Query         psy7464
Match_columns 119
No_of_seqs    104 out of 272
Neff          5.4 
Searched_HMMs 46136
Date          Fri Aug 16 18:59:51 2013
Command       hhsearch -i /work/01045/syshi/Psyhhblits/psy7464.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7464hhsearch_cdd -cpu 12 -v 0 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 KOG1233|consensus               99.8 2.6E-20 5.7E-25  157.1   5.7   95    1-95    421-515 (613)
  2 PF02913 FAD-oxidase_C:  FAD li  98.7 1.6E-08 3.4E-13   75.8   3.3   86    1-86     62-154 (248)
  3 TIGR00387 glcD glycolate oxida  98.2 5.3E-06 1.2E-10   69.3   6.8   96    1-104   234-335 (413)
  4 PRK11230 glycolate oxidase sub  97.7 0.00012 2.7E-09   63.1   7.0   90    1-98    291-386 (499)
  5 PLN02805 D-lactate dehydrogena  97.4 0.00067 1.5E-08   59.5   7.6   93    1-100   366-465 (555)
  6 COG3286 Uncharacterized protei  91.5    0.76 1.6E-05   36.1   6.3   84    3-86     41-135 (204)
  7 PF08756 YfkB:  YfkB-like domai  76.8     3.2 6.8E-05   31.3   3.2   30   76-106    15-46  (153)
  8 PF09840 DUF2067:  Uncharacteri  74.7      16 0.00034   28.2   6.7   84    3-86     38-132 (190)
  9 PF15485 DUF4643:  Domain of un  51.7     4.2 9.1E-05   33.4  -0.4   13   96-108   226-239 (284)
 10 cd00248 Mth938-like Mth938-lik  42.0      12 0.00027   25.9   0.8   28   39-66     61-88  (109)
 11 PRK12378 hypothetical protein;  40.2      82  0.0018   25.1   5.3   84   10-102   101-202 (235)
 12 PRK00865 glutamate racemase; P  39.6      37 0.00079   26.8   3.3   29   76-105   163-194 (261)
 13 COG5405 HslV ATP-dependent pro  36.0      35 0.00076   26.3   2.5   55    2-61     47-103 (178)
 14 cd07947 DRE_TIM_Re_CS Clostrid  35.9      70  0.0015   25.8   4.4   71    9-80    110-196 (279)
 15 cd08807 CARD_CARD10_CARMA3 Cas  34.8      12 0.00025   25.8  -0.2   61   45-109    21-84  (86)
 16 PF04809 HupH_C:  HupH hydrogen  33.9      29 0.00064   24.8   1.7   32   71-102     4-36  (120)
 17 cd05560 Xcc1710_like Xcc1710_l  33.1      19 0.00041   25.1   0.6   28   39-66     61-88  (109)
 18 KOG4179|consensus               30.6      20 0.00043   31.7   0.5   20   51-71    510-529 (568)
 19 COG1071 AcoA Pyruvate/2-oxoglu  30.4 1.1E+02  0.0024   25.9   4.9   69   10-87    234-323 (358)
 20 COG3010 NanE Putative N-acetyl  30.3      73  0.0016   25.6   3.5   71    3-84    156-227 (229)
 21 PF14257 DUF4349:  Domain of un  28.0      80  0.0017   24.7   3.5   77   10-86     59-144 (262)
 22 PLN02269 Pyruvate dehydrogenas  26.9 2.4E+02  0.0052   23.7   6.3   74    6-88    228-323 (362)
 23 KOG1577|consensus               26.9      78  0.0017   26.3   3.3   60   45-105    57-120 (300)
 24 cd07045 BMC_CcmK_like Carbon d  26.3 1.1E+02  0.0024   20.3   3.4   28    2-29     40-67  (84)
 25 PRK10200 putative racemase; Pr  24.5      72  0.0016   24.7   2.6   30   75-105   174-206 (230)
 26 KOG0496|consensus               24.0      84  0.0018   28.9   3.2   64   11-74    143-211 (649)
 27 KOG2872|consensus               23.7 1.3E+02  0.0027   25.6   3.9   29   17-51    207-235 (359)
 28 COG2240 PdxK Pyridoxal/pyridox  23.5 2.7E+02  0.0059   22.9   5.9   25    2-26     78-102 (281)
 29 PF02662 FlpD:  Methyl-viologen  23.3      98  0.0021   21.9   2.9   49   35-85     70-122 (124)
 30 PF01218 Coprogen_oxidas:  Copr  22.7 1.1E+02  0.0023   25.5   3.3   77    8-87    133-209 (296)
 31 PF06307 Herpes_IR6:  Herpesvir  21.3      49  0.0011   26.0   1.1   18   94-111    84-101 (214)
 32 KOG1369|consensus               21.1      85  0.0018   27.7   2.6   38   71-108   129-169 (474)
 33 TIGR03182 PDH_E1_alph_y pyruva  21.0 2.7E+02  0.0059   22.6   5.4   74    6-88    202-296 (315)
 34 PF00676 E1_dh:  Dehydrogenase   20.9 2.8E+02   0.006   22.4   5.4   80    2-89    189-290 (300)
 35 cd05126 Mth938 Mth938 domain.   20.7 1.2E+02  0.0026   21.4   2.9   67   16-99     48-117 (117)
 36 PF09784 L31:  Mitochondrial ri  20.5      60  0.0013   23.0   1.3   30   76-105    31-61  (103)
 37 cd08806 CARD_CARD14_CARMA2 Cas  20.2      22 0.00047   24.5  -1.0   58   45-108    21-83  (86)
 38 COG2723 BglB Beta-glucosidase/  20.2      92   0.002   27.4   2.6   53   48-100    61-124 (460)

No 1  
>KOG1233|consensus
Probab=99.81  E-value=2.6e-20  Score=157.11  Aligned_cols=95  Identities=48%  Similarity=0.909  Sum_probs=92.2

Q ss_pred             CEEEEeCChHHHHhHHHHHHHHHHHcCCccCCCcchhhhhhhhhhhhhhhhhhhhccCceeeeeccccccchHHHHHHHH
Q psy7464           1 MALLVLGDPEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVK   80 (119)
Q Consensus         1 ~vlgfEG~~~~V~~~~~~~~~I~~~~GG~~~G~~~g~~W~~~RF~~PYLRd~l~~~G~~~DT~ETA~~Ws~v~~l~~~V~   80 (119)
                      +++.|||+.++|+++++++++|+.+++|+..|..+|+..+..+|.+.|+||+-+.+|++.|+|||++|||++..||++|+
T Consensus       421 ATllfEGdre~V~qhE~~~y~iAekF~G~~aG~~NGqrGY~LTfvIAYiRDlgl~~gvlgESFETSvPWDrv~~LCRnVK  500 (613)
T KOG1233|consen  421 ATLLFEGDREEVDQHEERLYKIAEKFHGVVAGAENGQRGYRLTFVIAYIRDLGLNHGVLGESFETSVPWDRVLSLCRNVK  500 (613)
T ss_pred             hhheecccHHHHHHHHHHHHHHHHHhCCccccccccccceEEEEeHHHHHhhcccccchhhcccccCCHHHHHHHHHHHH
Confidence            46889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCccee
Q psy7464          81 KRLTRECTEGNVLMM   95 (119)
Q Consensus        81 ~al~~al~~~g~~~~   95 (119)
                      ++++++++++|+...
T Consensus       501 er~~rEck~~gv~~~  515 (613)
T KOG1233|consen  501 ERMKRECKAQGVTHP  515 (613)
T ss_pred             HHHHHHHHhcCCCcc
Confidence            999999999998665


No 2  
>PF02913 FAD-oxidase_C:  FAD linked oxidases, C-terminal domain;  InterPro: IPR004113  Some oxygen-dependent oxidoreductases are flavoproteins that contain a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. The region around the histidine that binds the FAD group is conserved in these enzymes (see IPR006093 from INTERPRO).; GO: 0003824 catalytic activity, 0050660 flavin adenine dinucleotide binding; PDB: 1WVE_B 1DII_B 1WVF_A 1DIQ_A 2UUU_B 2UUV_A 1W1M_A 1E8H_B 1E0Y_B 1DZN_B ....
Probab=98.67  E-value=1.6e-08  Score=75.78  Aligned_cols=86  Identities=23%  Similarity=0.265  Sum_probs=68.6

