Citrus Sinensis ID: 048616

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270--
Protein Sequence
MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEMSASDSFSC
Secondary Structure (PSIPRED)
cccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHccHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEHHHHHHHHHcccc
Coil and Loop (DISEMBL)
mremgvkpdivsYNCLIDVYCKDRQVEKAYKIVEKMrdedispdvisytsiigglglvgqpdKARDVLKEMkeygcypdaaAYNAAIRNYCIAKRLRDASGLMDEMVekglspnattyNLFFRVFYWSNDLRSSWNLYCRMmgtgclpntqsCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKmalfgpsmipkREEYLAEMsasdsfsc
Flexible Loop (DISEMBL)
mremgvkpdivsynCLIDVYCKDRQVEKAYKIVekmrdedispdVISYTSiigglglvgqPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEmiekghkpsqvSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEMsasdsfsc
Low Complexity Region (SEG)
MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEMSASDSFSC
Disordered region (IsUnstruct)
********DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE*********FRRIKALM******************************************
Disordered Region (DISOPRED)
***MGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEMSASDSFSC
Disordered Region (DISEMBL)
MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLA**********
Disordered Region (DISPRO)
****GVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEMSASDSFSC
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRxxxxxxxxxxxxxxxxxxxxxMALFGPSMIPKREEYLAEMSASDSFSC
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	272	2.2.26 [Sep-21-2011]
Q9FZ19	491	Putative pentatricopeptid	yes	no	0.937	0.519	0.703	1e-100
Q9S7R4	482	Pentatricopeptide repeat-	no	no	0.856	0.483	0.305	1e-29
Q9LFM6	602	Pentatricopeptide repeat-	no	no	0.904	0.408	0.283	3e-29
Q9LFQ4	572	Pentatricopeptide repeat-	no	no	0.933	0.444	0.3	2e-27
Q9T0D6	566	Pentatricopeptide repeat-	no	no	0.875	0.420	0.289	3e-27
Q9FFE3	535	Pentatricopeptide repeat-	no	no	0.830	0.422	0.295	4e-27
Q9M302	659	Pentatricopeptide repeat-	no	no	0.783	0.323	0.316	6e-27
Q9C9A2	510	Pentatricopeptide repeat-	no	no	0.893	0.476	0.280	9e-27
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.794	0.361	0.283	1e-26
Q0WP85	509	Pentatricopeptide repeat-	no	no	0.904	0.483	0.296	1e-26

>sp|Q9FZ19|PPR5_ARATH Putative pentatricopeptide repeat-containing protein At1g02420 OS=Arabidopsis thaliana GN=At1g02420 PE=3 SV=2

 Score =  365 bits (938), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 180/256 (70%), Positives = 219/256 (85%), Gaps = 1/256 (0%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M+  G+KPD+V+YN LIDVYCKDR++EKAYK+++KMR+E+ +PDVI+YT++IGGLGL+GQ
Sbjct: 237 MKGKGLKPDVVTYNSLIDVYCKDREIEKAYKLIDKMREEEETPDVITYTTVIGGLGLIGQ 296

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
           PDKAR+VLKEMKEYGCYPD AAYNAAIRN+CIA+RL DA  L+DEMV+KGLSPNATTYNL
Sbjct: 297 PDKAREVLKEMKEYGCYPDVAAYNAAIRNFCIARRLGDADKLVDEMVKKGLSPNATTYNL 356

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
           FFRV   +NDL  SW LY RM+G  CLPNTQSCMFL+K+ KR EKV++A++LW DMV KG
Sbjct: 357 FFRVLSLANDLGRSWELYVRMLGNECLPNTQSCMFLIKMFKRHEKVDMAMRLWEDMVVKG 416

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
           FGSY LVSDVL DLLCD+ K+ EAEK  LEM+EKGH+PS VSF+RIK LMELANK + + 
Sbjct: 417 FGSYSLVSDVLLDLLCDLAKVEEAEKCLLEMVEKGHRPSNVSFKRIKLLMELANKHDEVN 476

Query: 241 NLSNKMALFGPSMIPK 256
           NL  KMA+F  + IP+
Sbjct: 477 NLIQKMAIFS-TEIPR 491

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S7R4|PP125_ARATH Pentatricopeptide repeat-containing protein At1g74900, mitochondrial OS=Arabidopsis thaliana GN=OTP43 PE=2 SV=1

 Score =  130 bits (327), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 74/242 (30%), Positives = 121/242 (50%), Gaps = 9/242 (3%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M E G+ P++ +YN ++  + +  Q+  A++   +M+  D   DV++YT+++ G G+ G+
Sbjct: 221 MVERGINPNLTTYNTMLKGFFRAGQIRHAWEFFLEMKKRDCEIDVVTYTTVVHGFGVAGE 280

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
             +AR+V  EM   G  P  A YNA I+  C    + +A  + +EMV +G  PN TTYN+
Sbjct: 281 IKRARNVFDEMIREGVLPSVATYNAMIQVLCKKDNVENAVVMFEEMVRRGYEPNVTTYNV 340

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
             R  + + +      L  RM   GC PN Q+   +++      +VE AL L+  M   G
Sbjct: 341 LIRGLFHAGEFSRGEELMQRMENEGCEPNFQTYNMMIRYYSECSEVEKALGLFEKM---G 397

Query: 181 FGSYILVSDVLFDLLCDM------GKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELAN 234
            G  +   D    L+  M        +V A K  LEM+E+G  P + +F R+   + L  
Sbjct: 398 SGDCLPNLDTYNILISGMFVRKRSEDMVVAGKLLLEMVERGFIPRKFTFNRVLNGLLLTG 457

Query: 235 KQ 236
            Q
Sbjct: 458 NQ 459

Required for the trans-splicing of intron 1 of the mitochondrial nad1 transcript encoding the ND1 subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I).

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFM6|PP375_ARATH Pentatricopeptide repeat-containing protein At5g11310, mitochondrial OS=Arabidopsis thaliana GN=At5g11310 PE=2 SV=1

 Score =  129 bits (323), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 70/247 (28%), Positives = 131/247 (53%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M+ M VKP +V+Y  LI+ YC+ R+V+ A +++E+M+  ++  + + +  II GLG  G+
Sbjct: 276 MKAMNVKPTVVTYGTLIEGYCRMRRVQIAMEVLEEMKMAEMEINFMVFNPIIDGLGEAGR 335

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
             +A  +++        P    YN+ ++N+C A  L  AS ++  M+ +G+ P  TTYN 
Sbjct: 336 LSEALGMMERFFVCESGPTIVTYNSLVKNFCKAGDLPGASKILKMMMTRGVDPTTTTYNH 395

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
           FF+ F   N      NLY +++  G  P+  +   ++K+     K+ +A+Q+  +M  +G
Sbjct: 396 FFKYFSKHNKTEEGMNLYFKLIEAGHSPDRLTYHLILKMLCEDGKLSLAMQVNKEMKNRG 455

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
               +L + +L  LLC +  L EA + F   + +G  P  ++F+ I   +      +  +
Sbjct: 456 IDPDLLTTTMLIHLLCRLEMLEEAFEEFDNAVRRGIIPQYITFKMIDNGLRSKGMSDMAK 515

Query: 241 NLSNKMA 247
            LS+ M+
Sbjct: 516 RLSSLMS 522

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFQ4|PP383_ARATH Pentatricopeptide repeat-containing protein At5g15010, mitochondrial OS=Arabidopsis thaliana GN=At5g15010 PE=2 SV=2

 Score =  122 bits (306), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 78/260 (30%), Positives = 132/260 (50%), Gaps = 6/260 (2%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M  +GVK D+VSY+ +I  Y K   + K  K+ ++M+ E I PD   Y +++  L     
Sbjct: 293 MGNVGVKHDVVSYSSMISCYSKGGSLNKVLKLFDRMKKECIEPDRKVYNAVVHALAKASF 352

Query: 61  PDKARDVLKEM-KEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYN 119
             +AR+++K M +E G  P+   YN+ I+  C A++  +A  + DEM+EKGL P   TY+
Sbjct: 353 VSEARNLMKTMEEEKGIEPNVVTYNSLIKPLCKARKTEEAKQVFDEMLEKGLFPTIRTYH 412

Query: 120 LFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK 179
            F R+     ++   + L  +M   GC P  ++ + L++   R    +  L LW++M EK
Sbjct: 413 AFMRILRTGEEV---FELLAKMRKMGCEPTVETYIMLIRKLCRWRDFDNVLLLWDEMKEK 469

Query: 180 GFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEAL 239
             G  +    V+   L   GK+ EA   + EM +KG +P++     I++    + KQ A 
Sbjct: 470 TVGPDLSSYIVMIHGLFLNGKIEEAYGYYKEMKDKGMRPNENVEDMIQSW--FSGKQYAE 527

Query: 240 QNLSNKMALFGPSMIPKREE 259
           Q +++         I K+ E
Sbjct: 528 QRITDSKGEVNKGAIVKKSE 547

Arabidopsis thaliana (taxid: 3702)

>sp|Q9T0D6|PP306_ARATH Pentatricopeptide repeat-containing protein At4g11690 OS=Arabidopsis thaliana GN=At4g11690 PE=2 SV=1

 Score =  122 bits (306), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 73/252 (28%), Positives = 128/252 (50%), Gaps = 14/252 (5%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M+E GV P++ +YNC+++  CKD + + A+++ ++MR+  +S ++++Y ++IGGL    +
Sbjct: 259 MQEDGVFPNLYTYNCVMNQLCKDGRTKDAFQVFDEMRERGVSCNIVTYNTLIGGLCREMK 318

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
            ++A  V+ +MK  G  P+   YN  I  +C   +L  A  L  ++  +GLSP+  TYN+
Sbjct: 319 LNEANKVVDQMKSDGINPNLITYNTLIDGFCGVGKLGKALSLCRDLKSRGLSPSLVTYNI 378

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
               F    D   +  +   M   G  P+  +   L+    R + +E A+QL   M E G
Sbjct: 379 LVSGFCRKGDTSGAAKMVKEMEERGIKPSKVTYTILIDTFARSDNMEKAIQLRLSMEELG 438

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQV--------------SFRRI 226
               +    VL    C  G++ EA + F  M+EK  +P++V              S+R +
Sbjct: 439 LVPDVHTYSVLIHGFCIKGQMNEASRLFKSMVEKNCEPNEVIYNTMILGYCKEGSSYRAL 498

Query: 227 KALMELANKQEA 238
           K L E+  K+ A
Sbjct: 499 KLLKEMEEKELA 510

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FFE3|PP388_ARATH Pentatricopeptide repeat-containing protein At5g16420, mitochondrial OS=Arabidopsis thaliana GN=At5g16420 PE=2 SV=1

 Score =  122 bits (305), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 67/227 (29%), Positives = 115/227 (50%), Gaps = 1/227 (0%)

Query: 4   MGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDK 63
            G+ P+I + N L+   CK   +E AYK+++++    + P++++YT+I+GG    G  + 
Sbjct: 185 FGITPNIFTCNLLVKALCKKNDIESAYKVLDEIPSMGLVPNLVTYTTILGGYVARGDMES 244

Query: 64  ARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFR 123
           A+ VL+EM + G YPDA  Y   +  YC   R  +A+ +MD+M +  + PN  TY +  R
Sbjct: 245 AKRVLEEMLDRGWYPDATTYTVLMDGYCKLGRFSEAATVMDDMEKNEIEPNEVTYGVMIR 304

Query: 124 VFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGS 183
                     + N++  M+    +P++  C  ++       KV+ A  LW  M++     
Sbjct: 305 ALCKEKKSGEARNMFDEMLERSFMPDSSLCCKVIDALCEDHKVDEACGLWRKMLKNNCMP 364

Query: 184 YILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALM 230
              +   L   LC  G++ EA K F E  EKG  PS +++  + A M
Sbjct: 365 DNALLSTLIHWLCKEGRVTEARKLFDE-FEKGSIPSLLTYNTLIAGM 410

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M302|PP270_ARATH Pentatricopeptide repeat-containing protein At3g48810 OS=Arabidopsis thaliana GN=At3g48810 PE=2 SV=1

 Score =  121 bits (303), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 70/221 (31%), Positives = 114/221 (51%), Gaps = 8/221 (3%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M+  G +P++ +YN L+   CK+ +V+ A K++ +M ++   PD +SYT++I  +  VG 
Sbjct: 172 MKRDGFEPNVFTYNVLLKALCKNNKVDGAKKLLVEMSNKGCCPDAVSYTTVISSMCEVGL 231

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
             + R++ +  +     P  + YNA I   C     + A  LM EMVEKG+SPN  +Y+ 
Sbjct: 232 VKEGRELAERFE-----PVVSVYNALINGLCKEHDYKGAFELMREMVEKGISPNVISYST 286

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
              V   S  +  +++   +M+  GC PN  +   LVK C  +     AL LWN M+ +G
Sbjct: 287 LINVLCNSGQIELAFSFLTQMLKRGCHPNIYTLSSLVKGCFLRGTTFDALDLWNQMI-RG 345

Query: 181 FG--SYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS 219
           FG    ++  + L    C  G +V+A   F  M E G  P+
Sbjct: 346 FGLQPNVVAYNTLVQGFCSHGNIVKAVSVFSHMEEIGCSPN 386

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C9A2|PP112_ARATH Pentatricopeptide repeat-containing protein At1g71060, mitochondrial OS=Arabidopsis thaliana GN=At1g71060 PE=2 SV=1

 Score =  120 bits (301), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 69/246 (28%), Positives = 129/246 (52%), Gaps = 3/246 (1%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M++ G +PD+V+Y  +I+ +CK ++ E+A +   +M   +  P    + S+I GLG   +
Sbjct: 258 MKDEGFEPDVVAYGIIINAHCKAKKYEEAIRFFNEMEQRNCKPSPHIFCSLINGLGSEKK 317

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
            + A +  +  K  G   +A  YNA +  YC ++R+ DA   +DEM  KG+ PNA TY++
Sbjct: 318 LNDALEFFERSKSSGFPLEAPTYNALVGAYCWSQRMEDAYKTVDEMRLKGVGPNARTYDI 377

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
                      + ++ +Y  M    C P   +   +V++   +E++++A+++W++M  KG
Sbjct: 378 ILHHLIRMQRSKEAYEVYQTM---SCEPTVSTYEIMVRMFCNKERLDMAIKIWDEMKGKG 434

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
               + +   L   LC   KL EA + F EM++ G +P    F R+K  +    +++ + 
Sbjct: 435 VLPGMHMFSSLITALCHENKLDEACEYFNEMLDVGIRPPGHMFSRLKQTLLDEGRKDKVT 494

Query: 241 NLSNKM 246
           +L  KM
Sbjct: 495 DLVVKM 500

Arabidopsis thaliana (taxid: 3702)

>sp|Q3EDF8|PPR28_ARATH Pentatricopeptide repeat-containing protein At1g09900 OS=Arabidopsis thaliana GN=At1g09900 PE=2 SV=1

 Score =  120 bits (301), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 62/219 (28%), Positives = 116/219 (52%)

Query: 8   PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDV 67
           PD+++Y  LI+  C+D  V  A K++++MRD   +PDV++Y  ++ G+   G+ D+A   
Sbjct: 237 PDVITYTILIEATCRDSGVGHAMKLLDEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKF 296

Query: 68  LKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW 127
           L +M   GC P+   +N  +R+ C   R  DA  L+ +M+ KG SP+  T+N+       
Sbjct: 297 LNDMPSSGCQPNVITHNIILRSMCSTGRWMDAEKLLADMLRKGFSPSVVTFNILINFLCR 356

Query: 128 SNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILV 187
              L  + ++  +M   GC PN+ S   L+    +++K++ A++    MV +G    I+ 
Sbjct: 357 KGLLGRAIDILEKMPQHGCQPNSLSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVT 416

Query: 188 SDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRI 226
            + +   LC  GK+ +A +   ++  KG  P  +++  +
Sbjct: 417 YNTMLTALCKDGKVEDAVEILNQLSSKGCSPVLITYNTV 455

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WP85|PP150_ARATH Pentatricopeptide repeat-containing protein At2g13420, mitochondrial OS=Arabidopsis thaliana GN=At2g13420 PE=2 SV=1

 Score =  120 bits (300), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 76/256 (29%), Positives = 127/256 (49%), Gaps = 10/256 (3%)

Query: 1   MREMGVKPDIVSYNCLIDVYCK----------DRQVEKAYKIVEKMRDEDISPDVISYTS 50
           M E G++P++V+YN L++  C+          +R V  A K+ ++MR   I PDV S++ 
Sbjct: 233 MIESGIEPNVVTYNVLLNGICRTASLHPEERFERNVRNAEKVFDEMRQRGIEPDVTSFSI 292

Query: 51  IIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKG 110
           ++       + +   D +K MK  G  P    Y + ++  C   RL +A  L++ MVE G
Sbjct: 293 VLHMYSRAHKAELTLDKMKLMKAKGISPTIETYTSVVKCLCSCGRLEEAEELLETMVESG 352

Query: 111 LSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIAL 170
           +SP++ TYN FF+ +    D   + NLY +M    C P+TQ+   L+       K+E   
Sbjct: 353 ISPSSATYNCFFKEYKGRKDANGAMNLYRKMKNGLCKPSTQTYNVLLGTFINLGKMETVK 412

Query: 171 QLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALM 230
           ++W+D+     G  +     L   LC   K  EA   F+EMIE+G  P +++F  +   +
Sbjct: 413 EIWDDLKASETGPDLDSYTSLVHGLCSKEKWKEACGYFVEMIERGFLPQKLTFETLYKGL 472

Query: 231 ELANKQEALQNLSNKM 246
             +NK    + L  K+
Sbjct: 473 IQSNKMRTWRRLKKKL 488

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	272
255548349	505	pentatricopeptide repeat-containing prot	0.992	0.534	0.808	1e-129
225437663	526	PREDICTED: putative pentatricopeptide re	1.0	0.517	0.794	1e-126
356499705	500	PREDICTED: putative pentatricopeptide re	0.981	0.534	0.761	1e-120
357442157	518	Pentatricopeptide repeat-containing prot	0.944	0.496	0.771	1e-118
224093900	507	predicted protein [Populus trichocarpa]	0.930	0.499	0.782	1e-117
449466251	495	PREDICTED: putative pentatricopeptide re	0.772	0.424	0.776	1e-115
449511317	495	PREDICTED: putative pentatricopeptide re	0.772	0.424	0.776	1e-115
297843042	490	hypothetical protein ARALYDRAFT_470202 [	0.937	0.520	0.722	1e-101
9857539	490	Hypothetical protein [Arabidopsis thalia	0.937	0.520	0.703	8e-99
15217756	491	pentatricopeptide repeat-containing prot	0.937	0.519	0.703	8e-99

>gi|255548349|ref|XP_002515231.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223545711|gb|EEF47215.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  468 bits (1204), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 219/271 (80%), Positives = 243/271 (89%), Gaps = 1/271 (0%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           MRE+G+KPD+VSYN LIDVYCKDR++EKAYK+VEKMR+EDISPDVI+YTSIIGGLGLVGQ
Sbjct: 233 MRELGIKPDVVSYNSLIDVYCKDREMEKAYKVVEKMREEDISPDVITYTSIIGGLGLVGQ 292

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
           PDKARD+L EMKEYGCYPD AAYNA IRNYCIAKRL DAS LMDEM  KGLSPNATTYNL
Sbjct: 293 PDKARDILNEMKEYGCYPDVAAYNAVIRNYCIAKRLGDASNLMDEMASKGLSPNATTYNL 352

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
           FFRVFYWSNDLR+SW+LY RMM +GCLPNTQSCMFL++L ++ EKVE+AL LWNDMVEKG
Sbjct: 353 FFRVFYWSNDLRNSWSLYRRMMESGCLPNTQSCMFLIRLFRKHEKVEMALTLWNDMVEKG 412

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
           FGSYILVSDVLFDLLCDMGKLVEAEK FL+MIEKGHKPS VSFRRIK LMEL NK +AL 
Sbjct: 413 FGSYILVSDVLFDLLCDMGKLVEAEKCFLQMIEKGHKPSNVSFRRIKVLMELVNKHDALL 472

Query: 241 NLSNKMALFGPSM-IPKREEYLAEMSASDSF 270
           NL  KMA+FG S+ +P+REE+L E S  DS 
Sbjct: 473 NLQKKMAIFGSSIQLPEREEHLNETSYIDSL 503

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225437663|ref|XP_002279193.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g02420-like [Vitis vinifera]

 Score =  455 bits (1171), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 217/273 (79%), Positives = 239/273 (87%), Gaps = 1/273 (0%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           MREMGV+PD+VSYNCLIDVYCK R++E+AYK+++KMRDE ISPDVISYTSIIGGLGLVGQ
Sbjct: 254 MREMGVEPDVVSYNCLIDVYCKGREIERAYKVIDKMRDEQISPDVISYTSIIGGLGLVGQ 313

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
           PDKARDVLKEMKEYGCYPD AAYNAAIRN+CIA RL DA GLMDEMV KGLSPNATTYNL
Sbjct: 314 PDKARDVLKEMKEYGCYPDVAAYNAAIRNFCIANRLGDADGLMDEMVGKGLSPNATTYNL 373

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
           FFR FYWSNDL  S  LY RM  TGCLPNTQSCMFL +L +RQEKVE+AL+LWNDMVEKG
Sbjct: 374 FFRCFYWSNDLGRSCGLYQRMKKTGCLPNTQSCMFLTRLFRRQEKVEMALELWNDMVEKG 433

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
           FGSYILVSDVLFD+LCDMGKLVE EK  L+MIEKGHKPS VSFRRIK LMELANK EALQ
Sbjct: 434 FGSYILVSDVLFDMLCDMGKLVEVEKCCLQMIEKGHKPSNVSFRRIKVLMELANKHEALQ 493

Query: 241 NLSNKMALFGPSM-IPKREEYLAEMSASDSFSC 272
           NL+ KMA+FGPS  + +R E + E+S  +S  C
Sbjct: 494 NLTEKMAMFGPSTQVQERAENMVEISDLESLPC 526

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356499705|ref|XP_003518677.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g02420-like [Glycine max]

 Score =  436 bits (1120), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 204/268 (76%), Positives = 233/268 (86%), Gaps = 1/268 (0%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M+EMGV PD+V+YN L+DVYCK R++EKAYK++++MRD+D SPDVI+YT IIGGLGL+GQ
Sbjct: 228 MKEMGVTPDVVTYNSLMDVYCKGREIEKAYKMLDEMRDQDFSPDVITYTCIIGGLGLIGQ 287

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
           PDKAR+VLKEMKEYGCYPDAAAYNAAIRN+CIAKRL DA GL++EMV KGLSPNATTYNL
Sbjct: 288 PDKARNVLKEMKEYGCYPDAAAYNAAIRNFCIAKRLGDAHGLVEEMVTKGLSPNATTYNL 347

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
           FFRVFYWSNDL+SSWN+Y RMM  GCLPNTQSCMFL++L +R EKVE+ALQ W DMVEKG
Sbjct: 348 FFRVFYWSNDLQSSWNMYQRMMVEGCLPNTQSCMFLIRLFRRHEKVEMALQFWGDMVEKG 407

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
           FGSY LVSDVLFDLLCDMGKL EAEK FLEM+EKG KPS VSFRRIK LMELAN+ EALQ
Sbjct: 408 FGSYTLVSDVLFDLLCDMGKLEEAEKCFLEMVEKGQKPSHVSFRRIKVLMELANRHEALQ 467

Query: 241 NLSNKMALFG-PSMIPKREEYLAEMSAS 267
           +L  KMA+FG P  + +     AE S S
Sbjct: 468 SLMQKMAMFGRPLQVDQSTVNPAETSDS 495

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357442157|ref|XP_003591356.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355480404|gb|AES61607.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  429 bits (1104), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 199/258 (77%), Positives = 230/258 (89%), Gaps = 1/258 (0%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M+EMGV+PD+V+YN L+DVYCK R++EKAYK+ ++MR++D+SPDVI+YTS+IGGLGLVGQ
Sbjct: 222 MKEMGVEPDVVTYNSLVDVYCKGREIEKAYKVFDEMREKDLSPDVITYTSVIGGLGLVGQ 281

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
           PDKARDVLKEMKEYG YPD  AYNAAIRNYCIAKRL  A  L+DEMV KGLSPNATTYNL
Sbjct: 282 PDKARDVLKEMKEYGVYPDVPAYNAAIRNYCIAKRLGIAFELVDEMVNKGLSPNATTYNL 341

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
           FFRVFYWSNDL+SSWNLY RMMG GCLP TQSCMFL++L KR EK+E+ALQLW +MVEKG
Sbjct: 342 FFRVFYWSNDLQSSWNLYKRMMGEGCLPYTQSCMFLIRLFKRHEKMEMALQLWGEMVEKG 401

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
           FGSY LVSDVLFD+LCDMGKL+EAEK FLEMIEKG +PS VSF+RIK LMELANK EA+Q
Sbjct: 402 FGSYTLVSDVLFDMLCDMGKLMEAEKCFLEMIEKGQRPSNVSFKRIKVLMELANKHEAIQ 461

Query: 241 NLSNKMALFG-PSMIPKR 257
           NL+ KMA+FG P  + +R
Sbjct: 462 NLTQKMAIFGRPLQVHER 479

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224093900|ref|XP_002310039.1| predicted protein [Populus trichocarpa] gi|222852942|gb|EEE90489.1| predicted protein [Populus trichocarpa]

 Score =  426 bits (1095), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 198/253 (78%), Positives = 224/253 (88%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M+E+GVKPDIV+YN LIDV+CK R++EKAY +V +MR+EDI PDVI+YTSIIGGLGLVGQ
Sbjct: 237 MKELGVKPDIVTYNSLIDVFCKGRELEKAYGVVARMREEDILPDVITYTSIIGGLGLVGQ 296

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
           PDKARD+LKEMKE+GCYPD AAYNA IRNYCIAKRL  A  LM EM  KG+SPNAT+YNL
Sbjct: 297 PDKARDMLKEMKEHGCYPDVAAYNAVIRNYCIAKRLDAAYSLMAEMESKGMSPNATSYNL 356

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
           FFRVF WSNDLR+SW+ Y RMM  GCLPNTQSCMFL+KL KR EKVE+ALQLWNDMVEKG
Sbjct: 357 FFRVFSWSNDLRNSWDFYGRMMDAGCLPNTQSCMFLIKLFKRHEKVEMALQLWNDMVEKG 416

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
           FGSYILVSDVL  +LCDMGKLVEAEK FL+M+EKGHKPS VSFRRIK LMELANK +A++
Sbjct: 417 FGSYILVSDVLLGMLCDMGKLVEAEKCFLQMVEKGHKPSNVSFRRIKVLMELANKHDAIR 476

Query: 241 NLSNKMALFGPSM 253
           NLS KMA+FG S+
Sbjct: 477 NLSEKMAIFGSSI 489

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449466251|ref|XP_004150840.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g02420-like [Cucumis sativus]

