Query psy12162
Match_columns 242
No_of_seqs 127 out of 353
Neff 5.6
Searched_HMMs 46136
Date Fri Aug 16 20:18:29 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12162.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12162hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4406|consensus 100.0 1.1E-34 2.4E-39 271.8 13.6 197 1-238 1-202 (467)
2 PF13716 CRAL_TRIO_2: Divergen 99.9 4.3E-27 9.2E-32 192.0 9.1 120 119-240 2-125 (149)
3 smart00516 SEC14 Domain in hom 99.8 4.4E-19 9.4E-24 143.8 12.1 112 125-238 14-134 (158)
4 cd00170 SEC14 Sec14p-like lipi 99.8 1.3E-18 2.9E-23 138.3 10.8 120 119-238 9-136 (157)
5 KOG1470|consensus 99.7 1.5E-16 3.2E-21 147.0 11.2 125 112-238 91-222 (324)
6 PF00650 CRAL_TRIO: CRAL/TRIO 99.6 5.7E-16 1.2E-20 125.7 7.2 125 114-239 2-137 (159)
7 KOG1471|consensus 98.9 7.6E-09 1.6E-13 94.2 9.6 123 112-234 88-230 (317)
8 KOG1826|consensus 95.6 0.0038 8.3E-08 68.8 0.4 133 105-239 1548-1683(2724)
9 PF12496 BNIP2: Bcl2-/adenovir 85.6 0.61 1.3E-05 38.4 2.3 24 66-89 40-67 (127)
10 PF03721 UDPG_MGDP_dh_N: UDP-g 78.8 0.98 2.1E-05 38.7 1.1 121 115-240 19-152 (185)
11 PF07872 DUF1659: Protein of u 49.3 10 0.00023 25.6 1.3 21 117-137 7-27 (47)
12 PF11385 DUF3189: Protein of u 46.0 82 0.0018 26.4 6.5 26 117-142 48-73 (148)
13 PF10928 DUF2810: Protein of u 37.5 20 0.00043 25.2 1.2 19 197-215 20-38 (54)
14 COG4822 CbiK Cobalamin biosynt 36.9 75 0.0016 29.0 5.1 67 128-211 108-175 (265)
15 PF08412 Ion_trans_N: Ion tran 36.5 40 0.00087 25.3 2.9 43 180-222 10-52 (77)
16 PF13986 DUF4224: Domain of un 34.2 53 0.0011 22.2 2.9 23 111-135 20-42 (47)
17 COG1140 NarY Nitrate reductase 33.8 54 0.0012 32.2 4.0 51 26-91 94-152 (513)
18 PF06057 VirJ: Bacterial virul 31.4 1.4E+02 0.0029 26.3 5.8 77 128-213 27-107 (192)
19 TIGR01660 narH nitrate reducta 29.0 74 0.0016 31.8 4.1 23 26-51 94-116 (492)
20 PF09949 DUF2183: Uncharacteri 28.3 1.1E+02 0.0024 23.9 4.3 44 156-209 55-98 (100)
21 PF04079 DUF387: Putative tran 26.1 55 0.0012 27.6 2.4 34 108-141 110-144 (159)
22 TIGR00281 segregation and cond 24.5 54 0.0012 28.5 2.1 33 109-141 116-149 (186)
23 PF13905 Thioredoxin_8: Thiore 24.0 45 0.00098 24.1 1.3 43 130-176 1-44 (95)
24 PRK11020 hypothetical protein; 22.9 49 0.0011 26.9 1.4 26 190-215 76-101 (118)
25 PF14000 Packaging_FI: DNA pac 21.7 89 0.0019 25.7 2.7 32 110-141 76-109 (125)
No 1
>KOG4406|consensus
Probab=100.00 E-value=1.1e-34 Score=271.80 Aligned_cols=197 Identities=40% Similarity=0.592 Sum_probs=169.0
Q ss_pred CCCCCCCCCCCccccccCCCCCCCCCCCCCCCCCCCCCCCCCcccccccCCCCccceeeeCCCCCCccCCCCCCCCCccc
Q psy12162 1 MDTDYQPNFPGIRNAIASNNDEETPYPSLSDFHDYEPNLEFDDSELQASLNGDAEEIKVFDTPVPFDYLESPVSDGTIEE 80 (242)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~ 80 (242)
||.-+ |.. |.....+.....++|-++++|+|+.+|.+++++++...++..+-. +-.
T Consensus 1 ~~~~~-~~d-p~~~~~~~v~~s~~~~~~~~d~~l~~~d~~~~~~~~l~~sp~~~~------~~~---------------- 56 (467)
T KOG4406|consen 1 MDIFF-PVD-PNSGHAPYVFLSDDPSDELGDLDLLIPDLMDRLVMKLPPSPYSLD------IFS---------------- 56 (467)
T ss_pred CCCcC-CCC-CCccccccccccCCcchhhcccccccchhhhhhhhhCCCCcchhh------hhc----------------
Confidence 66666 554 445555566666999999999999999999999998888855222 111
Q ss_pred chHHhhccCCCCcccccccccCccccccccChHHHHhc--CCEEEeCC--CCCCCeEEEEEcccCCCCCccchhhHHHHH
Q psy12162 81 NFEEELINAPMGQLDSLAATCTDDELKDEEDFADVASY--GIVDVVGD--DMFGRKLIVLSACKLPSNKELDHGRLLGYL 156 (242)
Q Consensus 81 ~~e~~l~~~~~~~~~~~~~~~~~~~~a~~edf~di~~~--gi~Y~~G~--Dk~GRPVVVi~a~~lP~~~~~D~e~ll~yl 156 (242)
.+-+|.+.++ .+.+|.++++| +++.+.|. |++||+||||.||++|+.+++|.-+++.|+
T Consensus 57 -~~pel~~~~p----------------~ed~fyd~~~H~~ei~qvi~~~~D~~gr~iivv~a~rlp~~~eld~~~li~~~ 119 (467)
T KOG4406|consen 57 -KIPELYGIEP----------------KEDPFYDIARHEREILQVIGDAKDKQGRKIIVVYACRLPSSSELDDIRLISYL 119 (467)
T ss_pred -cCccccccCc----------------ccccHHHHHHhhhheeeeccCcccccCCeeEEEEEecCCchhhhhhHHHHHHH
Confidence 2233332222 34788899988 88888887 999999999999999999999999999999
Q ss_pred HHHhhhhcCCCeEEEEEecCCCCCCCCcHHHHHHHHHHhhHHHHhccceEEEEcCChHHHHHHHHhccC-CccccccEEE
Q psy12162 157 TYVLDKFVEQDYSLVYFHYGLTSKNKPSLSWLWSAYRAFDRKYKKNLKALYLVHPTGFIRVVLQIFKAV-PVDFRTTLDL 235 (242)
Q Consensus 157 l~tLd~~v~~~YvlVyfhtg~s~~n~P~lswLk~~y~~L~r~ykKNLkalYIVHPt~~~K~~~~ll~pF-S~Kf~~KI~y 235 (242)
++++|++|+++|++||||.|+.+.|+|+++|++++|..++|+|+||||++|||||+||+|++|.+++|| |.||.+||+|
T Consensus 120 v~~id~~Ve~DYt~vYfh~gl~s~nkp~l~~l~~aYke~Dr~~~KNlKalYvvHptwfikvi~n~~kplIS~KF~rKi~Y 199 (467)
T KOG4406|consen 120 VYTIDKYVENDYTLVYFHHGLPSDNKPYLQLLFDAYKELDRNFKKNLKALYVVHPTWFIKVIWNLFKPLISLKFTRKIIY 199 (467)
T ss_pred HHHHHHHHhccceeeehhcCCcccccchHHHHHHHHHHHHHHHhhhhhheEEecHHHHHHHHHHHHhhhcchhhhceeEE
Confidence 999999999999999999999999999999999999999999999999999999999999999999999 9999999999
Q ss_pred EeC
Q psy12162 236 VVV 238 (242)
Q Consensus 236 V~~ 238 (242)
++-
T Consensus 200 ~n~ 202 (467)
T KOG4406|consen 200 FNS 202 (467)
T ss_pred eeh
Confidence 963
No 2
>PF13716 CRAL_TRIO_2: Divergent CRAL/TRIO domain; PDB: 2D4Q_B 3PG7_B 2E2X_B 3P7Z_B 3PEG_A.