Q ss_pred             CEEEEeCChH-HHHhHHH-HHHHHHHHcCCcc-----CCCcchhhhhhhhhhhhhhhhhhhhccCceeeeeccccccchH
Q psy7464           1 MALLVLGDPE-DVKNNED-KIYSIAKRYGGIP-----AGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTV   73 (119)
Q Consensus         1 ~vlgfEG~~~-~V~~~~~-~~~~I~~~~GG~~-----~G~~~g~~W~~~RF~~PYLRd~l~~~G~~~DT~ETA~~Ws~v~   73 (119)
                      ++++|+|+++ .++.+.+ .+.++++++|+..     -.+...+.|...++..+|+++.....|...+++|++++|++++
T Consensus        62 llv~~~g~~~~~~~~~~~~~i~~~~~~~~~~~~~~a~~~~~~~~~W~~R~~~~~~~~~~~~~~~~~~~~~dv~vp~~~l~  141 (248)
T PF02913_consen   62 LLVEFEGSDEEAVEEQLEAEIEEICKKYGGEDVVIADDEEEQERLWAIRRAIMPYLRDAAGRAGPVWDTEDVAVPPSRLP  141 (248)
T ss_dssp             EEEECCCHHHCCHHHHHHHHHHHHHCTCTCCEEEEEHCHHCTSTHHHHHHHHCCGGGCSHCTTEEEEEEEEEESCHHHHH
T ss_pred             EEEEECCCcHHHHHHHHHHHHHHHHhhcCCceeEEeCCHHHHHhhhhhhhhhcccccccccccCCceeeeeecccchhhh
Confidence            4789999994 5666666 7888888888764     1223457788877777899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy7464          74 LLCINVKKRLTRE   86 (119)
Q Consensus        74 ~l~~~V~~al~~a   86 (119)
                      ++++.+++.+.+.
T Consensus       142 ~~~~~~~~~~~~~  154 (248)
T PF02913_consen  142 EFLREIRALLREY  154 (248)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             hHHHhhhhhhhhc
Confidence            9999996665544


No 3  
>TIGR00387 glcD glycolate oxidase, subunit GlcD. This protein, the glycolate oxidase GlcD subunit, is similar in sequence to that of several D-lactate dehydrogenases, including that of E. coli. The glycolate oxidase has been found to have some D-lactate dehydrogenase activity.
Probab=98.16  E-value=5.3e-06  Score=69.33  Aligned_cols=96  Identities=15%  Similarity=0.117  Sum_probs=71.5

Q ss_pred             CEEEEeCChHHHHhHHHHHHHHHHHcCCccC----C-CcchhhhhhhhhhhhhhhhhhhhccCceeeeeccccccchHHH
Q psy7464           1 MALLVLGDPEDVKNNEDKIYSIAKRYGGIPA----G-ESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLL   75 (119)
Q Consensus         1 ~vlgfEG~~~~V~~~~~~~~~I~~~~GG~~~----G-~~~g~~W~~~RF~~PYLRd~l~~~G~~~DT~ETA~~Ws~v~~l   75 (119)
                      +++.|+|..+.++.+.+++.++++++|+...    + +...+.|...++..|++++.. ...+   +.|+++||++++++
T Consensus       234 l~v~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~r~~~~~~~~~~~-~~~~---~~d~~vp~~~l~~~  309 (413)
T TIGR00387       234 LLVEIDGVHEAVERDEEKIEQICRKNGAVDVQIAQDEEERALLWAGRRNAFKAASKLS-PLYL---IEDGTVPRSKLPEA  309 (413)
T ss_pred             EEEEecCCcHHHHHHHHHHHHHHHhCCCceEEEeCCHHHHHHHHHHHHHhHHHHHhhC-CCcc---eeEEecCHHHHHHH
Confidence            3578999999999999999999999988532    1 245667888777788988742 2222   35799999999999


Q ss_pred             HHHHHHHHHHHHHhCCccee-EeeecccCC
Q psy7464          76 CINVKKRLTRECTEGNVLMM-LEQLPFGWP  104 (119)
Q Consensus        76 ~~~V~~al~~al~~~g~~~~-~~~l~~~~~  104 (119)
                      ++.+++.+    ++.|.... +.|+..++.
T Consensus       310 ~~~~~~~~----~~~~~~~~~~gH~g~g~l  335 (413)
T TIGR00387       310 LRGIADIA----RKYDFTIANFGHAGDGNL  335 (413)
T ss_pred             HHHHHHHH----HHcCCeEEEEEEecCCcc
Confidence            99986665    44566665 888766543


No 4  
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=97.68  E-value=0.00012  Score=63.09  Aligned_cols=90  Identities=8%  Similarity=0.046  Sum_probs=63.4

Q ss_pred             CEEEEeCChHHHHhHHHHHHHHHHHcCCccCC-----CcchhhhhhhhhhhhhhhhhhhhccCceeeeeccccccchHHH
Q psy7464           1 MALLVLGDPEDVKNNEDKIYSIAKRYGGIPAG-----ESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLL   75 (119)
Q Consensus         1 ~vlgfEG~~~~V~~~~~~~~~I~~~~GG~~~G-----~~~g~~W~~~RF~~PYLRd~l~~~G~~~DT~ETA~~Ws~v~~l   75 (119)
                      +++.|+|+++.|+.+.+++.++|+++|+..+.     ++..+.|..-+...|+++..  ..+++.  .++++||++++.+
T Consensus       291 ll~e~~g~~~~v~~~~~~l~~~~~~~g~~~~~~a~~~~~~~~~W~~R~~~~~~~~~~--~~~~~~--~dv~vP~~~l~~~  366 (499)
T PRK11230        291 LLCELDGVESDVQEDCERVNDILLKAGATDVRLAQDEAERVRFWAGRKNAFPAVGRI--SPDYYC--MDGTIPRRELPGV  366 (499)
T ss_pred             EEEEecCCchHHHHHHHHHHHHHHhcCCceEEEeCCHHHHHHHHHHHHhhHHHHHhh--CCCeeE--EeecCChHHHHHH
Confidence            35788999999999999999999999975332     12345676633456787762  334444  4999999999999


Q ss_pred             HHHHHHHHHHHHHhCCccee-Eee
Q psy7464          76 CINVKKRLTRECTEGNVLMM-LEQ   98 (119)
Q Consensus        76 ~~~V~~al~~al~~~g~~~~-~~~   98 (119)
                      ++.+++.    +++.+.... +-|
T Consensus       367 ~~~~~~~----~~~~~~~~~~~gH  386 (499)
T PRK11230        367 LEGIARL----SQQYGLRVANVFH  386 (499)
T ss_pred             HHHHHHH----HHHcCCeEEEEEE
Confidence            9999764    344555544 444


No 5  
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=97.38  E-value=0.00067  Score=59.53  Aligned_cols=93  Identities=12%  Similarity=0.058  Sum_probs=63.3

Q ss_pred             CEEEEeCChHHHHhHHHHHHHHHHHcCCcc--CCCc---chhhhhhhhhhh-hhhhhhhhhccCceeeeeccccccchHH
Q psy7464           1 MALLVLGDPEDVKNNEDKIYSIAKRYGGIP--AGES---NGRRGYMLTYII-AYIRDFACDYYFIGDSFETSVPWDKTVL   74 (119)
Q Consensus         1 ~vlgfEG~~~~V~~~~~~~~~I~~~~GG~~--~G~~---~g~~W~~~RF~~-PYLRd~l~~~G~~~DT~ETA~~Ws~v~~   74 (119)
                      +++.|+|+++.++.+.+.+.+||+++|+..  +...   ..+.|.. |-.. +.+..  ...+....+.++++||+++++
T Consensus       366 Ll~e~~g~~~~~~~~~~~~~~i~~~~g~~~~~~a~~~~e~~~lW~~-R~~~~~~~~~--~~~~~~~~~~DvaVP~s~L~e  442 (555)
T PLN02805        366 LMFEFIGTEAYAREQTLIVQKIASKHNGSDFVFAEEPEAKKELWKI-RKEALWACFA--MEPKYEAMITDVCVPLSHLAE  442 (555)
T ss_pred             EEEEEecCcHHHHHHHHHHHHHHHhCCCceEEEeCCHHHHHHHHHH-HHHHHHHHhh--cCCCCceeEEEEEEEHHHHHH
Confidence            467889999999999999999999999842  2222   2445663 4333 22211  122444557899999999999


Q ss_pred             HHHHHHHHHHHHHHhCCccee-Eeeec
Q psy7464          75 LCINVKKRLTRECTEGNVLMM-LEQLP  100 (119)
Q Consensus        75 l~~~V~~al~~al~~~g~~~~-~~~l~  100 (119)
                      +++.+++.+    ++.+.... |.|+.
T Consensus       443 ~i~~~~~~~----~~~~~~~~~~gHaG  465 (555)
T PLN02805        443 LISRSKKEL----DASPLVCTVIAHAG  465 (555)
T ss_pred             HHHHHHHHH----HHcCCeEEEEEEcC
Confidence            999986654    56666655 67663


No 6  
>COG3286 Uncharacterized protein conserved in archaea [Function unknown]
Probab=91.48  E-value=0.76  Score=36.09  Aligned_cols=84  Identities=14%  Similarity=0.182  Sum_probs=60.0