 Score =  421 bits (1081), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 191/246 (77%), Positives = 223/246 (90%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M EMGVKPD+VSYNCL+DVYCK+R+++KA+K+V KMRDEDI  DVI+YTSIIGGLGLVGQ
Sbjct: 236 MIEMGVKPDVVSYNCLVDVYCKNREMDKAFKVVGKMRDEDIPADVITYTSIIGGLGLVGQ 295

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
           PDKAR++LKEMKEYGCYPD AAYNA IRN+CIAKRL +A  L+DEMV KGLSPNATTYNL
Sbjct: 296 PDKARNILKEMKEYGCYPDVAAYNATIRNFCIAKRLHEAFDLLDEMVNKGLSPNATTYNL 355

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
           FFR+F+WSNDL+S+WNLY RMM TGCLPNTQSC+FLV+L K+ EK E+AL+LWNDM++KG
Sbjct: 356 FFRIFFWSNDLQSAWNLYRRMMDTGCLPNTQSCLFLVRLFKKYEKEEMALELWNDMIQKG 415

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
           FGSYILVS+ LFDLLCD+GKL+EAE  FL+M++KGHKPS  SF+RIK LMELANK EALQ
Sbjct: 416 FGSYILVSEELFDLLCDLGKLIEAESCFLQMVDKGHKPSYTSFKRIKVLMELANKHEALQ 475

Query: 241 NLSNKM 246
           NLS KM
Sbjct: 476 NLSKKM 481

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449511317|ref|XP_004163923.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g02420-like [Cucumis sativus]

 Score =  421 bits (1081), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 191/246 (77%), Positives = 223/246 (90%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M EMGVKPD+VSYNCL+DVYCK+R+++KA+K+V KMRDEDI  DVI+YTSIIGGLGLVGQ
Sbjct: 236 MIEMGVKPDVVSYNCLVDVYCKNREMDKAFKVVGKMRDEDIPADVITYTSIIGGLGLVGQ 295

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
           PDKAR++LKEMKEYGCYPD AAYNA IRN+CIAKRL +A  L+DEMV KGLSPNATTYNL
Sbjct: 296 PDKARNILKEMKEYGCYPDVAAYNATIRNFCIAKRLHEAFDLLDEMVNKGLSPNATTYNL 355

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
           FFR+F+WSNDL+S+WNLY RMM TGCLPNTQSC+FLV+L K+ EK E+AL+LWNDM++KG
Sbjct: 356 FFRIFFWSNDLQSAWNLYRRMMDTGCLPNTQSCLFLVRLFKKYEKEEMALELWNDMIQKG 415

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
           FGSYILVS+ LFDLLCD+GKL+EAE  FL+M++KGHKPS  SF+RIK LMELANK EALQ
Sbjct: 416 FGSYILVSEELFDLLCDLGKLIEAESCFLQMVDKGHKPSYTSFKRIKVLMELANKHEALQ 475

Query: 241 NLSNKM 246
           NLS KM
Sbjct: 476 NLSKKM 481

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297843042|ref|XP_002889402.1| hypothetical protein ARALYDRAFT_470202 [Arabidopsis lyrata subsp. lyrata] gi|297335244|gb|EFH65661.1| hypothetical protein ARALYDRAFT_470202 [Arabidopsis lyrata subsp. lyrata]

 Score =  372 bits (955), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 185/256 (72%), Positives = 221/256 (86%), Gaps = 1/256 (0%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M+  G+KPD+V+YN LIDVYCKDR++EKAYK+++KMR+ED +PDVI+YT+IIGGLGL+GQ
Sbjct: 236 MKGKGLKPDVVTYNSLIDVYCKDREIEKAYKLIDKMREEDETPDVITYTTIIGGLGLIGQ 295

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
           PDKAR+VLKEMKEYGCYPD AAYNAAIRNYCIA+RL DA  L+DEMV+KGLSPNATTYNL
Sbjct: 296 PDKAREVLKEMKEYGCYPDVAAYNAAIRNYCIARRLGDADKLVDEMVKKGLSPNATTYNL 355

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
           FFRV   +NDL  SW LY RM+G GCLPNTQSCMFL+K+ KR EKV++A++LW DMV KG
Sbjct: 356 FFRVLSLANDLGRSWELYERMLGNGCLPNTQSCMFLIKMFKRHEKVDMAMRLWEDMVVKG 415

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
           FGSY LVSDVL DLLCD+ K+ EAEK  LEM+EKGH+PS VSF+RIK LMELANK + + 
Sbjct: 416 FGSYSLVSDVLLDLLCDLAKVEEAEKCLLEMVEKGHRPSNVSFKRIKLLMELANKHDEVN 475

Query: 241 NLSNKMALFGPSMIPK 256
           NL  KMA+FG + IP+
Sbjct: 476 NLIQKMAIFG-TEIPR 490

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9857539|gb|AAG00894.1|AC064879_12 Hypothetical protein [Arabidopsis thaliana]

 Score =  365 bits (938), Expect = 8e-99,   Method: Compositional matrix adjust.
 Identities = 180/256 (70%), Positives = 219/256 (85%), Gaps = 1/256 (0%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M+  G+KPD+V+YN LIDVYCKDR++EKAYK+++KMR+E+ +PDVI+YT++IGGLGL+GQ
Sbjct: 236 MKGKGLKPDVVTYNSLIDVYCKDREIEKAYKLIDKMREEEETPDVITYTTVIGGLGLIGQ 295

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
           PDKAR+VLKEMKEYGCYPD AAYNAAIRN+CIA+RL DA  L+DEMV+KGLSPNATTYNL
Sbjct: 296 PDKAREVLKEMKEYGCYPDVAAYNAAIRNFCIARRLGDADKLVDEMVKKGLSPNATTYNL 355

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
           FFRV   +NDL  SW LY RM+G  CLPNTQSCMFL+K+ KR EKV++A++LW DMV KG
Sbjct: 356 FFRVLSLANDLGRSWELYVRMLGNECLPNTQSCMFLIKMFKRHEKVDMAMRLWEDMVVKG 415

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
           FGSY LVSDVL DLLCD+ K+ EAEK  LEM+EKGH+PS VSF+RIK LMELANK + + 
Sbjct: 416 FGSYSLVSDVLLDLLCDLAKVEEAEKCLLEMVEKGHRPSNVSFKRIKLLMELANKHDEVN 475

Query: 241 NLSNKMALFGPSMIPK 256
           NL  KMA+F  + IP+
Sbjct: 476 NLIQKMAIFS-TEIPR 490

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15217756|ref|NP_171744.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|193806504|sp|Q9FZ19.2|PPR5_ARATH RecName: Full=Putative pentatricopeptide repeat-containing protein At1g02420 gi|332189307|gb|AEE27428.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  365 bits (938), Expect = 8e-99,   Method: Compositional matrix adjust.
 Identities = 180/256 (70%), Positives = 219/256 (85%), Gaps = 1/256 (0%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M+  G+KPD+V+YN LIDVYCKDR++EKAYK+++KMR+E+ +PDVI+YT++IGGLGL+GQ
Sbjct: 237 MKGKGLKPDVVTYNSLIDVYCKDREIEKAYKLIDKMREEEETPDVITYTTVIGGLGLIGQ 296

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
           PDKAR+VLKEMKEYGCYPD AAYNAAIRN+CIA+RL DA  L+DEMV+KGLSPNATTYNL
Sbjct: 297 PDKAREVLKEMKEYGCYPDVAAYNAAIRNFCIARRLGDADKLVDEMVKKGLSPNATTYNL 356

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
           FFRV   +NDL  SW LY RM+G  CLPNTQSCMFL+K+ KR EKV++A++LW DMV KG
Sbjct: 357 FFRVLSLANDLGRSWELYVRMLGNECLPNTQSCMFLIKMFKRHEKVDMAMRLWEDMVVKG 416

Query: 181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
           FGSY LVSDVL DLLCD+ K+ EAEK  LEM+EKGH+PS VSF+RIK LMELANK + + 
Sbjct: 417 FGSYSLVSDVLLDLLCDLAKVEEAEKCLLEMVEKGHRPSNVSFKRIKLLMELANKHDEVN 476

Query: 241 NLSNKMALFGPSMIPK 256
           NL  KMA+F  + IP+
Sbjct: 477 NLIQKMAIFS-TEIPR 491

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	272
TAIR|locus:2204913	491	AT1G02420 "AT1G02420" [Arabido	0.937	0.519	0.703	5e-99
TAIR|locus:2147947	602	AT5G11310 "AT5G11310" [Arabido	0.908	0.410	0.283	2.1e-28
TAIR|locus:2171352	535	AT5G16420 "AT5G16420" [Arabido	0.823	0.418	0.303	5.9e-28
TAIR|locus:2026346	510	AT1G71060 [Arabidopsis thalian	0.886	0.472	0.286	6e-27
TAIR|locus:2012883	537	AT1G20300 [Arabidopsis thalian	0.904	0.458	0.267	2.8e-26
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.878	0.399	0.285	3.2e-26
TAIR|locus:2139732	566	AT4G11690 [Arabidopsis thalian	0.819	0.393	0.295	3.4e-26
TAIR|locus:2099458	659	AT3G48810 "AT3G48810" [Arabido	0.783	0.323	0.316	9e-26
TAIR|locus:2174165	504	AT5G16640 [Arabidopsis thalian	0.878	0.474	0.295	9.7e-26
TAIR|locus:2026207	548	AT1G62680 [Arabidopsis thalian	0.797	0.395	0.305	1.8e-25

TAIR|locus:2204913 AT1G02420 "AT1G02420" [Arabidopsis thaliana (taxid:3702)]

 Score = 983 (351.1 bits), Expect = 5.0e-99, P = 5.0e-99
 Identities = 180/256 (70%), Positives = 218/256 (85%)

Query:     1 MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
             M+  G+KPD+V+YN LIDVYCKDR++EKAYK+++KMR+E+ +PDVI+YT++IGGLGL+GQ
Sbjct:   237 MKGKGLKPDVVTYNSLIDVYCKDREIEKAYKLIDKMREEEETPDVITYTTVIGGLGLIGQ 296

Query:    61 PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
             PDKAR+VLKEMKEYGCYPD AAYNAAIRN+CIA+RL DA  L+DEMV+KGLSPNATTYNL
Sbjct:   297 PDKAREVLKEMKEYGCYPDVAAYNAAIRNFCIARRLGDADKLVDEMVKKGLSPNATTYNL 356

Query:   121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
             FFRV   +NDL  SW LY RM+G  CLPNTQSCMFL+K+ KR EKV++A++LW DMV KG
Sbjct:   357 FFRVLSLANDLGRSWELYVRMLGNECLPNTQSCMFLIKMFKRHEKVDMAMRLWEDMVVKG 416

Query:   181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
             FGSY LVSDVL DLLCD+ K+ EAEK  LEM+EKGH+PS VSF+RIK LMELANK + + 
Sbjct:   417 FGSYSLVSDVLLDLLCDLAKVEEAEKCLLEMVEKGHRPSNVSFKRIKLLMELANKHDEVN 476

Query:   241 NLSNKMALFGPSMIPK 256
             NL  KMA+F    IP+
Sbjct:   477 NLIQKMAIFSTE-IPR 491

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2147947 AT5G11310 "AT5G11310" [Arabidopsis thaliana (taxid:3702)]

 Score = 323 (118.8 bits), Expect = 2.1e-28, P = 2.1e-28
 Identities = 70/247 (28%), Positives = 131/247 (53%)

Query:     1 MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
             M+ M VKP +V+Y  LI+ YC+ R+V+ A +++E+M+  ++  + + +  II GLG  G+
Sbjct:   276 MKAMNVKPTVVTYGTLIEGYCRMRRVQIAMEVLEEMKMAEMEINFMVFNPIIDGLGEAGR 335

Query:    61 PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
               +A  +++        P    YN+ ++N+C A  L  AS ++  M+ +G+ P  TTYN 
Sbjct:   336 LSEALGMMERFFVCESGPTIVTYNSLVKNFCKAGDLPGASKILKMMMTRGVDPTTTTYNH 395

Query:   121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
             FF+ F   N      NLY +++  G  P+  +   ++K+     K+ +A+Q+  +M  +G
Sbjct:   396 FFKYFSKHNKTEEGMNLYFKLIEAGHSPDRLTYHLILKMLCEDGKLSLAMQVNKEMKNRG 455

Query:   181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQ 240
                 +L + +L  LLC +  L EA + F   + +G  P  ++F+ I   +      +  +
Sbjct:   456 IDPDLLTTTMLIHLLCRLEMLEEAFEEFDNAVRRGIIPQYITFKMIDNGLRSKGMSDMAK 515

Query:   241 NLSNKMA 247
              LS+ M+
Sbjct:   516 RLSSLMS 522

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2171352 AT5G16420 "AT5G16420" [Arabidopsis thaliana (taxid:3702)]

 Score = 317 (116.6 bits), Expect = 5.9e-28, P = 5.9e-28
 Identities = 69/227 (30%), Positives = 118/227 (51%)

Query:     5 GVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKA 64
             G+ P+I + N L+   CK   +E AYK+++++    + P++++YT+I+GG    G  + A
Sbjct:   186 GITPNIFTCNLLVKALCKKNDIESAYKVLDEIPSMGLVPNLVTYTTILGGYVARGDMESA 245

Query:    65 RDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRV 124
             + VL+EM + G YPDA  Y   +  YC   R  +A+ +MD+M +  + PN  TY +  R 
Sbjct:   246 KRVLEEMLDRGWYPDATTYTVLMDGYCKLGRFSEAATVMDDMEKNEIEPNEVTYGVMIRA 305

Query:   125 FYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVK-LCKRQEKVEIALQLWNDMVEKGFGS 183
                      + N++  M+    +P++  C  ++  LC+   KV+ A  LW  M++     
Sbjct:   306 LCKEKKSGEARNMFDEMLERSFMPDSSLCCKVIDALCE-DHKVDEACGLWRKMLKNNCMP 364

Query:   184 YILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALM 230
                +   L   LC  G++ EA K F E  EKG  PS +++  + A M
Sbjct:   365 DNALLSTLIHWLCKEGRVTEARKLFDEF-EKGSIPSLLTYNTLIAGM 410

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2026346 AT1G71060 [Arabidopsis thaliana (taxid:3702)]

 Score = 307 (113.1 bits), Expect = 6.0e-27, P = 6.0e-27
 Identities = 71/248 (28%), Positives = 131/248 (52%)

Query:     1 MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
             M++ G +PD+V+Y  +I+ +CK ++ E+A +   +M   +  P    + S+I GLG   +
Sbjct:   258 MKDEGFEPDVVAYGIIINAHCKAKKYEEAIRFFNEMEQRNCKPSPHIFCSLINGLGSEKK 317

Query:    61 PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
              + A +  +  K  G   +A  YNA +  YC ++R+ DA   +DEM  KG+ PNA TY++
Sbjct:   318 LNDALEFFERSKSSGFPLEAPTYNALVGAYCWSQRMEDAYKTVDEMRLKGVGPNARTYDI 377

Query:   121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
                        + ++ +Y  M    C P   +   +V++   +E++++A+++W++M  KG
Sbjct:   378 ILHHLIRMQRSKEAYEVYQTM---SCEPTVSTYEIMVRMFCNKERLDMAIKIWDEMKGKG 434

Query:   181 F--GSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEA 238
                G ++  S  L   LC   KL EA + F EM++ G +P    F R+K  +    +++ 
Sbjct:   435 VLPGMHMFSS--LITALCHENKLDEACEYFNEMLDVGIRPPGHMFSRLKQTLLDEGRKDK 492

Query:   239 LQNLSNKM 246
             + +L  KM
Sbjct:   493 VTDLVVKM 500

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2012883 AT1G20300 [Arabidopsis thaliana (taxid:3702)]

 Score = 302 (111.4 bits), Expect = 2.8e-26, P = 2.8e-26
 Identities = 66/247 (26%), Positives = 125/247 (50%)

Query:     1 MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
             M+  G++P++ +Y+ +ID  C+  Q+ +A+ +   M D   +P+ I++ +++      G+
Sbjct:   281 MKLAGIEPNVYTYSIVIDALCRCGQISRAHDVFADMLDSGCAPNAITFNNLMRVHVKAGR 340

Query:    61 PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
              +K   V  +MK+ GC PD   YN  I  +C  + L +A  +++ M++K    NA+T+N 
Sbjct:   341 TEKVLQVYNQMKKLGCEPDTITYNFLIEAHCRDENLENAVKVLNTMIKKKCEVNASTFNT 400

Query:   121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
              FR      D+  +  +Y +MM   C PNT +   L+++    +  ++ L++  +M +K 
Sbjct:   401 IFRYIEKKRDVNGAHRMYSKMMEAKCEPNTVTYNILMRMFVGSKSTDMVLKMKKEMDDKE 460

Query:   181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE-KGHKPSQVSFRRIKALMELANKQEAL 239
                 +    +L  + C MG    A K F EM+E K   PS   +  + A +  A + +  
Sbjct:   461 VEPNVNTYRLLVTMFCGMGHWNNAYKLFKEMVEEKCLTPSLSLYEMVLAQLRRAGQLKKH 520

Query:   240 QNLSNKM 246
             + L  KM
Sbjct:   521 EELVEKM 527

GO:0005739 "mitochondrion" evidence=ISM;IDA

TAIR|locus:2024296 AT1G09900 "AT1G09900" [Arabidopsis thaliana (taxid:3702)]

 Score = 303 (111.7 bits), Expect = 3.2e-26, P = 3.2e-26
 Identities = 69/242 (28%), Positives = 125/242 (51%)

Query:     8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDV 67
             PD+++Y  LI+  C+D  V  A K++++MRD   +PDV++Y  ++ G+   G+ D+A   
Sbjct:   237 PDVITYTILIEATCRDSGVGHAMKLLDEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKF 296

Query:    68 LKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW 127
             L +M   GC P+   +N  +R+ C   R  DA  L+ +M+ KG SP+  T+N+       
Sbjct:   297 LNDMPSSGCQPNVITHNIILRSMCSTGRWMDAEKLLADMLRKGFSPSVVTFNILINFLCR 356

Query:   128 SNDLRSSWNLYCRMMGTGCLPNTQSCMFLVK-LCKRQEKVEIALQLWNDMVEKGFGSYIL 186
                L  + ++  +M   GC PN+ S   L+   CK ++K++ A++    MV +G    I+
Sbjct:   357 KGLLGRAIDILEKMPQHGCQPNSLSYNPLLHGFCK-EKKMDRAIEYLERMVSRGCYPDIV 415

Query:   187 VSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRR-IKALMELANKQEALQNLSNK 245
               + +   LC  GK+ +A +   ++  KG  P  +++   I  L +     +A++ L   
Sbjct:   416 TYNTMLTALCKDGKVEDAVEILNQLSSKGCSPVLITYNTVIDGLAKAGKTGKAIKLLDEM 475

Query:   246 MA 247
              A
Sbjct:   476 RA 477

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2139732 AT4G11690 [Arabidopsis thaliana (taxid:3702)]

 Score = 302 (111.4 bits), Expect = 3.4e-26, P = 3.4e-26
 Identities = 66/223 (29%), Positives = 118/223 (52%)

Query:     1 MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
             M+E GV P++ +YNC+++  CKD + + A+++ ++MR+  +S ++++Y ++IGGL    +
Sbjct:   259 MQEDGVFPNLYTYNCVMNQLCKDGRTKDAFQVFDEMRERGVSCNIVTYNTLIGGLCREMK 318

Query:    61 PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
              ++A  V+ +MK  G  P+   YN  I  +C   +L  A  L  ++  +GLSP+  TYN+
Sbjct:   319 LNEANKVVDQMKSDGINPNLITYNTLIDGFCGVGKLGKALSLCRDLKSRGLSPSLVTYNI 378

Query:   121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
                 F    D   +  +   M   G  P+  +   L+    R + +E A+QL   M E G
Sbjct:   379 LVSGFCRKGDTSGAAKMVKEMEERGIKPSKVTYTILIDTFARSDNMEKAIQLRLSMEELG 438

Query:   181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSF 223
                 +    VL    C  G++ EA + F  M+EK  +P++V +
Sbjct:   439 LVPDVHTYSVLIHGFCIKGQMNEASRLFKSMVEKNCEPNEVIY 481

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2099458 AT3G48810 "AT3G48810" [Arabidopsis thaliana (taxid:3702)]

 Score = 300 (110.7 bits), Expect = 9.0e-26, P = 9.0e-26
 Identities = 70/221 (31%), Positives = 114/221 (51%)

Query:     1 MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
             M+  G +P++ +YN L+   CK+ +V+ A K++ +M ++   PD +SYT++I  +  VG 
Sbjct:   172 MKRDGFEPNVFTYNVLLKALCKNNKVDGAKKLLVEMSNKGCCPDAVSYTTVISSMCEVGL 231

Query:    61 PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
               + R++ +  +     P  + YNA I   C     + A  LM EMVEKG+SPN  +Y+ 
Sbjct:   232 VKEGRELAERFE-----PVVSVYNALINGLCKEHDYKGAFELMREMVEKGISPNVISYST 286

Query:   121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG 180
                V   S  +  +++   +M+  GC PN  +   LVK C  +     AL LWN M+ +G
Sbjct:   287 LINVLCNSGQIELAFSFLTQMLKRGCHPNIYTLSSLVKGCFLRGTTFDALDLWNQMI-RG 345

Query:   181 FGSY--ILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS 219
             FG    ++  + L    C  G +V+A   F  M E G  P+
Sbjct:   346 FGLQPNVVAYNTLVQGFCSHGNIVKAVSVFSHMEEIGCSPN 386

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0048445 "carpel morphogenesis" evidence=RCA

TAIR|locus:2174165 AT5G16640 [Arabidopsis thaliana (taxid:3702)]

 Score = 296 (109.3 bits), Expect = 9.7e-26, P = 9.7e-26
 Identities = 72/244 (29%), Positives = 128/244 (52%)

Query:     4 MGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDK 63
             MG KP++V YN +ID  CK +QV+ A  ++ +M  + I PDV++Y S+I GL   G+   
Sbjct:   180 MGYKPNVVIYNTIIDGLCKSKQVDNALDLLNRMEKDGIGPDVVTYNSLISGLCSSGRWSD 239

Query:    64 ARDVLKEMKEYGCYPDAAAYNAAIRNYCIAK-RLRDASGLMDEMVEKGLSPNATTYNLFF 122
             A  ++  M +   YPD   +NA I + C+ + R+ +A    +EM+ + L P+  TY+L  
Sbjct:   240 ATRMVSCMTKREIYPDVFTFNALI-DACVKEGRVSEAEEFYEEMIRRSLDPDIVTYSLLI 298

Query:   123 RVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVK-LCKRQEKVEIALQLWNDMVEKGF 181
                   + L  +  ++  M+  GC P+  +   L+   CK  +KVE  ++L+ +M ++G 
Sbjct:   299 YGLCMYSRLDEAEEMFGFMVSKGCFPDVVTYSILINGYCK-SKKVEHGMKLFCEMSQRGV 357

Query:   182 GSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFR-RIKALMELANKQEALQ 240
                 +   +L    C  GKL  AE+ F  M+  G  P+ +++   +  L +    ++AL 
Sbjct:   358 VRNTVTYTILIQGYCRAGKLNVAEEIFRRMVFCGVHPNIITYNVLLHGLCDNGKIEKALV 417

Query:   241 NLSN 244
              L++
Sbjct:   418 ILAD 421

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2026207 AT1G62680 [Arabidopsis thaliana (taxid:3702)]

 Score = 295 (108.9 bits), Expect = 1.8e-25, P = 1.8e-25
 Identities = 67/219 (30%), Positives = 116/219 (52%)

Query:     6 VKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKAR 65
             + P++++Y+ L+D + K+ +V +A ++ E+M    I PD+++Y+S+I GL L  + D+A 
Sbjct:   256 ITPNVITYSALLDAFVKNGKVLEAKELFEEMVRMSIDPDIVTYSSLINGLCLHDRIDEAN 315

Query:    66 DVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVF 125
              +   M   GC  D  +YN  I  +C AKR+ D   L  EM ++GL  N  TYN   + F
Sbjct:   316 QMFDLMVSKGCLADVVSYNTLINGFCKAKRVEDGMKLFREMSQRGLVSNTVTYNTLIQGF 375

Query:   126 YWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVK-LCKRQEKVEIALQLWNDMVEKGFGSY 184
             + + D+  +   + +M   G  P+  +   L+  LC   E +E AL ++ DM ++     
Sbjct:   376 FQAGDVDKAQEFFSQMDFFGISPDIWTYNILLGGLCDNGE-LEKALVIFEDMQKREMDLD 434

Query:   185 ILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSF 223
             I+    +   +C  GK+ EA   F  +  KG KP  V++
Sbjct:   435 IVTYTTVIRGMCKTGKVEEAWSLFCSLSLKGLKPDIVTY 473

GO:0005739 "mitochondrion" evidence=ISM

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9FZ19	PPR5_ARATH	No assigned EC number	0.7031	0.9375	0.5193	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00028168001 SubName- Full=Chromosome chr7 scaffold_42, whole genome shotgun sequence; (566 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	272
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-20
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-16
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-10
pfam12854	34	pfam12854, PPR_1, PPR repeat	9e-09
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-07
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-06
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-05
pfam01535	31	pfam01535, PPR, PPR repeat	3e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	9e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-04
pfam01535	31	pfam01535, PPR, PPR repeat	2e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	9e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	9e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.001
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.001
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.003
pfam06239	229	pfam06239, ECSIT, Evolutionarily conserved signall	0.003

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 89.6 bits (222), Expect = 5e-20
 Identities = 48/170 (28%), Positives = 81/170 (47%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           M++ GVKPD V ++ L+DV      ++KA++I++  R + I    +SY+S++G       
Sbjct: 640 MKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN 699

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL 120
             KA ++ +++K     P  +  NA I   C   +L  A  ++ EM   GL PN  TY++
Sbjct: 700 WKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSI 759

Query: 121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIAL 170
                   +D     +L  +    G  PN   C  +  LC R+ +   AL
Sbjct: 760 LLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACAL 809

Length = 1060

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 69.4 bits (171), Expect = 8e-16
 Identities = 23/48 (47%), Positives = 34/48 (70%)

Query: 8  PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGL 55
          PD+V+YN LID YCK  +VE+A K+  +M+   I P+V +Y+ +I GL
Sbjct: 1  PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 70.7 bits (173), Expect = 1e-13
 Identities = 54/225 (24%), Positives = 101/225 (44%), Gaps = 2/225 (0%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDED--ISPDVISYTSIIGGLGLV 58
           MR   VKPD V +N LI    +   V++A+ ++ +M+ E   I PD I+  +++      
Sbjct: 533 MRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANA 592

Query: 59  GQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTY 118
           GQ D+A++V + + EY        Y  A+ +         A  + D+M +KG+ P+   +
Sbjct: 593 GQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFF 652