Probab=99.94 E-value=4.3e-27 Score=192.00 Aligned_cols=120 Identities=37% Similarity=0.607 Sum_probs=97.8
Q ss_pred CCEEEeCCCCCCCeEEEEEcccCCCCCccchhhHHHHHHHHh-hhhcCCCeEEEEEecCCCCCCCCcHHHHHHHHHHhhH
Q psy12162 119 GIVDVVGDDMFGRKLIVLSACKLPSNKELDHGRLLGYLTYVL-DKFVEQDYSLVYFHYGLTSKNKPSLSWLWSAYRAFDR 197 (242)
Q Consensus 119 gi~Y~~G~Dk~GRPVVVi~a~~lP~~~~~D~e~ll~yll~tL-d~~v~~~YvlVyfhtg~s~~n~P~lswLk~~y~~L~r 197 (242)
.++|.+|+|++||||+++.+++++. ..|+++++.|++.+| +.+++++|+|||++++++..+.|+++|++++|+.|++
T Consensus 2 ~~~~~gG~d~~g~pV~~~~~~~~~~--~~~~~~ll~yl~~~l~~~~~~~~f~vVid~~~~~~~~~~~~~~l~~~~~~l~~ 79 (149)
T PF13716_consen 2 IFFYPGGRDREGRPVVVFIASRLPS--SDDLERLLLYLLSTLSEEVVDKPFSVVIDHTGFSRSSEPSLSWLKQLYKLLPR 79 (149)
T ss_dssp SE-EEEEEBTTS-EEEEEEGGG-C---TTHHHHHHHHHHHHH-TTTTTS-EEEEEE-TT--GGG---HHHHHHTTTSS-H
T ss_pred eEEEecccCCCcCEEEEEECCcCcc--hhhHHHHHHHHHHhhhHHhcCCCEEEEEEcCCCccccCCchHHHHHHHHHHHH
Confidence 4578999999999999999999943 469999999999999 8889999999999999999999999999999999999
Q ss_pred HHHhccceEEEEcCChHHHHHH-HHhccC-Cccc-cccEEEEeCCC
Q psy12162 198 KYKKNLKALYLVHPTGFIRVVL-QIFKAV-PVDF-RTTLDLVVVPE 240 (242)
Q Consensus 198 ~ykKNLkalYIVHPt~~~K~~~-~ll~pF-S~Kf-~~KI~yV~~~e 240 (242)
.+++||+++|||||++|+|.++ .+.+++ +.|+ ++||+|++..+
T Consensus 80 ~~~~nl~~vyiv~p~~~~k~~~~~~~~~~~~~~~~~~kv~~~~sl~ 125 (149)
T PF13716_consen 80 KYKKNLKKVYIVHPNWFLKKILATLLRPFVSSKFWKKKVVYVSSLS 125 (149)
T ss_dssp HHHHTEEEEEEES--HHHHHHHHHTTTTGGGGTT--TTEEEESSTC
T ss_pred HHhhceEEEEEECCCHHHHHHHHHHhcccccccccceEEEEECCHH
Confidence 9999999999999999999999 677788 9999 99999998764
No 3
>smart00516 SEC14 Domain in homologues of a S. cerevisiae phosphatidylinositol transfer protein (Sec14p). Domain in homologues of a S. cerevisiae phosphatidylinositol transfer protein (Sec14p) and in RhoGAPs, RhoGEFs and the RasGAP, neurofibromin (NF1). Lipid-binding domain. The SEC14 domain of Dbl is known to associate with G protein beta/gamma subunits.
Probab=99.80 E-value=4.4e-19 Score=143.84 Aligned_cols=112 Identities=27% Similarity=0.498 Sum_probs=103.1
Q ss_pred CCCCCCCeEEEEEcccCCCCCccchhhHHHHHHHHhhhhcC--------CCeEEEEEecCCCCCCCCcHHHHHHHHHHhh
Q psy12162 125 GDDMFGRKLIVLSACKLPSNKELDHGRLLGYLTYVLDKFVE--------QDYSLVYFHYGLTSKNKPSLSWLWSAYRAFD 196 (242)
Q Consensus 125 G~Dk~GRPVVVi~a~~lP~~~~~D~e~ll~yll~tLd~~v~--------~~YvlVyfhtg~s~~n~P~lswLk~~y~~L~ 196 (242)
|.|++||||+++.+++++.. ..+.+.+++|++..+|.... ..+++|++.+|++..+ ++++|++++++.++
T Consensus 14 g~D~~GrpV~~~~~~~~~~~-~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~i~D~~~~~~~~-~~~~~lk~~~~~~~ 91 (158)
T smart00516 14 GYDKDGRPVLIFRAGRFDLK-SVTLEELLRYLVYVLEKILQREKKTGGIEGFTVIFDLKGLSMSN-PDLSVLRKILKILQ 91 (158)
T ss_pred CCCCCcCEEEEEeccccccC-cCCHHHHHHHHHHHHHHHHHHHhcCCCeeeEEEEEECCCCCccc-ccHHHHHHHHHHHH
Confidence 79999999999999998754 68999999999999987653 4789999999988766 78999999999999
Q ss_pred HHHHhccceEEEEcCChHHHHHHHHhccC-CccccccEEEEeC
Q psy12162 197 RKYKKNLKALYLVHPTGFIRVVLQIFKAV-PVDFRTTLDLVVV 238 (242)
Q Consensus 197 r~ykKNLkalYIVHPt~~~K~~~~ll~pF-S~Kf~~KI~yV~~ 238 (242)
..|++||+++|||||+++++++|+++++| ++++++||+++++
T Consensus 92 ~~yp~~l~~i~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~ 134 (158)
T smart00516 92 DHYPERLGKVLIINPPWFFRVLWKIIKPFLDEKTREKIRFVGN 134 (158)
T ss_pred HHhHHHhCeEEEECCCHHHHHHHHHHHhhcChhhhccEEEeCC
Confidence 99999999999999999999999999999 9999999999986
No 4
>cd00170 SEC14 Sec14p-like lipid-binding domain. Found in secretory proteins, such as S. cerevisiae phosphatidylinositol transfer protein (Sec14p), and in lipid regulated proteins such as RhoGAPs, RhoGEFs and neurofibromin (NF1). SEC14 domain of Dbl is known to associate with G protein beta/gamma subunits.