Q ss_pred             EEEeCChHHHHhHHHHHHHHHHHcCCccCCCcch-----hhhhhhhhhhh--hhhhhhhhccCcee----eeeccccccc
Q psy7464           3 LLVLGDPEDVKNNEDKIYSIAKRYGGIPAGESNG-----RRGYMLTYIIA--YIRDFACDYYFIGD----SFETSVPWDK   71 (119)
Q Consensus         3 lgfEG~~~~V~~~~~~~~~I~~~~GG~~~G~~~g-----~~W~~~RF~~P--YLRd~l~~~G~~~D----T~ETA~~Ws~   71 (119)
                      +-..|.++.++...+.+.++.++.-+..-+...|     .--..++=+.|  -|+|.|.-+|+=++    -++|++||+.
T Consensus        41 V~v~G~~~eireair~irel~~~vr~r~~~~~~~ly~l~~~~~~a~p~Vp~~vl~daLk~~GyrVevr~~~l~T~ap~~e  120 (204)
T COG3286          41 VNVFGTKDEIREAIRAIRELHRRVRRRLYPDRQGLYTLYRIFEEASPNVPPDVLIDALKLLGYRVEVRGGELKTNAPWSE  120 (204)
T ss_pred             EEEecchHHHHHHHHHHHHHHHHHHhhhccCccceEeeHhHHHhhcCCCCHHHHHHHHHhCCceEEeeCceeecCCCHHH
Confidence            3457889999999999999988877654333211     11122222232  59999999998764    5899999999


Q ss_pred             hHHHHHHHHHHHHHH
Q psy7464          72 TVLLCINVKKRLTRE   86 (119)
Q Consensus        72 v~~l~~~V~~al~~a   86 (119)
                      +..+..++-+..+.+
T Consensus       121 v~E~vreLse~~~E~  135 (204)
T COG3286         121 VVELVRELSEVYREA  135 (204)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999887776665


No 7  
>PF08756 YfkB:  YfkB-like domain;  InterPro: IPR014866 YfkB is adjacent to YfkA in Bacillus subtilis. In other bacterial species, it is fused to this protein. As YfkA contains a Radical SAM domain it suggests this domain is interacts with them. 
Probab=76.77  E-value=3.2  Score=31.27  Aligned_cols=30  Identities=17%  Similarity=0.296  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHhCCccee--EeeecccCCCC
Q psy7464          76 CINVKKRLTRECTEGNVLMM--LEQLPFGWPKK  106 (119)
Q Consensus        76 ~~~V~~al~~al~~~g~~~~--~~~l~~~~~~~  106 (119)
                      .++++++|.+-|..+...+|  |-.||| |||-
T Consensus        15 L~e~r~aIh~LLd~Rd~~~WMLFGTLPf-y~Cs   46 (153)
T PF08756_consen   15 LDEMREAIHRLLDIRDPNVWMLFGTLPF-YPCS   46 (153)
T ss_pred             HHHHHHHHHHHHhccCCCeeEEeccccc-ccCC
Confidence            46788999999999999999  999999 8884


No 8  
>PF09840 DUF2067:  Uncharacterized protein conserved in archaea (DUF2067);  InterPro: IPR019202  This family of archaeal proteins, have no known function. 
Probab=74.72  E-value=16  Score=28.24  Aligned_cols=84  Identities=12%  Similarity=0.066  Sum_probs=58.7

Q ss_pred             EEEeCChHHHHhHHHHHHHHHHHcCCccCCCcch---hhh--hh--hhhhhhhhhhhhhhccCce----eeeeccccccc
Q psy7464           3 LLVLGDPEDVKNNEDKIYSIAKRYGGIPAGESNG---RRG--YM--LTYIIAYIRDFACDYYFIG----DSFETSVPWDK   71 (119)
Q Consensus         3 lgfEG~~~~V~~~~~~~~~I~~~~GG~~~G~~~g---~~W--~~--~RF~~PYLRd~l~~~G~~~----DT~ETA~~Ws~   71 (119)
                      +-..|.+..++...+.++++.+...+.+-+.+..   -.+  ++  ..+..+-|-|.|--.|+=+    |.+.|+++|+.
T Consensus        38 I~i~G~~~eike~~~~Ik~~~~~vr~k~~~~g~~~y~l~~i~r~a~~~vp~d~L~~~L~~~G~~ae~~~~~i~T~a~~ee  117 (190)
T PF09840_consen   38 IEIQGYEKEIKEAIRRIKELVRRVRSKYNKRGLYRYSLDDIFREAGYPVPPDLLVDALKLLGYKAEYREDVIKTDAPLEE  117 (190)
T ss_pred             EEEecChHHHHHHHHHHHHHHHHHHHHhccCCceEEcHHHHHHHcCCCCCHHHHHHHHHhCCCeeEEeCCeEEecCCHHH
Confidence            4456888899888888888887766643222111   111  11  3344456899998888765    58999999999


Q ss_pred             hHHHHHHHHHHHHHH
Q psy7464          72 TVLLCINVKKRLTRE   86 (119)
Q Consensus        72 v~~l~~~V~~al~~a   86 (119)
                      +.++.+++-++....
T Consensus       118 v~~l~~~Lse~~~e~  132 (190)
T PF09840_consen  118 VVELAERLSEIYKEL  132 (190)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999997776643


No 9  
>PF15485 DUF4643:  Domain of unknown function (DUF4643)
Probab=51.70  E-value=4.2  Score=33.38  Aligned_cols=13  Identities=38%  Similarity=0.774  Sum_probs=12.1

Q ss_pred             Eeeec-ccCCCCCC
Q psy7464          96 LEQLP-FGWPKKFS  108 (119)
Q Consensus        96 ~~~l~-~~~~~~~~  108 (119)
                      +++|| |+|--||.
T Consensus       226 ~~rLP~fL~rPRFn  239 (284)
T PF15485_consen  226 LYRLPVFLYRPRFN  239 (284)
T ss_pred             hhhCcHhhhccccc
Confidence            99999 99999993


No 10 
>cd00248 Mth938-like Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer.  2P1 is a partially characterized nuclear protein which is homologous to E3-3 from rat and known to be alternately spliced. Xcr35 and Rpa2829 are hypothetical proteins of unknown function from the Xanthomonas campestris and Rhodopseudomonas palustris genomes, respectively, for which the crystal structures have been determined.
Probab=41.97  E-value=12  Score=25.90  Aligned_cols=28  Identities=11%  Similarity=0.037  Sum_probs=24.0

Q ss_pred             hhhhhhhhhhhhhhhhhccCceeeeecc
Q psy7464          39 GYMLTYIIAYIRDFACDYYFIGDSFETS   66 (119)
Q Consensus        39 W~~~RF~~PYLRd~l~~~G~~~DT~ETA   66 (119)
                      +...+|--|-+++.|.++|+-+|.+.|.
T Consensus        61 G~~~~~~~~~~~~~l~~~gI~vE~m~T~   88 (109)
T cd00248          61 GAEIAFLPRALRAALRAAGIGVEVMSTG   88 (109)
T ss_pred             CCCCCcCCHHHHHHHHHcCCeEEEeCcH
Confidence            3445677788999999999999999997


No 11 
>PRK12378 hypothetical protein; Provisional
Probab=40.16  E-value=82  Score=25.07  Aligned_cols=84  Identities=12%  Similarity=0.095  Sum_probs=46.8

Q ss_pred             HHHHhHHHHHHHHHHHcCCccCCCcchhhhhhhhh---hh-----hhhhhhhhhccCcee-------eeeccccccchHH
Q psy7464          10 EDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTY---II-----AYIRDFACDYYFIGD-------SFETSVPWDKTVL   74 (119)
Q Consensus        10 ~~V~~~~~~~~~I~~~~GG~~~G~~~g~~W~~~RF---~~-----PYLRd~l~~~G~~~D-------T~ETA~~Ws~v~~   74 (119)
                      +-..+-...++.++++|||.. |+...-+|.-.|.   .+     --|-+.+++.|.-+|       ++|--|+.+.+..
T Consensus       101 DN~nRt~~~vr~~f~K~gg~l-~~~gsv~~~Fe~kG~i~i~~~~~d~~~e~aieaGa~~edv~~~~~~~~i~t~p~~~~~  179 (235)
T PRK12378        101 DNVNRTVANVRSAFNKNGGNL-GTSGSVAFMFDHKGVFVFEGDDEDELLEALIDADVDVEDVEEEEGTITVYTDPTDFHK  179 (235)
T ss_pred             CCHHHHHHHHHHHHhhcCCeE-CCCCceeeeeecceEEEeCCCCHHHHHHHHHhCCCCcccccccCCeEEEEECHHHHHH
Confidence            335566788899999999964 4433335554333   22     235666777777332       3444444444433


Q ss_pred             HHHHHHHHHHHHHHhCCccee---Eeeeccc
Q psy7464          75 LCINVKKRLTRECTEGNVLMM---LEQLPFG  102 (119)
Q Consensus        75 l~~~V~~al~~al~~~g~~~~---~~~l~~~  102 (119)
                      +        +++|.+.|....   ++.+|-.
T Consensus       180 v--------~~~L~~~g~~~~~sei~~~P~~  202 (235)
T PRK12378        180 V--------KKALEAAGIEFLVAELEMIPQN  202 (235)
T ss_pred             H--------HHHHHHcCCCceeeEEEEecCC
Confidence            3        344455665444   7777644


