Query 029396
Match_columns 194
No_of_seqs 108 out of 392
Neff 6.5
Searched_HMMs 29240
Date Mon Mar 25 20:07:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029396.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/029396hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2ko2_A Reticulon-4; NOGO, memb 98.5 7.3E-09 2.5E-13 72.8 -1.4 59 57-115 14-79 (79)
2 2g31_A Reticulon-4; NOGO, heli 97.9 1.7E-07 5.9E-12 62.6 -5.3 51 59-109 3-60 (60)
3 2knc_A Integrin alpha-IIB; tra 60.5 18 0.00062 23.0 4.8 31 42-74 17-47 (54)
4 2l8s_A Integrin alpha-1; trans 58.1 22 0.00074 22.6 4.8 31 41-73 13-43 (54)
5 2k1a_A Integrin alpha-IIB; sin 40.7 42 0.0014 20.1 3.9 28 42-71 15-42 (42)
6 4dxw_A Navrh, ION transport pr 22.6 2.6E+02 0.0089 21.4 7.2 52 46-114 134-186 (229)
7 1oef_A Apolipoprotein E; glyco 21.2 48 0.0016 17.4 1.6 21 157-177 3-23 (26)
8 3vou_A ION transport 2 domain 18.2 2.8E+02 0.0096 20.0 7.3 34 144-177 105-138 (148)
9 2wuj_A Septum site-determining 18.1 1.6E+02 0.0056 18.2 3.9 23 154-176 22-44 (57)
10 3arc_L Photosystem II reaction 18.0 1.1E+02 0.0037 17.8 2.6 20 134-153 15-34 (37)
No 1
>2ko2_A Reticulon-4; NOGO, membrane protein, peripheral, DPC micelle, myelin INHI endoplasmic reticulum, membrane, phosphoprotein, transmembr; NMR {Mus musculus}
Probab=98.50 E-value=7.3e-09 Score=72.80 Aligned_cols=59 Identities=15% Similarity=0.135 Sum_probs=56.1
Q ss_pred HHHHHHHhhhCCCCCCCC-------CcccCHHHHHHHHHHHHHHHHHHHHhcchhccccCHHHHHH
Q 029396 57 FLWSNLAAFTDMSPPQFP-------EIKLPEDLFVRVALYLRCVFNVASKMCQDVTTEPDIRKFLT 115 (194)
Q Consensus 57 fl~~~~~~~~~~~~p~~p-------~~~isee~~~~~a~~v~~~in~~l~~lr~l~~g~d~~~~lK 115 (194)
.+|..+.+.++|++..+| |+.+|+|.+++.++.+..++|.++..+|++++++|+.+|+|
T Consensus 14 RiYk~vlqavqKtd~~hPFk~YLd~Di~ls~E~~~~~~~~~v~~in~~l~~LRrLfLVedlvDSLK 79 (79)
T 2ko2_A 14 RIYKGVIQAIQKSDEGHPFRAYLESEVAISEELVQKYSNSALGHVNSTIKELRRLFLVDDLVDSLK 79 (79)
T ss_dssp THHHHTHHHHHCTTTTCCSHHHHHHHHHHTTCHHHHHHHCTTTHHHHHHHHHHHHHHHTCTTGGGC
T ss_pred HHHHHHHHHHHhCCCCCCccccccccccCCHHHHHHHHHHHHHHHHHHHHHHhHHhhcccHHHhcC
Confidence 489999999999999888 89999999999999999999999999999999999999876
No 2
>2g31_A Reticulon-4; NOGO, helix, signaling protein; NMR {Homo sapiens} PDB: 2jv5_A
Probab=97.85 E-value=1.7e-07 Score=62.59 Aligned_cols=51 Identities=16% Similarity=0.148 Sum_probs=44.0
Q ss_pred HHHHHhhhCCCCCCCC-------CcccCHHHHHHHHHHHHHHHHHHHHhcchhccccC
Q 029396 59 WSNLAAFTDMSPPQFP-------EIKLPEDLFVRVALYLRCVFNVASKMCQDVTTEPD 109 (194)
Q Consensus 59 ~~~~~~~~~~~~p~~p-------~~~isee~~~~~a~~v~~~in~~l~~lr~l~~g~d 109 (194)
|.++.+.++|++..+| |+.+|+|.+++.++.+..++|.++..+|++++++|
T Consensus 3 Yk~vlqavqKt~~~hPFk~yLd~di~ls~e~~~~~~~~~v~~in~~l~~lrrLfLVed 60 (60)
T 2g31_A 3 YKGVIQAIQKSDEGHPFRAYLESEVAISEELVQKYSNSALGHVNCTIKELRRLFLVDD 60 (60)
T ss_dssp CCTTTTHHHHHHHHCTTHHHHHHHHHHHHHHHHHHHHHGGGTCHHHHHHHHTSSCTTC
T ss_pred HHHHHHHHHhCCCCCCchhccccCcCCCHHHHHHHHHHHHHHHHHHHHHHhHhhccCC
Confidence 3444556667776677 89999999999999999999999999999999987
No 3
>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=60.54 E-value=18 Score=22.99 Aligned_cols=31 Identities=23% Similarity=0.454 Sum_probs=21.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCCC
Q 029396 42 VTFICHSIILTLSTLFLWSNLAAFTDMSPPQFP 74 (194)
Q Consensus 42 iS~~s~ill~~l~~~fl~~~~~~~~~~~~p~~p 74 (194)
+|+++-++++.+++..+|.. ++++|..|+..
