Query 022002
Match_columns 304
No_of_seqs 35 out of 37
Neff 3.0
Searched_HMMs 29240
Date Mon Mar 25 12:31:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022002.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/022002hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3arc_J Photosystem II reaction 26.0 30 0.001 24.1 1.6 23 115-137 7-32 (40)
2 2knc_A Integrin alpha-IIB; tra 11.7 3.9E+02 0.013 19.3 4.8 40 254-299 7-48 (54)
3 2l8s_A Integrin alpha-1; trans 8.3 4.4E+02 0.015 19.1 4.0 40 256-301 6-47 (54)
4 2wur_A Green fluorescent prote 7.3 1E+02 0.0035 28.3 0.3 32 33-69 123-155 (236)
5 3cjl_A Domain of unknown funct 6.3 3.8E+02 0.013 21.0 3.1 33 211-250 52-86 (88)
6 3ai4_A Yeast enhanced green fl 5.0 2.3E+02 0.0078 26.7 1.2 27 33-64 126-153 (283)
7 1bvo_A Transcription factor ga 4.8 4.7E+02 0.016 22.8 3.1 26 20-45 21-47 (175)
8 3s8f_C Cytochrome C oxidase po 4.7 6.1E+02 0.021 16.8 2.8 24 259-282 8-33 (34)
9 2kv5_A FST, putative uncharact 4.6 8.3E+02 0.028 16.2 3.4 18 201-218 5-22 (33)
10 3j27_A Envelope protein E; fla 4.5 5.3E+02 0.018 25.9 3.5 31 242-273 436-466 (495)
No 1
>3arc_J Photosystem II reaction center protein J; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 1s5l_J* 3a0b_J* 3a0h_J* 2axt_J* 3bz1_J* 3bz2_J* 3kzi_J* 3prq_J* 3prr_J*
Probab=25.98 E-value=30 Score=24.11 Aligned_cols=23 Identities=22% Similarity=0.501 Sum_probs=14.8
Q ss_pred chhhhhhhhHhHh---hcchhhhhhH
Q 022002 115 KWPMWLLGPCILL---GTDCIFNIGA 137 (304)
Q Consensus 115 k~plWLlGPsvLl---gtealFyiGa 137 (304)
+-|+||.|-..=+ ++-.|||.|.
T Consensus 7 RiPLWlvgtv~G~~vi~~~giFfyGs 32 (40)
T 3arc_J 7 RIPLWIVATVAGMGVIVIVGLFFYGA 32 (40)
T ss_dssp SSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccEEeeeeehhhhhhheeeEEEeec
Confidence 4699999865432 5555666653
No 2
>2knc_A Integrin alpha-IIB; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}
Probab=11.66 E-value=3.9e+02 Score=19.28 Aligned_cols=40 Identities=30% Similarity=0.518 Sum_probs=23.6
Q ss_pred ccccchHHHHH--hhhHHHHHHHHHHHHHHHHHhhhhcchhhhhcCCC
Q 022002 254 ELSAPAWIVHT--VRGLVCWWILILGVQLMRVAWFAGFTSQARRQQSP 299 (304)
Q Consensus 254 ~l~al~wv~~~--i~GLvc~W~L~lg~qlmrvaWfag~~~~~~~~~~~ 299 (304)
..+-+.|+... +-||..+=.+ +=+-|-.||-.|.++.+..
T Consensus 7 ~~~vp~wiIi~svl~GLllL~li------~~~LwK~GFFkR~~~~~~e 48 (54)
T 2knc_A 7 ERAIPIWWVLVGVLGGLLLLTIL------VLAMWKVGFFKRNRPPLEE 48 (54)
T ss_dssp TTTCCHHHHHHHHHHHHHHHHHH------HHHHHHHHHTTTTCCSCCC
T ss_pred CCCcchHHHHHHHHHHHHHHHHH------HHHHHHcCcccCCCCCcch
Confidence 34567776553 4444333222 2345888999999876554
No 3
>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}
Probab=8.32 E-value=4.4e+02 Score=19.08 Aligned_cols=40 Identities=20% Similarity=0.507 Sum_probs=23.8
Q ss_pred ccchHHHHH--hhhHHHHHHHHHHHHHHHHHhhhhcchhhhhcCCCCC
Q 022002 256 SAPAWIVHT--VRGLVCWWILILGVQLMRVAWFAGFTSQARRQQSPAS 301 (304)
Q Consensus 256 ~al~wv~~~--i~GLvc~W~L~lg~qlmrvaWfag~~~~~~~~~~~~~ 301 (304)
+.+.|+... +-||..+=. ++=+-|-.||-.|.++++....