Query: 119 NLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVE 178
           +    V   + DL  ++ +       G    T S   L+  C   +  + AL+L+ D+  
Sbjct: 653 SALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKS 712

Query: 179 KGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSF 223
                 +   + L   LC+  +L +A +   EM   G  P+ +++
Sbjct: 713 IKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITY 757

Length = 1060

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 59.0 bits (144), Expect = 6e-12
 Identities = 16/49 (32%), Positives = 27/49 (55%)

Query: 43 PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYC 91
          PDV++Y ++I G    G+ ++A  +  EMK+ G  P+   Y+  I   C
Sbjct: 1  PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 53.6 bits (130), Expect = 5e-10
 Identities = 16/48 (33%), Positives = 25/48 (52%)

Query: 78  PDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVF 125
           PD   YN  I  YC   ++ +A  L +EM ++G+ PN  TY++     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 49.7 bits (120), Expect = 9e-09
 Identities = 14/34 (41%), Positives = 26/34 (76%)

Query: 4  MGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMR 37
           G+KPD+V+YN LID  C+  +V++A +++++M 
Sbjct: 1  KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 44.8 bits (107), Expect = 6e-07
 Identities = 16/35 (45%), Positives = 25/35 (71%)

Query: 11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDV 45
          V+YN LID  CK  +VE+A ++ ++M++  I PDV
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 47.9 bits (114), Expect = 3e-06
 Identities = 39/206 (18%), Positives = 87/206 (42%), Gaps = 4/206 (1%)

Query: 9   DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVL 68
           D +S+N +I  Y ++ +  +  ++   MR+  + PD+++ TS+I    L+G     R++ 
Sbjct: 252 DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMH 311

Query: 69  KEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWS 128
             + + G   D +  N+ I+ Y       +A  +   M  K         + + +     
Sbjct: 312 GYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPD 371

Query: 129 NDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVS 188
             L +    Y  M      P+  +   ++  C     +++ ++L      KG  SY++V+
Sbjct: 372 KALET----YALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVA 427

Query: 189 DVLFDLLCDMGKLVEAEKSFLEMIEK 214
           + L ++      + +A + F  + EK
Sbjct: 428 NALIEMYSKCKCIDKALEVFHNIPEK 453

Length = 857

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 41.7 bits (99), Expect = 7e-06
 Identities = 14/35 (40%), Positives = 23/35 (65%)

Query: 46 ISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA 80
          ++Y ++I GL   G+ ++A ++ KEMKE G  PD 
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 45.6 bits (108), Expect = 1e-05
 Identities = 52/223 (23%), Positives = 93/223 (41%), Gaps = 31/223 (13%)

Query: 5   GVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKA 64
           G   DIV+   L+D+Y K  ++E A  + ++M  +++    IS+ ++I G G  G+  KA
Sbjct: 355 GFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNL----ISWNALIAGYGNHGRGTKA 410

Query: 65  RDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDE-------MVE-KGLSPNAT 116
            ++ + M   G  P+   +  A+ + C        SGL ++       M E   + P A 
Sbjct: 411 VEMFERMIAEGVAPNHVTF-LAVLSAC------RYSGLSEQGWEIFQSMSENHRIKPRAM 463

Query: 117 TYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEI----ALQL 172
            Y     +      L  ++ +  R       P       L+  C+  + +E+    A +L
Sbjct: 464 HYACMIELLGREGLLDEAYAMIRRAPFK---PTVNMWAALLTACRIHKNLELGRLAAEKL 520

Query: 173 WNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKG 215
           +    EK   +Y+    VL +L    G+  EA K    +  KG
Sbjct: 521 YGMGPEK-LNNYV----VLLNLYNSSGRQAEAAKVVETLKRKG 558

Length = 697

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 39.7 bits (94), Expect = 3e-05
 Identities = 11/31 (35%), Positives = 23/31 (74%)

Query: 11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDI 41
          V+YN LI  YCK  ++E+A ++ ++M+++ +
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 43.7 bits (103), Expect = 7e-05
 Identities = 55/251 (21%), Positives = 108/251 (43%), Gaps = 19/251 (7%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           ++E G+K D   Y  LI    K  +V+  +++  +M +  +  +V ++ ++I G    GQ
Sbjct: 463 VQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ 522

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMV--EKGLSPNATTY 118
             KA      M+     PD   +NA I     +  +  A  ++ EM      + P+  T 
Sbjct: 523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITV 582

Query: 119 NLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFL-VKLCKRQEKVEIALQLWNDMV 177
               +    +  +  +  +Y +M+    +  T     + V  C ++   + AL +++DM 
Sbjct: 583 GALMKACANAGQVDRAKEVY-QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMK 641

Query: 178 EKGFGSYILVSDVLFDLLCDM----GKLVEAEKSFLEMIEKGHKPSQVSFRRIKALM--- 230
           +KG    +   +V F  L D+    G L +A +   +  ++G K   VS+    +LM   
Sbjct: 642 KKG----VKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSY---SSLMGAC 694

Query: 231 -ELANKQEALQ 240
               N ++AL+
Sbjct: 695 SNAKNWKKALE 705

Length = 1060

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 43.3 bits (102), Expect = 8e-05
 Identities = 63/252 (25%), Positives = 107/252 (42%), Gaps = 52/252 (20%)

Query: 1   MREMGVKPDIVSY----NCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLG 56
           + E+  +  ++SY    N LI++Y K + ++KA ++   + ++    DVIS+TSII GL 
Sbjct: 411 LHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLR 466

Query: 57  LVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLR-----DASGLMDEMVEKGL 111
           L  +  +A    ++M      P++    AA+        L       A  L   +   G 
Sbjct: 467 LNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGF 525

Query: 112 SPNATTYNLFFRV----FYWSN------DLRSSWN-----------------LYCRMMGT 144
            PNA   +L+ R     + W+       D+  SWN                 L+ RM+ +
Sbjct: 526 LPNA-LLDLYVRCGRMNYAWNQFNSHEKDV-VSWNILLTGYVAHGKGSMAVELFNRMVES 583

Query: 145 GCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDV-----LFDLLCDMG 199
           G  P+  + + L+  C R   V   L+ ++ M EK    Y +  ++     + DLL   G
Sbjct: 584 GVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEK----YSITPNLKHYACVVDLLGRAG 639

Query: 200 KLVEAEKSFLEM 211
           KL EA     +M
Sbjct: 640 KLTEAYNFINKM 651

Length = 857

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 38.5 bits (91), Expect = 9e-05
 Identities = 13/33 (39%), Positives = 23/33 (69%)

Query: 40 DISPDVISYTSIIGGLGLVGQPDKARDVLKEMK 72
           + PDV++Y ++I GL   G+ D+A ++L EM+
Sbjct: 2  GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 42.5 bits (100), Expect = 1e-04
 Identities = 47/207 (22%), Positives = 82/207 (39%), Gaps = 12/207 (5%)

Query: 9   DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPD--KARD 66
           D+ S+N L+  Y K    ++A  +  +M    + PDV ++  ++   G  G PD  + R+
Sbjct: 151 DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCG--GIPDLARGRE 208

Query: 67  VLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEM-VEKGLSPNATTYNLFFRVF 125
           V   +  +G   D    NA I  Y     +  A  + D M     +S NA          
Sbjct: 209 VHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISG------ 262

Query: 126 YWSNDL-RSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSY 184
           Y+ N        L+  M      P+  +   ++  C+      +  ++   +V+ GF   
Sbjct: 263 YFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVD 322

Query: 185 ILVSDVLFDLLCDMGKLVEAEKSFLEM 211
           + V + L  +   +G   EAEK F  M
Sbjct: 323 VSVCNSLIQMYLSLGSWGEAEKVFSRM 349

Length = 857

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 37.8 bits (89), Expect = 2e-04
 Identities = 12/31 (38%), Positives = 20/31 (64%)

Query: 46 ISYTSIIGGLGLVGQPDKARDVLKEMKEYGC 76
          ++Y S+I G    G+ ++A ++ KEMKE G 
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 37.4 bits (88), Expect = 3e-04
 Identities = 10/22 (45%), Positives = 17/22 (77%)

Query: 1  MREMGVKPDIVSYNCLIDVYCK 22
          M++ G+KP++ +Y+ LID  CK
Sbjct: 29 MKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 36.3 bits (85), Expect = 5e-04
 Identities = 13/34 (38%), Positives = 18/34 (52%)

Query: 82  AYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNA 115
            YN  I   C A R+ +A  L  EM E+G+ P+ 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 40.2 bits (94), Expect = 9e-04
 Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 4/75 (5%)

Query: 5   GVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKA 64
           G   D+   N LI +Y       +A K+  +M  +D     +S+T++I G    G PDKA
Sbjct: 318 GFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDA----VSWTAMISGYEKNGLPDKA 373

Query: 65  RDVLKEMKEYGCYPD 79
            +    M++    PD
Sbjct: 374 LETYALMEQDNVSPD 388

Length = 857

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 35.6 bits (83), Expect = 9e-04
 Identities = 13/34 (38%), Positives = 19/34 (55%)

Query: 45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYP 78
          + +Y +++  L   G PD A  VL+EMK  G  P
Sbjct: 1  LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 35.6 bits (83), Expect = 9e-04
 Identities = 8/34 (23%), Positives = 17/34 (50%)

Query: 10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISP 43
          + +YN L+    K    + A  ++E+M+   + P
Sbjct: 1  LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 40.2 bits (94), Expect = 0.001
 Identities = 46/228 (20%), Positives = 94/228 (41%), Gaps = 5/228 (2%)

Query: 8   PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDV 67
           P + ++N L+ V    + ++ A +++  +++  +  D   YT++I      G+ D   +V
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 68  LKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW 127
             EM   G   +   + A I     A ++  A G    M  K + P+   +N        
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQ 554

Query: 128 SNDLRSSWNLYCRMMG--TGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYI 185
           S  +  ++++   M        P+  +   L+K C    +V+ A +++  + E       
Sbjct: 555 SGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTP 614

Query: 186 LVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELA 233
            V  +  +     G    A   + +M +KG KP +V F    AL+++A
Sbjct: 615 EVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFF---SALVDVA 659

Length = 1060

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 35.8 bits (84), Expect = 0.001
 Identities = 14/33 (42%), Positives = 17/33 (51%)

Query: 75  GCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMV 107
           G  PD   YN  I   C A R+ +A  L+DEM 
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 38.3 bits (89), Expect = 0.003
 Identities = 48/249 (19%), Positives = 92/249 (36%), Gaps = 43/249 (17%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
           +   G +PD    N ++ ++ K   +  A ++ ++M + ++     S+ +IIGGL   G 
Sbjct: 149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL----ASWGTIIGGLVDAGN 204

Query: 61  PDKARDVLKEMKEYGCYPDAAAYNAAIR--------------NYCIAK------------ 94
             +A  + +EM E G   +   +   +R              + C+ K            
Sbjct: 205 YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCA 264

Query: 95  ---------RLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTG 145
                     + DA  + D M EK        +N     +        +  LY  M  +G
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSG 320

Query: 146 CLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAE 205
              +  +   ++++  R   +E A Q    ++  GF   I+ +  L DL    G++ +A 
Sbjct: 321 VSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDAR 380

Query: 206 KSFLEMIEK 214
             F  M  K
Sbjct: 381 NVFDRMPRK 389

Length = 697

>gnl|CDD|148068 pfam06239, ECSIT, Evolutionarily conserved signalling intermediate in Toll pathway

 Score = 37.7 bits (88), Expect = 0.003
 Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 16/77 (20%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKD----------------RQVEKAYKIVEKMRDEDISPD 44
           M E GV+ D+  YN L+DV+ K                 RQ + A  ++E+M +  + PD
Sbjct: 79  MEEYGVEKDLEVYNALLDVFPKGVFIPRNIFQAEFMHYPRQQQCAIDVLEQMENHGVMPD 138

Query: 45  VISYTSIIGGLGLVGQP 61
             +   ++   G    P
Sbjct: 139 KETEFLLVNIFGKKSHP 155

Activation of NF-kappaB as a consequence of signaling through the Toll and IL-1 receptors is a major element of innate immune responses. ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signaling pathways between TRAF-6 and MEKK-1. Length = 229

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	272
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.91
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.9
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.84
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.77
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.76
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.75
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.75
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.72
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.71
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.69
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.68
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.66
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.66
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.65
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.65
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.64
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.62
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.61
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.61
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.6
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.6
PRK12370	553	invasion protein regulator; Provisional	99.6
KOG1126	638	consensus DNA-binding cell division cycle control	99.6
PF13041	50	PPR_2: PPR repeat family	99.59
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.59
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.58
PRK12370	553	invasion protein regulator; Provisional	99.57
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.57
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.57
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.57
KOG1126	638	consensus DNA-binding cell division cycle control	99.57
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.55
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.54
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.52
PF13041	50	PPR_2: PPR repeat family	99.52
KOG2003	840	consensus TPR repeat-containing protein [General f	99.52
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.5
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.5
KOG1129	478	consensus TPR repeat-containing protein [General f	99.49
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.48
PRK14574	822	hmsH outer membrane protein; Provisional	99.46
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.46
PRK11189	296	lipoprotein NlpI; Provisional	99.43
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.43
PRK11189	296	lipoprotein NlpI; Provisional	99.4
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.36
KOG2076	895	consensus RNA polymerase III transcription factor	99.34
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.33
PRK14574	822	hmsH outer membrane protein; Provisional	99.31
KOG1129	478	consensus TPR repeat-containing protein [General f	99.31
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.28
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.27
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.24
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.23
PF12854	34	PPR_1: PPR repeat	99.23
KOG2003	840	consensus TPR repeat-containing protein [General f	99.23
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.23
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.2
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.19
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.17
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.13
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.12
PLN02789	320	farnesyltranstransferase	99.11
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.09
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.09
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.09
KOG2076	895	consensus RNA polymerase III transcription factor	99.08
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.06
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.04
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.04
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.03
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.01
PF12854	34	PPR_1: PPR repeat	98.99
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.99
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.97
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.96
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.95
KOG1125	579	consensus TPR repeat-containing protein [General f	98.94
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.9
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.9
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.87
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.84
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.83
PRK15359	144	type III secretion system chaperone protein SscB;	98.82
PRK15359	144	type III secretion system chaperone protein SscB;	98.81
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.8
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.79
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.79
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.79
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.75
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.73
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.73
PLN02789	320	farnesyltranstransferase	98.73
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.71
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.7
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.7
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.7
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.69
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.68
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.67
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.66
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.65
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.65
KOG1125	579	consensus TPR repeat-containing protein [General f	98.64
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.64
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.63
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.62
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.61
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.6
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.59
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.58
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.58
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.57
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.56
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.54
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.53
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.53
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.53
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.53
PRK04841	903	transcriptional regulator MalT; Provisional	98.53
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.5
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.46
PRK04841	903	transcriptional regulator MalT; Provisional	98.42
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.4
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.38
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.38
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.37
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.33
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.33
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.32
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.31
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.3
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.3
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.28
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.26
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.25
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.24
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.24
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.23
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.21
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.18
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.17
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.17
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.16
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.16
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.14
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.13
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.12
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.11
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.11
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.1
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.1
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.09
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.08
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.07
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.07
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.06
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.06
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.04
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.03
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.02
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.02
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.01
PF12688	120	TPR_5: Tetratrico peptide repeat	98.0
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.99
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.99
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.97
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.95
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.93
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.87
KOG0553	304	consensus TPR repeat-containing protein [General f	97.84
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.82
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.81
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.81
PF12688	120	TPR_5: Tetratrico peptide repeat	97.81
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.76
KOG0553	304	consensus TPR repeat-containing protein [General f	97.75
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.75
PRK10803	263	tol-pal system protein YbgF; Provisional	97.74
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.72
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.7
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.68
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.68
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.68
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.66
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.65
PRK10803	263	tol-pal system protein YbgF; Provisional	97.63
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.6
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.52
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.52
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.48
PF13371	73	TPR_9: Tetratricopeptide repeat	97.45
PF13371	73	TPR_9: Tetratricopeptide repeat	97.41
PRK15331	165	chaperone protein SicA; Provisional	97.37
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.32
PRK15331	165	chaperone protein SicA; Provisional	97.26
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.23
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	97.18
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.15
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.1
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.04
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.03
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.0
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.97
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.95
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	96.95
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.94
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.92
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.83
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.83
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.78
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.73
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.66
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.59
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.58
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.55
KOG3941	406	consensus Intermediate in Toll signal transduction	96.54
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.51
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.47
KOG4555	175	consensus TPR repeat-containing protein [Function	96.45
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.45
KOG3941	406	consensus Intermediate in Toll signal transduction	96.44
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.42
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.4
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	96.39
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.37
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.35
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.28
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.27
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.26
PF13428	44	TPR_14: Tetratricopeptide repeat	96.25
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.21
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.19
KOG1585	308	consensus Protein required for fusion of vesicles	96.17
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.13
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.11
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.08
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.99
PF13428	44	TPR_14: Tetratricopeptide repeat	95.95
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.9
KOG4555	175	consensus TPR repeat-containing protein [Function	95.78
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.7
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.66
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.6
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.54
PF13512	142	TPR_18: Tetratricopeptide repeat	95.52
KOG4570	418	consensus Uncharacterized conserved protein [Funct	95.51
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.48
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.41
KOG4570	418	consensus Uncharacterized conserved protein [Funct	95.4
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.39
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.38
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.37
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.36
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.31
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.26
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.25
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	95.19
PF13512	142	TPR_18: Tetratricopeptide repeat	95.13
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.09
PF13929	292	mRNA_stabil: mRNA stabilisation	95.04
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.03
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	95.01
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.98
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.93
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.9
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.86
KOG1585	308	consensus Protein required for fusion of vesicles	94.81
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.78
PF13929	292	mRNA_stabil: mRNA stabilisation	94.76
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.68
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.53
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.41
PRK11906	458	transcriptional regulator; Provisional	94.03
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	94.03
KOG1550	552	consensus Extracellular protein SEL-1 and related	93.58
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.12
KOG1941	518	consensus Acetylcholine receptor-associated protei	92.98
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	92.92
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.86
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.83
PF13431	34	TPR_17: Tetratricopeptide repeat	92.8
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.78
KOG1550	552	consensus Extracellular protein SEL-1 and related	92.71
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.69
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.6
COG4455	273	ImpE Protein of avirulence locus involved in tempe	92.53
PF13431	34	TPR_17: Tetratricopeptide repeat	92.43
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.34
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	92.27
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.26
COG1747	711	Uncharacterized N-terminal domain of the transcrip	92.16
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.14
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.04
COG4455	273	ImpE Protein of avirulence locus involved in tempe	91.91
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	91.85
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.75
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	91.7
PRK11906	458	transcriptional regulator; Provisional	91.67
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	91.64
COG1747	711	Uncharacterized N-terminal domain of the transcrip	91.47
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	91.22
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	91.0
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	90.95
KOG4648	536	consensus Uncharacterized conserved protein, conta	90.78
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.74
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.49
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	90.45
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	90.17
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	89.8
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.56
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	89.42
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	89.38
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.9
PHA02875	413	ankyrin repeat protein; Provisional	88.62
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.36
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.22
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	87.99
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	87.99
PF13762	145	MNE1: Mitochondrial splicing apparatus component	87.93
KOG1258	577	consensus mRNA processing protein [RNA processing	87.73
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	87.67
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	87.38
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	86.91
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	86.88
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	86.81
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	86.73
KOG4234	271	consensus TPR repeat-containing protein [General f	86.14
KOG1258	577	consensus mRNA processing protein [RNA processing	86.01
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	85.93
PRK09687	280	putative lyase; Provisional	85.6
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	85.4
COG3947	361	Response regulator containing CheY-like receiver a	85.39
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	85.28
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	85.16
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	85.02
PRK09687	280	putative lyase; Provisional	84.36
COG3947	361	Response regulator containing CheY-like receiver a	84.17
COG5108	1117	RPO41 Mitochondrial DNA-directed RNA polymerase [T	83.93
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	83.87
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	83.77
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	83.69
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	83.64
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	82.47
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	82.38
KOG4507	886	consensus Uncharacterized conserved protein, conta	82.35
PHA02875	413	ankyrin repeat protein; Provisional	82.32
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	82.27
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	82.11
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	81.82
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	81.63
PF09454	65	Vps23_core: Vps23 core domain; InterPro: IPR017916	81.12
KOG4234	271	consensus TPR repeat-containing protein [General f	81.0
COG5159	421	RPN6 26S proteasome regulatory complex component [	80.89
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	80.66
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	80.43

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.7e-52  Score=356.12  Aligned_cols=269  Identities=19%  Similarity=0.282  Sum_probs=207.8

Q ss_pred             CCCCCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHH--cCCCC
Q 048616            1 MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKE--YGCYP   78 (272)
Q Consensus         1 M~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~   78 (272)
                      |.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|..  .|+.|
T Consensus       498 M~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~P  577 (1060)
T PLN03218        498 MVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDP  577 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCC
Confidence            4456777777777777777777777777777777777777777777777777777777777777777777765  45677


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHH
Q 048616           79 DAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVK  158 (272)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (272)
                      |..+|+.++.+|++.|++++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.
T Consensus       578 D~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~  657 (1060)
T PLN03218        578 DHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVD  657 (1060)
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            77777777777777777777777777777777777777777777777777777777777777777777788778888888


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHH
Q 048616          159 LCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEA  238 (272)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  238 (272)
                      +|++.|++++|.+++++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.|+.+|.+.|+.++
T Consensus       658 a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~ee  737 (1060)
T PLN03218        658 VAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPK  737 (1060)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHH
Confidence            88888888888888888887777888888888888888888888888888888877888888888888888888888888


Q ss_pred             HHHHHHHHHhcCCCCCCCHHHHHHhhcccccCC
Q 048616          239 LQNLSNKMALFGPSMIPKREEYLAEMSASDSFS  271 (272)
Q Consensus       239 a~~~~~~~~~~~~~~~p~~~~~~~ll~ac~~~~  271 (272)
                      |.++|++|.+.|  +.||..||..+|.+|...|
T Consensus       738 Alelf~eM~~~G--i~Pd~~Ty~sLL~a~~k~G  768 (1060)
T PLN03218        738 ALEVLSEMKRLG--LCPNTITYSILLVASERKD  768 (1060)
T ss_pred             HHHHHHHHHHcC--CCCCHHHHHHHHHHHHHCC
Confidence            888888888777  5688888888888876654

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5e-51  Score=351.44  Aligned_cols=269  Identities=19%  Similarity=0.269  Sum_probs=256.8

Q ss_pred             CCCCCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH
Q 048616            1 MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA   80 (272)
Q Consensus         1 M~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (272)
                      |++.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||.
T Consensus       463 M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~  542 (1060)
T PLN03218        463 VQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDR  542 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCH
Confidence            56789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH--cCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHH
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVE--KGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVK  158 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (272)
                      .+|+.++.+|++.|++++|.++|++|..  .|+.||..+|+.+|.+|++.|++++|.++|+.|.+.|+.|+..+|+.+|.
T Consensus       543 vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~  622 (1060)
T PLN03218        543 VVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVN  622 (1060)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHH
Confidence            9999999999999999999999999986  57899999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHH
Q 048616          159 LCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEA  238 (272)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  238 (272)
                      +|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|.+.|+.++
T Consensus       623 ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~ee  702 (1060)
T PLN03218        623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKK  702 (1060)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCCHHHHHHhhcccccCC
Q 048616          239 LQNLSNKMALFGPSMIPKREEYLAEMSASDSFS  271 (272)
Q Consensus       239 a~~~~~~~~~~~~~~~p~~~~~~~ll~ac~~~~  271 (272)
                      |.++|++|.+.|  +.||..+|+.+|.+|...|
T Consensus       703 A~~lf~eM~~~g--~~PdvvtyN~LI~gy~k~G  733 (1060)
T PLN03218        703 ALELYEDIKSIK--LRPTVSTMNALITALCEGN  733 (1060)
T ss_pred             HHHHHHHHHHcC--CCCCHHHHHHHHHHHHHCC
Confidence            999999999888  6799999999999987665

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=1e-45  Score=314.62  Aligned_cols=257  Identities=17%  Similarity=0.231  Sum_probs=240.3

Q ss_pred             CCCCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHH
Q 048616            2 REMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAA   81 (272)
Q Consensus         2 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   81 (272)
                      .+.|+.||..+||+||++|++.|++++|.++|++|.+    +|..+|+.+|.+|++.|++++|.++|++|.+.|+.||..
T Consensus       251 ~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~  326 (697)
T PLN03081        251 LKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQF  326 (697)
T ss_pred             HHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            3568889999999999999999999999999999964    588999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 048616           82 AYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCK  161 (272)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (272)
                      ||+.++.+|++.|++++|.+++.+|.+.|+.||..+|+.++.+|++.|++++|.++|++|.    .||..+|+.+|.+|+
T Consensus       327 t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~  402 (697)
T PLN03081        327 TFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYG  402 (697)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999985    478899999999999


Q ss_pred             hcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCCcHHhHHHHHHHHHHhhhHHHHH
Q 048616          162 RQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE-KGHKPSQVSFRRIKALMELANKQEALQ  240 (272)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~p~~~~~~~l~~~~~~~~~~~~a~  240 (272)
                      +.|+.++|.++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|+.++.++.+.|+.++|.
T Consensus       403 ~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~  482 (697)
T PLN03081        403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAY  482 (697)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHH
Confidence            9999999999999999999999999999999999999999999999999976 599999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCCCHHHHHHhhcccccCC
Q 048616          241 NLSNKMALFGPSMIPKREEYLAEMSASDSFS  271 (272)
Q Consensus       241 ~~~~~~~~~~~~~~p~~~~~~~ll~ac~~~~  271 (272)
                      +++++|   +  ..|+..+|++++.+|...|
T Consensus       483 ~~~~~~---~--~~p~~~~~~~Ll~a~~~~g  508 (697)
T PLN03081        483 AMIRRA---P--FKPTVNMWAALLTACRIHK  508 (697)
T ss_pred             HHHHHC---C--CCCCHHHHHHHHHHHHHcC
Confidence            998875   3  6799999999999997655

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=2.2e-45  Score=312.69  Aligned_cols=257  Identities=21%  Similarity=0.297  Sum_probs=212.1

Q ss_pred             CCCCCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-
Q 048616            1 MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD-   79 (272)
Q Consensus         1 M~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-   79 (272)
                      |++.|+.||..+||.++.+|++.|+++.|.++|++|.+    ||..+|+.++.+|++.|++++|.++|++|.+.|+.|+ 
T Consensus       149 m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~  224 (697)
T PLN03081        149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEP  224 (697)
T ss_pred             HHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCCh
Confidence            34567888888888888888888888888888887753    5777788888888888888888888888766655554 


