Query 029965
Match_columns 184
No_of_seqs 147 out of 950
Neff 6.9
Searched_HMMs 29240
Date Mon Mar 25 09:58:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029965.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/029965hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3nct_A Protein PSIB; DNA bindi 13.6 17 0.00057 27.0 -2.0 32 1-44 13-44 (144)
2 2kii_A Putative uncharacterize 13.0 3E+02 0.01 20.4 5.0 71 41-117 2-78 (181)
3 1fs1_B SKP1, cyclin A/CDK2-ass 12.6 1.9E+02 0.0065 20.6 3.5 16 91-106 116-131 (141)
4 1xrd_A LH-1, light-harvesting 10.8 2.9E+02 0.01 16.8 3.3 25 24-48 7-31 (52)
5 3mp7_B Preprotein translocase 10.1 2.2E+02 0.0076 17.8 2.7 35 16-50 19-53 (61)
6 2qho_B E3 ubiquitin-protein li 9.1 2.7E+02 0.0094 16.8 2.7 20 92-111 16-35 (53)
7 2k5k_A Uncharacterized protein 6.9 1.7E+02 0.0059 19.0 1.2 11 174-184 35-45 (70)
8 2kfe_A Meucin-24; alpha-helix, 6.7 3.2E+02 0.011 14.2 1.9 14 102-115 4-17 (26)
9 4aw6_A CAAX prenyl protease 1 6.6 6.2E+02 0.021 22.1 5.0 35 52-90 149-187 (482)
10 1szw_A TRNA pseudouridine synt 6.6 1.8E+02 0.0063 24.7 1.5 30 131-160 205-235 (379)
No 1
>3nct_A Protein PSIB; DNA binding protein, chaperone; 2.20A {Escherichia coli}
Probab=13.56 E-value=17 Score=27.00 Aligned_cols=32 Identities=22% Similarity=0.154 Sum_probs=24.2
Q ss_pred CccccccCCCCCCCcccccCCCCcccHHHHHHHHHhcccchhhH
Q 029965 1 MIPQQYCGIREPSPDTMDADEKFKVNWKRVAVTSSFGFGFVGPV 44 (184)
Q Consensus 1 ~~~~~~~~~~~~~q~~~~~~~~~~~D~~Rt~r~~~~G~~~~gP~ 44 (184)
|++|+||-+|+. .=|+||.+.-+..+-+ ..|-
T Consensus 13 Msa~ElEd~R~~-----------G~d~RR~LthAVmr~L-~~P~ 44 (144)
T 3nct_A 13 MNAQEYEDIRAA-----------GSDERRELTHAVMREL-DAPD 44 (144)
T ss_dssp CCHHHHHHHHHH-----------CHHHHHHHHHHHHHTC-CCCT
T ss_pred cCHHHHHHHHHH-----------hHHHHHHHHHHHHhcc-CCCc
Confidence 678888888776 4589999988888774 5553
No 2
>2kii_A Putative uncharacterized protein; H-NOX, unknown function; HET: HEM; NMR {Shewanella oneidensis} PDB: 2kil_A*
Probab=13.02 E-value=3e+02 Score=20.37 Aligned_cols=71 Identities=10% Similarity=0.045 Sum_probs=49.9
Q ss_pred hhhHHHHHHHHHHHHhhhhcCCCCCcHHHHHHHHHHhhhhhhhh------HHHHHHHHHHhcCCCCHHHHHHHHHhchHH
Q 029965 41 VGPVGHFWYEGLDRFIRLKLQLPPKSARFVATKVAMDSIIFGPL------DLFVFFTYMGFSTGKNVAQVKEDLKRDFLP 114 (184)
Q Consensus 41 ~gP~~h~Wy~~Ldr~~~~~~~~~~~~~~~v~~Kv~~DQ~v~aP~------~~~~F~~~~~~leG~~~~~~~~~lk~~~~~ 114 (184)
.|-+..-|..+++..++. ..|..+..+.-++..+|.+. -+.-.+...+-..|.+.+++.+.+-+.+..