Probab=99.78 E-value=1.3e-18 Score=138.26 Aligned_cols=120 Identities=25% Similarity=0.416 Sum_probs=104.2
Q ss_pred CCEEEeCCCCCCCeEEEEEcccCCCCCccchhhHHHHHHHHhhhhcC------CCeEEEEEecCCCCCCCC-cHHHHHHH
Q psy12162 119 GIVDVVGDDMFGRKLIVLSACKLPSNKELDHGRLLGYLTYVLDKFVE------QDYSLVYFHYGLTSKNKP-SLSWLWSA 191 (242)
Q Consensus 119 gi~Y~~G~Dk~GRPVVVi~a~~lP~~~~~D~e~ll~yll~tLd~~v~------~~YvlVyfhtg~s~~n~P-~lswLk~~ 191 (242)
++.|..|.|++||||+++..++....+..+.+.+++|.+..+|.... ..+++|++.+|++..+.. ..+|++++
T Consensus 9 ~~~~~~~~D~~gr~V~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~i~D~~~~~~~~~~~~~~~~k~~ 88 (157)
T cd00170 9 KVGYLGGRDKEGRPVLIIRAGNKDLSKSLDSEELLRYLVYTLEKLLQEDDEQVEGFVVIIDLKGLSLSHLLPDPSLLKKI 88 (157)
T ss_pred cccccCCCCCCcCEEEEEecCCcchhhcCCHHHHHHHHHHHHHHHHhhhhhcccceEEEEECCCCChhccchhHHHHHHH
Confidence 55666667999999999988844333356668899999999987664 378999999999877664 78999999
Q ss_pred HHHhhHHHHhccceEEEEcCChHHHHHHHHhccC-CccccccEEEEeC
Q psy12162 192 YRAFDRKYKKNLKALYLVHPTGFIRVVLQIFKAV-PVDFRTTLDLVVV 238 (242)
Q Consensus 192 y~~L~r~ykKNLkalYIVHPt~~~K~~~~ll~pF-S~Kf~~KI~yV~~ 238 (242)
++.++..|++||+++|||||+++++++|+++++| ++++++||+++++
T Consensus 89 ~~~~~~~yp~~l~~v~ivn~p~~~~~~~~~~~~~l~~~~~~ki~~~~~ 136 (157)
T cd00170 89 LKILQDNYPERLKAVYIINPPWFFKVLWKIVKPFLSEKTRKKIVFLGS 136 (157)
T ss_pred HHHHHHhChHhhCeEEEECCCHhHHHHHHHHHHhcCHhhhhhEEEecC
Confidence 9999999999999999999999999999999999 9999999999986
No 5
>KOG1470|consensus
Probab=99.69 E-value=1.5e-16 Score=147.04 Aligned_cols=125 Identities=18% Similarity=0.282 Sum_probs=113.2
Q ss_pred hHHHHhcCCEEEeCCCCCCCeEEEEEcccCCCCCccchhhHHHHHHHHhhhhc------CCCeEEEEEecCCCCCCCCcH
Q psy12162 112 FADVASYGIVDVVGDDMFGRKLIVLSACKLPSNKELDHGRLLGYLTYVLDKFV------EQDYSLVYFHYGLTSKNKPSL 185 (242)
Q Consensus 112 f~di~~~gi~Y~~G~Dk~GRPVVVi~a~~lP~~~~~D~e~ll~yll~tLd~~v------~~~YvlVyfhtg~s~~n~P~l 185 (242)
+..-.++|..|.+|.|+.||||+|+.++.=.. +..+.+.+.++++++|+.++ +++++++++.+|+++.| +++
T Consensus 91 v~~e~~tGK~yi~G~D~~gRPVl~~~~~~~~q-n~~t~~~~~r~~Vy~mE~Ai~~lp~~qe~~~~L~D~~~fs~sN-~d~ 168 (324)
T KOG1470|consen 91 VAAELETGKAYILGHDKDGRPVLYLRPRPHRQ-NTKTQKELERLLVYTLENAILFLPPGQEQFVWLFDLTGFSMSN-PDI 168 (324)
T ss_pred HHHHhhcCcEEEecccCCCCeEEEEecCCCCC-CCCCHHHHHHHHHHHHHHHHHhCCCCcceEEEEEecccCcccC-CCc
Confidence 66777899999999999999999998874333 36788999999999999875 36899999999999885 578
Q ss_pred HHHHHHHHHhhHHHHhccceEEEEcCChHHHHHHHHhccC-CccccccEEEEeC
Q psy12162 186 SWLWSAYRAFDRKYKKNLKALYLVHPTGFIRVVLQIFKAV-PVDFRTTLDLVVV 238 (242)
Q Consensus 186 swLk~~y~~L~r~ykKNLkalYIVHPt~~~K~~~~ll~pF-S~Kf~~KI~yV~~ 238 (242)
+.++-+..+|+.+|+++|..++|+||+|++..+|++++|| .+++..||+|+..
T Consensus 169 ~~~k~~~~~lq~hYPErLg~a~l~~~P~iF~~~wkiikpflDp~t~~Kv~F~~~ 222 (324)
T KOG1470|consen 169 KFLKELLHILQDHYPERLGKALLVNAPWIFQPFWKIIKPFLDPKTASKVKFVEP 222 (324)
T ss_pred HHHHHHHHHHHHhChHHhhhhhhcCChHHHHHHHHHhhhccChhhhceeEEecC
Confidence 9999999999999999999999999999999999999999 9999999999976
No 6
>PF00650 CRAL_TRIO: CRAL/TRIO domain; InterPro: IPR001251 This entry defines the C-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1OLM_E 1O6U_E 3Q8G_A 3B7Q_B 3B7Z_A ....