T Consensus 17 ~svl~GLllL~li~~~LwK~--GFFkR~~~~~~ 47 (54)
T 2knc_A 17 VGVLGGLLLLTILVLAMWKV--GFFKRNRPPLE 47 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHH--HHTTTTCCSCC
T ss_pred HHHHHHHHHHHHHHHHHHHc--CcccCCCCCcc
Confidence 56666677777777778864 78898776543
No 4
>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}
Probab=58.11 E-value=22 Score=22.63 Aligned_cols=31 Identities=23% Similarity=0.327 Sum_probs=22.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhhCCCCCCC
Q 029396 41 LVTFICHSIILTLSTLFLWSNLAAFTDMSPPQF 73 (194)
Q Consensus 41 liS~~s~ill~~l~~~fl~~~~~~~~~~~~p~~ 73 (194)
++|+++-++++++++..+|.. ++++|..++.
T Consensus 13 i~svl~GLLLL~Lii~~LwK~--GFFKR~~~~~ 43 (54)
T 2l8s_A 13 LLSAFAGLLLLMLLILALWKI--GFFKRPLKKK 43 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH--HHTTSCCSCC
T ss_pred HHHHHHHHHHHHHHHHHHHHc--CcccCCCcch
Confidence 356677777777777778865 7899886643
No 5
>2k1a_A Integrin alpha-IIB; single-PASS transmembrane segment, alternative splicing, calcium, cell adhesion, cleavage on PAIR of basic residues; NMR {Homo sapiens} PDB: 2k9j_A
Probab=40.67 E-value=42 Score=20.11 Aligned_cols=28 Identities=25% Similarity=0.487 Sum_probs=19.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhCCCCC
Q 029396 42 VTFICHSIILTLSTLFLWSNLAAFTDMSPP 71 (194)
Q Consensus 42 iS~~s~ill~~l~~~fl~~~~~~~~~~~~p 71 (194)
+|+++-++++.+++..+|.. ++++|..|
T Consensus 15 ~s~l~GLllL~li~~~LwK~--GFFkR~~~ 42 (42)
T 2k1a_A 15 VGVLGGLLLLTILVLAMWKV--GFFKRNRP 42 (42)
T ss_dssp HHHHHHHHHHHHHHHHHHHT--TTTCCCCC
T ss_pred HHHHHHHHHHHHHHHHHHHc--CcccCCCC
Confidence 45666667777777777864 78887654
No 6
>4dxw_A Navrh, ION transport protein; tetrameric, voltage-gated sodium channel, sodium selective, gated ION channel; HET: BNG PX4; 3.05A {Alpha proteobacterium HIMB114}
Probab=22.64 E-value=2.6e+02 Score=21.38 Aligned_cols=52 Identities=12% Similarity=0.164 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHHHH-HhhhCCCCCCCCCcccCHHHHHHHHHHHHHHHHHHHHhcchhccccCHHHHH
Q 029396 46 CHSIILTLSTLFLWSNL-AAFTDMSPPQFPEIKLPEDLFVRVALYLRCVFNVASKMCQDVTTEPDIRKFL 114 (194)
Q Consensus 46 s~ill~~l~~~fl~~~~-~~~~~~~~p~~p~~~isee~~~~~a~~v~~~in~~l~~lr~l~~g~d~~~~l 114 (194)
..++++.++..++++.+ ..+++..+|. ++ +.+-++.-.+-++.+|++|.+..