T Consensus 2 ~G~I~~~~~~~v~~~~G~------e~w~~i~~~a~~~~~~f~~~~~Y~D~~~~~lv~a~s~~~g~~~~~ll~~fG~~~~~ 75 (181)
T 2kii_A 2 KGIIFNVLEDMVVAQCGM------SVWNELLEKHAPKDRVYVSAKSYAESELFSIVQDVAQRLNMPIQDVVKAFGQFLFN 75 (181)
T ss_dssp CCHHHHHHHHHHHHHTCH------HHHHHHHHHHCCSSCCCCSSCCTTTTHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred eehHHHHHHHHHHHHcCH------HHHHHHHHHhCCCCCceeeccccCHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 466778888888888853 46777777777777777765 234445555566799999999888886655
Q ss_pred HHH
Q 029965 115 ALV 117 (184)
Q Consensus 115 ~l~ 117 (184)
.+.
T Consensus 76 ~~~ 78 (181)
T 2kii_A 76 GLA 78 (181)
T ss_dssp HHH
T ss_pred HHH
Confidence 443
No 3
>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=12.62 E-value=1.9e+02 Score=20.58 Aligned_cols=16 Identities=19% Similarity=0.381 Sum_probs=12.4
Q ss_pred HHHHhcCCCCHHHHHH
Q 029965 91 TYMGFSTGKNVAQVKE 106 (184)
Q Consensus 91 ~~~~~leG~~~~~~~~ 106 (184)
.+...++|++.+|+.+
T Consensus 116 ~vA~~ikgkt~eeiR~ 131 (141)
T 1fs1_B 116 TVANMIKGKTPEEIRK 131 (141)
T ss_dssp HHHHHHTTCCHHHHHH
T ss_pred HHHHHHcCCCHHHHHH
Confidence 4556789999988776
No 4
>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=10.77 E-value=2.9e+02 Score=16.80 Aligned_cols=25 Identities=12% Similarity=-0.029 Sum_probs=19.5
Q ss_pred cccHHHHHHHHHhcccchhhHHHHH
Q 029965 24 KVNWKRVAVTSSFGFGFVGPVGHFW 48 (184)
Q Consensus 24 ~~D~~Rt~r~~~~G~~~~gP~~h~W 48 (184)
-+|.||++.......+..+-+.|+-
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 4799999887777666778888875
No 5
>3mp7_B Preprotein translocase subunit SECE; protein transport, membrane protein complex, preprotein TRAN membrane insertion,; 2.90A {Pyrococcus furiosus}
Probab=10.08 E-value=2.2e+02 Score=17.75 Aligned_cols=35 Identities=17% Similarity=0.250 Sum_probs=27.3
Q ss_pred ccccCCCCcccHHHHHHHHHhcccchhhHHHHHHH
Q 029965 16 TMDADEKFKVNWKRVAVTSSFGFGFVGPVGHFWYE 50 (184)
Q Consensus 16 ~~~~~~~~~~D~~Rt~r~~~~G~~~~gP~~h~Wy~ 50 (184)
+...+++..=++.++++....|+++.|-+.+.-+-
T Consensus 19 lk~~~KPd~~Ef~~iak~~~iG~~i~G~iGf~Ikl 53 (61)
T 3mp7_B 19 FLVTKKPNWATYKRAAKITGLGIILIGLIGMLIRI 53 (61)
T ss_dssp HHHSCCCCTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677778899999999999999988766543
No 6
>2qho_B E3 ubiquitin-protein ligase EDD1; protein-protein complex, protein binding/ligase complex; 1.85A {Homo sapiens}
Probab=9.11 E-value=2.7e+02 Score=16.81 Aligned_cols=20 Identities=20% Similarity=0.237 Sum_probs=16.3
Q ss_pred HHHhcCCCCHHHHHHHHHhc
Q 029965 92 YMGFSTGKNVAQVKEDLKRD 111 (184)
Q Consensus 92 ~~~~leG~~~~~~~~~lk~~ 111 (184)
+..+|+|+|.+-|..++++.