Probab=99.63 E-value=5.7e-16 Score=125.67 Aligned_cols=125 Identities=17% Similarity=0.329 Sum_probs=97.0
Q ss_pred HHHhcCCEEEeCCCCCCCeEEEEEcccCCCCCccchhhHHHHHHHHhhhhc--------CCCeEEEEEecCCCCCCCCc-
Q psy12162 114 DVASYGIVDVVGDDMFGRKLIVLSACKLPSNKELDHGRLLGYLTYVLDKFV--------EQDYSLVYFHYGLTSKNKPS- 184 (242)
Q Consensus 114 di~~~gi~Y~~G~Dk~GRPVVVi~a~~lP~~~~~D~e~ll~yll~tLd~~v--------~~~YvlVyfhtg~s~~n~P~- 184 (242)
++.+.++.|..|.|+.||||+++..+++... ....+.++++++..+|... ...+++|++.+|++..+.+.
T Consensus 2 ~~~~~~~~~~~g~D~~gr~v~~~~~~~~~~~-~~~~~~~~~~~~~~~E~~~~~~~~~~~~~~~~~iiD~~g~~~~~~~~~ 80 (159)
T PF00650_consen 2 EILKSGPFYLHGRDKDGRPVIYIRLGRFDPK-KFSPEDVIRFFVYLLERMLKRMPEGGQVEGIVVIIDLSGFSLSNFDWW 80 (159)
T ss_dssp HHHTTSCEEEEEE-TTS-EEEEEEGTT--HH-TS-HHHHHHHHHHHHHHHHHTHHHTSHHH-EEEEEE-TT--HHHHHCH
T ss_pred HHHCCeeEEECCCCCCcCEEEEEEcccCCCC-cCCHHHHHHHHHHHHHHHHhhhcccccceeEEEEEeCCCceEeccccc
Confidence 5778999999999999999999988877653 4556677777777776643 14789999999998766542
Q ss_pred -HHHHHHHHHHhhHHHHhccceEEEEcCChHHHHHHHHhccC-CccccccEEEEeCC
Q psy12162 185 -LSWLWSAYRAFDRKYKKNLKALYLVHPTGFIRVVLQIFKAV-PVDFRTTLDLVVVP 239 (242)
Q Consensus 185 -lswLk~~y~~L~r~ykKNLkalYIVHPt~~~K~~~~ll~pF-S~Kf~~KI~yV~~~ 239 (242)
.+.++.+.+.++..|+.+|+++||+|++++++++|+++++| ++++.+||+++...
T Consensus 81 ~~~~~k~~~~~~~~~yP~rl~~i~iin~p~~~~~~~~~~~~~l~~~~~~ki~~~~~~ 137 (159)
T PF00650_consen 81 PISFLKKIIQLLQDHYPERLGKIYIINAPWFFRVLWKIVKPFLSPKTREKIVFHSGS 137 (159)
T ss_dssp HHHHHHHHHHHHHHHSTTTEEEEEEES--TTHHHHHHHHGGGS-HHHHCTEEEECTT
T ss_pred hhhhhhhhhhhhcccCCccceeEEEEecChhhhhhHhHHHhhcCHhhheeEEEECCc
Confidence 88999999999999999999999999999999999999999 99999999999553
No 7
>KOG1471|consensus
Probab=98.89 E-value=7.6e-09 Score=94.19 Aligned_cols=123 Identities=14% Similarity=0.177 Sum_probs=90.2
Q ss_pred hHHHHhcCCEEEeCCCCCCCeEEEEEcccCCCCC---ccchhhHHHHHHHHhhh------------h--cCCCeEEEEEe
Q psy12162 112 FADVASYGIVDVVGDDMFGRKLIVLSACKLPSNK---ELDHGRLLGYLTYVLDK------------F--VEQDYSLVYFH 174 (242)
Q Consensus 112 f~di~~~gi~Y~~G~Dk~GRPVVVi~a~~lP~~~---~~D~e~ll~yll~tLd~------------~--v~~~YvlVyfh 174 (242)
..++.+..-....|+|++|+||++-.....-... .......++|-+..++. . ....++.|++.
T Consensus 88 ~~~~~~~~~~~~~~~~~~g~~v~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~e~~~~~~~e~~~~~~~~~~~g~~~I~Dl 167 (317)
T KOG1471|consen 88 DDELLKYYPQGLHGVDKEGRPVYIERLGKIDPKGLLKRTGSLDYLKYHFKEFEKVFKLVLELELKTGERQISGIVTIFDL 167 (317)
T ss_pred chhhhhhccccccccCCCCCEEEEeccCCCCcccceeeccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcceeEEEEEC
Confidence 3344443334567999999999998555442111 11112222222222211 1 23567889999
Q ss_pred cCCCCCCC--CcHHHHHHHHHHhhHHHHhccceEEEEcCChHHHHHHHHhccC-CccccccEE
Q psy12162 175 YGLTSKNK--PSLSWLWSAYRAFDRKYKKNLKALYLVHPTGFIRVVLQIFKAV-PVDFRTTLD 234 (242)
Q Consensus 175 tg~s~~n~--P~lswLk~~y~~L~r~ykKNLkalYIVHPt~~~K~~~~ll~pF-S~Kf~~KI~ 234 (242)
.|++..+. +..+.++++...++.+|+++|+++||||+++++.++|++++|| ++|+.+||+
T Consensus 168 ~G~~~~~~~~~~~~~~~~~~~~~q~~yPe~l~~~~iIN~P~~f~~~~~~ikpfL~~kt~~ki~ 230 (317)
T KOG1471|consen 168 KGVSLSHLLKPAPTLLKKILKILQDNYPERLKRIHIINAPTIFSALWKVVKPFLDEKTRKKIH 230 (317)
T ss_pred CCCcchhHHHHHHHHHHHHHHHHHHhCHHhhceEEEEcCchhHHHHHHHHhccCCHHHHhhhe
Confidence 99987766 8899999999999999999999999999999999999999999 999999999
No 8
>KOG1826|consensus
Probab=95.57 E-value=0.0038 Score=68.78 Aligned_cols=133 Identities=14% Similarity=0.066 Sum_probs=108.0
Q ss_pred ccccccChHHHHhcCCEEEeCCCCCCCeEEEEEcccCCCCCccchhhHHHHHHHHhhhhcCCCeEEEEEecCCCCCCCCc
Q psy12162 105 ELKDEEDFADVASYGIVDVVGDDMFGRKLIVLSACKLPSNKELDHGRLLGYLTYVLDKFVEQDYSLVYFHYGLTSKNKPS 184 (242)
Q Consensus 105 ~~a~~edf~di~~~gi~Y~~G~Dk~GRPVVVi~a~~lP~~~~~D~e~ll~yll~tLd~~v~~~YvlVyfhtg~s~~n~P~ 184 (242)
.+.+.|.|.-++...++|+.| .+.|.|+.++++++.--+ +.+-+.|+.++..++.+.+.-++.++.+-+....++.--
T Consensus 1548 ~lheKe~fitL~~~i~~~~~G-sen~~k~~~lvs~r~fl~-~~s~~il~~l~~L~~kp~~hf~~evreD~T~~~~d~sfl 1625 (2724)
T KOG1826|consen 1548 HLHEKEEFITLAKVIQFYANG-SENGLKNFYLVSRRKFLK-ECSDDILIFLVELCLKPKVHFPGEVREDPTPIEFDYSFL 1625 (2724)
T ss_pred HHhhhhHHHHHHHHHHHHHhh-hhccCcchhhHhHHHHHh-hcCcHHHHHHHHHHcCccccCcceeeecCCcCCccHHHH
