.1
Probab=24.02 E-value=1.3e+02 Score=18.91 Aligned_cols=35 Identities=20% Similarity=0.386 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHhhCCCC-CCChhhHHHHHHHHH
Q 048659 85 ARVRKGIKQMEELIEKYPVN-DPENESVQEIMGALR 119 (146)
Q Consensus 85 ~r~~k~i~~L~~Li~~~p~~-n~~~~~~~~~l~kiR 119 (146)
.|+..+|+.|.+|+=..... +-.++.+.+.+.-+|
T Consensus 14 eRlkveiQRLE~ml~p~~~~e~v~eeEl~ei~~eAR 49 (67)
T 1wmi_B 14 ERLKVEIQRLEAMLMPEERDEDITEEEIAELLELAR 49 (67)
T ss_dssp HHHHHHHHHHHHHTSCBCCCTTCCHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHhccccCCCCCCHHHHHHHHHHHh
Confidence 58888999999998533222 345567777666555
No 10
>1yke_B RNA polymerase II holoenzyme component SRB7; gene regulation; 3.30A {Saccharomyces cerevisiae} SCOP: a.252.1.1
Probab=23.98 E-value=2.1e+02 Score=20.69 Aligned_cols=20 Identities=25% Similarity=0.331 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHhhCCCCCCC
Q 048659 88 RKGIKQMEELIEKYPVNDPE 107 (146)
Q Consensus 88 ~k~i~~L~~Li~~~p~~n~~ 107 (146)
.....++..||+.+|-.+..
T Consensus 67 i~kakqIe~LIdsLPg~~~s 86 (151)
T 1yke_B 67 ILKTRQINKLIDSLPGVDVS 86 (151)
T ss_dssp HHHHHHHHHHHHHCTTSSSC
T ss_pred HHHHHHHHHHHHhCCCCCCC
Confidence 33458899999999977543
No 11
>1ykh_B RNA polymerase II holoenzyme component SRB7; gene regulation; 3.00A {Saccharomyces cerevisiae} SCOP: a.252.1.1
Probab=23.71 E-value=1.9e+02 Score=20.25 Aligned_cols=21 Identities=29% Similarity=0.406 Sum_probs=15.7
Q ss_pred HHHHHHHHHHhhCCCCCCChh
Q 048659 89 KGIKQMEELIEKYPVNDPENE 109 (146)
Q Consensus 89 k~i~~L~~Li~~~p~~n~~~~ 109 (146)
....++..||+++|-.+...+
T Consensus 68 ~k~kqIe~LIdsLP~~~~see 88 (132)
T 1ykh_B 68 LKTRQINKLIDSLPGVDVSAE 88 (132)
T ss_dssp HHHHHHHHHHHHSTTTTCCHH
T ss_pred HHHHHHHHHHHhCCCCCCCHH
Confidence 345889999999997765443
No 12
>3l34_A Sensor protein; two-component sensor,structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics; 1.70A {Pseudomonas aeruginosa} PDB: 3kkb_A 3n24_A
Probab=22.05 E-value=2.2e+02 Score=20.33 Aligned_cols=63 Identities=10% Similarity=0.088 Sum_probs=33.6
Q ss_pred HHHHHHHHHHhHHHhhHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhhhhCCCCCCHHHHHHHHHHHHH
Q 048659 28 LKEGYDEGYAHGLATGKEEAKDVGLKHGFETGEELGFYKGCVDVWNSAIRIAPTRFSARVRKGIKQMEEL 97 (146)
Q Consensus 28 ~~eGy~eG~~~G~~~G~~EG~~~G~~~G~q~g~e~G~~~G~~~~w~~~~~~~~~~~s~r~~k~i~~L~~L 97 (146)
.++-|++=.++|..++..+++. .||++.. +-|+-+..+|..... .|...++.+....+.|+.-
T Consensus 45 ~qq~f~~lL~qG~a~~~~~~~~----~gf~~a~--~~Y~~f~~~~~~~~~-~~l~~~~~l~e~Fn~lRn~ 107 (130)
T 3l34_A 45 SQNDFRRVLEQGRANTVDSAEQ----AALDGVR--DAYLQLQAHTPALLE-APMADNDGFSEAFNGLRLR 107 (130)
T ss_dssp HHHHHHHHHHHHHHHCCCHHHH----HHHHHHH--HHHHHHHHHSHHHHS-SCSCSSSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhccchHHH----HHHHHHH--HHHHHHHHHHhhcCC-CCCCCCchHHHHHHHHHHH
Confidence 3444555555555555555554 4444433 467888888877432 2233344555555555543
No 13
>2kxa_A Haemagglutinin HA2 chain peptide; fusion peptide, viral protein, immune system; NMR {Influenza a virus}
Probab=21.22 E-value=1.1e+02 Score=16.46 Aligned_cols=17 Identities=29% Similarity=0.353 Sum_probs=8.0
Q ss_pred HHHhhHHHHHHHHHHHH
Q 048659 39 GLATGKEEAKDVGLKHG 55 (146)
Q Consensus 39 G~~~G~~EG~~~G~~~G 55 (146)
|.-+|+.||-=.|.-.|
T Consensus 4 GAIAGfieggW~gmi~g 20 (30)
T 2kxa_A 4 GAIAGFIEGGWTGMIDG 20 (30)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred hhhhhhhhcCccccccc
Confidence 34455555544444433
No 14
>2v6x_B DOA4-independent degradation protein 4; protein transport, vacuole, endosome, transport, ESCRT-III, VPS2, VPS4, SKD1, VPS4B, VPS4A; 1.98A {Saccharomyces cerevisiae}
Probab=21.09 E-value=49 Score=20.10 Aligned_cols=15 Identities=13% Similarity=0.372 Sum_probs=11.9
Q ss_pred CCChhhHHHHHHHHH
Q 048659 105 DPENESVQEIMGALR 119 (146)
Q Consensus 105 n~~~~~~~~~l~kiR 119 (146)
.+.++|++.+|+.+|
T Consensus 37 ~~~ddDLQARLdsLR 51 (54)
T 2v6x_B 37 GNPDDDLQARLNTLK 51 (54)
T ss_dssp --CCHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHhc
Confidence 346789999999998
No 15
>3v22_V Ribosome modulation factor; stress response, small subunit H movement, stationary phase, ribosome hibernation; 3.00A {Escherichia coli} PDB: 3v24_V
Probab=21.00 E-value=52 Score=20.70 Aligned_cols=13 Identities=23% Similarity=0.491 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHH
Q 048659 24 EQTHLKEGYDEGY 36 (146)
Q Consensus 24 Ee~~~~eGy~eG~ 36 (146)
-+++|..||+.|.
T Consensus 9 leRA~~rGYqAGl 21 (61)
T 3v22_V 9 LERAHQRGYQAGI 21 (61)
T ss_dssp HHHHHHHHHHHHS
T ss_pred HHHHHHHHHHhhc
Confidence 3567777777765
No 16
>2jrm_A Ribosome modulation factor; solution structure, structural genomics, PSI-2, protein initiative, northeast structural genomics consortium; NMR {Vibrio parahaemolyticus}
Probab=20.52 E-value=58 Score=20.74 Aligned_cols=13 Identities=23% Similarity=0.504 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHH
Q 048659 24 EQTHLKEGYDEGY 36 (146)
Q Consensus 24 Ee~~~~eGy~eG~ 36 (146)
-+.+|..||+.|.
T Consensus 9 leRA~~rGYqAGl 21 (65)
T 2jrm_A 9 LERAQSQGYKAGL 21 (65)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhc
Confidence 4677888888876
Done!