T Consensus 6 ~vp~WiIi~svl~GLLLL~L------ii~~LwK~GFFKR~~~~~~~~~ 47 (54)
T 2l8s_A 6 RVPLWVILLSAFAGLLLLML------LILALWKIGFFKRPLKKKMEKL 47 (54)
T ss_dssp CCCTHHHHHHHHHHHHHHHH------HHHHHHHHHHTTSCCSCCCCC-
T ss_pred cCchHHHHHHHHHHHHHHHH------HHHHHHHcCcccCCCcchhhHH
Confidence 456676543 444443322 2334588999999998776543
No 4
>2wur_A Green fluorescent protein; chromophore, beta-barrel, luminescence, photoprotein, bioluminescence; HET: CSY IPA EOH; 0.90A {Aequorea victoria} PDB: 1emk_A* 1eme_A* 1emc_A* 1eml_A* 1s6z_A* 1z1p_A* 1z1q_A* 1q4a_A* 1c4f_A* 1emb_A* 1emg_A* 1ema_A* 1hcj_A* 1q4b_A* 1w7s_A* 1w7t_A* 1w7u_A* 2emd_A* 1emm_A* 2emn_A* ...
Probab=7.32 E-value=1e+02 Score=28.29 Aligned_cols=32 Identities=9% Similarity=0.084 Sum_probs=22.3
Q ss_pred ccccccCcccccccceeccCCCCCCCCC-CccccCCcc
Q 022002 33 IPVVTSPCTHVKHSPLCCTKLTPWEPSP-ASHAPTDDA 69 (304)
Q Consensus 33 ~~~~~~p~~~~~~~~~~c~k~~~we~sp-~~~a~~~~~ 69 (304)
.+++.|| .+.++.--|.+ ||||+ -.|...|..
T Consensus 123 f~GvnFP----~dGPVMqkkt~-weps~e~~~~~~d~~ 155 (236)
T 2wur_A 123 LKGIDFK----EDGNILGHKLE-YNYNSHNVYIMADKQ 155 (236)
T ss_dssp EEEECCC----TTSTTTTTCBC-SCCCCCEEEEEEEGG
T ss_pred EEEECCC----CCCCcccccee-ecCCcceEEEcccCC
Confidence 5677777 56777777778 99997 356654444
No 5
>3cjl_A Domain of unknown function; structural genomics, joint center for structural genomics, J protein structure initiative; 2.20A {Pectobacterium atrosepticum SCRI1043}
Probab=6.33 E-value=3.8e+02 Score=20.97 Aligned_cols=33 Identities=15% Similarity=0.499 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHhhhcCCceeeeeeeehhhHH--HHHHHhhcc
Q 022002 211 LLSIQILTEMLTWHWQSPVWLVTPVVYESYR--VLQLMRGLK 250 (304)
Q Consensus 211 gL~VQia~E~lt~~~kSPVWpvVPvIYevYR--l~QL~Rglq 250 (304)
.++++.+.|..+.|++-| +|...| |.|.|..++
T Consensus 52 ~vGLKLfgevml~~r~~p-------LF~~~~p~f~~Fm~~LK 86 (88)
T 3cjl_A 52 MVGLKLFGEVMMQQRKHP-------LFKEFSAPFRAFMMNLK 86 (88)
T ss_dssp HHHHHHHHHHHHHTTTSH-------HHHTTHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCcCCc-------cHHHHHHHHHHHHHHHh
Confidence 478899999999999998 565555 456666554
No 6
>3ai4_A Yeast enhanced green fluorescent protein, DNA POL IOTA; UBM, ubiquitin-binding motif, GFP, fusion, fluorescent prote replication; HET: CR2; 1.60A {Aequorea victoria} PDB: 2kwu_A* 2ktf_B* 2l0g_A*
Probab=4.96 E-value=2.3e+02 Score=26.68 Aligned_cols=27 Identities=7% Similarity=0.060 Sum_probs=19.5
Q ss_pred ccccccCcccccccceeccCCCCCCCCC-Cccc
Q 022002 33 IPVVTSPCTHVKHSPLCCTKLTPWEPSP-ASHA 64 (304)
Q Consensus 33 ~~~~~~p~~~~~~~~~~c~k~~~we~sp-~~~a 64 (304)
.+++.|| .+.++.--|.+ ||||+ -.|.