Confidence 556779999999999999999 999999999999986553 566667888888889999999999998887766556555
Q ss_pred HHHHHH-HHHHhhHHHHhccceEEEEcCChHHHHHHHHhccC--CccccccEEEEeCC
Q psy12162 185 LSWLWS-AYRAFDRKYKKNLKALYLVHPTGFIRVVLQIFKAV--PVDFRTTLDLVVVP 239 (242)
Q Consensus 185 lswLk~-~y~~L~r~ykKNLkalYIVHPt~~~K~~~~ll~pF--S~Kf~~KI~yV~~~ 239 (242)
.+++.. ++.+.+.-..+|-.++|+++++.|+|...++.-.. .-|-.++..|.+-|
T Consensus 1626 tsf~~~~~f~vr~~va~e~~~a~~di~~n~~lK~~~~l~driL~~L~~~k~~~f~e~P 1683 (2724)
T KOG1826|consen 1626 TSFLYLKWFKVRPHVANENKHAVGDINCNSFLKETTKLHDRILGQLGQPKMEFFNEIP 1683 (2724)
T ss_pred HHHHhhhheeechhhhhhcccccccccchHHHHHHHHHHHHHHhhcCCCceeehhcCC
Confidence 555655 77777878899999999999999999998877776 45666777766544
No 9
>PF12496 BNIP2: Bcl2-/adenovirus E1B nineteen kDa-interacting protein 2; InterPro: IPR022181 This domain family is found in eukaryotes, and is typically between 119 and 133 amino acids in length. There is a conserved HGGY sequence motif. This family is Bcl2-/adenovirus E1B nineteen kDa-interacting protein 2. It interacts with pro- and anti- apoptotic molecules in the cell.
Probab=85.61 E-value=0.61 Score=38.38 Aligned_cols=24 Identities=38% Similarity=0.536 Sum_probs=18.0
Q ss_pred CccCCCCCC----CCCcccchHHhhccC
Q psy12162 66 FDYLESPVS----DGTIEENFEEELINA 89 (242)
Q Consensus 66 ~~~~e~~~~----~~~~~~~~e~~l~~~ 89 (242)
+|.||||++ |...|.+||+.+..+
T Consensus 40 vDdleTp~dsd~ld~~~e~ewedd~p~~ 67 (127)
T PF12496_consen 40 VDDLETPSDSDSLDSPHEFEWEDDLPRA 67 (127)
T ss_pred cccccCCCccccccCCCCcccccccccc
Confidence 477899886 333378899999876
No 10
>PF03721 UDPG_MGDP_dh_N: UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; InterPro: IPR001732 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the N-terminal NAD(+)-binding domain. Structural studies indicate that this domain forms an alpha-beta structure containing the six-stranded parallel beta sheet characteristic of the dinucleotide binding Rossman fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3OJO_A 3OJL_A 1MV8_B 1MUU_A 1MFZ_C 3GG2_D 1DLJ_A 1DLI_A 3G79_B 2Y0E_D ....
Probab=78.82 E-value=0.98 Score=38.74 Aligned_cols=121 Identities=21% Similarity=0.233 Sum_probs=76.2
Q ss_pred HHhcCCEEEeCCCCCCCeEEEEEcccCCCCCccchhhHHHHHHH--Hh------hh-hcCCCeEEEEEecCCCCCCCCcH
Q psy12162 115 VASYGIVDVVGDDMFGRKLIVLSACKLPSNKELDHGRLLGYLTY--VL------DK-FVEQDYSLVYFHYGLTSKNKPSL 185 (242)
Q Consensus 115 i~~~gi~Y~~G~Dk~GRPVVVi~a~~lP~~~~~D~e~ll~yll~--tL------d~-~v~~~YvlVyfhtg~s~~n~P~l 185 (242)
++..|. .+.|+|....-|=-+.....|-. +..++.++.-.+. .| +. +.+.++++|..-|-....+.|.+
T Consensus 19 lA~~G~-~V~g~D~~~~~v~~l~~g~~p~~-E~~l~~ll~~~~~~~~l~~t~~~~~ai~~adv~~I~VpTP~~~~~~~Dl 96 (185)
T PF03721_consen 19 LAEKGH-QVIGVDIDEEKVEALNNGELPIY-EPGLDELLKENVSAGRLRATTDIEEAIKDADVVFICVPTPSDEDGSPDL 96 (185)
T ss_dssp HHHTTS-EEEEE-S-HHHHHHHHTTSSSS--CTTHHHHHHHHHHTTSEEEESEHHHHHHH-SEEEE----EBETTTSBET
T ss_pred HHhCCC-EEEEEeCChHHHHHHhhcccccc-ccchhhhhccccccccchhhhhhhhhhhccceEEEecCCCccccCCccH
Confidence 445553 36688876665555666666653 6777777776662 12 22 33478999998888878888999
Q ss_pred HHHHHHHHHhhHHHHhccceEEEEcCChHHHHHHHHhccC----CccccccEEEEeCCC
Q psy12162 186 SWLWSAYRAFDRKYKKNLKALYLVHPTGFIRVVLQIFKAV----PVDFRTTLDLVVVPE 240 (242)
Q Consensus 186 swLk~~y~~L~r~ykKNLkalYIVHPt~~~K~~~~ll~pF----S~Kf~~KI~yV~~~e 240 (242)
+++.++.+.+....++ .+++|+-.|...-++=.+++|. +.+- ..+..+..||
T Consensus 97 s~v~~a~~~i~~~l~~--~~lvV~~STvppGtt~~~~~~ile~~~~~~-~~f~la~~PE 152 (185)
T PF03721_consen 97 SYVESAIESIAPVLRP--GDLVVIESTVPPGTTEELLKPILEKRSGKK-EDFHLAYSPE 152 (185)
T ss_dssp HHHHHHHHHHHHHHCS--CEEEEESSSSSTTHHHHHHHHHHHHHCCTT-TCEEEEE---
T ss_pred HHHHHHHHHHHHHHhh--cceEEEccEEEEeeehHhhhhhhhhhcccc-cCCeEEECCC
Confidence 9999999999988877 8899998776665555555554 2222 6777777776
No 11
>PF07872 DUF1659: Protein of unknown function (DUF1659); InterPro: IPR012454 This family consists of hypothetical bacterial proteins of unknown function
Probab=49.25 E-value=10 Score=25.59 Aligned_cols=21 Identities=19% Similarity=0.175 Sum_probs=17.2
Q ss_pred hcCCEEEeCCCCCCCeEEEEE
Q psy12162 117 SYGIVDVVGDDMFGRKLIVLS 137 (242)
Q Consensus 117 ~~gi~Y~~G~Dk~GRPVVVi~ 137 (242)
.+.+-|+.|+|..|.||+--.