No 12 
>PRK00865 glutamate racemase; Provisional
Probab=39.64  E-value=37  Score=26.77  Aligned_cols=29  Identities=10%  Similarity=0.125  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHHHHhCCccee---EeeecccCCC
Q psy7464          76 CINVKKRLTRECTEGNVLMM---LEQLPFGWPK  105 (119)
Q Consensus        76 ~~~V~~al~~al~~~g~~~~---~~~l~~~~~~  105 (119)
                      .+.+++.+.. +.+.|..++   |||+|+..+.
T Consensus       163 ~~~l~~~l~~-l~~~g~d~iILGCTh~p~l~~~  194 (261)
T PRK00865        163 LEVLREYLAP-LLAAGIDTLVLGCTHYPLLKPE  194 (261)
T ss_pred             HHHHHHHHHH-HhcCCCCEEEECCcCHHHHHHH
Confidence            3334444433 345676666   9999997653


No 13 
>COG5405 HslV ATP-dependent protease HslVU (ClpYQ), peptidase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=36.01  E-value=35  Score=26.33  Aligned_cols=55  Identities=13%  Similarity=0.086  Sum_probs=40.2

Q ss_pred             EEEEeCChHHHHhHHHHHHHHHHHcCCccCCC--cchhhhhhhhhhhhhhhhhhhhccCcee
Q psy7464           2 ALLVLGDPEDVKNNEDKIYSIAKRYGGIPAGE--SNGRRGYMLTYIIAYIRDFACDYYFIGD   61 (119)
Q Consensus         2 vlgfEG~~~~V~~~~~~~~~I~~~~GG~~~G~--~~g~~W~~~RF~~PYLRd~l~~~G~~~D   61 (119)
                      +.||-|+..+.-...++..+-|+.+.|-..-.  +..+.|+.-|+    ||. |-.+=+++|
T Consensus        47 laGFAGstADaftLfe~fe~kle~~~g~L~raavelaKdwr~Dk~----lr~-LEAmllVad  103 (178)
T COG5405          47 LAGFAGSTADAFTLFERFEAKLEQYQGDLFRAAVELAKDWRTDKY----LRK-LEAMLLVAD  103 (178)
T ss_pred             EEEecccchhHHHHHHHHHHHHHHccCcHHHHHHHHHHhhhhhhH----HHH-HhhheeEeC
Confidence            67999999998888999999999998854322  56788996554    776 444444443


No 14 
>cd07947 DRE_TIM_Re_CS Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain. Re-citrate synthase (Re-CS) is a Clostridium kluyveri enzyme that converts acetyl-CoA and oxaloacetate to citrate.  In most organisms, this reaction is catalyzed by Si-citrate synthase which is Si-face stereospecific with respect to C-2 of oxaloacetate, and phylogenetically unrelated to Re-citrate synthase.  Re-citrate synthase is also found in a few other strictly anaerobic organisms.  This family belongs to the DRE-TIM metallolyase superfamily.  DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC.  These members all share a conserved  triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with 
Probab=35.92  E-value=70  Score=25.80  Aligned_cols=71  Identities=11%  Similarity=0.128  Sum_probs=38.1

Q ss_pred             hHHHHhHHHHHHHHHHHcCCccCCCcchhhhhhh--hhhhhhhhhhhh---hccC-----ceeeeecccccc------ch
Q psy7464           9 PEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYML--TYIIAYIRDFAC---DYYF-----IGDSFETSVPWD------KT   72 (119)
Q Consensus         9 ~~~V~~~~~~~~~I~~~~GG~~~G~~~g~~W~~~--RF~~PYLRd~l~---~~G~-----~~DT~ETA~~Ws------~v   72 (119)
                      .+++-...+.+.+.++++|-..- -.+...++..  -+-.+|+.+.+.   +.|.     ++||...++|++      ++
T Consensus       110 ~~e~l~~~~~~v~~a~~~g~~v~-~~~ed~~r~d~~~~v~~~~~~~~~~~~~~G~~~~i~l~DTvG~a~P~~~~~~p~~v  188 (279)
T cd07947         110 REEAMEKYLEIVEEALDHGIKPR-CHLEDITRADIYGFVLPFVNKLMKLSKESGIPVKIRLCDTLGYGVPYPGASLPRSV  188 (279)
T ss_pred             HHHHHHHHHHHHHHHHHCCCeEE-EEEEcccCCCcccchHHHHHHHHHHHHHCCCCEEEEeccCCCcCCccccccchHHH
Confidence            34455556666777888764321 1122233331  122346665433   2564     469999999995      45


Q ss_pred             HHHHHHHH
Q psy7464          73 VLLCINVK   80 (119)
Q Consensus        73 ~~l~~~V~   80 (119)
                      ..+.++++
T Consensus       189 ~~l~~~l~  196 (279)
T cd07947         189 PKIIYGLR  196 (279)
T ss_pred             HHHHHHHH
Confidence            55555443


No 15 
>cd08807 CARD_CARD10_CARMA3 Caspase activation and recruitment domain of CARD10-like proteins. Caspase activation and recruitment domain (CARD) similar to that found in CARD10, also known as CARMA3 (caspase recruitment domain-containing membrane-associated guanylate kinase protein 3) or BIMP1. The CARMA3-BCL10-MALT1 signalosome plays a role in the GPCR-induced NF-kB activation. CARMA3 is more widely expressed than CARMA1, which is found only in hematopoietic cells. In endothelial and smooth muscle cells, CARMA3-mediated NF-kB activation induces pro-inflammatory signals within the vasculature and is a key factor in atherogenesis. In bronchial epithelial cells, CARMA3-mediated NF-kB signaling is important for the development of allergic airway inflammation. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains fo
Probab=34.80  E-value=12  Score=25.81  Aligned_cols=61  Identities=25%  Similarity=0.246  Sum_probs=37.5

Q ss_pred             hhhhhhhhhhhccCceeeeeccccccchHHHHHHHHHHHHHHHHhCCccee---EeeecccCCCCCCC
Q psy7464          45 IIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVKKRLTRECTEGNVLMM---LEQLPFGWPKKFSE  109 (119)
Q Consensus        45 ~~PYLRd~l~~~G~~~DT~ETA~~Ws~v~~l~~~V~~al~~al~~~g~~~~---~~~l~~~~~~~~~~  109 (119)
                      -.||||    +-|++.++-|==+-=+-.-..-.+=...|-+-|..+|.++.   +..|-|-||+-|+-
T Consensus        21 vtpYLr----Q~~VL~~~deEEI~~~~~~~~~~~k~~~LLDIL~trG~~gf~aFLeSLE~~yp~~y~~   84 (86)
T cd08807          21 LTPYLR----QCRVIDEQDEEEVLNSYRFPCRINRTGRLMDILRGRGKRGYEAFLEALEFYYPEHFTL   84 (86)
T ss_pred             ccHHHH----HhCCCChhhHHHHHhccchhhHHHHHHHHHHHHHhcCchHHHHHHHHHHhhhHHHhhc
Confidence            357766    46777666553222111111112223466777888999888   88999999987764


No 16 
>PF04809 HupH_C:  HupH hydrogenase expression protein, C-terminal conserved region;  InterPro: IPR006894 This entry represents the C-terminal conserved domain found in bacterial hydrogenase expression proteins (HupH), which are necessary for hydrogenase synthesis. The precise function of HupH is unknown [].; PDB: 3SB1_A.
Probab=33.85  E-value=29  Score=24.78  Aligned_cols=32  Identities=19%  Similarity=0.216  Sum_probs=20.8

Q ss_pred             chHHHHHHHHHHHHHHHHhCCccee-Eeeeccc
Q psy7464          71 KTVLLCINVKKRLTRECTEGNVLMM-LEQLPFG  102 (119)
Q Consensus        71 ~v~~l~~~V~~al~~al~~~g~~~~-~~~l~~~  102 (119)
                      |.+.|..++.+++.+-........+ |+.||++
T Consensus         4 nA~alL~El~~al~~~~~~~~~~~I~L~~lPLs   36 (120)
T PF04809_consen    4 NAPALLAELAAALAAWRPGGPPHVINLTLLPLS   36 (120)
T ss_dssp             TCCHHHHHHHHHHHHHHHH---EEEEGGGS---
T ss_pred             CHHHHHHHHHHHHHhccCCCCCeEEEecCCCCC
Confidence            5567888888888887766666777 9999864


No 17 
>cd05560 Xcc1710_like Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. Their three-dimensional structures have been determined, but their functions are unknown.
Probab=33.10  E-value=19  Score=25.05  Aligned_cols=28  Identities=7%  Similarity=-0.140  Sum_probs=24.2