T Consensus 126 f~GvnFP----~dGPVMqkkt~-weps~Ek~y~ 153 (283)
T 3ai4_A 126 LKGIDFK----EDGNILGHKLE-YNYNSHNVYI 153 (283)
T ss_dssp EEEECCC----TTSTTTTTCBC-SCCCCEEEEE
T ss_pred EEEECCC----CCCCcccccee-ecCCcceEEE
Confidence 5677777 56777777777 99998 3444
No 7
>1bvo_A Transcription factor gambif1; REL protein, morphogen, immunity, development, insects, complex (transcription factor/DNA); HET: DNA; 2.70A {Anopheles gambiae} SCOP: b.2.5.3
Probab=4.84 E-value=4.7e+02 Score=22.78 Aligned_cols=26 Identities=19% Similarity=0.015 Sum_probs=20.1
Q ss_pred ccccccccccCCc-ccccccCcccccc
Q 022002 20 LPRSMRLVNFKSV-IPVVTSPCTHVKH 45 (304)
Q Consensus 20 ~~rs~~l~~~~~~-~~~~~~p~~~~~~ 45 (304)
++||.|.+.-.+. ...=|||.++|.|
T Consensus 21 Eg~shGsipG~~S~~~~KT~PtVki~n 47 (175)
T 1bvo_A 21 EGRSAGSIPGVNTTAEQKTFPSIQVHG 47 (175)
T ss_dssp GCSCCCCCCBTTCCSSSCCCCEEEEES
T ss_pred cCCCCCCccCccCCCCCccCCEEEEec
Confidence 6789888775555 4456899999988
No 8
>3s8f_C Cytochrome C oxidase polypeptide 2A; complex IV, respiratory chain, lipid cubic phase, monoolein, peroxide, electron transport, proton pump; HET: HEM HAS OLC; 1.80A {Thermus thermophilus} PDB: 2qpd_C* 2qpe_C* 3bvd_C* 3qjq_C* 3qjr_C* 3qjs_C* 3qjt_C* 3qju_C* 3qjv_C* 1xme_C* 3s8g_C* 4esl_C* 4ev3_C* 4f05_C* 4fa7_C* 4faa_C* 1ehk_C* 3eh3_C* 3eh4_C* 3eh5_C* ...
Probab=4.71 E-value=6.1e+02 Score=16.80 Aligned_cols=24 Identities=25% Similarity=0.447 Sum_probs=16.1
Q ss_pred hHHHHHhhh--HHHHHHHHHHHHHHH
Q 022002 259 AWIVHTVRG--LVCWWILILGVQLMR 282 (304)
Q Consensus 259 ~wv~~~i~G--Lvc~W~L~lg~qlmr 282 (304)
+|....+.| ++..|..+.++.+-|
T Consensus 8 Tl~~V~ilg~~I~i~W~~vf~lFl~R 33 (34)
T 3s8f_C 8 ALAVILVLTLTILVFWLGVYAVFFAR 33 (34)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred eehHHHHHHHHHHHHHHHHHeeeecC
Confidence 344444554 456798888988877
No 9
>2kv5_A FST, putative uncharacterized protein RNAI; toxin-antitoxin, bacterial, toxin; NMR {Enterococcus faecalis}
Probab=4.57 E-value=8.3e+02 Score=16.24 Aligned_cols=18 Identities=11% Similarity=0.560 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 022002 201 FAVLLGPYLLLLSIQILT 218 (304)
Q Consensus 201 ~~v~L~PYLvgL~VQia~ 218 (304)
+...+||.++|+++-+..
T Consensus 5 ~~~IIaPivVGvvl~L~d 22 (33)
T 2kv5_A 5 MSLVIAPIFVGLVLEMIS 22 (33)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 456789999999887544
No 10
>3j27_A Envelope protein E; flavivirus, fusion protein, protein complex, membrane, chape virus; HET: NAG; 3.60A {Dengue virus 2} PDB: 3j2p_A* 1p58_A
Probab=4.54 E-value=5.3e+02 Score=25.93 Aligned_cols=31 Identities=29% Similarity=0.706 Sum_probs=25.3
Q ss_pred HHHHHhhcccccccccchHHHHHhhhHHHHHH
Q 022002 242 VLQLMRGLKLGAELSAPAWIVHTVRGLVCWWI 273 (304)
Q Consensus 242 l~QL~RglqLv~~l~al~wv~~~i~GLvc~W~ 273 (304)
+||...|+ .-+-.|+.-|+.+++.|.++.|.
T Consensus 436 vH~vfg~~-f~~lFGG~swi~kilig~ll~Wl 466 (495)
T 3j27_A 436 LHQVFGAI-YGAAFSGVSWIMKILIGVIITWI 466 (495)
T ss_dssp HHHHHHHT-GGGTSTBCCHHHHHHHHHHHHHH
T ss_pred HHHHHHHH-HHhhcCchHHHHHHHHHHHHhee
Confidence 57776554 45568999999999999999996
Done!