T Consensus 16 ~q~VLqgksR~vIirELqrT 35 (53)
T 2qho_B 16 AQVVLQGKSRSVIIRELQRT 35 (53)
T ss_dssp HHHHSTTCCHHHHHHHHHHT
T ss_pred HHHHhcCCcHHHHHHHHHHh
Confidence 45689999988888888874
No 7
>2k5k_A Uncharacterized protein RHR2; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Rhodobacter sphaeroides 2}
Probab=6.91 E-value=1.7e+02 Score=18.96 Aligned_cols=11 Identities=36% Similarity=0.564 Sum_probs=8.7
Q ss_pred cccccCCCCCC
Q 029965 174 SLEERGGKGGL 184 (184)
Q Consensus 174 ~~~~~~~~~~~ 184 (184)
.|.|.||.+|+
T Consensus 35 ~p~E~GG~~G~ 45 (70)
T 2k5k_A 35 LPKEIGGRNGP 45 (70)
T ss_dssp CCCCSCCCCCC
T ss_pred CCcccCCCCCC
Confidence 36899998885
No 8
>2kfe_A Meucin-24; alpha-helix, antimicrobial protein; NMR {Synthetic}
Probab=6.73 E-value=3.2e+02 Score=14.21 Aligned_cols=14 Identities=14% Similarity=0.209 Sum_probs=8.6
Q ss_pred HHHHHHHHhchHHH
Q 029965 102 AQVKEDLKRDFLPA 115 (184)
Q Consensus 102 ~~~~~~lk~~~~~~ 115 (184)
.++..++++++..+
T Consensus 4 kei~~kiK~kl~~a 17 (26)
T 2kfe_A 4 REFMSNLKEKLSGV 17 (26)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHH
Confidence 46666777766543
No 9
>4aw6_A CAAX prenyl protease 1 homolog; hydrolase, M48 peptidase, integral membrane protein, prelami processing, ageing, progeria; HET: PC1; 3.40A {Homo sapiens} PDB: 2ypt_A
Probab=6.61 E-value=6.2e+02 Score=22.07 Aligned_cols=35 Identities=9% Similarity=0.236 Sum_probs=21.6
Q ss_pred HHHHhhhhcCCCCCc----HHHHHHHHHHhhhhhhhhHHHHHH
Q 029965 52 LDRFIRLKLQLPPKS----ARFVATKVAMDSIIFGPLDLFVFF 90 (184)
Q Consensus 52 Ldr~~~~~~~~~~~~----~~~v~~Kv~~DQ~v~aP~~~~~F~ 90 (184)
+|..++. +..+ ++..++..++.+++..|+....+.
T Consensus 149 le~~~Gf----nk~t~~~f~~D~~k~~~l~~vi~~pl~~~~~~ 187 (482)
T 4aw6_A 149 IEEKHGF----NQQTLGFFMKDAIKKFVVTQCILLPVSSLLLY 187 (482)
T ss_dssp HHHHTTC----BCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ehhhcCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666642 2333 345667788888888887554443
No 10
>1szw_A TRNA pseudouridine synthase D; novel fold, RNA modification, TRUD, structural proteomics in europe, spine, structural genomics; 2.00A {Escherichia coli} SCOP: d.265.1.4 PDB: 1si7_A 1sb7_A
Probab=6.59 E-value=1.8e+02 Score=24.70 Aligned_cols=30 Identities=3% Similarity=-0.104 Sum_probs=20.5
Q ss_pred heeecccchhhhhh-HHHHHHHHHHHHhhcc
Q 029965 131 FRYVPVRYQLLYVN-IFCLLDSAFLSWVEQQ 160 (184)
Q Consensus 131 F~fVP~~~Rvl~~n-~v~~~Wn~yLS~~~~~ 160 (184)
+.-+|...|.++++ .-|.+||.+||..-..
T Consensus 205 ~~~ipr~lr~~yv~AyQS~lfN~~lS~Ri~~ 235 (379)
T 1szw_A 205 TPVRDRNKRSFWLSAARSALFNQIVAERLKK 235 (379)
T ss_dssp -----CHHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred hhcCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 56789999988885 4689999999976543
Done!