Q ss_pred             hhhhhhhhhhhhhhhhhccCceeeeecc
Q psy7464          39 GYMLTYIIAYIRDFACDYYFIGDSFETS   66 (119)
Q Consensus        39 W~~~RF~~PYLRd~l~~~G~~~DT~ETA   66 (119)
                      +...+|--|-+++.|.++|+-+|.+.|+
T Consensus        61 G~~~~~~~~~~~~~l~~~gi~vE~m~T~   88 (109)
T cd05560          61 GERQRFPPPALLAPLLARGIGVEVMDTQ   88 (109)
T ss_pred             CCCCCcCCHHHHHHHHHcCCeEEEECHH
Confidence            4556677788999999999999999997


No 18 
>KOG4179|consensus
Probab=30.65  E-value=20  Score=31.70  Aligned_cols=20  Identities=35%  Similarity=0.729  Sum_probs=16.4

Q ss_pred             hhhhhccCceeeeeccccccc
Q psy7464          51 DFACDYYFIGDSFETSVPWDK   71 (119)
Q Consensus        51 d~l~~~G~~~DT~ETA~~Ws~   71 (119)
                      ..--+.|++.|| ||+..|++
T Consensus       510 hytg~~gylsdt-ets~~w~~  529 (568)
T KOG4179|consen  510 HYTGDSGYLSDT-ETSQQWDN  529 (568)
T ss_pred             eecCCCccccCc-cccccccc
Confidence            344578999998 99999995


No 19 
>COG1071 AcoA Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]
Probab=30.38  E-value=1.1e+02  Score=25.94  Aligned_cols=69  Identities=9%  Similarity=0.039  Sum_probs=46.7

Q ss_pred             HHHHhHHHHHHHHHHHcCCccC-------------C--------CcchhhhhhhhhhhhhhhhhhhhccCceeeeecccc
Q psy7464          10 EDVKNNEDKIYSIAKRYGGIPA-------------G--------ESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVP   68 (119)
Q Consensus        10 ~~V~~~~~~~~~I~~~~GG~~~-------------G--------~~~g~~W~~~RF~~PYLRd~l~~~G~~~DT~ETA~~   68 (119)
                      -.|-...+.+.+.+++.+|=.|             +        .+-.+.|.. |=-++-||++|.+.|++.|       
T Consensus       234 ~avy~~~~~A~e~AR~g~GPtLIE~~tYR~~~HS~sDd~~~YRskeE~~~~~~-~DPi~r~~~~L~~~g~~se-------  305 (358)
T COG1071         234 LAVYEAAKEAVERARAGEGPTLIEAVTYRYGGHSTSDDPSKYRSKEEVEEWKK-RDPIVRLRKYLIEAGILSE-------  305 (358)
T ss_pred             HHHHHHHHHHHHHHHcCCCCEEEEEEEeecCCCCCCCCccccCCHHHHHHHhc-cChHHHHHHHHHHcCCCCH-------
Confidence            4477778889999988888321             1        122345555 2223458999999999887       


Q ss_pred             ccchHHHHHHHHHHHHHHH
Q psy7464          69 WDKTVLLCINVKKRLTREC   87 (119)
Q Consensus        69 Ws~v~~l~~~V~~al~~al   87 (119)
                       ..+.++.+++++.|.++.
T Consensus       306 -e~~~~i~~e~~~~V~ea~  323 (358)
T COG1071         306 -EELEAIEAEAKAEVDEAV  323 (358)
T ss_pred             -HHHHHHHHHHHHHHHHHH
Confidence             567777777777777653


No 20 
>COG3010 NanE Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]
Probab=30.28  E-value=73  Score=25.58  Aligned_cols=71  Identities=7%  Similarity=-0.066  Sum_probs=50.9

Q ss_pred             EEEeC-ChHHHHhHHHHHHHHHHHcCCccCCCcchhhhhhhhhhhhhhhhhhhhccCceeeeeccccccchHHHHHHHHH
Q psy7464           3 LLVLG-DPEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVKK   81 (119)
Q Consensus         3 lgfEG-~~~~V~~~~~~~~~I~~~~GG~~~G~~~g~~W~~~RF~~PYLRd~l~~~G~~~DT~ETA~~Ws~v~~l~~~V~~   81 (119)
                      -||++ +....+.-..-+.++++ .|-.++.+        +||+.|-+-...++.|..+=|.=.|.|  |...+.....+
T Consensus       156 sGYT~~~~~~~~pDf~lvk~l~~-~~~~vIAE--------Gr~~tP~~Ak~a~~~Ga~aVvVGsAIT--Rp~~It~~F~~  224 (229)
T COG3010         156 SGYTGYTEKPTEPDFQLVKQLSD-AGCRVIAE--------GRYNTPEQAKKAIEIGADAVVVGSAIT--RPEEITQWFVD  224 (229)
T ss_pred             ccccCCCCCCCCCcHHHHHHHHh-CCCeEEee--------CCCCCHHHHHHHHHhCCeEEEECcccC--CHHHHHHHHHH
Confidence            46777 55556666666677665 56665554        699999988889999999999999987  55555555555


Q ss_pred             HHH
Q psy7464          82 RLT   84 (119)
Q Consensus        82 al~   84 (119)
                      +++
T Consensus       225 ~ik  227 (229)
T COG3010         225 AIK  227 (229)
T ss_pred             HHh
Confidence            444


No 21 
>PF14257 DUF4349:  Domain of unknown function (DUF4349)
Probab=28.00  E-value=80  Score=24.66  Aligned_cols=77  Identities=19%  Similarity=0.296  Sum_probs=47.8

Q ss_pred             HHHHhHHHHHHHHHHHcCCccCCCcc-------hhhhhhhhhhhh--hhhhhhhhccCceeeeeccccccchHHHHHHHH
Q psy7464          10 EDVKNNEDKIYSIAKRYGGIPAGESN-------GRRGYMLTYIIA--YIRDFACDYYFIGDSFETSVPWDKTVLLCINVK   80 (119)
Q Consensus        10 ~~V~~~~~~~~~I~~~~GG~~~G~~~-------g~~W~~~RF~~P--YLRd~l~~~G~~~DT~ETA~~Ws~v~~l~~~V~   80 (119)
                      +.++...+.+.++|.++||...-+..       +.....-.+++|  .+.+++.+.+=+.....-.+.=.+|..-|..+.
T Consensus        59 ~d~~~a~~~i~~~~~~~gG~i~~~~~~~~~~~~~~~~~~ltiRVP~~~~~~~l~~l~~~g~v~~~~~~~~DvT~~y~D~~  138 (262)
T PF14257_consen   59 KDVEKAVKKIENLVESYGGYIESSSSSSSGGSDDERSASLTIRVPADKFDSFLDELSELGKVTSRNISSEDVTEQYVDLE  138 (262)
T ss_pred             CCHHHHHHHHHHHHHHcCCEEEEEeeecccCCCCcceEEEEEEECHHHHHHHHHHHhccCceeeeeccccchHHHHHHHH
Confidence            35777889999999999996543322       234444466666  455555555444444555555567777776666


Q ss_pred             HHHHHH
Q psy7464          81 KRLTRE   86 (119)
Q Consensus        81 ~al~~a   86 (119)
                      ++|+..
T Consensus       139 arl~~l  144 (262)
T PF14257_consen  139 ARLKNL  144 (262)
T ss_pred             HHHHHH
Confidence            655543


No 22 
>PLN02269 Pyruvate dehydrogenase E1 component subunit alpha
Probab=26.91  E-value=2.4e+02  Score=23.71  Aligned_cols=74  Identities=11%  Similarity=-0.043  Sum_probs=43.7

Q ss_pred             eCCh-HHHHhHHHHHHHHHHHcCCccC-------------CC--------cchhhhhhhhhhhhhhhhhhhhccCceeee
Q psy7464           6 LGDP-EDVKNNEDKIYSIAKRYGGIPA-------------GE--------SNGRRGYMLTYIIAYIRDFACDYYFIGDSF   63 (119)
Q Consensus         6 EG~~-~~V~~~~~~~~~I~~~~GG~~~-------------G~--------~~g~~W~~~RF~~PYLRd~l~~~G~~~DT~   63 (119)
                      .|.+ ..|....+.+.+.+++ +|=.+             +.        .-.+.|.+.|=-+.-+|+.|.+.|++.+  
T Consensus       228 DG~D~~av~~a~~~A~~~aR~-~gP~lIe~~tyR~~gHs~~D~~~~YR~~~E~~~~~~~~DPi~~~~~~L~~~g~~te--  304 (362)
T PLN02269        228 DGMDVLAVKQACKFAKEHALS-NGPIVLEMDTYRYHGHSMSDPGSTYRTRDEISGVRQERDPIERVRKLLLAHELATE--  304 (362)
T ss_pred             CCCCHHHHHHHHHHHHHHHHh-CCCEEEEEecCcCCCcCCCCCCcccCCHHHHHHHHhCCCHHHHHHHHHHHcCCCCH--
Confidence            3443 3455556666677777 65211             11        1234565544444568899999999876  