Q ss_pred             ----------------------------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 048616           80 ----------------------------------AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVF  125 (272)
Q Consensus        80 ----------------------------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (272)
                                                        ..+|+.|+.+|++.|++++|.++|++|.+    +|..+|+.++.+|
T Consensus       225 ~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y  300 (697)
T PLN03081        225 RTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGY  300 (697)
T ss_pred             hhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHH
Confidence                                              44556777888888888888888888853    5888899999999


Q ss_pred             hhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHH
Q 048616          126 YWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAE  205 (272)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  205 (272)
                      ++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.|+..+|+.|+++|++.|++++|.
T Consensus       301 ~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~  380 (697)
T PLN03081        301 ALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDAR  380 (697)
T ss_pred             HhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHH
Confidence            99999999999999998888899999999999999999999999999999988888888888888888888888888888


Q ss_pred             HHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHhhcccccCC
Q 048616          206 KSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEMSASDSFS  271 (272)
Q Consensus       206 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~ll~ac~~~~  271 (272)
                      ++|++|.    .||..+|+.|+.+|.+.|+.++|.++|++|.+.|  +.||..||+.+|++|...|
T Consensus       381 ~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g--~~Pd~~T~~~ll~a~~~~g  440 (697)
T PLN03081        381 NVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEG--VAPNHVTFLAVLSACRYSG  440 (697)
T ss_pred             HHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCCHHHHHHHHHHHhcCC
Confidence            8888884    4688888888888888888888888888888887  5688888888888887665

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8.7e-44  Score=309.31  Aligned_cols=201  Identities=18%  Similarity=0.317  Sum_probs=130.0

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAA   86 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (272)
                      .||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+.+.|.+++..+.+.|+.||..+|+.+
T Consensus       250 ~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~L  329 (857)
T PLN03077        250 RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSL  329 (857)
T ss_pred             CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHH
Confidence            35556666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcH
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKV  166 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (272)
                      +.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++
T Consensus       330 i~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~  405 (857)
T PLN03077        330 IQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDL  405 (857)
T ss_pred             HHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchH
Confidence            666666666666666666664    2456666666666666666666667777666666666666666666666666666


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048616          167 EIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEM  211 (272)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  211 (272)
                      +.|.++++.+.+.|+.|+..+|+.|+++|++.|++++|.++|++|
T Consensus       406 ~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m  450 (857)
T PLN03077        406 DVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNI  450 (857)
T ss_pred             HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhC
Confidence            666666666666666665555555555555555555555555443

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.2e-43  Score=308.52  Aligned_cols=259  Identities=18%  Similarity=0.252  Sum_probs=159.9

Q ss_pred             CCCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHH
Q 048616            3 EMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAA   82 (272)
Q Consensus         3 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   82 (272)
                      +.|+.||..+||++|.+|++.|++++|.++|++|..    ||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..|
T Consensus       316 ~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t  391 (857)
T PLN03077        316 KTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEIT  391 (857)
T ss_pred             HhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCcee
Confidence            456666666666666666666666666666666642    4566666677777777777777777777777777777777


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 048616           83 YNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKR  162 (272)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (272)
                      |+.++.+|++.|++++|.++++.+.+.|+.|+..+|+.|+.+|++.|++++|.++|++|.+.    |..+|+.++.+|++
T Consensus       392 ~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~----d~vs~~~mi~~~~~  467 (857)
T PLN03077        392 IASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRL  467 (857)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCC----CeeeHHHHHHHHHH
Confidence            77777777777777777777777777777777777777777777777777777777777542    22233333333333


Q ss_pred             cCcHHHHHHHHHHHH----------------------------------HcCC---------------------------
Q 048616          163 QEKVEIALQLWNDMV----------------------------------EKGF---------------------------  181 (272)
Q Consensus       163 ~~~~~~a~~~~~~~~----------------------------------~~~~---------------------------  181 (272)
                      .|+.++|..+|++|.                                  +.|+                           
T Consensus       468 ~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f  547 (857)
T PLN03077        468 NNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF  547 (857)
T ss_pred             CCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHH
Confidence            333333333333322                                  1111                           


Q ss_pred             ---CccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHH-hcCCCCCCCH
Q 048616          182 ---GSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMA-LFGPSMIPKR  257 (272)
Q Consensus       182 ---~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~p~~  257 (272)
                         .+|..+||.+|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|.++++.++|+.|. +.|  +.|+.
T Consensus       548 ~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~g--i~P~~  625 (857)
T PLN03077        548 NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYS--ITPNL  625 (857)
T ss_pred             HhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhC--CCCch
Confidence               234445556666666666666666666666666666666666666666666666666666666666 344  44666


Q ss_pred             HHHHHhhcccccCC
Q 048616          258 EEYLAEMSASDSFS  271 (272)
Q Consensus       258 ~~~~~ll~ac~~~~  271 (272)
                      .+|+.+++++.+.|
T Consensus       626 ~~y~~lv~~l~r~G  639 (857)
T PLN03077        626 KHYACVVDLLGRAG  639 (857)
T ss_pred             HHHHHHHHHHHhCC
Confidence            66666666655444

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.91  E-value=8.3e-21  Score=152.54  Aligned_cols=250  Identities=14%  Similarity=0.133  Sum_probs=196.9

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC---HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPD---VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNA   85 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (272)
                      +..++..+...+...|++++|..+++.+...+..++   ...+..+...+.+.|++++|..+|+++.+.. +.+..++..
T Consensus        68 ~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~  146 (389)
T PRK11788         68 TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQ  146 (389)
T ss_pred             cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHH
Confidence            456788888889999999999999998887532221   2457788888899999999999999998753 456778888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCH----HhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 048616           86 AIRNYCIAKRLRDASGLMDEMVEKGLSPNA----TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCK  161 (272)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (272)
                      ++..+.+.|++++|.+.++.+.+.+..+..    ..+..+...+.+.|++++|...++++.+.. +.+...+..+...+.
T Consensus       147 la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~  225 (389)
T PRK11788        147 LLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLAL  225 (389)
T ss_pred             HHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHH
Confidence            899999999999999999998876543322    234566777888899999999999887653 334567777888888


Q ss_pred             hcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHH
Q 048616          162 RQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQN  241 (272)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  241 (272)
                      +.|++++|.++++++.+.+......+++.+..+|...|++++|.+.++++.+.  .|+...+..++..+.+.|++++|..
T Consensus       226 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~  303 (389)
T PRK11788        226 AQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQA  303 (389)
T ss_pred             HCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHH
Confidence            99999999999999887653333466788888999999999999999998876  5666667778888999999999999


Q ss_pred             HHHHHHhcCCCCCCCHHHHHHhhcc
Q 048616          242 LSNKMALFGPSMIPKREEYLAEMSA  266 (272)
Q Consensus       242 ~~~~~~~~~~~~~p~~~~~~~ll~a  266 (272)
                      +++++.+..    |+..++..++..
T Consensus       304 ~l~~~l~~~----P~~~~~~~l~~~  324 (389)
T PRK11788        304 LLREQLRRH----PSLRGFHRLLDY  324 (389)
T ss_pred             HHHHHHHhC----cCHHHHHHHHHH
Confidence            999887654    888888776654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.90  E-value=1.5e-20  Score=151.08  Aligned_cols=240  Identities=13%  Similarity=0.046  Sum_probs=202.2

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH----HHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA----AAYNAA   86 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l   86 (272)
                      ..+..+...|.+.|++++|..+|+++.+.. +++..++..++..+.+.|++++|.+.++++.+.+..+..    ..+..+
T Consensus       108 ~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l  186 (389)
T PRK11788        108 LALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCEL  186 (389)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Confidence            568888999999999999999999998763 346788999999999999999999999999886543322    245667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcH
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKV  166 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (272)
                      ...+.+.|++++|.+.|+++.+.... +...+..+...+.+.|++++|.++++++.+.+......++..+..+|.+.|++
T Consensus       187 a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  265 (389)
T PRK11788        187 AQQALARGDLDAARALLKKALAADPQ-CVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDE  265 (389)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhHCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCH
Confidence            77888999999999999999987432 56678888899999999999999999998764333346788899999999999


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHH---hhhHHHHHHHH
Q 048616          167 EIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMEL---ANKQEALQNLS  243 (272)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~~~~~~a~~~~  243 (272)
                      ++|...++.+.+..  |+...+..+...+.+.|++++|.++++++.+.  .|+..+++.++..+..   .|+.+++..++
T Consensus       266 ~~A~~~l~~~~~~~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~  341 (389)
T PRK11788        266 AEGLEFLRRALEEY--PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLL  341 (389)
T ss_pred             HHHHHHHHHHHHhC--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHH
Confidence            99999999998774  45566688999999999999999999999876  7899899887776654   45888999999


Q ss_pred             HHHHhcCCCCCCC
Q 048616          244 NKMALFGPSMIPK  256 (272)
Q Consensus       244 ~~~~~~~~~~~p~  256 (272)
                      +++.+.++...|+
T Consensus       342 ~~~~~~~~~~~p~  354 (389)
T PRK11788        342 RDLVGEQLKRKPR  354 (389)
T ss_pred             HHHHHHHHhCCCC
Confidence            9999988777777

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.84  E-value=3e-17  Score=145.15  Aligned_cols=234  Identities=14%  Similarity=0.074  Sum_probs=133.1

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      ...+..+...+.+.|++++|..+++.+.+.. +.+...|..+..++.+.|++++|...|+++.+.. +.+...+..+..+
T Consensus       567 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  644 (899)
T TIGR02917       567 IEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADA  644 (899)
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            3444455555555555555555555555432 2345555556666666666666666666655442 2344455555555


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIA  169 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (272)
                      +.+.|++++|..+++++.+.... +..++..+...+...|++++|.++++.+.+.. +.+...+..+...+...|++++|
T Consensus       645 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A  722 (899)
T TIGR02917       645 YAVMKNYAKAITSLKRALELKPD-NTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAA  722 (899)
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHH
Confidence            66666666666666665554322 34555555556666666666666666655543 33445555556666666666666


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          170 LQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      ...+..+...+  |+..++..+..++.+.|++++|.+.++.+.+.. +.+...+..+...+...|+.++|...|+++.+.
T Consensus       723 ~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  799 (899)
T TIGR02917       723 IQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK  799 (899)
T ss_pred             HHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh
Confidence            66666665543  222444556666666666666666666666542 234455555666666667777777777776655


Q ss_pred             C
Q 048616          250 G  250 (272)
Q Consensus       250 ~  250 (272)
                      .
T Consensus       800 ~  800 (899)
T TIGR02917       800 A  800 (899)
T ss_pred             C
Confidence            4

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.84  E-value=2.9e-17  Score=145.18  Aligned_cols=234  Identities=14%  Similarity=0.085  Sum_probs=130.2

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      ..++..+...+.+.|++++|..+++++.+.+ +.+...+..+...+.+.|++++|..+++++.+.. +.+..+|..+..+
T Consensus       533 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  610 (899)
T TIGR02917       533 LRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRA  610 (899)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHH
Confidence            3444444445555555555555555544432 2233444455555555555555555555555432 3345555555666


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIA  169 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (272)
                      +.+.|++++|...|+++.+... .+...+..+...+.+.|++++|...++++.+.. +.+..++..+...+...|++++|
T Consensus       611 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  688 (899)
T TIGR02917       611 QLAAGDLNKAVSSFKKLLALQP-DSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESA  688 (899)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            6666666666666666555432 244455555555666666666666666555442 33445555566666666666666


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          170 LQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      .++++.+.+.. +.+...+..+...+...|++++|.+.|+.+...  .|+..++..+..++...|+.++|.+.++++.+.
T Consensus       689 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  765 (899)
T TIGR02917       689 KKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLKT  765 (899)
T ss_pred             HHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            66666665554 334455555666666666666666666666654  334455555666666666666666666666654


Q ss_pred             C
Q 048616          250 G  250 (272)
Q Consensus       250 ~  250 (272)
                      .
T Consensus       766 ~  766 (899)
T TIGR02917       766 H  766 (899)
T ss_pred             C
Confidence            4

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.77  E-value=6.3e-15  Score=124.94  Aligned_cols=233  Identities=11%  Similarity=0.038  Sum_probs=112.9

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      ..|..+...+.+.|++++|...+++..+.. +.+...+..+...+...|++++|...++++..... .+...+..+ ..+
T Consensus       111 ~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P-~~~~a~~~~-~~l  187 (656)
T PRK15174        111 EDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVP-PRGDMIATC-LSF  187 (656)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCC-CCHHHHHHH-HHH
Confidence            344445555555555555555555555432 12344455555555555555555555555544321 112222222 224


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHH--
Q 048616           91 CIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEI--  168 (272)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--  168 (272)
                      .+.|++++|...++.+.+....++...+..+...+.+.|++++|...+++..+.. +.+...+..+...+...|++++  
T Consensus       188 ~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~  266 (656)
T PRK15174        188 LNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAK  266 (656)
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhH
Confidence            4455555555555555443222222233333444555555555555555554432 2233444445555555555553  


Q ss_pred             --HHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH-HhHHHHHHHHHHhhhHHHHHHHHHH
Q 048616          169 --ALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQ-VSFRRIKALMELANKQEALQNLSNK  245 (272)
Q Consensus       169 --a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~  245 (272)
                        |...++...+.. +.+...+..+...+.+.|++++|...+++..+.  .|+. ..+..+..++...|++++|...+++
T Consensus       267 ~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~  343 (656)
T PRK15174        267 LQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQ  343 (656)
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence              455555555443 223445555555555555666665555555543  2322 2233355555555556666555555


Q ss_pred             HHhcC
Q 048616          246 MALFG  250 (272)
Q Consensus       246 ~~~~~  250 (272)
                      +.+..
T Consensus       344 al~~~  348 (656)
T PRK15174        344 LAREK  348 (656)
T ss_pred             HHHhC
Confidence            55443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.76  E-value=7e-15  Score=124.67  Aligned_cols=237  Identities=11%  Similarity=0.098  Sum_probs=193.2

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      +...+..+...+...|++++|...++.+...... +...+..+ ..+...|++++|...++++.+....++...+..+..
T Consensus       143 ~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~  220 (656)
T PRK15174        143 NSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVD  220 (656)
T ss_pred             cHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHH
Confidence            4678888999999999999999999988776443 33344333 347889999999999999887643345555666678


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhh----HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRS----SWNLYCRMMGTGCLPNTQSCMFLVKLCKRQE  164 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (272)
                      .+.+.|++++|+..+++..+.... +...+..+...+...|++++    |...+++..+.. +.+...+..+...+...|
T Consensus       221 ~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g  298 (656)
T PRK15174        221 TLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTG  298 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCC
Confidence            889999999999999999987543 67778889999999999986    899999998764 446778889999999999


Q ss_pred             cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHH-HHHHHHHHhhhHHHHHHHH
Q 048616          165 KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFR-RIKALMELANKQEALQNLS  243 (272)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~~~~~~a~~~~  243 (272)
                      ++++|...+++..... +.+...+..+..++.+.|++++|.+.++.+.+.  .|+...+. .+..++...|+.++|...|
T Consensus       299 ~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l  375 (656)
T PRK15174        299 QNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVF  375 (656)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999998875 445566778889999999999999999999876  55554444 3567889999999999999


Q ss_pred             HHHHhcCCC
Q 048616          244 NKMALFGPS  252 (272)
Q Consensus       244 ~~~~~~~~~  252 (272)
                      ++..+..+.
T Consensus       376 ~~al~~~P~  384 (656)
T PRK15174        376 EHYIQARAS  384 (656)
T ss_pred             HHHHHhChh
Confidence            999887643

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.75  E-value=3.3e-15  Score=114.06  Aligned_cols=243  Identities=16%  Similarity=0.273  Sum_probs=199.2

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAA   86 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (272)
                      +.+..+|.++|.+.|+-...++|.+++++-.....+.+..+||.+|.+-.-..    ..++..+|.+..+.||..|+|++
T Consensus       204 PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNal  279 (625)
T KOG4422|consen  204 PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNAL  279 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHH
Confidence            44678999999999999999999999999998888889999999998765333    37899999999999999999999


Q ss_pred             HHHHHhcCCHHHH----HHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhh-HHHHHHHHHh----CCCC----CCHhhH
Q 048616           87 IRNYCIAKRLRDA----SGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRS-SWNLYCRMMG----TGCL----PNTQSC  153 (272)
Q Consensus        87 ~~~~~~~~~~~~a----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~----~~~~----~~~~~~  153 (272)
                      +++..+.|+++.|    .+++.+|.+.|+.|+..+|..+|..+.+.++..+ +..++.++..    +.++    -|...|
T Consensus       280 L~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF  359 (625)
T KOG4422|consen  280 LSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFF  359 (625)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHH
Confidence            9999999987654    5778889999999999999999999999998865 4444444432    2222    244567


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHcC----CCcc---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHH
Q 048616          154 MFLVKLCKRQEKVEIALQLWNDMVEKG----FGSY---ILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRI  226 (272)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l  226 (272)
                      ...+..|.+..+.+.|.++..-+....    +.|+   ..-|..+....++....+.-..+++.|+-.-.-|+..+...+
T Consensus       360 ~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~  439 (625)
T KOG4422|consen  360 QSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHL  439 (625)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHH
Confidence            788888989999999999887665431    2232   234566778889999999999999999887777888888889


Q ss_pred             HHHHHHhhhHHHHHHHHHHHHhcCCCC
Q 048616          227 KALMELANKQEALQNLSNKMALFGPSM  253 (272)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~~~~~~  253 (272)
                      +++....+.++-..+++..++..|...
T Consensus       440 lrA~~v~~~~e~ipRiw~D~~~~ght~  466 (625)
T KOG4422|consen  440 LRALDVANRLEVIPRIWKDSKEYGHTF  466 (625)
T ss_pred             HHHHhhcCcchhHHHHHHHHHHhhhhh
Confidence            999999999999999999999888443

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.75  E-value=2.2e-14  Score=121.63  Aligned_cols=237  Identities=14%  Similarity=0.073  Sum_probs=190.1

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      +...|+.+...+...|++++|+..|++..+.... +...|..+...+...|++++|...|++..+.. +.+..+|..+..
T Consensus       330 ~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~  407 (615)
T TIGR00990       330 EAIALNLRGTFKCLKGKHLEALADLSKSIELDPR-VTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQ  407 (615)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            4567888888888999999999999999876432 46688888899999999999999999998764 346788899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHH
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEI  168 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (272)
                      .+...|++++|...|++..+.... +...+..+...+.+.|++++|+..|++..+.. +.+...+..+..++...|++++
T Consensus       408 ~~~~~g~~~~A~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~  485 (615)
T TIGR00990       408 LHFIKGEFAQAGKDYQKSIDLDPD-FIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDE  485 (615)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCcc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHH
Confidence            999999999999999999987543 56777788889999999999999999987753 4456788888999999999999


Q ss_pred             HHHHHHHHHHcCCCccH------HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHH
Q 048616          169 ALQLWNDMVEKGFGSYI------LVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNL  242 (272)
Q Consensus       169 a~~~~~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  242 (272)
                      |...|+.........+.      ..++.....+...|++++|.+++++..+... .+...+..+...+...|++++|..+
T Consensus       486 A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p-~~~~a~~~la~~~~~~g~~~eAi~~  564 (615)
T TIGR00990       486 AIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDP-ECDIAVATMAQLLLQQGDVDEALKL  564 (615)
T ss_pred             HHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHccCHHHHHHH
Confidence            99999998876422111      1122222334457999999999999887632 2334567799999999999999999


Q ss_pred             HHHHHhcC
Q 048616          243 SNKMALFG  250 (272)
Q Consensus       243 ~~~~~~~~  250 (272)
                      |++..+..
T Consensus       565 ~e~A~~l~  572 (615)
T TIGR00990       565 FERAAELA  572 (615)
T ss_pred             HHHHHHHh
Confidence            99987654

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.72  E-value=1.6e-13  Score=116.38  Aligned_cols=240  Identities=12%  Similarity=0.013  Sum_probs=155.6

Q ss_pred             CCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHH----------------
Q 048616            6 VKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLK----------------   69 (272)
Q Consensus         6 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~----------------   69 (272)
                      +.|+...|..+..+|.+.|++++|++.++...+.+.. +...|..+..++...|++++|+.-|.                
T Consensus       156 ~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~  234 (615)
T TIGR00990       156 CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPD-YSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQA  234 (615)
T ss_pred             cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHHH
Confidence            4567777777777888888888888888877765422 45566666666777777666654332                


Q ss_pred             --------------------------------------------------------------------------------
Q 048616           70 --------------------------------------------------------------------------------   69 (272)
Q Consensus        70 --------------------------------------------------------------------------------   69 (272)
                                                                                                      
T Consensus       235 ~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~  314 (615)
T TIGR00990       235 VERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEAA  314 (615)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchHHHHHHHHHhhhhhhHHHHH
Confidence                                                                                            


Q ss_pred             ----HHHHcC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHh
Q 048616           70 ----EMKEYG-CYP-DAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMG  143 (272)
Q Consensus        70 ----~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (272)
                          +..+.+ ..| ....+..+...+...|++++|+..+++..+.... ....|..+...+...|++++|...|++..+
T Consensus       315 ~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~  393 (615)
T TIGR00990       315 RAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR-VTQSYIKRASMNLELGDPDKAEEDFDKALK  393 (615)
T ss_pred             HHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                222211 011 2233445555556667777777777776665322 345666666677777777777777777765


Q ss_pred             CCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhH
Q 048616          144 TGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSF  223 (272)
Q Consensus       144 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  223 (272)
                      .. +.+..++..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|...|++..+.. +-+...+
T Consensus       394 ~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~  470 (615)
T TIGR00990       394 LN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVY  470 (615)
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHH
Confidence            53 3345666677777777777777777777777664 3345556666777777778888888777776642 2234566


Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          224 RRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      +.+..++...|++++|...|++..+..
T Consensus       471 ~~lg~~~~~~g~~~~A~~~~~~Al~l~  497 (615)
T TIGR00990       471 NYYGELLLDQNKFDEAIEKFDTAIELE  497 (615)
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            667777777888888888888776654

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.71  E-value=2.5e-16  Score=120.74  Aligned_cols=230  Identities=14%  Similarity=0.123  Sum_probs=92.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCC-CCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 048616           15 CLIDVYCKDRQVEKAYKIVEKMRDED-ISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIA   93 (272)
Q Consensus        15 ~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (272)
                      .+...+.+.|++++|+++++...... .+.+...|..+.......++++.|.+.++++.+.+.. ++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            45677788899999999886654443 2335555666666777788889999999888876532 56667777766 678


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCC-CCCCHhhHHHHHHHHHhcCcHHHHHHH
Q 048616           94 KRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTG-CLPNTQSCMFLVKLCKRQEKVEIALQL  172 (272)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (272)
                      +++++|.+++.+..+..  ++...+..++..+.+.++++++.++++.+.... .+.+...|..+...+.+.|+.++|.+.
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            88888888887766552  456667778888888888888888888876432 345666777788888888899999998


Q ss_pred             HHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          173 WNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      +++..+.. +.+......++..+...|+.+++.++++...+.. +.|...+..+..++...|+.++|..++++..+..
T Consensus       169 ~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~  244 (280)
T PF13429_consen  169 YRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN  244 (280)
T ss_dssp             HHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc
Confidence            88888775 3356677788888888888888888888877663 3444556678888888888888998888887765

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.69  E-value=5.1e-16  Score=119.02  Aligned_cols=232  Identities=15%  Similarity=0.133  Sum_probs=112.5

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      |...|..+...+-..++++.|.+.++++...+.. +...+..++.. ...+++++|.+++++..+..  +++..+..++.
T Consensus        43 ~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~  118 (280)
T PF13429_consen   43 DPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQ  118 (280)
T ss_dssp             -------------------------------------------------------------------------------H
T ss_pred             cccccccccccccccccccccccccccccccccc-ccccccccccc-cccccccccccccccccccc--cccchhhHHHH
Confidence            4455566666777789999999999999987644 66677778777 78999999999998877653  56777888899


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcC-CCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHH
Q 048616           89 NYCIAKRLRDASGLMDEMVEKG-LSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVE  167 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (272)
                      .+.+.++++++.++++.+.... .+++...|..+...+.+.|+.++|...+++..+.. +-|......++..+...|+.+
T Consensus       119 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~  197 (280)
T PF13429_consen  119 LYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYD  197 (280)
T ss_dssp             -HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChH
Confidence            9999999999999999987543 34577788889999999999999999999998873 335778888999999999999


Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-cHHhHHHHHHHHHHhhhHHHHHHHHHHH
Q 048616          168 IALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKP-SQVSFRRIKALMELANKQEALQNLSNKM  246 (272)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (272)
                      ++.+++....+.. +.+...+..+..++...|+.++|..+|++..+.  .| |......+..++...|+.++|.++.++.
T Consensus       198 ~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~--~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  198 EAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL--NPDDPLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH--STT-HHHHHHHHHHHT---------------
T ss_pred             HHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccc--ccccccccccccccccccccccccccccccc
Confidence            9999998888764 556677889999999999999999999999876  45 5555556999999999999999998876


Q ss_pred             Hh
Q 048616          247 AL  248 (272)
Q Consensus       247 ~~  248 (272)
                      .+
T Consensus       275 ~~  276 (280)
T PF13429_consen  275 LR  276 (280)
T ss_dssp             --
T ss_pred             cc
Confidence            53

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.68  E-value=4.2e-13  Score=117.14  Aligned_cols=231  Identities=13%  Similarity=0.076  Sum_probs=181.9

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      +...|..+..++.. ++.++|...+.+.....  |+......+...+...|++++|...|+++...  +|+...+..+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~  550 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            56677777777776 88889999888877653  55544444455556899999999999998654  455556667778


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHH
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEI  168 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (272)
                      ++.+.|+.++|...+++..+.+.. ....+..+.....+.|++++|...+++..+.  .|+...+..+..++.+.|+.++
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~de  627 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPA  627 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHH
Confidence            889999999999999999887532 3333333444455669999999999999876  4577888888999999999999


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-cHHhHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          169 ALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKP-SQVSFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      |...+++..... +.+...++.+..++...|+.++|.+.+++..+.  .| +...+..+..++...|+.++|...+++..
T Consensus       628 A~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al  704 (987)
T PRK09782        628 AVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVI  704 (987)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999998876 556677888888999999999999999999886  44 44556678999999999999999999988


Q ss_pred             hcC
Q 048616          248 LFG  250 (272)
Q Consensus       248 ~~~  250 (272)
                      +..
T Consensus       705 ~l~  707 (987)
T PRK09782        705 DDI  707 (987)
T ss_pred             hcC
Confidence            655

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.66  E-value=3.3e-13  Score=99.66  Aligned_cols=226  Identities=14%  Similarity=0.112  Sum_probs=157.1