T Consensus 7 ~L~l~~~~G~d~~Gkpi~k~k 27 (47)
T PF07872_consen 7 SLRLKYQTGVDENGKPIFKTK 27 (47)
T ss_pred EEEEEEEcccCCCCCEEEEee
Confidence 356778899999999998763
No 12
>PF11385 DUF3189: Protein of unknown function (DUF3189); InterPro: IPR021525 This family of proteins with unknown function appears to be restricted to Firmicutes
Probab=46.05 E-value=82 Score=26.40 Aligned_cols=26 Identities=19% Similarity=0.340 Sum_probs=22.4
Q ss_pred hcCCEEEeCCCCCCCeEEEEEcccCC
Q psy12162 117 SYGIVDVVGDDMFGRKLIVLSACKLP 142 (242)
Q Consensus 117 ~~gi~Y~~G~Dk~GRPVVVi~a~~lP 142 (242)
..|-++..|.|..|++|.++..+...
T Consensus 48 d~G~l~y~G~De~gn~VY~lG~~~~~ 73 (148)
T PF11385_consen 48 DIGRLIYMGTDEYGNEVYILGRKNNG 73 (148)
T ss_pred cCceEEEEEEcCCCCEEEEEecCChH
Confidence 67878888999999999999887764
No 13
>PF10928 DUF2810: Protein of unknown function (DUF2810); InterPro: IPR021230 This is a bacterial family of uncharacterised proteins. This entry contains YibL (P0ADK8 from SWISSPROT), which comigrates with the mature 50S ribosome subunit. It either represents a novel ribosome-associated protein or it is associated with a different oligomeric complex that comigrates with ribosomal particles [].; PDB: 2LF0_A.
Probab=37.50 E-value=20 Score=25.18 Aligned_cols=19 Identities=37% Similarity=0.614 Sum_probs=13.8
Q ss_pred HHHHhccceEEEEcCChHH
Q psy12162 197 RKYKKNLKALYLVHPTGFI 215 (242)
Q Consensus 197 r~ykKNLkalYIVHPt~~~ 215 (242)
-+.+|.++.+.||||-.-+
T Consensus 20 GkLKKsVrGLvvVHPmTal 38 (54)
T PF10928_consen 20 GKLKKSVRGLVVVHPMTAL 38 (54)
T ss_dssp HHHHHHTTS-EEE-SSSHH
T ss_pred HHHHhhhceeEEEechHHH
Confidence 4689999999999996543
No 14
>COG4822 CbiK Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]
Probab=36.92 E-value=75 Score=28.95 Aligned_cols=67 Identities=12% Similarity=0.148 Sum_probs=45.0
Q ss_pred CCCCeEEEEEcccCCCCCccchhhHHHHHHHHhhhhcCCCeEEEEEecCCCCCCCCcHHHHHHHHHHhhHHHHhc-cceE
Q psy12162 128 MFGRKLIVLSACKLPSNKELDHGRLLGYLTYVLDKFVEQDYSLVYFHYGLTSKNKPSLSWLWSAYRAFDRKYKKN-LKAL 206 (242)
Q Consensus 128 k~GRPVVVi~a~~lP~~~~~D~e~ll~yll~tLd~~v~~~YvlVyfhtg~s~~n~P~lswLk~~y~~L~r~ykKN-Lkal 206 (242)
+.|||++++. -||++++.-+...+.++-+..-+|..+|+ ++ .-...+|..|+.-++++ -..+
T Consensus 108 kig~PlLy~k---------~DYe~~v~aik~~~ppl~k~e~~vlmgHG-t~-------h~s~~~YacLd~~~~~~~f~~v 170 (265)
T COG4822 108 KIGRPLLYYK---------NDYEICVEAIKDQIPPLNKDEILVLMGHG-TD-------HHSNAAYACLDHVLDEYGFDNV 170 (265)
T ss_pred ecCCceeech---------hhHHHHHHHHHHhcCCcCcCeEEEEEecC-CC-------ccHHHHHHHHHHHHHhcCCCce
Confidence 5789998865 48888887776667666666766666774 32 12336888888777765 3456
Q ss_pred EEEcC
Q psy12162 207 YLVHP 211 (242)
Q Consensus 207 YIVHP 211 (242)
+|..-
T Consensus 171 ~v~~v 175 (265)
T COG4822 171 FVAAV 175 (265)
T ss_pred EEEEe
Confidence 66553
No 15
>PF08412 Ion_trans_N: Ion transport protein N-terminal; InterPro: IPR013621 This domain is found to the N terminus of IPR005821 from INTERPRO in voltage- and cyclic nucleotide-gated K/Na ion channels.
Probab=36.46 E-value=40 Score=25.32 Aligned_cols=43 Identities=21% Similarity=0.225 Sum_probs=26.4
Q ss_pred CCCCcHHHHHHHHHHhhHHHHhccceEEEEcCChHHHHHHHHh
Q psy12162 180 KNKPSLSWLWSAYRAFDRKYKKNLKALYLVHPTGFIRVVLQIF 222 (242)
Q Consensus 180 ~n~P~lswLk~~y~~L~r~ykKNLkalYIVHPt~~~K~~~~ll 222 (242)
.|+-++..++.-..+...+-|..=...+|+||-..+|.+|-++
T Consensus 10 ~nk~sl~~f~S~~ai~~E~~R~~~~~~~IIHP~S~fR~~WD~~ 52 (77)
T PF08412_consen 10 DNKFSLRVFGSKKAIEKEKERQRSSGPWIIHPFSKFRFYWDLI 52 (77)
T ss_pred cCHHHHHHHccHHHHHHHHHHHhcCCCeEEcCCccHHHHHHHH
Confidence 4554555554444443333333224468999999999999865
No 16
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=34.17 E-value=53 Score=22.22 Aligned_cols=23 Identities=26% Similarity=0.257 Sum_probs=17.2
Q ss_pred ChHHHHhcCCEEEeCCCCCCCeEEE
Q psy12162 111 DFADVASYGIVDVVGDDMFGRKLIV 135 (242)
Q Consensus 111 df~di~~~gi~Y~~G~Dk~GRPVVV 135 (242)
-...+.++||-|..+. .|||+|.