Q ss_pred             eccccccchHHHHHHHHHHHHHHHH
Q psy7464          64 ETSVPWDKTVLLCINVKKRLTRECT   88 (119)
Q Consensus        64 ETA~~Ws~v~~l~~~V~~al~~al~   88 (119)
                            +.+.++-+.+++.|.++++
T Consensus       305 ------~e~~~i~~e~~~~v~~a~~  323 (362)
T PLN02269        305 ------AELKDIEKEIRKEVDDAVA  323 (362)
T ss_pred             ------HHHHHHHHHHHHHHHHHHH
Confidence                  4556666666666666543


No 23 
>KOG1577|consensus
Probab=26.88  E-value=78  Score=26.29  Aligned_cols=60  Identities=18%  Similarity=0.175  Sum_probs=43.8

Q ss_pred             hhhhhhhhhhhccCce-eeeeccccccchHHHHHHHHHHHHHHHHhCCccee---EeeecccCCC
Q psy7464          45 IIAYIRDFACDYYFIG-DSFETSVPWDKTVLLCINVKKRLTRECTEGNVLMM---LEQLPFGWPK  105 (119)
Q Consensus        45 ~~PYLRd~l~~~G~~~-DT~ETA~~Ws~v~~l~~~V~~al~~al~~~g~~~~---~~~l~~~~~~  105 (119)
                      .+--|++.+.+.|+-- |-|=|+=-|... .-.+.|+.+|++.|++.+..-+   +.|-|+++..
T Consensus        57 vG~aik~~i~~~~v~RediFiTSKlw~~~-~~~~~v~~al~~sLk~L~ldYvDLyLiH~P~~~k~  120 (300)
T KOG1577|consen   57 VGEAIKELLAEGGVKREDIFITSKLWPTD-HAPELVEKALEKSLKKLQLDYVDLYLIHWPVAFKD  120 (300)
T ss_pred             HHHHHHHHhhhCCcchhhheeeeccCccc-cChhhHHHHHHHHHHHhChhhhheeeEecccccCC
Confidence            3344666554554443 566788888765 5567789999999999998777   9999999944


No 24 
>cd07045 BMC_CcmK_like Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain. Bacterial micro-compartments are primitive protein-based organelles that sequester specific metabolic pathways in bacterial cells. The prototypical bacterial microcompartment is the carboxysome shell, a bacterial polyhedral organelle which increase the efficiency of CO2 fixation by encapsulating RuBisCO and carbonic anhydrase. They can be divided into two types: alpha-type carboxysomes (alpha-cyanobacteria and proteobacteria) and beta-type carboxysomes (beta-cyanobacteria).  Potential functional differences between the two types are not yet fully understood. In addition to these proteins there are several homologous shell proteins including those found in pdu organelles involved in coenzyme B12-dependent degradation of 1,2-propanediol and eut organelles involved in the cobalamin-dependent degradation of ethanolamine. Structure evidence shows that several carbox
Probab=26.25  E-value=1.1e+02  Score=20.34  Aligned_cols=28  Identities=25%  Similarity=0.329  Sum_probs=24.2

Q ss_pred             EEEEeCChHHHHhHHHHHHHHHHHcCCc
Q psy7464           2 ALLVLGDPEDVKNNEDKIYSIAKRYGGI   29 (119)
Q Consensus         2 vlgfEG~~~~V~~~~~~~~~I~~~~GG~   29 (119)
                      ++.+.|+-..|+...+...+.++++|..
T Consensus        40 ~vii~GdvsaV~~Av~a~~~~~~~~~~~   67 (84)
T cd07045          40 TVKITGDVAAVKAAVEAGAAAAERIGEL   67 (84)
T ss_pred             EEEEEEcHHHHHHHHHHHHHHHhccCcE
Confidence            6788999999999999999999887653


No 25 
>PRK10200 putative racemase; Provisional
Probab=24.51  E-value=72  Score=24.74  Aligned_cols=30  Identities=10%  Similarity=0.040  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHHHHhCCccee---EeeecccCCC
Q psy7464          75 LCINVKKRLTRECTEGNVLMM---LEQLPFGWPK  105 (119)
Q Consensus        75 l~~~V~~al~~al~~~g~~~~---~~~l~~~~~~  105 (119)
                      ..+.+++.+.. +.++|...+   |||+|+..|.
T Consensus       174 ~~~~l~~~l~~-l~~~g~d~vILGCTelpll~~~  206 (230)
T PRK10200        174 SRAYYAQVIAR-LAEQGAQGVIFGCTEIGLLVPE  206 (230)
T ss_pred             HHHHHHHHHHH-HHHCCCCEEEECCcCHHHhCCc
Confidence            33444444433 455666655   9999999964


No 26 
>KOG0496|consensus
Probab=24.02  E-value=84  Score=28.88  Aligned_cols=64  Identities=19%  Similarity=0.167  Sum_probs=43.8

Q ss_pred             HHHhHHHHHHH----HHHHcCCcc-CCCcchhhhhhhhhhhhhhhhhhhhccCceeeeeccccccchHH
Q psy7464          11 DVKNNEDKIYS----IAKRYGGIP-AGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVL   74 (119)
Q Consensus        11 ~V~~~~~~~~~----I~~~~GG~~-~G~~~g~~W~~~RF~~PYLRd~l~~~G~~~DT~ETA~~Ws~v~~   74 (119)
                      +++...+.+..    +..+.||=. +.+---+-..-.|+-.++-+..+...+.++.++.|.++|=..-+
T Consensus       143 ~~~~~~~~iv~~mk~L~~~qGGPIIl~QIENEYG~~~~~~~~~~k~y~~w~a~m~~~l~~gvpw~mCk~  211 (649)
T KOG0496|consen  143 EMERWTTKIVPMMKKLFASQGGPIILVQIENEYGNYLRALGAEGKSYLKWAAVLATSLGTGVPWVMCKQ  211 (649)
T ss_pred             HHHHHHHHHHHHHHHHHhhcCCCEEEEEeechhhHHHHHHHHHHHHhhccceEEEEecCCCCceeEecC
Confidence            35555555555    778888833 33322222345566678889999999999999999999965443


No 27 
>KOG2872|consensus
Probab=23.71  E-value=1.3e+02  Score=25.61  Aligned_cols=29  Identities=14%  Similarity=0.277  Sum_probs=17.1

Q ss_pred             HHHHHHHHHcCCccCCCcchhhhhhhhhhhhhhhh
Q psy7464          17 DKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRD   51 (119)
Q Consensus        17 ~~~~~I~~~~GG~~~G~~~g~~W~~~RF~~PYLRd   51 (119)
                      +++.+|...++|-. +.   +.|  .+|..||||+
T Consensus       207 Aq~lQiFeSwageL-sp---e~f--~e~s~PYl~~  235 (359)
T KOG2872|consen  207 AQALQIFESWAGEL-SP---EDF--EEFSLPYLRQ  235 (359)
T ss_pred             HHHHHHHHHhcccC-CH---HHH--HHhhhHHHHH
Confidence            34455665666543 22   233  3689999997


No 28 
>COG2240 PdxK Pyridoxal/pyridoxine/pyridoxamine kinase [Coenzyme metabolism]
Probab=23.53  E-value=2.7e+02  Score=22.91  Aligned_cols=25  Identities=16%  Similarity=0.174  Sum_probs=22.5

Q ss_pred             EEEEeCChHHHHhHHHHHHHHHHHc
Q psy7464           2 ALLVLGDPEDVKNNEDKIYSIAKRY   26 (119)
Q Consensus         2 vlgfEG~~~~V~~~~~~~~~I~~~~   26 (119)
                      +-||=|+.++|+...+.+.+|.++|
T Consensus        78 ltGYlgs~~qv~~i~~~v~~vk~~~  102 (281)
T COG2240          78 LTGYLGSAEQVRAIAGIVKAVKEAN  102 (281)
T ss_pred             EEccCCCHHHHHHHHHHHHHHhccC
Confidence            5699999999999999999998884


No 29 
>PF02662 FlpD:  Methyl-viologen-reducing hydrogenase, delta subunit;  InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=23.32  E-value=98  Score=21.91  Aligned_cols=49  Identities=4%  Similarity=0.002  Sum_probs=38.5