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCHHH
Q 048616           22 KDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD---AAAYNAAIRNYCIAKRLRD   98 (272)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~   98 (272)
                      -+++.++|.++|-+|.+.+.. +..+.-+|.+.|.+.|..+.|+++.+.+.++.--+.   ....-.|..-|...|-+|.
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d~~-t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQEDPE-TFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hhcCcchHHHHHHHHHhcCch-hhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            467889999999999886433 566677888999999999999999999987521111   1234456667888899999


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCH----hhHHHHHHHHHhcCcHHHHHHHHH
Q 048616           99 ASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNT----QSCMFLVKLCKRQEKVEIALQLWN  174 (272)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~  174 (272)
                      |+.+|..+.+.+.. -......|+..|...++|++|+++-+++...+-.+..    ..|.-+...+....+++.|...+.
T Consensus       126 AE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~  204 (389)
T COG2956         126 AEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLK  204 (389)
T ss_pred             HHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            99999998876433 4566788889999999999999998888766544332    234555555556667777777777


Q ss_pred             HHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          175 DMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       175 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      +..+.+ +..+..--.+.+.....|+++.|.+.++...+.+..--..+...|..+|...|+.++...++.++.+..
T Consensus       205 kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~  279 (389)
T COG2956         205 KALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN  279 (389)
T ss_pred             HHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            776654 223333344556666777777777777777766444344445556777777777777777776666554

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.66  E-value=7.2e-13  Score=106.31  Aligned_cols=231  Identities=8%  Similarity=-0.009  Sum_probs=123.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHH--HHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 048616           18 DVYCKDRQVEKAYKIVEKMRDEDISPDVISYT--SIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKR   95 (272)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (272)
                      ....+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.|...++++.+.. +-++.....+...|.+.|+
T Consensus       126 ~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gd  202 (398)
T PRK10747        126 EAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGA  202 (398)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHh
Confidence            3346778888888888877764  33432222  33556777788888888888877764 3456677777778888888


Q ss_pred             HHHHHHHHHHHHHcCCCCCH-------HhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHH
Q 048616           96 LRDASGLMDEMVEKGLSPNA-------TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEI  168 (272)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (272)
                      +++|.+++..+.+.+..++.       .+|..++.......+.+...++++.+.+. .+.+......+...+...|+.++
T Consensus       203 w~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~  281 (398)
T PRK10747        203 WSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDT  281 (398)
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHH
Confidence            88888777777765443211       11222222222222333333333333221 12344445555555566666666


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHh-HHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          169 ALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVS-FRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      |..++.+..+.  .++...  .++.+....++.+++.+..+...+.  .|+... +..+...+.+.+++++|.+.|++..
T Consensus       282 A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al  355 (398)
T PRK10747        282 AQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAAL  355 (398)
T ss_pred             HHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            66666555543  233211  1222333445555566655555544  333332 3345555666666666666666655


Q ss_pred             hcCCCCCCCHHHHHH
Q 048616          248 LFGPSMIPKREEYLA  262 (272)
Q Consensus       248 ~~~~~~~p~~~~~~~  262 (272)
                      +..    |+..++..
T Consensus       356 ~~~----P~~~~~~~  366 (398)
T PRK10747        356 KQR----PDAYDYAW  366 (398)
T ss_pred             hcC----CCHHHHHH
Confidence            433    55444433

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.65  E-value=1.2e-12  Score=97.59  Aligned_cols=203  Identities=11%  Similarity=0.004  Sum_probs=158.5

Q ss_pred             CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 048616           43 PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFF  122 (272)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (272)
                      .....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.... +...+..+.
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~  106 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNYG  106 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHH
Confidence            345677788888888999999999999887753 345677788888888899999999999888877543 556777788


Q ss_pred             HHHhhcCChhhHHHHHHHHHhCCC-CCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCH
Q 048616          123 RVFYWSNDLRSSWNLYCRMMGTGC-LPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKL  201 (272)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  201 (272)
                      ..+...|++++|.+.+++...... ......+..+..++...|++++|...+.+..+.. +.+...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCH
Confidence            888899999999999988876422 2234566667788889999999999999888764 33456777888889999999


Q ss_pred             HHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          202 VEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       202 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      ++|.+.+++..+. .+.+...+..+...+...|+.+++..+.+.+...
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            9999999998876 3345556666778888889999999888877653

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.65  E-value=1.9e-12  Score=96.51  Aligned_cols=203  Identities=13%  Similarity=0.070  Sum_probs=168.6

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      .....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+.
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~  106 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYG  106 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            346778888999999999999999999998764 3367788889999999999999999999998864 34667888889


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCC-CCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcH
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLS-PNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKV  166 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (272)
                      ..+...|++++|.+.+++....... .....+..+...+...|++++|...+++..... +.+...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCH
Confidence            9999999999999999999875322 234567778888999999999999999988764 33566788888999999999


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          167 EIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ++|...+++..... +.+...+..+...+...|+.++|..+.+.+...
T Consensus       186 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       186 KDARAYLERYQQTY-NQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            99999999988763 455666777888888999999999998887653

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.64  E-value=1.7e-12  Score=104.16  Aligned_cols=234  Identities=10%  Similarity=0.048  Sum_probs=185.5

Q ss_pred             CCcCHHhHH--HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH---
Q 048616            6 VKPDIVSYN--CLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA---   80 (272)
Q Consensus         6 ~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---   80 (272)
                      ..|+...+.  .....+...|+++.|...++++.+..+. +......+...|.+.|++++|.+++.++.+.+..++.   
T Consensus       147 ~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~  225 (398)
T PRK10747        147 LADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRA  225 (398)
T ss_pred             cCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHH
Confidence            456654433  3356888999999999999999987644 7788899999999999999999999999987654322   


Q ss_pred             ----HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHH
Q 048616           81 ----AAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFL  156 (272)
Q Consensus        81 ----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (272)
                          .+|..++.......+.+...++++.+.+. .+.+......+...+...|+.++|.+++++..+.  +|+....  +
T Consensus       226 ~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~  300 (398)
T PRK10747        226 MLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--L  300 (398)
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--H
Confidence                13333444444555667777777777554 2347778888999999999999999999998774  5555322  2


Q ss_pred             HHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhH
Q 048616          157 VKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQ  236 (272)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  236 (272)
                      +.+....++.+++.+..+...+.. +-|......+...+.+.+++++|.+.|+...+.  .|+..++..+...+.+.|+.
T Consensus       301 l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~  377 (398)
T PRK10747        301 LIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKP  377 (398)
T ss_pred             HHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCH
Confidence            334446699999999999988775 556677888999999999999999999999986  79999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 048616          237 EALQNLSNKMAL  248 (272)
Q Consensus       237 ~~a~~~~~~~~~  248 (272)
                      ++|.+++++-..
T Consensus       378 ~~A~~~~~~~l~  389 (398)
T PRK10747        378 EEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.62  E-value=5.1e-12  Score=110.52  Aligned_cols=234  Identities=9%  Similarity=-0.018  Sum_probs=185.0

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAA   86 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (272)
                      .|+......+...+...|++++|...|+++...  +|+...+..+..++.+.|++++|...+++..+.. +.+...+..+
T Consensus       506 ~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~L  582 (987)
T PRK09782        506 QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWL  582 (987)
T ss_pred             CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHH
Confidence            355444334445556899999999999998664  3445556777888899999999999999998864 2333344444


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcH
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKV  166 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (272)
                      .....+.|++++|...+++..+..  |+...+..+...+.+.|++++|...+++..... +.+...+..+..++...|++
T Consensus       583 a~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~  659 (987)
T PRK09782        583 HAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDI  659 (987)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCH
Confidence            444556699999999999999874  568889999999999999999999999998874 44567788888899999999


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHH-hHHHHHHHHHHhhhHHHHHHHHHH
Q 048616          167 EIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQV-SFRRIKALMELANKQEALQNLSNK  245 (272)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~  245 (272)
                      ++|+..++...+.. +.+...+..+..++...|++++|...+++..+.  .|+.. ..-.......+..+++.+.+-+++
T Consensus       660 eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l--~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r  736 (987)
T PRK09782        660 AQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDD--IDNQALITPLTPEQNQQRFNFRRLHEEVGR  736 (987)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCchhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            99999999998875 456778889999999999999999999999876  56553 333467777778888888888877


Q ss_pred             HHhc
Q 048616          246 MALF  249 (272)
Q Consensus       246 ~~~~  249 (272)
                      ....
T Consensus       737 ~~~~  740 (987)
T PRK09782        737 RWTF  740 (987)
T ss_pred             Hhhc
Confidence            5543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.61  E-value=5.1e-12  Score=114.25  Aligned_cols=236  Identities=12%  Similarity=0.054  Sum_probs=145.1

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHH-------------------------------------
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSI-------------------------------------   51 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l-------------------------------------   51 (272)
                      +...+..+...+...|++++|++.|++..+.... +...+..+                                     
T Consensus       384 ~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~  462 (1157)
T PRK11447        384 DSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQND  462 (1157)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhh
Confidence            4456666777777778888888888777764322 22222222                                     


Q ss_pred             -----HHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHh
Q 048616           52 -----IGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFY  126 (272)
Q Consensus        52 -----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (272)
                           ...+...|++++|++.|++..+.. +-+...+..+...|.+.|++++|...++++.+.... +...+..+...+.
T Consensus       463 ~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~-~~~~~~a~al~l~  540 (1157)
T PRK11447        463 RLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPN-DPEQVYAYGLYLS  540 (1157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHH
Confidence                 222334567777777777776653 224556666777777777777777777777654322 2222222222233


Q ss_pred             hcCChhhHHHHHHHHHhC---------------------------------------CCCCCHhhHHHHHHHHHhcCcHH
Q 048616          127 WSNDLRSSWNLYCRMMGT---------------------------------------GCLPNTQSCMFLVKLCKRQEKVE  167 (272)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~---------------------------------------~~~~~~~~~~~l~~~~~~~~~~~  167 (272)
                      ..+++++|...++.+...                                       ..+.+...+..+...+.+.|+++
T Consensus       541 ~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~  620 (1157)
T PRK11447        541 GSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYA  620 (1157)
T ss_pred             hCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            334444443333322100                                       01233445556667777888888


Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-HHhHHHHHHHHHHhhhHHHHHHHHHHH
Q 048616          168 IALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS-QVSFRRIKALMELANKQEALQNLSNKM  246 (272)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (272)
                      +|...|+...+.. +.+...+..+...+...|++++|.+.++...+.  .|+ ...+..+..++...|+.++|.++++++
T Consensus       621 ~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~a  697 (1157)
T PRK11447        621 AARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRL  697 (1157)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            8888888887765 445667777888888888888888888877654  343 334445677777888888888888888


Q ss_pred             HhcC
Q 048616          247 ALFG  250 (272)
Q Consensus       247 ~~~~  250 (272)
                      ....
T Consensus       698 l~~~  701 (1157)
T PRK11447        698 IPQA  701 (1157)
T ss_pred             hhhC
Confidence            7654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.61  E-value=4.8e-12  Score=114.42  Aligned_cols=233  Identities=12%  Similarity=0.085  Sum_probs=173.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYC   91 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (272)
                      .+..+...+...|++++|++.|++..+..+. +...+..+...+.+.|++++|...++++.+.. +.+...+..+...+.
T Consensus       463 ~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~  540 (1157)
T PRK11447        463 RLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLS  540 (1157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            3445667778899999999999999887543 66778888899999999999999999988653 223433333333344


Q ss_pred             hcCCHHHHHHHHHHHHHc---------------------------------------CCCCCHHhHHHHHHHHhhcCChh
Q 048616           92 IAKRLRDASGLMDEMVEK---------------------------------------GLSPNATTYNLFFRVFYWSNDLR  132 (272)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~---------------------------------------~~~~~~~~~~~l~~~~~~~~~~~  132 (272)
                      ..++.++|+..++.+...                                       ..+++...+..+...+.+.|+++
T Consensus       541 ~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~  620 (1157)
T PRK11447        541 GSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYA  620 (1157)
T ss_pred             hCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            445555555444332110                                       01235556677888899999999


Q ss_pred             hHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616          133 SSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMI  212 (272)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  212 (272)
                      +|...|++..+.. +.+...+..+...+...|++++|.+.++.+.+.. +.+...+..+..++...|++++|.++++.+.
T Consensus       621 ~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al  698 (1157)
T PRK11447        621 AARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLI  698 (1157)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHh
Confidence            9999999998874 4567888999999999999999999999887653 3445566778888999999999999999998


Q ss_pred             HcCCC--C---cHHhHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 048616          213 EKGHK--P---SQVSFRRIKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       213 ~~~~~--p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                      .....  |   +...+..+...+...|+.++|...|++...
T Consensus       699 ~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        699 PQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             hhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            75322  2   123455568889999999999999999864

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.60  E-value=2.9e-12  Score=99.02  Aligned_cols=256  Identities=13%  Similarity=0.099  Sum_probs=165.0

Q ss_pred             CCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC--CCHhhHHHHH------------------------------
Q 048616            5 GVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDIS--PDVISYTSII------------------------------   52 (272)
Q Consensus         5 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~l~------------------------------   52 (272)
                      |++-+...-+....+.-...++++|+.+|+++.+.++-  -|..+|+.++                              
T Consensus       257 gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKyR~ETCCiI  336 (559)
T KOG1155|consen  257 GFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKYRPETCCII  336 (559)
T ss_pred             cCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccCCccceeee
Confidence            45544444454555555678899999999999876421  1344554443                              


Q ss_pred             -HHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCCh
Q 048616           53 -GGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDL  131 (272)
Q Consensus        53 -~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (272)
                       +-|+-.++.++|...|++..+.+ +.....|+.+.+-|....+...|.+-++..++.++. |-..|..+.++|.-.+..
T Consensus       337 aNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~-DyRAWYGLGQaYeim~Mh  414 (559)
T KOG1155|consen  337 ANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPR-DYRAWYGLGQAYEIMKMH  414 (559)
T ss_pred             hhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCch-hHHHHhhhhHHHHHhcch
Confidence             22334456677777777777764 234567777777777777777777777777776543 677777777777777777


Q ss_pred             hhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048616          132 RSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEM  211 (272)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  211 (272)
                      .=|+-.|++...-. +-|...|.+|..+|.+.++.++|+.-|......| ..+...+..|.+.|-+.++..+|...|+..
T Consensus       415 ~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~  492 (559)
T KOG1155|consen  415 FYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKY  492 (559)
T ss_pred             HHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            77777777776653 4567777777777777777777777777777665 335566777777777777777777777766


Q ss_pred             HHc----CCC-CcHHhHH-HHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHhhcccc
Q 048616          212 IEK----GHK-PSQVSFR-RIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEMSASD  268 (272)
Q Consensus       212 ~~~----~~~-p~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~ll~ac~  268 (272)
                      ++.    |.. |...--. -|...+.+.+++++|..+.......+    |....-..|++-|+
T Consensus       493 v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~~----~e~eeak~LlReir  551 (559)
T KOG1155|consen  493 VEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKGE----TECEEAKALLREIR  551 (559)
T ss_pred             HHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcCC----chHHHHHHHHHHHH
Confidence            542    222 2111111 25666677777777776665554332    44444455554443

>TIGR00540 hemY_coli hemY protein

Probab=99.60  E-value=3.8e-12  Score=102.69  Aligned_cols=96  Identities=13%  Similarity=0.097  Sum_probs=66.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 048616           15 CLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAK   94 (272)
Q Consensus        15 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (272)
                      ....++.+.|+++.|.+.+.+..+....+...........+...|+++.|...++++.+.. +-++.++..+...+.+.|
T Consensus       123 laA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~  201 (409)
T TIGR00540       123 KAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSG  201 (409)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHh
Confidence            3345666778888888888887664322222233334667777888888888888888764 335667777888888888


Q ss_pred             CHHHHHHHHHHHHHcCC
Q 048616           95 RLRDASGLMDEMVEKGL  111 (272)
Q Consensus        95 ~~~~a~~~~~~~~~~~~  111 (272)
                      ++++|.+.+..+.+.+.
T Consensus       202 d~~~a~~~l~~l~k~~~  218 (409)
T TIGR00540       202 AWQALDDIIDNMAKAGL  218 (409)
T ss_pred             hHHHHHHHHHHHHHcCC
Confidence            88888888877776654

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>PRK12370 invasion protein regulator; Provisional

Probab=99.60  E-value=9.5e-12  Score=104.05  Aligned_cols=232  Identities=10%  Similarity=-0.002  Sum_probs=167.6

Q ss_pred             CHHhHHHHHHHHHh-----cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHH---------hcCChhHHHHHHHHHHHc
Q 048616            9 DIVSYNCLIDVYCK-----DRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLG---------LVGQPDKARDVLKEMKEY   74 (272)
Q Consensus         9 ~~~~~~~li~~~~~-----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~   74 (272)
                      +...|...+.+-..     .+.+++|...|++..+..+. +...|..+..++.         ..+++++|...+++..+.
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            45556566665322     23467999999999886533 4556665555443         234578999999999987


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHH
Q 048616           75 GCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCM  154 (272)
Q Consensus        75 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  154 (272)
                      . +-+...+..+...+...|++++|...|++..+.++. +...+..+...+...|++++|...+++..+.+.. +...+.
T Consensus       334 d-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~  410 (553)
T PRK12370        334 D-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGI  410 (553)
T ss_pred             C-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHH
Confidence            4 346778888888899999999999999999988643 5677888889999999999999999999877422 222333


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhH-HHHHHHHHHh
Q 048616          155 FLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSF-RRIKALMELA  233 (272)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~  233 (272)
                      .++..+...|++++|...+++......+.+...+..+..++...|+.++|.+.+.++...  .|+.... +.+...+...
T Consensus       411 ~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~  488 (553)
T PRK12370        411 TKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQN  488 (553)
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhcc
Confidence            444456678999999999999876642334455677788888999999999999987654  4444443 3466666766


Q ss_pred             hhHHHHHHHHHHHHh
Q 048616          234 NKQEALQNLSNKMAL  248 (272)
Q Consensus       234 ~~~~~a~~~~~~~~~  248 (272)
                      |+  ++...++++.+
T Consensus       489 g~--~a~~~l~~ll~  501 (553)
T PRK12370        489 SE--RALPTIREFLE  501 (553)
T ss_pred             HH--HHHHHHHHHHH
Confidence            63  66666666554

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.60  E-value=6.6e-13  Score=106.62  Aligned_cols=219  Identities=11%  Similarity=0.057  Sum_probs=127.3

Q ss_pred             HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcC------------------------------
Q 048616           26 VEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYG------------------------------   75 (272)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------------------------------   75 (272)
                      ..+|+..|..+.+.. .-+......+.++|...+++++|.++|+.+.+..                              
T Consensus       335 ~~~A~~~~~klp~h~-~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~L  413 (638)
T KOG1126|consen  335 CREALNLFEKLPSHH-YNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDL  413 (638)
T ss_pred             HHHHHHHHHhhHHhc-CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHH
Confidence            455666666544432 2233455555666666666666666666554321                              


Q ss_pred             ---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhh
Q 048616           76 ---CYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQS  152 (272)
Q Consensus        76 ---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (272)
                         -+-.+.+|..+.++|.-+++.+.|++.|++.++.... ...+|+.+-.-+.....+++|...|+.....+ +-+-..
T Consensus       414 i~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-~rhYnA  491 (638)
T KOG1126|consen  414 IDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVD-PRHYNA  491 (638)
T ss_pred             HhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-chhhHH
Confidence               1225567777777777777777777777777765332 45666666666666777777777776655332 112234


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHH
Q 048616          153 CMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMEL  232 (272)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  232 (272)
                      |.-+...|.++++++.|+-.|+...+.+ +.+.+....+...+.+.|+.|+|++++++....+.+ |+..--.-+..+..
T Consensus       492 wYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~  569 (638)
T KOG1126|consen  492 WYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFS  569 (638)
T ss_pred             HHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHh
Confidence            4445556667777777777776666655 334455555566666667777777777666654332 22222224445555


Q ss_pred             hhhHHHHHHHHHHHHhc
Q 048616          233 ANKQEALQNLSNKMALF  249 (272)
Q Consensus       233 ~~~~~~a~~~~~~~~~~  249 (272)
                      .+++++|...++++++.
T Consensus       570 ~~~~~eal~~LEeLk~~  586 (638)
T KOG1126|consen  570 LGRYVEALQELEELKEL  586 (638)
T ss_pred             hcchHHHHHHHHHHHHh
Confidence            56666666666666653

>PF13041 PPR_2: PPR repeat family

Probab=99.59  E-value=4.5e-15  Score=81.91  Aligned_cols=50  Identities=42%  Similarity=0.796  Sum_probs=41.5

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGL   57 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   57 (272)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|++||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            78888888888888888888888888888888888888888888888764

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.59  E-value=2.4e-11  Score=89.98  Aligned_cols=247  Identities=15%  Similarity=0.189  Sum_probs=190.1

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH------hhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDV------ISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAA   82 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   82 (272)
                      +..+.-+|-+.|.+.|.+++|+++-..+.++   ||.      .....|..-|-..|-+|.|..+|..+.+.+ ..-...
T Consensus        68 t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~-efa~~A  143 (389)
T COG2956          68 TFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGA  143 (389)
T ss_pred             hhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcch-hhhHHH
Confidence            3445567788899999999999999988875   332      234456667888899999999999998864 345667


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH----HhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHH
Q 048616           83 YNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNA----TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVK  158 (272)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (272)
                      ...|+..|-...+|++|+++-+++...+..+..    ..|..+...+....+.++|..++.+..+.+ +-....-..+-+
T Consensus       144 lqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~  222 (389)
T COG2956         144 LQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQAD-KKCVRASIILGR  222 (389)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC-ccceehhhhhhH
Confidence            788999999999999999999999988655432    356667777777889999999999988764 223444445667


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHH
Q 048616          159 LCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEA  238 (272)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  238 (272)
                      .....|+++.|.+.|+.+.+.+...-..+...|..+|.+.|+.++...++..+.+.  .+....-..+........-.+.
T Consensus       223 v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~--~~g~~~~l~l~~lie~~~G~~~  300 (389)
T COG2956         223 VELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET--NTGADAELMLADLIELQEGIDA  300 (389)
T ss_pred             HHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc--cCCccHHHHHHHHHHHhhChHH
Confidence            88899999999999999999887666778889999999999999999999999886  3444444555555555555566


Q ss_pred             HHHHHHHHHhcCCCCCCCHHHHHHhhcc
Q 048616          239 LQNLSNKMALFGPSMIPKREEYLAEMSA  266 (272)
Q Consensus       239 a~~~~~~~~~~~~~~~p~~~~~~~ll~a  266 (272)
                      |..++.+-....    |+...+..+|..
T Consensus       301 Aq~~l~~Ql~r~----Pt~~gf~rl~~~  324 (389)
T COG2956         301 AQAYLTRQLRRK----PTMRGFHRLMDY  324 (389)
T ss_pred             HHHHHHHHHhhC----CcHHHHHHHHHh
Confidence            666666555544    888888887764

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.58  E-value=6.9e-13  Score=106.10  Aligned_cols=231  Identities=13%  Similarity=0.145  Sum_probs=169.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD-AAAYNAAIRN   89 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~   89 (272)
                      ..|-.|-+.|...+.+++|...|.+...... .....+..+...|...|.++.|++.+++..+.  .|+ +..|+.|..+
T Consensus       253 dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrp-n~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanA  329 (966)
T KOG4626|consen  253 DAYINLGNVYKEARIFDRAVSCYLRALNLRP-NHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANA  329 (966)
T ss_pred             HHHhhHHHHHHHHhcchHHHHHHHHHHhcCC-cchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHH
Confidence            4556666666667777777777766665422 24556666666677778888888888887765  344 5678888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCcHHH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPN-TQSCMFLVKLCKRQEKVEI  168 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~  168 (272)
                      +...|+..+|...+.+.+..... ...+.+.|..+|...|.++.|..+|....+-  .|. ...++.+...|-++|++++
T Consensus       330 Lkd~G~V~ea~~cYnkaL~l~p~-hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~  406 (966)
T KOG4626|consen  330 LKDKGSVTEAVDCYNKALRLCPN-HADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDD  406 (966)
T ss_pred             HHhccchHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHH
Confidence            88888888888888888776432 4566777888888888888888888877654  333 4567788888888888888


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHH-hHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          169 ALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQV-SFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      |...+++..+.. +.-...|+.+...|...|+.+.|.+.+.+.+..  .|... .++.|...|...|+..+|.+-|++..
T Consensus       407 Ai~~YkealrI~-P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~--nPt~AeAhsNLasi~kDsGni~~AI~sY~~aL  483 (966)
T KOG4626|consen  407 AIMCYKEALRIK-PTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI--NPTFAEAHSNLASIYKDSGNIPEAIQSYRTAL  483 (966)
T ss_pred             HHHHHHHHHhcC-chHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc--CcHHHHHHhhHHHHhhccCCcHHHHHHHHHHH
Confidence            888888887653 223467788888888888889998888888764  55443 44558889999999999999999877


Q ss_pred             hcC
Q 048616          248 LFG  250 (272)
Q Consensus       248 ~~~  250 (272)
                      +..
T Consensus       484 klk  486 (966)
T KOG4626|consen  484 KLK  486 (966)
T ss_pred             ccC
Confidence            544

>PRK12370 invasion protein regulator; Provisional

Probab=99.57  E-value=1.3e-11  Score=103.25  Aligned_cols=218  Identities=13%  Similarity=0.047  Sum_probs=161.4

Q ss_pred             CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 048616           24 RQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLM  103 (272)
Q Consensus        24 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  103 (272)
                      +++++|...+++..+.++. +...+..+...+...|++++|...|++..+.+ +.+...+..+...+...|++++|...+
T Consensus       318 ~~~~~A~~~~~~Al~ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~  395 (553)
T PRK12370        318 NAMIKAKEHAIKATELDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTI  395 (553)
T ss_pred             hHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4589999999999987644 77888888889999999999999999999875 345678888899999999999999999


Q ss_pred             HHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 048616          104 DEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGS  183 (272)
Q Consensus       104 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  183 (272)
                      ++..+..+. +...+..++..+...|++++|...+++......+-+...+..+..++...|+.++|...+.++.... +.
T Consensus       396 ~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~  473 (553)
T PRK12370        396 NECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-IT  473 (553)
T ss_pred             HHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-ch
Confidence            999988544 2333344455577789999999999998765322234456777788889999999999999876553 23


Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          184 YILVSDVLFDLLCDMGKLVEAEKSFLEMIEKG-HKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       184 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      +....+.+...+...|  ++|...++.+.+.. ..|....+  +...+.-.|+.+.+..+ +++.+.+
T Consensus       474 ~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        474 GLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            3344555666677777  47888787776531 12222222  55566667777777655 7776654

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.57  E-value=8.7e-12  Score=96.47  Aligned_cols=227  Identities=15%  Similarity=0.122  Sum_probs=188.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCC--CCHHHHHHH---------
Q 048616           18 DVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCY--PDAAAYNAA---------   86 (272)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l---------   86 (272)
                      .++....+.+++..-...+...|.+-+...-+....+.....|++.|+.+|+++.+...-  -|..+|+.+         
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk  314 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH
Confidence            344455677888888888888888767766666667777889999999999999876310  133444333         