T Consensus 20 Q~~~L~~~Gi~~~~~~--~G~p~V~ 42 (47)
T PF13986_consen 20 QIRWLRRNGIPFVVRA--DGRPIVT 42 (47)
T ss_pred HHHHHHHCCCeeEECC--CCCEEee
Confidence 3446788999988655 5899985
No 17
>COG1140 NarY Nitrate reductase beta subunit [Energy production and conversion]
Probab=33.81 E-value=54 Score=32.17 Aligned_cols=51 Identities=24% Similarity=0.534 Sum_probs=30.0
Q ss_pred CCCCCCCCCCCCCCCCCcccccccCCCCccceeeeCCCCCCccCCCCCC---CCCcc-----cchHHhhccCCC
Q psy12162 26 YPSLSDFHDYEPNLEFDDSELQASLNGDAEEIKVFDTPVPFDYLESPVS---DGTIE-----ENFEEELINAPM 91 (242)
Q Consensus 26 ~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~---~~~~~-----~~~e~~l~~~~~ 91 (242)
.|++.|| ||| +.||=.-|+.++ .+. ..+ .-+|.| ...|+ -||||.|++...
T Consensus 94 ~P~idDY--YEP-~tydYe~L~sap--~~~------~qP----~ArP~S~itG~~m~kiewGpNweddLaG~~~ 152 (513)
T COG1140 94 LPGIDDY--YEP-FTYDYENLHSAP--EGK------HQP----TARPRSLITGERMDKIEWGPNWEDDLAGEFE 152 (513)
T ss_pred CCCcccc--cCc-ccccHHhhccCc--ccc------CCC----CcCchhhccCCcchhhccCCChhhhccCCcc
Confidence 5777777 676 678877787766 223 111 122332 22222 699999997643
No 18
>PF06057 VirJ: Bacterial virulence protein (VirJ); InterPro: IPR010333 This entry contains several bacterial VirJ virulence proteins. VirJ is thought to be involved in the type IV secretion system. It is thought that the substrate proteins localised to the periplasm may associate with the pilus in a manner that is mediated by VirJ, and suggest a two-step process for type IV secretion in Agrobacterium [].
Probab=31.44 E-value=1.4e+02 Score=26.35 Aligned_cols=77 Identities=12% Similarity=0.199 Sum_probs=49.2
Q ss_pred CCCCeEEEEEcccCCCCCccchhhHHHHHHHHhhhhc----CCCeEEEEEecCCCCCCCCcHHHHHHHHHHhhHHHHhcc
Q psy12162 128 MFGRKLIVLSACKLPSNKELDHGRLLGYLTYVLDKFV----EQDYSLVYFHYGLTSKNKPSLSWLWSAYRAFDRKYKKNL 203 (242)
Q Consensus 128 k~GRPVVVi~a~~lP~~~~~D~e~ll~yll~tLd~~v----~~~YvlVyfhtg~s~~n~P~lswLk~~y~~L~r~ykKNL 203 (242)
+.|-|||-+.+.++--+ ..+.+.+-.-+-..++.+. .++++||=..-| ...+--+|..|+...|+++
T Consensus 27 ~~G~~VvGvdsl~Yfw~-~rtP~~~a~Dl~~~i~~y~~~w~~~~vvLiGYSFG--------ADvlP~~~nrLp~~~r~~v 97 (192)
T PF06057_consen 27 KQGVPVVGVDSLRYFWS-ERTPEQTAADLARIIRHYRARWGRKRVVLIGYSFG--------ADVLPFIYNRLPAALRARV 97 (192)
T ss_pred HCCCeEEEechHHHHhh-hCCHHHHHHHHHHHHHHHHHHhCCceEEEEeecCC--------chhHHHHHhhCCHHHHhhe
Confidence 45678888866554332 4555544444444444433 457777633333 3556678999999999999
Q ss_pred ceEEEEcCCh
Q psy12162 204 KALYLVHPTG 213 (242)
Q Consensus 204 kalYIVHPt~ 213 (242)
+.+.++-|..
T Consensus 98 ~~v~Ll~p~~ 107 (192)
T PF06057_consen 98 AQVVLLSPST 107 (192)
T ss_pred eEEEEeccCC
Confidence 9998887653
No 19
>TIGR01660 narH nitrate reductase, beta subunit. The Nitrate reductase enzyme complex allows bacteria to use nitrate as an electron acceptor during anaerobic growth. The enzyme complex consists of a tetramer that has an alpha, beta and 2 gamma subunits. The alpha and beta subunits have catalytic activity and the gamma subunits attach the enzyme to the membrane and is a b-type cytochrome that receives electrons from the quinone pool and transfers them to the beta subunit. This model is specific for the beta subunit for nitrate reductase I (narH) and nitrate reductase II (narY) for gram positive and gram negative bacteria.A few thermophiles and archaea also match the model.The seed members used in this model are all experimentally characterized and include the following: NarH and NarY, both E.Coli, sequences from B. Subtilis, Pseudomonas fluorescens, Paracoccus denitrificans, and Halomonas halodenitrificans. This model also matches PFAM pfam00037 for 4Fe-4S binding domain.
Probab=29.00 E-value=74 Score=31.82 Aligned_cols=23 Identities=39% Similarity=0.892 Sum_probs=18.1
Q ss_pred CCCCCCCCCCCCCCCCCcccccccCC
Q psy12162 26 YPSLSDFHDYEPNLEFDDSELQASLN 51 (242)
Q Consensus 26 ~~~~~~~~~~~~~~~~~d~~~~~~~~ 51 (242)
.|++.|| ||| ..||=..|..++.
T Consensus 94 ~p~~~dy--yep-~ty~y~~l~~a~~ 116 (492)
T TIGR01660 94 LPSIDDY--YEP-FDFDYQHLHTAPE 116 (492)
T ss_pred CCCcccc--cCC-cccchhhhccCcc
Confidence 5888888 677 5899899988663
No 20
>PF09949 DUF2183: Uncharacterized conserved protein (DUF2183); InterPro: IPR019236 This domain, found in various bacterial and fungal proteins, has no known function.