Q ss_pred             chhhhhhhhhhhhhhhhhhhhccCceeeeec----cccccchHHHHHHHHHHHHH
Q psy7464          35 NGRRGYMLTYIIAYIRDFACDYYFIGDSFET----SVPWDKTVLLCINVKKRLTR   85 (119)
Q Consensus        35 ~g~~W~~~RF~~PYLRd~l~~~G~~~DT~ET----A~~Ws~v~~l~~~V~~al~~   85 (119)
                      .|..|.+.|+  ..+++.|.+.|+=-|-+++    +..+.++.++.+.+.+.|++
T Consensus        70 ~Gn~~a~~Rv--~~~k~~L~~~Gi~~eRv~~~~~~~~~~~~fa~~~~~f~~~i~~  122 (124)
T PF02662_consen   70 EGNYRAEKRV--ERLKKLLEELGIEPERVRLYWISAPEGKRFAEIVNEFTERIKE  122 (124)
T ss_pred             hhhHHHHHHH--HHHHHHHHHcCCChhHeEEEEeCcccHHHHHHHHHHHHHHHHH
Confidence            3456666665  5689999999999999998    88888888888888777653


No 30 
>PF01218 Coprogen_oxidas:  Coproporphyrinogen III oxidase;  InterPro: IPR001260 Coprogen oxidase (i.e. coproporphyrin III oxidase or coproporphyrinogenase) catalyses the oxidative decarboxylation of coproporphyrinogen III to proto-porhyrinogen IX in the haem and chlorophyll biosynthetic pathways [, ]. The protein is a homodimer containing two internally bound iron atoms per molecule of native protein []. The enzyme is active in the presence of molecular oxygen that acts as an electron acceptor. The enzyme is widely distributed having been found in a variety of eukaryotic and prokaryotic sources.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 3EJO_B 3DWR_B 1VJU_B 2QT8_B 3DWS_A 2AEX_A 1TKL_B 1TK1_A 1TLB_Q 1TXN_A ....
Probab=22.67  E-value=1.1e+02  Score=25.55  Aligned_cols=77  Identities=10%  Similarity=-0.028  Sum_probs=56.0

Q ss_pred             ChHHHHhHHHHHHHHHHHcCCccCCCcchhhhhhhhhhhhhhhhhhhhccCceeeeeccccccchHHHHHHHHHHHHHHH
Q psy7464           8 DPEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVKKRLTREC   87 (119)
Q Consensus         8 ~~~~V~~~~~~~~~I~~~~GG~~~G~~~g~~W~~~RF~~PYLRd~l~~~G~~~DT~ETA~~Ws~v~~l~~~V~~al~~al   87 (119)
                      .++++..-.+..+++|.+|+...=  .-.|+|-+.-|-+|-..+.-===|+..|-|.+ .+|++.-.+.++|-+++..+.
T Consensus       133 ~~eD~~~FH~~~K~~cd~~~~~~Y--p~fK~wcD~YFyipHR~E~RGiGGIFfD~l~~-~~~e~~f~f~~~vg~~fl~aY  209 (296)
T PF01218_consen  133 FEEDAKHFHQTLKEACDPHDPSYY--PRFKKWCDEYFYIPHRNEHRGIGGIFFDDLNT-GDFEKDFAFVKDVGEAFLPAY  209 (296)
T ss_dssp             -HHHHHHHHHHHHHHHGGG-TTHH--HHHHHHHHHHSEEGGGTEESSSEEEEEEEE-S-S-HHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcChHHH--HHHHhhchhhcchhhcCCCcCCceeeeccccc-cchhhHHHHHHHHHHHHHHHH
Confidence            356788888999999999985431  24889999999888855544445788999986 668888888888877777764


No 31 
>PF06307 Herpes_IR6:  Herpesvirus IR6 protein;  InterPro: IPR010447 This family consists of several Herpesvirus IR6 proteins. The equine herpesvirus 1 (EHV-1) IR6 protein forms typical rod-like structures in infected cells, influences virus growth at elevated temperatures, and determines the virulence of EHV-1 Rac strains [].
Probab=21.29  E-value=49  Score=26.03  Aligned_cols=18  Identities=28%  Similarity=0.576  Sum_probs=14.3

Q ss_pred             eeEeeecccCCCCCCCCC
Q psy7464          94 MMLEQLPFGWPKKFSEPT  111 (119)
Q Consensus        94 ~~~~~l~~~~~~~~~~~~  111 (119)
                      +.|..|||+||+-.-|-.
T Consensus        84 GTFVrLPf~yPde~YEde  101 (214)
T PF06307_consen   84 GTFVRLPFLYPDEYYEDE  101 (214)
T ss_pred             CceEeccCCCchhhhcCc
Confidence            559999999999765544


No 32 
>KOG1369|consensus
Probab=21.06  E-value=85  Score=27.71  Aligned_cols=38  Identities=11%  Similarity=0.049  Sum_probs=28.5

Q ss_pred             chHHHHHHHHHHHHHHHHhCCcc--e-eEeeecccCCCCCC
Q psy7464          71 KTVLLCINVKKRLTRECTEGNVL--M-MLEQLPFGWPKKFS  108 (119)
Q Consensus        71 ~v~~l~~~V~~al~~al~~~g~~--~-~~~~l~~~~~~~~~  108 (119)
                      .-..|++-|...+.+-+.+.+..  . ..--++|+|||+-+
T Consensus       129 t~~~Lfd~Ia~~l~~F~~~~~~~~~~~l~lgFTFSfP~~Q~  169 (474)
T KOG1369|consen  129 TGEELFDFIARCLADFLDKMGLKGASKLPLGFTFSFPCRQT  169 (474)
T ss_pred             chHHHHHHHHHHHHHHHHHhccccccccccceEEeeeeeec
Confidence            34678888888888888886653  2 35567899999865


No 33 
>TIGR03182 PDH_E1_alph_y pyruvate dehydrogenase E1 component, alpha subunit. Members of this protein family are the alpha subunit of the E1 component of pyruvate dehydrogenase (PDH). This model represents one branch of a larger family that E1-alpha proteins from 2-oxoisovalerate dehydrogenase, acetoin dehydrogenase, another PDH clade, etc.
Probab=20.97  E-value=2.7e+02  Score=22.55  Aligned_cols=74  Identities=8%  Similarity=-0.036  Sum_probs=42.3

Q ss_pred             eCCh-HHHHhHHHHHHHHHHHcCCccC--------------------CCcchhhhhhhhhhhhhhhhhhhhccCceeeee
Q psy7464           6 LGDP-EDVKNNEDKIYSIAKRYGGIPA--------------------GESNGRRGYMLTYIIAYIRDFACDYYFIGDSFE   64 (119)
Q Consensus         6 EG~~-~~V~~~~~~~~~I~~~~GG~~~--------------------G~~~g~~W~~~RF~~PYLRd~l~~~G~~~DT~E   64 (119)
                      .|.+ ..|....+.+.+.+++.+|-.+                    .....+.|.+ |=-.+.+|+.|.+.|++.+.  
T Consensus       202 dg~d~~av~~a~~~A~~~ar~~~gP~lIe~~t~R~~gHs~~D~~~Yr~~~e~~~~~~-~dPi~~~~~~L~~~g~~~~~--  278 (315)
T TIGR03182       202 DGMDVLAVREAAKEAVERARSGKGPILLEMKTYRFRGHSMSDPAKYRSKEEVEEWRK-RDPIEKLKARLIEQGIASEE--  278 (315)
T ss_pred             CCCCHHHHHHHHHHHHHHHHccCCCEEEEEeCCcCCCCCCCCccccCCHHHHHHHHh-cCHHHHHHHHHHHCCCCCHH--
Confidence            4433 3455666777777777666221                    1123455653 22234688999999998764  


Q ss_pred             ccccccchHHHHHHHHHHHHHHHH
Q psy7464          65 TSVPWDKTVLLCINVKKRLTRECT   88 (119)
Q Consensus        65 TA~~Ws~v~~l~~~V~~al~~al~   88 (119)
                            .+.++.+.+++.|.++++
T Consensus       279 ------~~~~~~~~~~~~v~~a~~  296 (315)
T TIGR03182       279 ------ELKEIDKEVRAEVEEAVE  296 (315)
T ss_pred             ------HHHHHHHHHHHHHHHHHH
Confidence                  445555555555555543


No 34 
>PF00676 E1_dh:  Dehydrogenase E1 component;  InterPro: IPR001017 This entry includes a number of dehydrogenases all of which use thiamine pyrophosphate as a cofactor and are members of a multienzyme complex. Pyruvate dehydrogenase (1.2.4.1 from EC), a component of the multienzyme pyruvate dehydrogenase complex; 2-oxoglutarate dehydrogenase (1.2.4.2 from EC), a component of the multienzyme 2-oxoglutarate dehydrogenase which contains multiple copies of three enzymatic components: 2-oxoglutarate dehydrogenase (E1), dihydrolipoamide succinyltransferase (E2) and lipoamide dehydrogenase (E3); and 2-oxoisovalerate dehydrogenase (1.2.4.4 from EC), a component of the multienzyme branched-chain alpha-keto dehydrogenase complex all belong to this family.; GO: 0016624 oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor, 0008152 metabolic process; PDB: 1X7Y_A 1V1M_A 1X7W_A 1OLU_A 2J9F_A 2BEW_A 1V11_A 2BFE_A 1U5B_A 2BEU_A ....
Probab=20.88  E-value=2.8e+02  Score=22.38  Aligned_cols=80  Identities=11%  Similarity=0.067  Sum_probs=0.0