Q ss_pred             ----------------------HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC
Q 048616           87 ----------------------IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus        87 ----------------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (272)
                                            .+-|+-.++.++|...|++.++.+.. ....|+.+.+-|...++...|.+-+++..+-
T Consensus       315 Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi  393 (559)
T KOG1155|consen  315 LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDI  393 (559)
T ss_pred             HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhc
Confidence                                  33355667899999999999998755 6778999999999999999999999999887


Q ss_pred             CCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHH
Q 048616          145 GCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFR  224 (272)
Q Consensus       145 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  224 (272)
                      + +-|-..|-.+-++|.-.+...-|.-+|++..... +.|..+|.+|.++|.+.++.++|.+.|......|-. +...+.
T Consensus       394 ~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~  470 (559)
T KOG1155|consen  394 N-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALV  470 (559)
T ss_pred             C-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHH
Confidence            5 6688999999999999999999999999998875 678899999999999999999999999999887643 667888


Q ss_pred             HHHHHHHHhhhHHHHHHHHHHHHh
Q 048616          225 RIKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                      .|...+.+.++.++|...|.+-.+
T Consensus       471 ~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  471 RLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHH
Confidence            999999999999999999888765

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.57  E-value=7.4e-12  Score=96.13  Aligned_cols=119  Identities=18%  Similarity=0.147  Sum_probs=61.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHH
Q 048616           79 DAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVK  158 (272)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (272)
                      +..++..+|.+.++--..+.|.+++++-.....+.+..+||.+|.+-.-..+    .+++.+|....+.||..|+|+++.
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHH
Confidence            4455555555555555555555555555544444455555555544322221    445555555555555555555555


Q ss_pred             HHHhcCcHHH----HHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCH
Q 048616          159 LCKRQEKVEI----ALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKL  201 (272)
Q Consensus       159 ~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  201 (272)
                      +.++.|+++.    |.+++.+|++.|+.|...+|..+|..+++.++.
T Consensus       282 c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp  328 (625)
T KOG4422|consen  282 CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDP  328 (625)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCc
Confidence            5555554443    234455555555555555555555555555444

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.57  E-value=8.3e-14  Score=115.00  Aligned_cols=247  Identities=15%  Similarity=0.139  Sum_probs=156.5

Q ss_pred             CCCCCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH
Q 048616            1 MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA   80 (272)
Q Consensus         1 M~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (272)
                      |+..|+.|+-.||.++|.-||..|+.+.|- +|.-|.-+..+.+...|+.++.+....++.+.+.           .|.+
T Consensus        16 ~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~a   83 (1088)
T KOG4318|consen   16 HEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLA   83 (1088)
T ss_pred             HHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCch
Confidence            356899999999999999999999999998 9999988888888999999999999999988876           6889


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH-------HcCCCCCHHhH--------------HHHHHHHhhcCChhhHHHHHH
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMV-------EKGLSPNATTY--------------NLFFRVFYWSNDLRSSWNLYC  139 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~~~~~~~~~~--------------~~l~~~~~~~~~~~~a~~~~~  139 (272)
                      .+|..|..+|.+.||+..-..+=+.|.       ..|+.....-+              ...+....-.|-++.+++++.
T Consensus        84 Dtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~  163 (1088)
T KOG4318|consen   84 DTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLA  163 (1088)
T ss_pred             hHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999765222222122       22322111111              112222233344444444444


Q ss_pred             HHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc
Q 048616          140 RMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS  219 (272)
Q Consensus       140 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~  219 (272)
                      .+......-   ++..+++-+....  ...+++........-.|+..+|.+++++-...|+.+.|..++.+|.+.|++.+
T Consensus       164 ~~Pvsa~~~---p~~vfLrqnv~~n--tpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir  238 (1088)
T KOG4318|consen  164 KVPVSAWNA---PFQVFLRQNVVDN--TPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIR  238 (1088)
T ss_pred             hCCcccccc---hHHHHHHHhccCC--chHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcc
Confidence            332211100   1111233332222  12222222222211146677777777777777777777777777777777777


Q ss_pred             HHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHhhccccc
Q 048616          220 QVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEMSASDS  269 (272)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~ll~ac~~  269 (272)
                      ..-|..++.+   .++...++.+.+-|.+.|  +.|+..|+.-.+..|.+
T Consensus       239 ~HyFwpLl~g---~~~~q~~e~vlrgmqe~g--v~p~seT~adyvip~l~  283 (1088)
T KOG4318|consen  239 AHYFWPLLLG---INAAQVFEFVLRGMQEKG--VQPGSETQADYVIPQLS  283 (1088)
T ss_pred             cccchhhhhc---CccchHHHHHHHHHHHhc--CCCCcchhHHHHHhhhc
Confidence            6666665544   566666777777777777  56777777766665544

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.57  E-value=2.1e-12  Score=103.77  Aligned_cols=234  Identities=14%  Similarity=0.083  Sum_probs=191.5

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCC---------------------------------CCCCHhhHHHHHHHHHh
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDED---------------------------------ISPDVISYTSIIGGLGL   57 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---------------------------------~~~~~~~~~~l~~~~~~   57 (272)
                      .+...+-.+|...+++++|.++|+.+.+..                                 -+-.+.+|..+.++|.-
T Consensus       354 wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcfSL  433 (638)
T KOG1126|consen  354 WVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCFSL  433 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchhhh
Confidence            566778889999999999999999887642                                 12356789999999999


Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHH
Q 048616           58 VGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNL  137 (272)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  137 (272)
                      +++.+.|++.|++..+.. +-...+|+.+..-+....++|.|...|+..+..... +-.+|.-+...|.+.++++.|+-.
T Consensus       434 Qkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r-hYnAwYGlG~vy~Kqek~e~Ae~~  511 (638)
T KOG1126|consen  434 QKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR-HYNAWYGLGTVYLKQEKLEFAEFH  511 (638)
T ss_pred             hhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch-hhHHHHhhhhheeccchhhHHHHH
Confidence            999999999999999864 226789999999999999999999999998876333 455666788889999999999999


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 048616          138 YCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHK  217 (272)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  217 (272)
                      |+...+-+ +-+.+....+...+-+.|+.++|++++++....+.+ |+..--.-...+...+++++|+..++++.+.  .
T Consensus       512 fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal~~LEeLk~~--v  587 (638)
T KOG1126|consen  512 FQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYVEALQELEELKEL--V  587 (638)
T ss_pred             HHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHHHHHHHHHHh--C
Confidence            99998775 446677778888899999999999999999877643 3333334566677899999999999999885  6


Q ss_pred             CcHHh-HHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          218 PSQVS-FRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       218 p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      |+..+ |..+...|.+.|+.+.|..-|--+....
T Consensus       588 P~es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  588 PQESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             cchHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            66555 4558899999999999998888877544

>TIGR00540 hemY_coli hemY protein

Probab=99.55  E-value=3.8e-11  Score=96.90  Aligned_cols=117  Identities=16%  Similarity=0.139  Sum_probs=48.2

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCH-hhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 048616           23 DRQVEKAYKIVEKMRDEDISPDV-ISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASG  101 (272)
Q Consensus        23 ~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (272)
                      .|+++.|.+.+.+..+..  |+. ..+-....+..+.|+.+.|.+.+++..+....+...........+...|+++.|..
T Consensus        97 ~g~~~~A~~~l~~~~~~~--~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~  174 (409)
T TIGR00540        97 EGDYAKAEKLIAKNADHA--AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARH  174 (409)
T ss_pred             CCCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHH
Confidence            345555555554443332  221 11222233344445555555555544433211111122222444444455555555


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHH
Q 048616          102 LMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMM  142 (272)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (272)
                      .++.+.+.++. +...+..+...+.+.|++++|.+.+..+.
T Consensus       175 ~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~  214 (409)
T TIGR00540       175 GVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMA  214 (409)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            55555444322 33344444444555555544444444443

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.54  E-value=2.8e-12  Score=102.74  Aligned_cols=233  Identities=14%  Similarity=0.070  Sum_probs=179.6

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      ..|..|-..+-..|+...|+..|++..+.++. =...|..|...|...+.+++|...+.+..... +.....+..+...|
T Consensus       219 iawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~iY  296 (966)
T KOG4626|consen  219 IAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLACIY  296 (966)
T ss_pred             eeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-CcchhhccceEEEE
Confidence            35666666677778888888888888775432 34567778888888888888888888877652 23466777788888


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHH
Q 048616           91 CIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIAL  170 (272)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (272)
                      ...|.++.|+..+++.++..+. =...|+.|..++-..|++.+|...|.+..... +-.....+.+..++...|.+++|.
T Consensus       297 yeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~  374 (966)
T KOG4626|consen  297 YEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEAT  374 (966)
T ss_pred             eccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHH
Confidence            8889999999999888876332 35678889999999999999999998887763 334567788888999999999999


Q ss_pred             HHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH-HhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          171 QLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQ-VSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      .+|.....-. +.-....+.|...|-+.|++++|...+++.+..  +|+. ..|+.+...|...|+.++|.+.+.+.+..
T Consensus       375 ~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~  451 (966)
T KOG4626|consen  375 RLYLKALEVF-PEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI  451 (966)
T ss_pred             HHHHHHHhhC-hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc
Confidence            9998877653 223456788888899999999999999998874  6654 35666888888999999999998887765


Q ss_pred             C
Q 048616          250 G  250 (272)
Q Consensus       250 ~  250 (272)
                      +
T Consensus       452 n  452 (966)
T KOG4626|consen  452 N  452 (966)
T ss_pred             C
Confidence            4

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.52  E-value=1e-10  Score=101.52  Aligned_cols=238  Identities=10%  Similarity=-0.007  Sum_probs=167.4

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      .+...+..+...+.+.|++++|.++|++..+.. +.+...+..+...+...|++++|+..++++.+.. +.+.. +..+.
T Consensus        47 ~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la  123 (765)
T PRK10049         47 LPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALA  123 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHH
Confidence            345568888899999999999999999988763 3356677788888999999999999999998763 34555 88888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHH----------------------------
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYC----------------------------  139 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~----------------------------  139 (272)
                      .++...|+.++|+..++++.+..+. +...+..+..++...+..++|+..++                            
T Consensus       124 ~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~  202 (765)
T PRK10049        124 YVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPT  202 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccc
Confidence            8899999999999999999987543 45555556666666666555444433                            


Q ss_pred             ------------------HHHhC-CCCCCHh-hHH----HHHHHHHhcCcHHHHHHHHHHHHHcCCC-ccHHHHHHHHHH
Q 048616          140 ------------------RMMGT-GCLPNTQ-SCM----FLVKLCKRQEKVEIALQLWNDMVEKGFG-SYILVSDVLFDL  194 (272)
Q Consensus       140 ------------------~~~~~-~~~~~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~  194 (272)
                                        .+.+. ...|+.. .+.    ..+.++...|++++|+..|+.+.+.+.. |+. ....+..+
T Consensus       203 ~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~  281 (765)
T PRK10049        203 RSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASA  281 (765)
T ss_pred             cChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHH
Confidence                              33321 1112211 111    1123445678899999999998877532 332 22225678


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCC---cHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          195 LCDMGKLVEAEKSFLEMIEKGHKP---SQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       195 ~~~~g~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      +...|++++|...|+++.+.....   .......+..++...|++++|..+++++.+..
T Consensus       282 yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~  340 (765)
T PRK10049        282 YLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNS  340 (765)
T ss_pred             HHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcC
Confidence            889999999999999987653211   12334456777889999999999999988754

>PF13041 PPR_2: PPR repeat family

Probab=99.52  E-value=5.9e-14  Score=77.41  Aligned_cols=47  Identities=34%  Similarity=0.708  Sum_probs=19.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 048616           79 DAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVF  125 (272)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (272)
                      |..+|+.+|++|++.|++++|.++|++|.+.|+.||..||+.+|++|
T Consensus         2 ~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~   48 (50)
T PF13041_consen    2 DVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGL   48 (50)
T ss_pred             chHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444444444443

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.52  E-value=2.2e-11  Score=94.39  Aligned_cols=245  Identities=14%  Similarity=0.045  Sum_probs=183.5

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHH--HHH----------------------------------HHhcCChh
Q 048616           19 VYCKDRQVEKAYKIVEKMRDEDISPDVISYTSI--IGG----------------------------------LGLVGQPD   62 (272)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l--~~~----------------------------------~~~~~~~~   62 (272)
                      .+.+.|+++.|+++++-+.+.+-+.-...-+.|  +..                                  ....|+++
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~d  507 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLD  507 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHH
Confidence            477899999999999887765332111111111  100                                  11248899


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHH
Q 048616           63 KARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMM  142 (272)
Q Consensus        63 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (272)
                      +|.+.+++.....-.-....||. .-.+-..|++++|+..|-++... +..+......+...|....+...|++++-+..
T Consensus       508 ka~~~ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~  585 (840)
T KOG2003|consen  508 KAAEFYKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQAN  585 (840)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc
Confidence            99999999987643333344443 33467789999999999887654 22367777888899999999999999997765


Q ss_pred             hCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHh
Q 048616          143 GTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVS  222 (272)
Q Consensus       143 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  222 (272)
                      .. ++.|..+..-+...|-+.|+-..|.+.+-+--+ -++.+..+...|...|....-++++..+|++..-  ++|+..-
T Consensus       586 sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~k  661 (840)
T KOG2003|consen  586 SL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSK  661 (840)
T ss_pred             cc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHH
Confidence            54 566788899999999999999999988765443 3577888889999999999999999999998754  5999999


Q ss_pred             HHHHH-HHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHhhcccccCCC
Q 048616          223 FRRIK-ALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEMSASDSFSC  272 (272)
Q Consensus       223 ~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~ll~ac~~~~~  272 (272)
                      |..++ .++.+.|++.+|.++|+...+.-   ..|...+..+++-|..+|+
T Consensus       662 wqlmiasc~rrsgnyqka~d~yk~~hrkf---pedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  662 WQLMIASCFRRSGNYQKAFDLYKDIHRKF---PEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHhC---ccchHHHHHHHHHhccccc
Confidence            99854 55677899999999999987643   3556666677777888774

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.50  E-value=2.4e-10  Score=87.02  Aligned_cols=122  Identities=16%  Similarity=0.184  Sum_probs=82.4

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 048616           23 DRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGL  102 (272)
Q Consensus        23 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  102 (272)
                      .|+|.+|+++..+-.+.+..| ...|..-..+.-+.||.+.+-+++.+..+..-.++....-.........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            577888888877776665443 3345555666677777777777777777653345555555666666777777777777


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCC
Q 048616          103 MDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGC  146 (272)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  146 (272)
                      ++++.+.+.. +.........+|.+.|++.....++..+.+.+.
T Consensus       176 v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~  218 (400)
T COG3071         176 VDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGL  218 (400)
T ss_pred             HHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccC
Confidence            7777766554 455666777777777777777777777666543

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.50  E-value=4.4e-10  Score=85.63  Aligned_cols=234  Identities=10%  Similarity=0.077  Sum_probs=156.5

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      ..|-.-..+.-+.|+.+.+-.++.+..+....++....-+..+.....|+...|..-..++.+.+ +..+........+|
T Consensus       119 l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~-pr~~~vlrLa~r~y  197 (400)
T COG3071         119 LAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMT-PRHPEVLRLALRAY  197 (400)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhC-cCChHHHHHHHHHH
Confidence            34445556666778888888888888776445566667777778888888888888888888765 34677788888888


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHH-------hHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 048616           91 CIAKRLRDASGLMDEMVEKGLSPNAT-------TYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ  163 (272)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (272)
                      .+.|++.....++..+.+.|.-.+..       +|..++.-....+..+.-...++..... .+-+...-..++.-+.+.
T Consensus       198 ~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l  276 (400)
T COG3071         198 IRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRL  276 (400)
T ss_pred             HHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHc
Confidence            88888888888888888877654432       4555554444444444444455444332 233344445555555566


Q ss_pred             CcHHHHHHHHHHHHHcCCCc------------------------------cHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          164 EKVEIALQLWNDMVEKGFGS------------------------------YILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~------------------------------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      |+.++|.++..+..+++..|                              ++..+..|...|.+.+.+.+|.+.|+...+
T Consensus       277 ~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~  356 (400)
T COG3071         277 GDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTLGRLALKNKLWGKASEALEAALK  356 (400)
T ss_pred             CChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            66666666655554433222                              335566777777777888888888876665


Q ss_pred             cCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 048616          214 KGHKPSQVSFRRIKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       214 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                      .  .|+..+|+.+..++.+.|+...|.+..++...
T Consensus       357 ~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         357 L--RPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             c--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            4  67777777777888888887777777777653

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.49  E-value=1.4e-11  Score=91.53  Aligned_cols=231  Identities=13%  Similarity=0.089  Sum_probs=190.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 048616           14 NCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIA   93 (272)
Q Consensus        14 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (272)
                      +.+-.+|.+.|.+.+|.+-|+..++.  .|-+.||..|-+.|.+..+++.|+.++.+-.+. ++-+.....-+.+.+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            66788999999999999999988876  457778888999999999999999999998875 333444445667778889


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHH
Q 048616           94 KRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLW  173 (272)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  173 (272)
                      ++.++|.++++...+.... +......+...|.-.++++-|+..|+++.+.|+. +...|..+.-+|.-.++++-+..-|
T Consensus       304 ~~~~~a~~lYk~vlk~~~~-nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPI-NVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCc-cceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHH
Confidence            9999999999999887433 6666667778889999999999999999999965 7778888888888999999999988


Q ss_pred             HHHHHcCCCcc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          174 NDMVEKGFGSY--ILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       174 ~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ......--.|+  ...|-.+....+..|++..|.+.|+-....+.. +...++.|.-.-.+.|++++|..+++......
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            88776533333  345666777778899999999999998876433 56788888888999999999999999987655

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.48  E-value=1.4e-10  Score=100.80  Aligned_cols=220  Identities=12%  Similarity=0.083  Sum_probs=165.3

Q ss_pred             HHHHHHHHHHhhC-CCCCCHh-hH----HHHHHHHHhcCChhHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHhcCCHHHH
Q 048616           27 EKAYKIVEKMRDE-DISPDVI-SY----TSIIGGLGLVGQPDKARDVLKEMKEYGCY-PDAAAYNAAIRNYCIAKRLRDA   99 (272)
Q Consensus        27 ~~a~~~~~~~~~~-~~~~~~~-~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a   99 (272)
                      ++|++.++.+.+. ...|+.. .+    ...+..+...|++++|+..|+++.+.+.+ |+. ....+...|...|++++|
T Consensus       213 d~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A  291 (765)
T PRK10049        213 DRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKA  291 (765)
T ss_pred             HHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHH
Confidence            7788888888754 1222221 11    11134456779999999999999987532 322 223357789999999999


Q ss_pred             HHHHHHHHHcCCCC---CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCC-----------CCC---HhhHHHHHHHHHh
Q 048616          100 SGLMDEMVEKGLSP---NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGC-----------LPN---TQSCMFLVKLCKR  162 (272)
Q Consensus       100 ~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~  162 (272)
                      +..|+++.+.....   .......+..++...|++++|..+++.+.....           .|+   ...+..+...+..
T Consensus       292 ~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~  371 (765)
T PRK10049        292 QSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKY  371 (765)
T ss_pred             HHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHH
Confidence            99999988753221   134456677788999999999999999876521           123   2245567778889


Q ss_pred             cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHh-HHHHHHHHHHhhhHHHHHH
Q 048616          163 QEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVS-FRRIKALMELANKQEALQN  241 (272)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~-~~~l~~~~~~~~~~~~a~~  241 (272)
                      .|++++|+++++++.... +.+...+..+...+...|++++|++.+++..+.  .|+... +...+..+...+++++|+.
T Consensus       372 ~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~~~A~~  448 (765)
T PRK10049        372 SNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEWRQMDV  448 (765)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCHHHHHH
Confidence            999999999999998775 556788889999999999999999999999886  566544 4457778899999999999


Q ss_pred             HHHHHHhcC
Q 048616          242 LSNKMALFG  250 (272)
Q Consensus       242 ~~~~~~~~~  250 (272)
                      +++++.+..
T Consensus       449 ~~~~ll~~~  457 (765)
T PRK10049        449 LTDDVVARE  457 (765)
T ss_pred             HHHHHHHhC
Confidence            999999866

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.46  E-value=7.8e-10  Score=95.29  Aligned_cols=91  Identities=15%  Similarity=0.102  Sum_probs=61.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 048616           17 IDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRL   96 (272)
Q Consensus        17 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (272)
                      ...+...|++++|+++|+++.+..+. +...+..++..+...++.++|++.++++...  .|+...+..++..+...++.
T Consensus       109 A~ly~~~gdyd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~  185 (822)
T PRK14574        109 ARAYRNEKRWDQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRN  185 (822)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchH
Confidence            44677778888888888888876544 5666667777778888888888888887765  34555554444444445555


Q ss_pred             HHHHHHHHHHHHcC
Q 048616           97 RDASGLMDEMVEKG  110 (272)
Q Consensus        97 ~~a~~~~~~~~~~~  110 (272)
                      .+|++.++++.+..
T Consensus       186 ~~AL~~~ekll~~~  199 (822)
T PRK14574        186 YDALQASSEAVRLA  199 (822)
T ss_pred             HHHHHHHHHHHHhC
Confidence            55777777776653

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.46  E-value=1.3e-10  Score=93.94  Aligned_cols=238  Identities=18%  Similarity=0.169  Sum_probs=175.3

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhC-----CC-CCCH-hhHHHHHHHHHhcCChhHHHHHHHHHHHc-----C--
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDE-----DI-SPDV-ISYTSIIGGLGLVGQPDKARDVLKEMKEY-----G--   75 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--   75 (272)
                      ..+...+...|...|+++.|+.++++..+.     |. -|.. ...+.+...|...+++++|..+|+++..-     |  
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            356667889999999999999999987654     21 1222 23344667888999999999999998742     2  


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CCC-CCH-HhHHHHHHHHhhcCChhhHHHHHHHHHhC---C
Q 048616           76 CYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK-----GLS-PNA-TTYNLFFRVFYWSNDLRSSWNLYCRMMGT---G  145 (272)
Q Consensus        76 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~  145 (272)
                      .+.-..+++.|..+|.+.|++++|...+++..+.     |.. |.. ..++.+...+...+++++|..+++...+.   -
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence            1223457788888999999999999998877642     221 122 23566778889999999999998876331   1


Q ss_pred             CCCC----HhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC----C---CccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-
Q 048616          146 CLPN----TQSCMFLVKLCKRQEKVEIALQLWNDMVEKG----F---GSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE-  213 (272)
Q Consensus       146 ~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-  213 (272)
                      ..++    ..+++.+...|.+.|++++|.++++......    .   .-....++.+...|.+.+++.+|.++|.+... 
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            2222    3679999999999999999999999986531    1   12234567888899999999999999987543 


Q ss_pred             ---cCCC-Cc-HHhHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          214 ---KGHK-PS-QVSFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       214 ---~~~~-p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                         .|.. |+ ..+|..|...|...|+++.|.++.+.+.
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence               2332 22 2456669999999999999999988876

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.43  E-value=7.5e-10  Score=85.42  Aligned_cols=227  Identities=11%  Similarity=-0.048  Sum_probs=155.9

Q ss_pred             CCHHHHHHHHHHHhhCCC-CC--CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 048616           24 RQVEKAYKIVEKMRDEDI-SP--DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDAS  100 (272)
Q Consensus        24 g~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (272)
                      +..+.++.-+.++..... .|  ....|..+...+.+.|++++|...|++..+.. +.+...|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            445677777777775321 22  24557778888899999999999999998864 346788999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 048616          101 GLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG  180 (272)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (272)
                      ..|++..+..+. +..+|..+..++...|++++|.+.+++..+..  |+..........+...++.++|...+.......
T Consensus       119 ~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        119 EAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            999999987543 46677788888889999999999999987763  433222222333456678999999997655432


Q ss_pred             CCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CC--CC-cHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCC
Q 048616          181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK---GH--KP-SQVSFRRIKALMELANKQEALQNLSNKMALFGPSMI  254 (272)
Q Consensus       181 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~--~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  254 (272)
                       .++...+ .+.  ....|+...+ +.+..+.+.   .+  .| ....|..+...+...|+.++|...|++..+..+   
T Consensus       196 -~~~~~~~-~~~--~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~---  267 (296)
T PRK11189        196 -DKEQWGW-NIV--EFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV---  267 (296)
T ss_pred             -CccccHH-HHH--HHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC---
Confidence             2332221 222  2345555444 344444422   11  11 234677788899999999999999999887652   


Q ss_pred             CCHHHHHH
Q 048616          255 PKREEYLA  262 (272)
Q Consensus       255 p~~~~~~~  262 (272)
                      |+.+.+..
T Consensus       268 ~~~~e~~~  275 (296)
T PRK11189        268 YNFVEHRY  275 (296)
T ss_pred             chHHHHHH
Confidence            45554443

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.43  E-value=1.3e-09  Score=77.28  Aligned_cols=210  Identities=12%  Similarity=0.009  Sum_probs=170.7

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 048616           46 ISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVF  125 (272)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (272)
                      .+...|.-.|.+.|+...|..-+++..+.. +.+..+|..+...|.+.|+.+.|.+-|++....... +....|..-..+
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FL  113 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHH
Confidence            346667788999999999999999999874 346778889999999999999999999999987554 566778888889


Q ss_pred             hhcCChhhHHHHHHHHHhCC-CCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHH
Q 048616          126 YWSNDLRSSWNLYCRMMGTG-CLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEA  204 (272)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  204 (272)
                      |..|++++|...|++....- ..-...+|..+.-+..+.|+++.|...|++..+... ......-.+.......|++-.|
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp-~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDP-QFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCc-CCChHHHHHHHHHHhcccchHH
Confidence            99999999999999887642 222346788888888899999999999999988763 3334556778888899999999


Q ss_pred             HHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHh
Q 048616          205 EKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAE  263 (272)
Q Consensus       205 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~l  263 (272)
                      ..+++.....+. ++..+.-..++.-...|+.+.+.++=..+.+.-    |....+...
T Consensus       193 r~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~f----P~s~e~q~f  246 (250)
T COG3063         193 RLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLF----PYSEEYQTF  246 (250)
T ss_pred             HHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC----CCcHHHHhH
Confidence            999999887765 788888888899999999999988877777644    766665544

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.40  E-value=1.8e-09  Score=83.37  Aligned_cols=212  Identities=13%  Similarity=-0.062  Sum_probs=149.9

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      ...|..+-..|...|++++|...|++..+..+. +...|+.+...+...|++++|...|++..+.. +-+..++..+..+
T Consensus        64 a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~  141 (296)
T PRK11189         64 AQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAYLNRGIA  141 (296)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            356777788899999999999999999987543 78899999999999999999999999999864 2356788888899