T Consensus 134 ~~~~~~l~~~~~ifa~~g~~lf~~~~~~--~F---------------~~~~~a~~~lf~~~t~~~w~~i~ 186 (229)
T 4dxw_A 134 FFVSLLLFIILYIYATMGAILFGNDDPS--RW---------------GDLGISLITLFQVLTLSSWETVM 186 (229)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTTTSCT--TT---------------SSHHHHHHHHHHHHTTSSTHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCcc--cc---------------cCHHHHHHHHHHHHccCCHHHHH
Confidence 34445555555666665 4566655442 11 12234445566778888887654
No 7
>1oef_A Apolipoprotein E; glycoprotein, plasma, lipid transport, HDL, VLDL, chylomicron, sialic acid, heparin-binding; NMR {Homo sapiens} SCOP: j.39.1.1
Probab=21.20 E-value=48 Score=17.40 Aligned_cols=21 Identities=5% Similarity=-0.053 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 029396 157 ADTCAEKALVELKKQYAVLDQ 177 (194)
Q Consensus 157 ID~~~~~~~~~~~~~y~~~~~ 177 (194)
++.+++.++.++...|+++.+
T Consensus 3 ~~P~~e~ik~q~~~i~e~i~~ 23 (26)
T 1oef_A 3 FEPLVEDMQRQWAGLVEKVQA 23 (26)
T ss_dssp CTTHHHHHHHHHHHHHHHHHH
T ss_pred CCcHHHHHHHHHHHHHHHHHh
Confidence 456677777777766655543
No 8
>3vou_A ION transport 2 domain protein, voltage-gated SOD channel; 4-helical bundle, ION channel, membrane, transport protein; 3.20A {Bacillus weihenstephanensis}
Probab=18.21 E-value=2.8e+02 Score=19.98 Aligned_cols=34 Identities=15% Similarity=0.239 Sum_probs=24.7
Q ss_pred HhhhHHHhhchhHHHHHHHHHHHHHHHHHHHHHH
Q 029396 144 LTLPMLYEKHEDLADTCAEKALVELKKQYAVLDQ 177 (194)
Q Consensus 144 FTlP~lYe~yq~~ID~~~~~~~~~~~~~y~~~~~ 177 (194)
+....+.++.+++.|+.-....+++++..+.+++
T Consensus 105 ~~~~~~~~~~~~~~~~~~~~~~~rl~~i~~~~~~ 138 (148)
T 3vou_A 105 VQLPSILSNRKKETDAYRLEVMEKLEAIEKKLAE 138 (148)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4556778888888888888887777755555544
No 9
>2wuj_A Septum site-determining protein diviva; bacterial cell division, septation, cell cycle, sporulation; 1.40A {Bacillus subtilis} PDB: 2wuk_A
Probab=18.08 E-value=1.6e+02 Score=18.23 Aligned_cols=23 Identities=9% Similarity=-0.008 Sum_probs=17.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Q 029396 154 EDLADTCAEKALVELKKQYAVLD 176 (194)
Q Consensus 154 q~~ID~~~~~~~~~~~~~y~~~~ 176 (194)
++++|.++..+...+...++...
T Consensus 22 ~~EVD~FLd~v~~~~~~l~~e~~ 44 (57)
T 2wuj_A 22 EDEVNEFLAQVRKDYEIVLRKKT 44 (57)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999998888776665543
No 10
>3arc_L Photosystem II reaction center protein L; 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_L* 3a0b_L* 3a0h_L* 2axt_L* 3bz1_L* 3bz2_L* 3kzi_L* 3prq_L* 3prr_L*
Probab=18.03 E-value=1.1e+02 Score=17.75 Aligned_cols=20 Identities=35% Similarity=0.589 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHhhhHHHhhc
Q 029396 134 TILYLVFVVSLTLPMLYEKH 153 (194)
Q Consensus 134 TLl~i~~v~~FTlP~lYe~y 153 (194)
|-+|.|.++.|.+-.++..|
T Consensus 15 TSLy~GLLlifvlavlFssy 34 (37)
T 3arc_L 15 TSLYLGLLLILVLALLFSSY 34 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHhhhh
Confidence 56777878888777777655
Done!