Q ss_pred             EEEEeCCh-HHHHhHHHHHHHHHHHcCCccC---------------------CCcchhhhhhhhhhhhhhhhhhhhccCc
Q psy7464           2 ALLVLGDP-EDVKNNEDKIYSIAKRYGGIPA---------------------GESNGRRGYMLTYIIAYIRDFACDYYFI   59 (119)
Q Consensus         2 vlgfEG~~-~~V~~~~~~~~~I~~~~GG~~~---------------------G~~~g~~W~~~RF~~PYLRd~l~~~G~~   59 (119)
                      .+-..|.+ ..|-...+.+.+-+++.+|-.+                     .+.--+.|.+.+=-.+.+++.|.+.|++
T Consensus       189 ~~~VDG~D~~av~~a~~~A~~~~R~g~gP~lie~~tyR~~gHs~~Dd~~~yr~~~e~~~~~~~~DPi~~~~~~L~~~g~~  268 (300)
T PF00676_consen  189 GIRVDGNDVEAVYEAAKEAVEYARAGKGPVLIEAVTYRLRGHSESDDPTFYRSPEEYEEWWKKRDPIKRFRRYLIEEGVL  268 (300)
T ss_dssp             EEEEETTSHHHHHHHHHHHHHHHHTTT--EEEEEEE--SS-SSTTSCGGGTSHHHHHHHHHHCT-HHHHHHHHHHHTTSS
T ss_pred             EEEECCEeHHHHHHHHHHHHHHHhcCCCCEEEEEeeccCCCCCCCCCccccCCHHHHHHHHhcCcHHHHHHHHHHHcCCC


Q ss_pred             eeeeeccccccchHHHHHHHHHHHHHHHHh
Q psy7464          60 GDSFETSVPWDKTVLLCINVKKRLTRECTE   89 (119)
Q Consensus        60 ~DT~ETA~~Ws~v~~l~~~V~~al~~al~~   89 (119)
                      .+        +.+.++.+++++.|.++++.
T Consensus       269 t~--------~~~~~i~~e~~~~v~~a~~~  290 (300)
T PF00676_consen  269 TE--------EELDAIEAEIKAEVEEAVEF  290 (300)
T ss_dssp             -H--------HHHHHHHHHHHHHHHHHHHH
T ss_pred             CH--------HHHHHHHHHHHHHHHHHHHH


No 35 
>cd05126 Mth938 Mth938 domain. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. The function of the protein has not been determined.
Probab=20.67  E-value=1.2e+02  Score=21.41  Aligned_cols=67  Identities=9%  Similarity=-0.100  Sum_probs=42.8

Q ss_pred             HHHHHHHHHHcCC-ccCCCcchhhhhhhhhh-hhhhhhhhhhccCceeeeeccccccchHHHHHHHHHHHHHHHHhCCcc
Q psy7464          16 EDKIYSIAKRYGG-IPAGESNGRRGYMLTYI-IAYIRDFACDYYFIGDSFETSVPWDKTVLLCINVKKRLTRECTEGNVL   93 (119)
Q Consensus        16 ~~~~~~I~~~~GG-~~~G~~~g~~W~~~RF~-~PYLRd~l~~~G~~~DT~ETA~~Ws~v~~l~~~V~~al~~al~~~g~~   93 (119)
                      .+.+.+++...-- +.+|+     +...+|. -|-+++.|.+.|+-++.+.|..-    -+        .-+.|..+|.+
T Consensus        48 ~~~l~~ll~~~peivliGT-----G~~~~~~~~~~~~~~l~~~Gi~ve~m~T~aA----cr--------TYN~L~~EgRr  110 (117)
T cd05126          48 PEELEELLEEGVEVIVIGT-----GQSGALKVPPETVEKLEKRGVEVLVLPTEEA----VK--------RYNELAGKGRR  110 (117)
T ss_pred             HHHHHHHHhcCCCEEEEcC-----CCCccccCCHHHHHHHHhcCCEEEEcChHHH----HH--------HHHHHHhCCCe
Confidence            4445556643222 34576     5667754 67888899999999999999642    22        23446667777


Q ss_pred             ee-Eeee
Q psy7464          94 MM-LEQL   99 (119)
Q Consensus        94 ~~-~~~l   99 (119)
                      +. .-|+
T Consensus       111 V~Aa~H~  117 (117)
T cd05126         111 VLAVIHV  117 (117)
T ss_pred             EEEEEeC
Confidence            76 5553


No 36 
>PF09784 L31:  Mitochondrial ribosomal protein L31;  InterPro: IPR016340 This group represents a predicted mitochondrial ribosomal protein L31, fungal type [, ].
Probab=20.49  E-value=60  Score=23.04  Aligned_cols=30  Identities=27%  Similarity=0.310  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHHHHhCCccee-EeeecccCCC
Q psy7464          76 CINVKKRLTRECTEGNVLMM-LEQLPFGWPK  105 (119)
Q Consensus        76 ~~~V~~al~~al~~~g~~~~-~~~l~~~~~~  105 (119)
                      .++|.+.|.++|.+.|.+.- +.++-+.+|+
T Consensus        31 VD~vi~~l~~al~~~~~~~~~~~~~~~~~P~   61 (103)
T PF09784_consen   31 VDSVIDTLYEALKKKGKQCKALERLKFEFPK   61 (103)
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHhCCC
Confidence            34566666777777788777 8888887775


No 37 
>cd08806 CARD_CARD14_CARMA2 Caspase activation and recruitment domain of CARD14-like proteins. Caspase activation and recruitment domain (CARD) similar to that found in CARD14, also known as BIMP2 or CARMA2 (caspase recruitment domain-containing membrane-associated guanylate kinase protein 2). CARD14 has been identified as a novel member of the MAGUK (membrane-associated guanylate kinase) family that functions as upstream activators of BCL10 (B-cell lymphoma 10) and NF-kB signaling. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effector Domain). They serve as adaptors in signaling pathways 
Probab=20.23  E-value=22  Score=24.48  Aligned_cols=58  Identities=19%  Similarity=0.165  Sum_probs=35.3

Q ss_pred             hhhhhhhhhhhccCceeeeeccccccchHHHHHHH--HHHHHHHHHhCCccee---EeeecccCCCCCC
Q psy7464          45 IIAYIRDFACDYYFIGDSFETSVPWDKTVLLCINV--KKRLTRECTEGNVLMM---LEQLPFGWPKKFS  108 (119)
Q Consensus        45 ~~PYLRd~l~~~G~~~DT~ETA~~Ws~v~~l~~~V--~~al~~al~~~g~~~~---~~~l~~~~~~~~~  108 (119)
                      -.||||    +.|++-++-|==+-  +.+.+-.++  ...+-+-|.-+|.++.   +..|-|-||.=|+
T Consensus        21 l~pYLr----Q~~IL~~~deeeIl--s~~t~~~r~~k~g~LLDIL~trG~~g~~aFLeSLe~~yP~ly~   83 (86)
T cd08806          21 LTPYLR----QAKVLDQLDEEEVL--HSPRLTNRAMRVGHLLDLLKTRGKNGAIAFLESLKFHNPDVYT   83 (86)
T ss_pred             ccHHHH----HcCCCChhhHHHHH--ccchHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHCHHHHH
Confidence            357766    46777666553332  111122222  2356778888999887   7888888887554


No 38 
>COG2723 BglB Beta-glucosidase/6-phospho-beta-glucosidase/beta-galactosidase [Carbohydrate transport and metabolism]
Probab=20.22  E-value=92  Score=27.40  Aligned_cols=53  Identities=21%  Similarity=0.254  Sum_probs=37.3

Q ss_pred             hhhhhhhhccCceeeeeccccccchHH------HHH---HHHHHHHHHHHhCCccee--Eeeec
Q psy7464          48 YIRDFACDYYFIGDSFETSVPWDKTVL------LCI---NVKKRLTRECTEGNVLMM--LEQLP  100 (119)
Q Consensus        48 YLRd~l~~~G~~~DT~ETA~~Ws~v~~------l~~---~V~~al~~al~~~g~~~~--~~~l~  100 (119)
                      |=.|.-+..-+...++=|++.||||-+      .-+   +--..|-++|.+.|+.++  +.|..
T Consensus        61 YkeDi~L~~emG~~~~R~SI~WsRIfP~g~~~e~N~~gl~fY~~l~del~~~gIep~vTL~Hfd  124 (460)
T COG2723          61 YKEDIALAKEMGLNAFRTSIEWSRIFPNGDGGEVNEKGLRFYDRLFDELKARGIEPFVTLYHFD  124 (460)
T ss_pred             hHHHHHHHHHcCCCEEEeeeeEEEeecCCCCCCcCHHHHHHHHHHHHHHHHcCCEEEEEecccC
Confidence            345665556667799999999999865      111   124466888999999777  77753


Done!