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIA  169 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (272)
                      +...|++++|.+.|++..+..+  +..............+++++|...+.+..... .|+...+ .+..  ...|+...+
T Consensus       142 l~~~g~~~eA~~~~~~al~~~P--~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~~~~~-~~~~--~~lg~~~~~  215 (296)
T PRK11189        142 LYYGGRYELAQDDLLAFYQDDP--NDPYRALWLYLAESKLDPKQAKENLKQRYEKL-DKEQWGW-NIVE--FYLGKISEE  215 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-CccccHH-HHHH--HHccCCCHH
Confidence            9999999999999999998743  33222222333456778999999997765432 3332222 2222  234554443


Q ss_pred             HHHHHHHHHc---CC---CccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHH-HHHHHH
Q 048616          170 LQLWNDMVEK---GF---GSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRR-IKALME  231 (272)
Q Consensus       170 ~~~~~~~~~~---~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~-l~~~~~  231 (272)
                       +.+..+.+.   .+   +.....|..+...+.+.|++++|...|++..+.+ +||..-+.. ++....
T Consensus       216 -~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~~~~e~~~~~~e~~~  282 (296)
T PRK11189        216 -TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VYNFVEHRYALLELAL  282 (296)
T ss_pred             -HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CchHHHHHHHHHHHHH
Confidence             244444321   11   1123578889999999999999999999998764 235444443 444333

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.36  E-value=6.6e-09  Score=73.83  Aligned_cols=209  Identities=11%  Similarity=0.032  Sum_probs=173.3

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      .+.-.|.-.|...|++..|..-+++.++.++. +..+|..+...|-+.|+.+.|.+-|++..+.. +-+..+.|.....+
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FL  113 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHH
Confidence            34556777899999999999999999998654 77889999999999999999999999999874 34678899999999


Q ss_pred             HhcCCHHHHHHHHHHHHHcC-CCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHH
Q 048616           91 CIAKRLRDASGLMDEMVEKG-LSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIA  169 (272)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (272)
                      |..|++++|...|++....- ..--..+|..+.-+..+.|+.+.|...|++..+.. +-...+...+.....+.|++-.|
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHH
Confidence            99999999999999998762 22235678888888899999999999999998875 33445677788888899999999


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHH
Q 048616          170 LQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRR  225 (272)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  225 (272)
                      ..+++.....+. ++....-..|+.-...|+.+.+.++=..+...  -|...-|..
T Consensus       193 r~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~q~  245 (250)
T COG3063         193 RLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEYQT  245 (250)
T ss_pred             HHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHh
Confidence            999999887764 77777777888888999999998887777664  566555544

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.34  E-value=2.1e-08  Score=83.93  Aligned_cols=256  Identities=13%  Similarity=0.093  Sum_probs=156.2

Q ss_pred             CCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 048616            6 VKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNA   85 (272)
Q Consensus         6 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (272)
                      +.|.+...-...+.....|++++|.+++.+..+..+. +...|..|...|-+.|+.+++...+--..... +.|...|..
T Consensus       135 l~~~l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~  212 (895)
T KOG2076|consen  135 LAPELRQLLGEANNLFARGDLEEAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKR  212 (895)
T ss_pred             cCHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHH
Confidence            4444555555555555669999999999998887544 67778888888888888888777766555443 335566666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCC-------------------
Q 048616           86 AIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGC-------------------  146 (272)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------------------  146 (272)
                      +.....+.|.+++|.-.|.+.++..+. +...+---...|-+.|+...|.+.|.++.....                   
T Consensus       213 ladls~~~~~i~qA~~cy~rAI~~~p~-n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~  291 (895)
T KOG2076|consen  213 LADLSEQLGNINQARYCYSRAIQANPS-NWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFI  291 (895)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHH
Confidence            666666666677777666666665432 333333344445555555555544444433211                   


Q ss_pred             ---------------------CCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHH---------------------------
Q 048616          147 ---------------------LPNTQSCMFLVKLCKRQEKVEIALQLWNDMVE---------------------------  178 (272)
Q Consensus       147 ---------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---------------------------  178 (272)
                                           ..+...++.++..+.+...++.+.........                           
T Consensus       292 ~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~  371 (895)
T KOG2076|consen  292 THNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVG  371 (895)
T ss_pred             HhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCC
Confidence                                 11122233333333333333333333333222                           


Q ss_pred             ----------------------------------cC--CCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHh
Q 048616          179 ----------------------------------KG--FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVS  222 (272)
Q Consensus       179 ----------------------------------~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  222 (272)
                                                        .+  +.-+...|.-+.++|.+.|++.+|.++|..+......-+...
T Consensus       372 ~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~v  451 (895)
T KOG2076|consen  372 KELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFV  451 (895)
T ss_pred             CCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhh
Confidence                                              11  111234556677888888999999999999987755556667


Q ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHhh
Q 048616          223 FRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEM  264 (272)
Q Consensus       223 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~ll  264 (272)
                      |-.+...|...|..+.|.+.|++.+...+.......++.++.
T Consensus       452 w~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~  493 (895)
T KOG2076|consen  452 WYKLARCYMELGEYEEAIEFYEKVLILAPDNLDARITLASLY  493 (895)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHH
Confidence            888899999999999999999998876533222234444443

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.33  E-value=2.3e-09  Score=83.96  Aligned_cols=224  Identities=13%  Similarity=0.093  Sum_probs=176.8

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 048616           19 VYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRD   98 (272)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   98 (272)
                      .+.-.|+...|.+-|+...+....++ ..|.-+..+|....+.++....|.+..+.+ +-++.+|..-..+..-.+++++
T Consensus       335 F~fL~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  335 FHFLKGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             hhhhcCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHH
Confidence            34567889999999999988765533 337778889999999999999999998875 3467788878888888899999


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 048616           99 ASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVE  178 (272)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (272)
                      |..=|++.+...+. +...|-.+.-+..+.+.+++++..|++.++. ++-....|+.....+..+++++.|.+.|+...+
T Consensus       413 A~aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  413 AIADFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            99999999987543 5667777777778899999999999999776 566678999999999999999999999998876


Q ss_pred             cCCC-------ccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 048616          179 KGFG-------SYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       179 ~~~~-------~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                      ....       +.+.+--.++-.- -.+++..|.+++++..+.+.+ ....|..|.+.-.+.|+.++|.++|++-..
T Consensus       491 LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  491 LEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             hccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            4211       1111222222222 348999999999999887443 556788899999999999999999998653

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.31  E-value=1.2e-08  Score=88.05  Aligned_cols=198  Identities=11%  Similarity=0.044  Sum_probs=158.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-----CCCCHHhHHHHHHH
Q 048616           50 SIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKG-----LSPNATTYNLFFRV  124 (272)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~  124 (272)
                      -.+-++...++..++++.|+.+...+.+....+-..+.++|...+++++|+.+++++....     ..++......|..+
T Consensus       297 Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA  376 (822)
T PRK14574        297 DRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYS  376 (822)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHH
Confidence            4556778889999999999999988877677788899999999999999999999997653     12234445778999


Q ss_pred             HhhcCChhhHHHHHHHHHhCCC-------------CCCH-hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHH
Q 048616          125 FYWSNDLRSSWNLYCRMMGTGC-------------LPNT-QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDV  190 (272)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~-------------~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (272)
                      +...+++++|..+++.+.+...             .||- ..+..++..+...|++.+|++.++++.... +-|..+...
T Consensus       377 ~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~  455 (822)
T PRK14574        377 LNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIA  455 (822)
T ss_pred             HHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            9999999999999999976311             1222 234456677889999999999999998775 678888889


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhH-HHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          191 LFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSF-RRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       191 li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      +.+.+...|.+.+|++.++.....  .|+.... ......+...+++.+|..+.+.+.+..
T Consensus       456 ~A~v~~~Rg~p~~A~~~~k~a~~l--~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~  514 (822)
T PRK14574        456 LASIYLARDLPRKAEQELKAVESL--APRSLILERAQAETAMALQEWHQMELLTDDVISRS  514 (822)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHhhh--CCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhC
Confidence            999999999999999999777654  5655444 447888888999999999999888766

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.31  E-value=2.7e-10  Score=84.87  Aligned_cols=204  Identities=13%  Similarity=0.064  Sum_probs=171.3

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAA   86 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (272)
                      .|-+.||-.|-..|.+-.+++.|+.+|.+-.+. .+-++....-+.+.+-..++.++|.++++...+.. +.+.+....+
T Consensus       253 ~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiAci  330 (478)
T KOG1129|consen  253 FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH-PINVEAIACI  330 (478)
T ss_pred             CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC-Cccceeeeee
Confidence            467789999999999999999999999998875 33355445556778888999999999999998763 4566777777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCH--hhHHHHHHHHHhcC
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNT--QSCMFLVKLCKRQE  164 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~  164 (272)
                      ...|.-.++.+-|+..++++.+.|+. +...|+.+.-+|.-.++++-++..|++....-..|+.  .+|..+-......|
T Consensus       331 a~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iG  409 (478)
T KOG1129|consen  331 AVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIG  409 (478)
T ss_pred             eeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEecc
Confidence            78888889999999999999999987 8889999999999999999999999988765444443  46777878888999


Q ss_pred             cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          165 KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ++..|.+.|+-...++ ..+...++.|.-.-.+.|++++|..++......
T Consensus       410 D~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  410 DFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             chHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            9999999999988776 455677888888888999999999999988765

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.28  E-value=7e-09  Score=84.08  Aligned_cols=228  Identities=19%  Similarity=0.185  Sum_probs=161.3

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHc-----C-CCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CC
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEY-----G-CYPDAA-AYNAAIRNYCIAKRLRDASGLMDEMVEK-----GL  111 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~  111 (272)
                      -..+...+...|...|+++.|+.++++..+.     | ..|... ..+.+...|...+++++|..+|+++...     |.
T Consensus       198 ~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~  277 (508)
T KOG1840|consen  198 RLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGE  277 (508)
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCC
Confidence            3456677899999999999999999988754     2 123333 3345778899999999999999998743     32


Q ss_pred             C-C-CHHhHHHHHHHHhhcCChhhHHHHHHHHHh-----CCC-CCCH-hhHHHHHHHHHhcCcHHHHHHHHHHHHHc---
Q 048616          112 S-P-NATTYNLFFRVFYWSNDLRSSWNLYCRMMG-----TGC-LPNT-QSCMFLVKLCKRQEKVEIALQLWNDMVEK---  179 (272)
Q Consensus       112 ~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  179 (272)
                      . | -..+++.|..+|.+.|++++|...+++..+     .+. .|.. ..++.+...++..+.+++|..+++...+.   
T Consensus       278 ~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~  357 (508)
T KOG1840|consen  278 DHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLD  357 (508)
T ss_pred             CCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHh
Confidence            2 1 234677777889999999999888877633     121 1222 23666777888999999999999876543   


Q ss_pred             CCCc----cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC----C--CC-cHHhHHHHHHHHHHhhhHHHHHHHHHHHH-
Q 048616          180 GFGS----YILVSDVLFDLLCDMGKLVEAEKSFLEMIEKG----H--KP-SQVSFRRIKALMELANKQEALQNLSNKMA-  247 (272)
Q Consensus       180 ~~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~--~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-  247 (272)
                      -+.+    -..+++.|...|...|++++|.+++++.+...    -  .+ ....++.+...|.+.+..++|.++|.+.. 
T Consensus       358 ~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~  437 (508)
T KOG1840|consen  358 APGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKD  437 (508)
T ss_pred             hccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHH
Confidence            1222    23678999999999999999999999987541    1  22 23456678999999999998988888754 


Q ss_pred             ---hcCCCCCCCHHHHHHhhcccccCC
Q 048616          248 ---LFGPSMIPKREEYLAEMSASDSFS  271 (272)
Q Consensus       248 ---~~~~~~~p~~~~~~~ll~ac~~~~  271 (272)
                         ..|+.......+|..|...+.+.|
T Consensus       438 i~~~~g~~~~~~~~~~~nL~~~Y~~~g  464 (508)
T KOG1840|consen  438 IMKLCGPDHPDVTYTYLNLAALYRAQG  464 (508)
T ss_pred             HHHHhCCCCCchHHHHHHHHHHHHHcc
Confidence               344332223356666665555544

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.27  E-value=5.3e-08  Score=79.82  Aligned_cols=229  Identities=16%  Similarity=0.145  Sum_probs=153.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHhc--
Q 048616           17 IDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYN-AAIRNYCIA--   93 (272)
Q Consensus        17 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~--   93 (272)
                      ...+...|++++|++.++.-... +.............+.+.|+.++|..+|..+.+++  |+...|. .+..+..-.  
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcc
Confidence            34567789999999988775543 44345566777888888899999999999998875  4555444 444444221  


Q ss_pred             ---CCHHHHHHHHHHHHHcCCCC-----------C--------------------HHhHHHHHHHHhhcCChhhHHHHHH
Q 048616           94 ---KRLRDASGLMDEMVEKGLSP-----------N--------------------ATTYNLFFRVFYWSNDLRSSWNLYC  139 (272)
Q Consensus        94 ---~~~~~a~~~~~~~~~~~~~~-----------~--------------------~~~~~~l~~~~~~~~~~~~a~~~~~  139 (272)
                         .+.+...++++++...-+..           +                    +.+|+.+-..|.......-..+++.
T Consensus        88 ~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~  167 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVE  167 (517)
T ss_pred             cccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHH
Confidence               24566667777665432110           0                    1123333333443333333444444


Q ss_pred             HHHhC----C----------CCCCH--hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHH
Q 048616          140 RMMGT----G----------CLPNT--QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVE  203 (272)
Q Consensus       140 ~~~~~----~----------~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  203 (272)
                      .....    +          -+|+.  .++..+...|...|++++|.++++...++. +..+..|..-.+.+-+.|++.+
T Consensus       168 ~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht-Pt~~ely~~KarilKh~G~~~~  246 (517)
T PF12569_consen  168 EYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT-PTLVELYMTKARILKHAGDLKE  246 (517)
T ss_pred             HHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHCCCHHH
Confidence            43221    1          12333  345666778889999999999999999885 3346788888899999999999


Q ss_pred             HHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          204 AEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       204 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      |.+.++..+..+.. |...-+..+..+.++|+.++|.+++..+.+.+
T Consensus       247 Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~  292 (517)
T PF12569_consen  247 AAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTRED  292 (517)
T ss_pred             HHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCC
Confidence            99999999886433 44444448889999999999999999987665

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.24  E-value=6.8e-08  Score=78.64  Aligned_cols=246  Identities=13%  Similarity=0.094  Sum_probs=161.0

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      .+|+.-.+.|.+.+.++-|..+|...++-- +-+...|......--..|..++...+|++.... ++-....|-....-+
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqvf-p~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~  594 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQVF-PCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEK  594 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhhc-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHH
Confidence            355555566666666666777776666542 335556666666555667777777777777765 334455555556666


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHH
Q 048616           91 CIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIAL  170 (272)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (272)
                      -..|+...|..++.+..+.+.. +...|...+.....+.+++.|..+|.+....  .|+...|.--+..---.++.++|.
T Consensus       595 w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~  671 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEAL  671 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHH
Confidence            6778888888888888777543 6677777777888888888888888777654  566666666555555667788888


Q ss_pred             HHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          171 QLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      +++++..+. ++.-...|..+.+.+-+.++++.|.+.|..-.+. ++-....|..+...=.+.|..-.|..++++..-++
T Consensus       672 rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN  749 (913)
T KOG0495|consen  672 RLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN  749 (913)
T ss_pred             HHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC
Confidence            888777665 2334456667777777777777777777665544 33344556666666667777777777777766555


Q ss_pred             CCCCCCHHHHHHhhcc
Q 048616          251 PSMIPKREEYLAEMSA  266 (272)
Q Consensus       251 ~~~~p~~~~~~~ll~a  266 (272)
                      +   -+..-|...|..
T Consensus       750 P---k~~~lwle~Ir~  762 (913)
T KOG0495|consen  750 P---KNALLWLESIRM  762 (913)
T ss_pred             C---CcchhHHHHHHH
Confidence            2   233444444443

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.23  E-value=1.8e-08  Score=85.03  Aligned_cols=236  Identities=13%  Similarity=0.137  Sum_probs=175.3

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC--CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH--HHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDIS--PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA--AAYN   84 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~   84 (272)
                      |+...+.|.+.|.-.|+++.++.+...+......  .-...|-.+.++|-..|++++|...|.+..+..  ++.  -.+-
T Consensus       269 nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~--~d~~~l~~~  346 (1018)
T KOG2002|consen  269 NPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKAD--NDNFVLPLV  346 (1018)
T ss_pred             CcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccC--CCCcccccc
Confidence            6677888999999999999999999988765321  123457889999999999999999999888753  343  3445


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcC----ChhhHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 048616           85 AAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSN----DLRSSWNLYCRMMGTGCLPNTQSCMFLVKLC  160 (272)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (272)
                      -+..++.+.|+++.+...|+......+ .+..+..+|...|...+    ..++|..++.+..+.. +-|...|..+...+
T Consensus       347 GlgQm~i~~~dle~s~~~fEkv~k~~p-~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~  424 (1018)
T KOG2002|consen  347 GLGQMYIKRGDLEESKFCFEKVLKQLP-NNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLL  424 (1018)
T ss_pred             chhHHHHHhchHHHHHHHHHHHHHhCc-chHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHH
Confidence            678899999999999999999988743 25667767766666664    4566777777766553 45667777777777


Q ss_pred             HhcCcHHHHHHHHHHHH----HcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCCcHH-------hHHHH
Q 048616          161 KRQEKVEIALQLWNDMV----EKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK---GHKPSQV-------SFRRI  226 (272)
Q Consensus       161 ~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~p~~~-------~~~~l  226 (272)
                      ...+ ...+..++....    ..+..+.+...|.+.......|++++|...|+.....   ...+|..       -|| +
T Consensus       425 e~~d-~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YN-l  502 (1018)
T KOG2002|consen  425 EQTD-PWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYN-L  502 (1018)
T ss_pred             HhcC-hHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHH-H
Confidence            5544 333366665543    4454566788899999999999999999999988765   2334442       233 6


Q ss_pred             HHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          227 KALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      .......++.+.|.+.|+.+.+..
T Consensus       503 arl~E~l~~~~~A~e~Yk~Ilkeh  526 (1018)
T KOG2002|consen  503 ARLLEELHDTEVAEEMYKSILKEH  526 (1018)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHHC
Confidence            777778889999999999998876

>PF12854 PPR_1: PPR repeat

Probab=99.23  E-value=1.7e-11  Score=61.02  Aligned_cols=34  Identities=44%  Similarity=0.974  Sum_probs=30.5

Q ss_pred             CCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHh
Q 048616            4 MGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMR   37 (272)
Q Consensus         4 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~   37 (272)
                      +|++||..+||++|++|++.|++++|.++|++|.
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            5889999999999999999999999999998874

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.23  E-value=1.4e-08  Score=79.27  Aligned_cols=206  Identities=10%  Similarity=0.061  Sum_probs=162.6

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 048616           22 KDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASG  101 (272)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (272)
                      ..|++++|.+.|++.+..+-.-....|++ .-.+-..|++++|++.|-++... +..+..+...+.+.|-...+..+|++
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            46899999999999987644433334443 33466789999999999988754 23577888888999999999999999


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 048616          102 LMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGF  181 (272)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (272)
                      ++.+.... ++.|+...+.|...|-+.|+-..|++.+-.--+. ++-+..+..-+...|....-+++++.+|+...-  +
T Consensus       580 ~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--i  655 (840)
T KOG2003|consen  580 LLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--I  655 (840)
T ss_pred             HHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--c
Confidence            99887665 4557888999999999999999999887654433 466778888888888899999999999988654  4


Q ss_pred             CccHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhh
Q 048616          182 GSYILVSDVLFDL-LCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELAN  234 (272)
Q Consensus       182 ~~~~~~~~~li~~-~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  234 (272)
                      .|+..-|..++.. +.+.|++.+|.++++....+ ++-|.....-|++.+...|
T Consensus       656 qp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlg  708 (840)
T KOG2003|consen  656 QPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLG  708 (840)
T ss_pred             CccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhcccc
Confidence            8999999887765 55789999999999998776 5667777777777765544

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.23  E-value=2.9e-08  Score=79.16  Aligned_cols=253  Identities=12%  Similarity=0.073  Sum_probs=158.9

Q ss_pred             CCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHH
Q 048616            5 GVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYN   84 (272)
Q Consensus         5 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (272)
                      |..-+......-.+-+...+++.+..++++.+.+.. ++....+..-|.++...|+..+-..+=.++.+. .+..+.+|-
T Consensus       239 ~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~  316 (611)
T KOG1173|consen  239 GLAENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWF  316 (611)
T ss_pred             hhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchh
Confidence            445556666666666666777777777777666543 334444444455555555555555555555543 233445555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH----------------------------------HHhhcCC
Q 048616           85 AAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFR----------------------------------VFYWSND  130 (272)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----------------------------------~~~~~~~  130 (272)
                      ++.--|.-.|..++|.+.|.+....... =...|-.+..                                  -|.+.++
T Consensus       317 aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n  395 (611)
T KOG1173|consen  317 AVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNN  395 (611)
T ss_pred             hHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhcc
Confidence            5555555555555555555554432111 0112222222                                  3455666


Q ss_pred             hhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc------CCCccHHHHHHHHHHHHhcCCHHHH
Q 048616          131 LRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK------GFGSYILVSDVLFDLLCDMGKLVEA  204 (272)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~li~~~~~~g~~~~a  204 (272)
                      .+.|.+.|.+.... .+.|+...+-+--..-..+.+.+|...|+.....      .......+++.|..++.+.+.+++|
T Consensus       396 ~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eA  474 (611)
T KOG1173|consen  396 LKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEA  474 (611)
T ss_pred             HHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHH
Confidence            66666666665543 2344555555555555677888888888876622      1112456788899999999999999


Q ss_pred             HHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHhhcc
Q 048616          205 EKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEMSA  266 (272)
Q Consensus       205 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~ll~a  266 (272)
                      ...++..+... +.|..++.++.-.|...|+.+.|.+.|.+...    +.|+..+...+|.-
T Consensus       475 I~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~----l~p~n~~~~~lL~~  531 (611)
T KOG1173|consen  475 IDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALA----LKPDNIFISELLKL  531 (611)
T ss_pred             HHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh----cCCccHHHHHHHHH
Confidence            99999998773 44788888899999999999999999999764    44887666665543

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.20  E-value=1.4e-07  Score=76.88  Aligned_cols=234  Identities=12%  Similarity=0.077  Sum_probs=154.1

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      ...|-.....+-..|++..|..++.+..+.... +...|-.-+..-....+++.|..+|.+....  .|+..+|..-++.
T Consensus       584 e~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~  660 (913)
T KOG0495|consen  584 EILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANL  660 (913)
T ss_pred             hhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHH
Confidence            344555555566678888888888888776544 7777888888888888888888888887764  4677777776666


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCC-HHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPN-ATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEI  168 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (272)
                      ---.+..++|.+++++.++.  .|+ ...|..+-+.+-+.++.+.|.+.|..=.+. ++-....|..+.+.=.+.|.+-.
T Consensus       661 er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~r  737 (913)
T KOG0495|consen  661 ERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVR  737 (913)
T ss_pred             HHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhh
Confidence            66678888888888777765  334 334555556666777777777666543332 23334455555555566677777


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-----------------------------CCCCc
Q 048616          169 ALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK-----------------------------GHKPS  219 (272)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----------------------------~~~p~  219 (272)
                      |..+++..+-.+ +-+...|-..|+.=.+.|+.+.|..++.+.++.                             .+.-|
T Consensus       738 AR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~d  816 (913)
T KOG0495|consen  738 ARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHD  816 (913)
T ss_pred             HHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCC
Confidence            777777766665 445566777777777777777776665544432                             12333


Q ss_pred             HHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          220 QVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ......+...+-....++++.+.|.+....+
T Consensus       817 phVllaia~lfw~e~k~~kar~Wf~Ravk~d  847 (913)
T KOG0495|consen  817 PHVLLAIAKLFWSEKKIEKAREWFERAVKKD  847 (913)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence            3444455566666677777777777766544

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.19  E-value=2.9e-07  Score=75.61  Aligned_cols=235  Identities=14%  Similarity=0.135  Sum_probs=163.6

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhc-----CChhHHHHHHHHHHHcCCC---C---
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLV-----GQPDKARDVLKEMKEYGCY---P---   78 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~---~---   78 (272)
                      ..........+.+.|+.++|..+|..+.+.++. |..-|..+..+..-.     .+.+...++++++.+.-..   |   
T Consensus        38 ~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPd-n~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl  116 (517)
T PF12569_consen   38 LAVLEKRAELLLKLGRKEEAEKIYRELIDRNPD-NYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKYPRSDAPRRL  116 (517)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhCccccchhHh
Confidence            455677778899999999999999999998632 444444455554222     2456666777766433110   0   


Q ss_pred             -------------------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----C----------CCCCH--Hh
Q 048616           79 -------------------------DAAAYNAAIRNYCIAKRLRDASGLMDEMVEK----G----------LSPNA--TT  117 (272)
Q Consensus        79 -------------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~----------~~~~~--~~  117 (272)
                                               -+.+|+.+-..|......+-..+++......    +          -.|+.  .+
T Consensus       117 ~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~  196 (517)
T PF12569_consen  117 PLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWT  196 (517)
T ss_pred             hcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHH
Confidence                                     1134444545555444444445555554422    1          12333  34


Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 048616          118 YNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPN-TQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLC  196 (272)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  196 (272)
                      +..+...|...|++++|++.+++.++.  .|+ ...|..-.+.+-+.|++++|.+.++..+..+ .-|..+-+-.+..+.
T Consensus       197 ~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~L  273 (517)
T PF12569_consen  197 LYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLL  273 (517)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHH
Confidence            466678888999999999999999887  455 6778888899999999999999999999887 557777778889999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCcHHh------H-HH-HHHHHHHhhhHHHHHHHHHHHHh
Q 048616          197 DMGKLVEAEKSFLEMIEKGHKPSQVS------F-RR-IKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       197 ~~g~~~~a~~~~~~~~~~~~~p~~~~------~-~~-l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                      +.|++++|.+++......+..|-...      | .. ...+|.+.|++..|...|..+.+
T Consensus       274 Ra~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  274 RAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            99999999999999977765443322      2 22 57788999998888876666544

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=99.17  E-value=4.1e-09  Score=80.42  Aligned_cols=226  Identities=15%  Similarity=0.090  Sum_probs=147.1

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH-HHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA-AAYNAAIR   88 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~   88 (272)
                      ......+.+++...|+++.++   .++.... .|.......+...+...++-+.++.-+++.......++. ........
T Consensus        35 ~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~  110 (290)
T PF04733_consen   35 LERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAAT  110 (290)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHH
Confidence            334555667788888876543   4444433 566666655555444434555555555444433323222 33333345