Probab=28.33 E-value=1.1e+02 Score=23.89 Aligned_cols=44 Identities=18% Similarity=0.372 Sum_probs=34.0
Q ss_pred HHHHhhhhcCCCeEEEEEecCCCCCCCCcHHHHHHHHHHhhHHHHhccceEEEE
Q psy12162 156 LTYVLDKFVEQDYSLVYFHYGLTSKNKPSLSWLWSAYRAFDRKYKKNLKALYLV 209 (242)
Q Consensus 156 ll~tLd~~v~~~YvlVyfhtg~s~~n~P~lswLk~~y~~L~r~ykKNLkalYIV 209 (242)
+...+..+-+.+|++|=+.+. ..+ .+|..+.++|+.+++++||=
T Consensus 55 i~~i~~~fP~~kfiLIGDsgq-----~Dp-----eiY~~ia~~~P~~i~ai~IR 98 (100)
T PF09949_consen 55 IERILRDFPERKFILIGDSGQ-----HDP-----EIYAEIARRFPGRILAIYIR 98 (100)
T ss_pred HHHHHHHCCCCcEEEEeeCCC-----cCH-----HHHHHHHHHCCCCEEEEEEE
Confidence 344456677889999977753 222 78999999999999999984
No 21
>PF04079 DUF387: Putative transcriptional regulators (Ypuh-like); InterPro: IPR005234 This family represents ScpB, which along with ScpA (IPR003768 from INTERPRO) interacts with SMC in vivo forming a complex that is required for chromosome condensation and segregation [, ]. The SMC-Scp complex appears to be similar to the MukB-MukE-Muk-F complex in Escherichia coli [], where MukB (IPR007406 from INTERPRO) is the homologue of SMC. ScpA and ScpB have little sequence similarity to MukE (IPR007385 from INTERPRO) or MukF (IPR005582 from INTERPRO), they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. In general scpA and scpB form an operon in most bacterial genomes. Flanking genes are highly variable suggesting that the operon has moved throughout evolution. Bacteria containing an smc gene also contain scpA or scpB but not necessarily both. An exception is found in Deinococcus radiodurans, which contains scpB but neither smc nor scpA. In the archaea the gene order SMC-ScpA is conserved in nearly all species, as is the very short distance between the two genes, indicating co-transcription of the both in different archaeal genera and arguing that interaction of the gene products is not confined to the homologues in Bacillus subtilis. It would seem probable that, in light of all the studies, SMC, ScpA and ScpB proteins or homologues act together in chromosome condensation and segregation in all prokaryotes []. ; GO: 0051304 chromosome separation; PDB: 1T6S_B 2Z99_A.
Probab=26.10 E-value=55 Score=27.64 Aligned_cols=34 Identities=21% Similarity=0.377 Sum_probs=25.4
Q ss_pred cccChHHHHhcCCEEEeCC-CCCCCeEEEEEcccC
Q psy12162 108 DEEDFADVASYGIVDVVGD-DMFGRKLIVLSACKL 141 (242)
Q Consensus 108 ~~edf~di~~~gi~Y~~G~-Dk~GRPVVVi~a~~l 141 (242)
.....+.+.+.|++...|+ |.-|||+++-...+|
T Consensus 110 s~~~i~~L~e~glI~~~gr~~~~Grp~ly~tT~~F 144 (159)
T PF04079_consen 110 SDSVIKTLLERGLIEEVGRKDTPGRPILYGTTDKF 144 (159)
T ss_dssp -HCHHHHHHHTTSEEEEEE-TTTT--EEEEE-HHH
T ss_pred hHHHHHHHHHCCCEEecCcCCCCCCCeEeehhHHH
Confidence 3466788999999999997 678999999987765
No 22
>TIGR00281 segregation and condensation protein B. Shown to be required for chromosome segregation and condensation in B. subtilis.
Probab=24.53 E-value=54 Score=28.51 Aligned_cols=33 Identities=27% Similarity=0.343 Sum_probs=28.0
Q ss_pred ccChHHHHhcCCEEEeCC-CCCCCeEEEEEcccC
Q psy12162 109 EEDFADVASYGIVDVVGD-DMFGRKLIVLSACKL 141 (242)
Q Consensus 109 ~edf~di~~~gi~Y~~G~-Dk~GRPVVVi~a~~l 141 (242)
....+.+...|++...|+ |.-|||+++.....|
T Consensus 116 ~~~l~~L~ergLI~~~Gr~~~~Grp~ly~TT~~F 149 (186)
T TIGR00281 116 YQIVDDLVEKGLVVELGRKDTPGRSFIYETTPKF 149 (186)
T ss_pred HHHHHHHHHCCCeEecCcCCCCCCCeeehhhHHH
Confidence 467788999999999997 688999999877765
No 23
>PF13905 Thioredoxin_8: Thioredoxin-like; PDB: 1FG4_A 1I5G_A 1OC8_B 1O6J_A 1OC9_B 1O81_A 3FKF_A 1O85_A 1O7U_A 1O8W_A ....
Probab=23.95 E-value=45 Score=24.11 Aligned_cols=43 Identities=14% Similarity=0.211 Sum_probs=19.4
Q ss_pred CCeEEEEEcccCCCCCccchhhHHHHHHHHhhhhc-CCCeEEEEEecC
Q psy12162 130 GRKLIVLSACKLPSNKELDHGRLLGYLTYVLDKFV-EQDYSLVYFHYG 176 (242)
Q Consensus 130 GRPVVVi~a~~lP~~~~~D~e~ll~yll~tLd~~v-~~~YvlVyfhtg 176 (242)
|++++++....-- ..-...+..+...-+++- ..++.+|+.+..
T Consensus 1 gK~~ll~fwa~~c----~~c~~~~~~l~~l~~~~~~~~~v~~v~Vs~d 44 (95)
T PF13905_consen 1 GKPVLLYFWASWC----PPCKKELPKLKELYKKYKKKDDVEFVFVSLD 44 (95)
T ss_dssp TSEEEEEEE-TTS----HHHHHHHHHHHHHHHHHTTTTTEEEEEEE-S
T ss_pred CCEEEEEEECCCC----HHHHHHHHHHHHHHHHhCCCCCEEEEEEEeC
Confidence 5676555433221 111223333333333333 567777777753
No 24
>PRK11020 hypothetical protein; Provisional
Probab=22.88 E-value=49 Score=26.90 Aligned_cols=26 Identities=31% Similarity=0.365 Sum_probs=18.3
Q ss_pred HHHHHhhHHHHhccceEEEEcCChHH
Q psy12162 190 SAYRAFDRKYKKNLKALYLVHPTGFI 215 (242)
Q Consensus 190 ~~y~~L~r~ykKNLkalYIVHPt~~~ 215 (242)
+.-|.==-+++|.++.+.||||-.-+
T Consensus 76 K~EQADMGkLKKSVrGLVVVHPMTaL 101 (118)
T PRK11020 76 KKEQADMGKLKKSVRGLVVVHPMTAL 101 (118)
T ss_pred HHHHHhHHHHhhcccceeEecCchHH
Confidence 33333334689999999999996543
No 25
>PF14000 Packaging_FI: DNA packaging protein FI
Probab=21.66 E-value=89 Score=25.70 Aligned_cols=32 Identities=16% Similarity=0.205 Sum_probs=21.7
Q ss_pred cChHHHHhcCCEEEeCCCC-CCCeE-EEEEcccC
Q psy12162 110 EDFADVASYGIVDVVGDDM-FGRKL-IVLSACKL 141 (242)
Q Consensus 110 edf~di~~~gi~Y~~G~Dk-~GRPV-VVi~a~~l 141 (242)
.++..+..+.-++.+|.+. .|||| +|..+..+
T Consensus 76 ~~~v~Vr~l~tlHi~alh~~~~~~Ve~V~~G~~i 109 (125)
T PF14000_consen 76 DDLVTVRALKTLHIDALHATRDRPVEIVEAGMVI 109 (125)
T ss_pred CcceeeeeeeeeeeeeecCCCCCeeeEEcCCCeE
Confidence 4566677778888889875 68888 44445433
Done!