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHH----hcC
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCK----RQE  164 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~  164 (272)
                      .+...|++++|++++.+.      .+.......+..|.+.++++.|.+.++.|.+.+  .| .+...+..++.    -.+
T Consensus       111 i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e  181 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGE  181 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTT
T ss_pred             HHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCch
Confidence            566789999999888653      266777788899999999999999999998753  33 34444444443    334


Q ss_pred             cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhH-HHHHHHH
Q 048616          165 KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQ-EALQNLS  243 (272)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~-~~a~~~~  243 (272)
                      .+.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+++.+..+.+.. +..+...++.+....|+. +.+.+++
T Consensus       182 ~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-~~d~LaNliv~~~~~gk~~~~~~~~l  259 (290)
T PF04733_consen  182 KYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-DPDTLANLIVCSLHLGKPTEAAERYL  259 (290)
T ss_dssp             CCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-HHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-CHHHHHHHHHHHHHhCCChhHHHHHH
Confidence            789999999998765 4678888899999999999999999999998765432 445555577777777776 7788899


Q ss_pred             HHHHhcC
Q 048616          244 NKMALFG  250 (272)
Q Consensus       244 ~~~~~~~  250 (272)
                      .+++...
T Consensus       260 ~qL~~~~  266 (290)
T PF04733_consen  260 SQLKQSN  266 (290)
T ss_dssp             HHCHHHT
T ss_pred             HHHHHhC
Confidence            9888765

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.13  E-value=5.1e-08  Score=82.43  Aligned_cols=240  Identities=13%  Similarity=0.051  Sum_probs=126.4

Q ss_pred             CCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhC---CCCCCH------hhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048616            4 MGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDE---DISPDV------ISYTSIIGGLGLVGQPDKARDVLKEMKEY   74 (272)
Q Consensus         4 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (272)
                      .|-.+-+...|.+...+...|+++.|...|+.....   ...++.      .+--.+....-..++.+.|.+.|..+.+.
T Consensus       446 ~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke  525 (1018)
T KOG2002|consen  446 KGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE  525 (1018)
T ss_pred             cCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            444567788888888888899999999999887654   122222      12222444445556666666666666654


Q ss_pred             CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcC------------------------
Q 048616           75 GCYPD-AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSN------------------------  129 (272)
Q Consensus        75 ~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~------------------------  129 (272)
                      .  |+ ...|-.++.+....+...+|...+.+..+..- .++..++.+...+....                        
T Consensus       526 h--p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~-~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~Ys  602 (1018)
T KOG2002|consen  526 H--PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDS-SNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYS  602 (1018)
T ss_pred             C--chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhccc-CCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhH
Confidence            2  22 22222222222233445555555555443321 12222222222333333                        


Q ss_pred             ------------------------ChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH
Q 048616          130 ------------------------DLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYI  185 (272)
Q Consensus       130 ------------------------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  185 (272)
                                              ..++|+++|.+..+.. +-|...-+-+.-.++..|++.+|..+|.++.+... -..
T Consensus       603 liaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~  680 (1018)
T KOG2002|consen  603 LIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFE  680 (1018)
T ss_pred             HHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCC
Confidence                                    3445555555555443 33445555555555666666666666666665531 223


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 048616          186 LVSDVLFDLLCDMGKLVEAEKSFLEMIEKGH-KPSQVSFRRIKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       186 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                      .+|-.+..+|...|++..|.++|+...+.-. .-+....+.|.+++-..|.+.++.+.......
T Consensus       681 dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~  744 (1018)
T KOG2002|consen  681 DVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARH  744 (1018)
T ss_pred             ceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3455566666666666666666665544422 22333344466666666666666665555544

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.12  E-value=2.6e-08  Score=78.27  Aligned_cols=196  Identities=18%  Similarity=0.137  Sum_probs=157.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 048616           13 YNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI   92 (272)
Q Consensus        13 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (272)
                      |-.+..+|....+.++....|+...+.+.. ++.+|..-.....-.+++++|..=|++..+.. +-+...|-.+.-+..+
T Consensus       363 yI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-pe~~~~~iQl~~a~Yr  440 (606)
T KOG0547|consen  363 YIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-PENAYAYIQLCCALYR  440 (606)
T ss_pred             HHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHH
Confidence            777778899999999999999999987655 77788888888888999999999999999864 2356677777777888


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCC-----CCH--hhHHHHHHHHHhcCc
Q 048616           93 AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCL-----PNT--QSCMFLVKLCKRQEK  165 (272)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~--~~~~~l~~~~~~~~~  165 (272)
                      .+.++++...|++..+. ++..+..|+.....+...+++++|.+.|+..++....     .+.  .+--.++ .+.-.++
T Consensus       441 ~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l-~~qwk~d  518 (606)
T KOG0547|consen  441 QHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALL-VLQWKED  518 (606)
T ss_pred             HHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHh-hhchhhh
Confidence            99999999999999987 4446788999999999999999999999988764211     011  1111111 1123489


Q ss_pred             HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          166 VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      +..|.++++...+.+.+ ....|..|...-.+.|+.++|.++|++-..
T Consensus       519 ~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  519 INQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            99999999999988744 447888999999999999999999998754

>PLN02789 farnesyltranstransferase

Probab=99.11  E-value=1e-06  Score=68.33  Aligned_cols=231  Identities=10%  Similarity=0.016  Sum_probs=167.9

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC-ChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVG-QPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      .+++.+-..+...++.++|+.+.+++.+.++. +..+|+..-.++...| ++++++..++++.+... .+..+|+.....
T Consensus        38 ~a~~~~ra~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~  115 (320)
T PLN02789         38 EAMDYFRAVYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHH
Confidence            35566666777789999999999999987543 5667777777777777 67999999999998753 355667766555


Q ss_pred             HHhcCCH--HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc---C
Q 048616           90 YCIAKRL--RDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ---E  164 (272)
Q Consensus        90 ~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~  164 (272)
                      +.+.|+.  ++++.+++++.+...+ +..+|+...-++...|+++++++.++++.+.+.. +...|+.....+.+.   |
T Consensus       116 l~~l~~~~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~  193 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLG  193 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccc
Confidence            6666653  6788999999988665 7889999888999999999999999999887643 556666665555444   2


Q ss_pred             c----HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhh--
Q 048616          165 K----VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDM----GKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELAN--  234 (272)
Q Consensus       165 ~----~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~--  234 (272)
                      .    .++...+..+..... +-+...|+-+...+...    ++..+|.+.+.+..+.++ .+......|+..|....  
T Consensus       194 ~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~-~s~~al~~l~d~~~~~~~~  271 (320)
T PLN02789        194 GLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDS-NHVFALSDLLDLLCEGLQP  271 (320)
T ss_pred             cccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccC-CcHHHHHHHHHHHHhhhcc
Confidence            2    245677776766665 55677888777777763    445678888888766432 24555666888887532  


Q ss_pred             ----------------hHHHHHHHHHHHH
Q 048616          235 ----------------KQEALQNLSNKMA  247 (272)
Q Consensus       235 ----------------~~~~a~~~~~~~~  247 (272)
                                      ..++|.+++..+.
T Consensus       272 ~~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        272 TAEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             chhhhhhhhccccccccHHHHHHHHHHHH
Confidence                            2366888888874

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=99.09  E-value=3.2e-07  Score=80.55  Aligned_cols=232  Identities=13%  Similarity=0.154  Sum_probs=173.7

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC-----HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPD-----VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAY   83 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (272)
                      +...|-..|......++.+.|.+++++.+.. +.+.     ...|.++++.-..-|.-+...++|+++.+..  ..-..|
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~ 1533 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVH 1533 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHH
Confidence            4567888888888999999999999988764 3222     3457777777777788888899999998752  234567


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCC---HhhHHHHHHHH
Q 048616           84 NAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPN---TQSCMFLVKLC  160 (272)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~  160 (272)
                      ..|...|.+.+..++|-++++.|.+.- .-....|...+..+.+.++-+.|..++.+..+.  -|.   .....-.+..-
T Consensus      1534 ~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1534 LKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHH
Confidence            788889999999999999999998762 236777888888999998889999999887664  333   23334444444


Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHH--hHHHHHHHHHHhhhHHH
Q 048616          161 KRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQV--SFRRIKALMELANKQEA  238 (272)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~--~~~~l~~~~~~~~~~~~  238 (272)
                      .+.|+.+.+..+|+...... +--...|+.+++.=.++|+.+.+..+|++.+..++.|-..  .|..-+..=...|+...
T Consensus      1611 Fk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~ 1689 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKN 1689 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhh
Confidence            68899999999999888765 3345789999999999999999999999999887766443  34445666666677666


Q ss_pred             HHHHHHHHH
Q 048616          239 LQNLSNKMA  247 (272)
Q Consensus       239 a~~~~~~~~  247 (272)
                      ++.+=.+..
T Consensus      1690 vE~VKarA~ 1698 (1710)
T KOG1070|consen 1690 VEYVKARAK 1698 (1710)
T ss_pred             HHHHHHHHH
Confidence            665544443

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=99.09  E-value=3.5e-08  Score=75.37  Aligned_cols=200  Identities=13%  Similarity=0.084  Sum_probs=137.7

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISP-DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNA   85 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (272)
                      .|.......+...+...++-+.+..-+++.......+ +..........+...|++++|++++.+-      .+......
T Consensus        63 ~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al  136 (290)
T PF04733_consen   63 SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLAL  136 (290)
T ss_dssp             SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHH
T ss_pred             ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHH
Confidence            5666666555554444355666666665554443332 2322333334566789999999888653      36677778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh----cCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 048616           86 AIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW----SNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCK  161 (272)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (272)
                      .+..+.+.++++.|.+.++.|.+.+  .|. +...+..+++.    .+.+.+|..+|+++.+. ..++..+.+.+..+..
T Consensus       137 ~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l  212 (290)
T PF04733_consen  137 AVQILLKMNRPDLAEKELKNMQQID--EDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHL  212 (290)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHCCS--CCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC--CcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHH
Confidence            8999999999999999999998763  343 34445554443    34689999999998665 5788889999999999


Q ss_pred             hcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHcCCCCc
Q 048616          162 RQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKL-VEAEKSFLEMIEKGHKPS  219 (272)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~~~~~p~  219 (272)
                      ..|++++|.+++.+....+ +-+..+...++-+....|+. +.+.+++.++...  .|+
T Consensus       213 ~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~--~p~  268 (290)
T PF04733_consen  213 QLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS--NPN  268 (290)
T ss_dssp             HCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH--TTT
T ss_pred             HhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh--CCC
Confidence            9999999999999988765 44566666677777788887 6788888888765  454

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.09  E-value=9.8e-07  Score=68.34  Aligned_cols=152  Identities=11%  Similarity=0.017  Sum_probs=94.5

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHH-
Q 048616           94 KRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQL-  172 (272)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-  172 (272)
                      +++..|+.+-++.++.... +...+-.-...+...+++++|.-.|+...... +-+...|.-++.+|...|.+.+|... 
T Consensus       314 K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~A  391 (564)
T KOG1174|consen  314 KKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALA  391 (564)
T ss_pred             hhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHH
Confidence            3444444444444433211 22233222344555566666666666554442 23455666666666666666555433 


Q ss_pred             -----------------------------------HHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 048616          173 -----------------------------------WNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHK  217 (272)
Q Consensus       173 -----------------------------------~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  217 (272)
                                                         ++.-.+.. +......+.+.+.+...|..+++..+++.....  .
T Consensus       392 n~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~-P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~  468 (564)
T KOG1174|consen  392 NWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKIN-PIYTPAVNLIAELCQVEGPTKDIIKLLEKHLII--F  468 (564)
T ss_pred             HHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccC-CccHHHHHHHHHHHHhhCccchHHHHHHHHHhh--c
Confidence                                               33322221 112334566778888999999999999998775  7


Q ss_pred             CcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          218 PSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       218 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ||....+.|.+.+...+.+.++.+.|....+..
T Consensus       469 ~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  469 PDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             cccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            899989999999999999999999999887655

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.08  E-value=3.8e-07  Score=76.74  Aligned_cols=236  Identities=11%  Similarity=0.073  Sum_probs=157.2

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHH----HH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAA----YN   84 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~   84 (272)
                      |...|-.+-....+.|++++|.-.|.+..+.. +++...+-.-...|-+.|+...|.+.|.++.+...+.|..-    -.
T Consensus       206 d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~  284 (895)
T KOG2076|consen  206 DYELWKRLADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIR  284 (895)
T ss_pred             ChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHH
Confidence            45566666666666666666666666666653 22444444455566666777777777777666532222222    22


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc-CCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHh--------------------
Q 048616           85 AAIRNYCIAKRLRDASGLMDEMVEK-GLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMG--------------------  143 (272)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------------------  143 (272)
                      ..++.+...++-+.|.+.++..... +-..+...+++++..+.+...++.+......+..                    
T Consensus       285 ~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~  364 (895)
T KOG2076|consen  285 RVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEP  364 (895)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccc
Confidence            2344455555556666666555542 1112344566677777777777777666655433                    


Q ss_pred             -----------------------------------------CCCC--CCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 048616          144 -----------------------------------------TGCL--PNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG  180 (272)
Q Consensus       144 -----------------------------------------~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (272)
                                                               ..+.  -+...|.-+..++...|++.+|..++..+....
T Consensus       365 ~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~  444 (895)
T KOG2076|consen  365 NALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNRE  444 (895)
T ss_pred             cccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCc
Confidence                                                     1111  122346667788899999999999999999876


Q ss_pred             CCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHH-HHHHHHHHhhhHHHHHHHHHHHH
Q 048616          181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFR-RIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       181 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      ..-+...|-.+..+|...|..++|.+.++..+..  .|+..-.. +|...+.+.|+.++|.+.+..+.
T Consensus       445 ~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  445 GYQNAFVWYKLARCYMELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             cccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            5666789999999999999999999999999875  55544444 48999999999999999998865

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.06  E-value=6e-07  Score=71.95  Aligned_cols=207  Identities=12%  Similarity=0.016  Sum_probs=150.1

Q ss_pred             CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 048616           40 DISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYN  119 (272)
Q Consensus        40 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  119 (272)
                      +..-+.........-+...+++.+..++.+.+.+.. ++....+..-|.++...|+..+-..+=.++.+.-+. ...+|-
T Consensus       239 ~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~-~a~sW~  316 (611)
T KOG1173|consen  239 GLAENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPS-KALSWF  316 (611)
T ss_pred             hhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCC-CCcchh
Confidence            344467777777788888999999999999999863 566777777788999999999888888888887443 678898


Q ss_pred             HHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHH----------------------------------HHhcCc
Q 048616          120 LFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKL----------------------------------CKRQEK  165 (272)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~----------------------------------~~~~~~  165 (272)
                      ++.--|...|...+|.+.|.+....+.. -...|..+..+                                  |.+.++
T Consensus       317 aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n  395 (611)
T KOG1173|consen  317 AVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNN  395 (611)
T ss_pred             hHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhcc
Confidence            8888888889999999999876443211 11122222222                                  445667


Q ss_pred             HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCC----CcHHhHHHHHHHHHHhhhHHHH
Q 048616          166 VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK--GHK----PSQVSFRRIKALMELANKQEAL  239 (272)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~----p~~~~~~~l~~~~~~~~~~~~a  239 (272)
                      ++.|.++|.+..... +.|+...+-+.-..-..+.+.+|..+|+..+..  .+.    .-..+++.|..+|.+.+..++|
T Consensus       396 ~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eA  474 (611)
T KOG1173|consen  396 LKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEA  474 (611)
T ss_pred             HHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHH
Confidence            777777777666543 445555666665566778899999999877622  011    1334567789999999999999


Q ss_pred             HHHHHHHHhcC
Q 048616          240 QNLSNKMALFG  250 (272)
Q Consensus       240 ~~~~~~~~~~~  250 (272)
                      ...+++.+...
T Consensus       475 I~~~q~aL~l~  485 (611)
T KOG1173|consen  475 IDYYQKALLLS  485 (611)
T ss_pred             HHHHHHHHHcC
Confidence            99999988765

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.04  E-value=1.6e-08  Score=84.73  Aligned_cols=208  Identities=13%  Similarity=0.083  Sum_probs=140.1

Q ss_pred             HHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048616           31 KIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKG  110 (272)
Q Consensus        31 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (272)
                      .++-.+...|+.|+..||..+|.-|+..|+.+.|- +|.-|.-...+.+...++.++....+.++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            35667788999999999999999999999999998 9999988778888999999999999999988877          


Q ss_pred             CCCCHHhHHHHHHHHhhcCChhh---HHHHHHHH----HhCCCCCCHhhH--------------HHHHHHHHhcCcHHHH
Q 048616          111 LSPNATTYNLFFRVFYWSNDLRS---SWNLYCRM----MGTGCLPNTQSC--------------MFLVKLCKRQEKVEIA  169 (272)
Q Consensus       111 ~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~----~~~~~~~~~~~~--------------~~l~~~~~~~~~~~~a  169 (272)
                       .|.+.||..|..+|.+.||...   ..+.+...    ...|+.....-+              ...+......|-++.+
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence             5789999999999999998755   22212221    122322111111              1222233344555555


Q ss_pred             HHHHHHHHHcC-CCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 048616          170 LQLWNDMVEKG-FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       170 ~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                      .+++..+.... ..|.    ..+++-+...  ..-..++........-.|+..+|..++.....+|+.+.|..++.+|++
T Consensus       159 lkll~~~Pvsa~~~p~----~vfLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke  232 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWNAPF----QVFLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKE  232 (1088)
T ss_pred             HHHHhhCCcccccchH----HHHHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence            55554433221 0111    1123322222  222333333332222258999999999999999999999999999999


Q ss_pred             cCCCCCCC
Q 048616          249 FGPSMIPK  256 (272)
Q Consensus       249 ~~~~~~p~  256 (272)
                      .|..++|-
T Consensus       233 ~gfpir~H  240 (1088)
T KOG4318|consen  233 KGFPIRAH  240 (1088)
T ss_pred             cCCCcccc
Confidence            99876553

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.04  E-value=1.2e-06  Score=69.87  Aligned_cols=228  Identities=14%  Similarity=0.046  Sum_probs=136.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHh
Q 048616           18 DVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGL----VGQPDKARDVLKEMKEYGCYPD-AAAYNAAIRNYCI   92 (272)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~   92 (272)
                      ..+...|++++|.+.+++..+..+. +...+.. ...+..    .+..+.+.+.+...  ....|+ ......+...+..
T Consensus        51 ~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~a~~~~~  126 (355)
T cd05804          51 LSAWIAGDLPKALALLEQLLDDYPR-DLLALKL-HLGAFGLGDFSGMRDHVARVLPLW--APENPDYWYLLGMLAFGLEE  126 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHH-hHHHHHhcccccCchhHHHHHhcc--CcCCCCcHHHHHHHHHHHHH
Confidence            3456678999999999888776322 4434432 222222    34444555544441  112233 3344456667888


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCC-CCCH--hhHHHHHHHHHhcCcHHHH
Q 048616           93 AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGC-LPNT--QSCMFLVKLCKRQEKVEIA  169 (272)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a  169 (272)
                      .|++++|...+++..+..+. +...+..+...+...|++++|...+++...... .|+.  ..|..+...+...|++++|
T Consensus       127 ~G~~~~A~~~~~~al~~~p~-~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A  205 (355)
T cd05804         127 AGQYDRAEEAARRALELNPD-DAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAA  205 (355)
T ss_pred             cCCHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999887543 566777888889999999999999988766432 1222  2345677788899999999


Q ss_pred             HHHHHHHHHcCC-CccHHHH-H--HHHHHHHhcCCHHHHHHH--HHHHHHcCCCCcHHhHH--HHHHHHHHhhhHHHHHH
Q 048616          170 LQLWNDMVEKGF-GSYILVS-D--VLFDLLCDMGKLVEAEKS--FLEMIEKGHKPSQVSFR--RIKALMELANKQEALQN  241 (272)
Q Consensus       170 ~~~~~~~~~~~~-~~~~~~~-~--~li~~~~~~g~~~~a~~~--~~~~~~~~~~p~~~~~~--~l~~~~~~~~~~~~a~~  241 (272)
                      ..++++...... .+..... +  .++.-+...|..+.+.++  +..............+.  ....++...|+.+.+..
T Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~  285 (355)
T cd05804         206 LAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDK  285 (355)
T ss_pred             HHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHH
Confidence            999988754432 1211111 1  233334444544433333  21111111111112222  35667777888899999


Q ss_pred             HHHHHHhcC
Q 048616          242 LSNKMALFG  250 (272)
Q Consensus       242 ~~~~~~~~~  250 (272)
                      +++.+....
T Consensus       286 ~L~~l~~~~  294 (355)
T cd05804         286 LLAALKGRA  294 (355)
T ss_pred             HHHHHHHHH
Confidence            988886643

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=99.03  E-value=3.7e-07  Score=80.19  Aligned_cols=214  Identities=9%  Similarity=0.014  Sum_probs=170.5

Q ss_pred             HHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC-----CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616           33 VEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYP-----DAAAYNAAIRNYCIAKRLRDASGLMDEMV  107 (272)
Q Consensus        33 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (272)
                      |+++.... +-+...|...|....+.++.++|.+++++.... +.+     -...|.++++.-...|.-+...++|+++.
T Consensus      1447 ferlvrss-PNSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAc 1524 (1710)
T KOG1070|consen 1447 FERLVRSS-PNSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERAC 1524 (1710)
T ss_pred             HHHHHhcC-CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHH
Confidence            34444433 335677999999999999999999999998754 222     12467778887777888899999999998


Q ss_pred             HcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-ccHH
Q 048616          108 EKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFG-SYIL  186 (272)
Q Consensus       108 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~  186 (272)
                      +.. . ....|..|...|.+.+.+++|.++++.|.+. +.-....|...+..+.++++-+.|..++.+..+.-.+ -...
T Consensus      1525 qyc-d-~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~ 1601 (1710)
T KOG1070|consen 1525 QYC-D-AYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVE 1601 (1710)
T ss_pred             Hhc-c-hHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHH
Confidence            862 1 3456788999999999999999999999775 3457788999999999999999999999998876322 1334


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC
Q 048616          187 VSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPS  252 (272)
Q Consensus       187 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  252 (272)
                      ...-.+..-.+.|+.+.+..+|+..+..- +.-...|+..+..-.++++.+.++.+|++....++.
T Consensus      1602 ~IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~ 1666 (1710)
T KOG1070|consen 1602 FISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLS 1666 (1710)
T ss_pred             HHHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCC
Confidence            44555566668999999999999998763 335678999999999999999999999999998865

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.01  E-value=3e-07  Score=68.78  Aligned_cols=187  Identities=11%  Similarity=0.017  Sum_probs=106.3

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-C-CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH--HHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDIS-P-DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA--AAYN   84 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~   84 (272)
                      +...+-.+...+...|+++.|...|+++...... | ...++..+..++.+.|++++|...++++.+.......  .++.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            3445555556666666666666666666554221 1 1134455566666666666666666666654211111  1333


Q ss_pred             HHHHHHHhc--------CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHH
Q 048616           85 AAIRNYCIA--------KRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFL  156 (272)
Q Consensus        85 ~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (272)
                      .+..++...        |+.++|.+.|+.+....+. +...+..+.... .   ...      ..        ......+
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~-~---~~~------~~--------~~~~~~~  172 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMD-Y---LRN------RL--------AGKELYV  172 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHH-H---HHH------HH--------HHHHHHH
Confidence            334444433        5566666666666655222 111221111100 0   000      00        0011245


Q ss_pred             HHHHHhcCcHHHHHHHHHHHHHcCC--CccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          157 VKLCKRQEKVEIALQLWNDMVEKGF--GSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ...+.+.|++++|...+....+...  +.....+..+..++...|++++|..+++.+...
T Consensus       173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            5678899999999999999887632  234567888999999999999999999988764

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PF12854 PPR_1: PPR repeat

Probab=98.99  E-value=7.7e-10  Score=54.97  Aligned_cols=32  Identities=50%  Similarity=0.916  Sum_probs=14.7

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048616           75 GCYPDAAAYNAAIRNYCIAKRLRDASGLMDEM  106 (272)
Q Consensus        75 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  106 (272)
                      |+.||..+|+.||++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            34444444444444444444444444444443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.99  E-value=4.4e-07  Score=67.92  Aligned_cols=186  Identities=11%  Similarity=0.016  Sum_probs=125.9

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HhH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD---AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNA--TTY  118 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~  118 (272)
                      ....+..+...+.+.|++++|...|+++.+... .+   ...+..+..++.+.|++++|...++++.+.......  .++
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYP-FSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            456677788888899999999999999887531 12   246677888899999999999999999876432111  134


Q ss_pred             HHHHHHHhhc--------CChhhHHHHHHHHHhCCCCCCH-hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHH
Q 048616          119 NLFFRVFYWS--------NDLRSSWNLYCRMMGTGCLPNT-QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSD  189 (272)
Q Consensus       119 ~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  189 (272)
                      ..+..++.+.        |++++|.+.++.+....  |+. .....+.....    ...      ...        ....
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~----~~~------~~~--------~~~~  170 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDY----LRN------RLA--------GKEL  170 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHH----HHH------HHH--------HHHH
Confidence            4444455443        67788888888887652  332 22222211110    000      000        0112


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCC-CC-cHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          190 VLFDLLCDMGKLVEAEKSFLEMIEKGH-KP-SQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       190 ~li~~~~~~g~~~~a~~~~~~~~~~~~-~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      .+...+.+.|++++|...++...+... .| ....+..+..++...|+.++|..+++.+....
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            456678999999999999999987622 12 34577789999999999999999999887654

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.97  E-value=2.9e-06  Score=67.65  Aligned_cols=226  Identities=9%  Similarity=-0.033  Sum_probs=140.6

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 048616           23 DRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGL  102 (272)
Q Consensus        23 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  102 (272)
                      .+..+.+.+.+.... ...+........+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...
T Consensus        93 ~~~~~~~~~~l~~~~-~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~  170 (355)
T cd05804          93 SGMRDHVARVLPLWA-PENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAF  170 (355)
T ss_pred             ccCchhHHHHHhccC-cCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHH
Confidence            455556666555421 1122233444556678889999999999999999875 34567788889999999999999999


Q ss_pred             HHHHHHcCCC-CCH--HhHHHHHHHHhhcCChhhHHHHHHHHHhCCC-CCCHhhH-H--HHHHHHHhcCcHHHHHHH---
Q 048616          103 MDEMVEKGLS-PNA--TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGC-LPNTQSC-M--FLVKLCKRQEKVEIALQL---  172 (272)
Q Consensus       103 ~~~~~~~~~~-~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~-~--~l~~~~~~~~~~~~a~~~---  172 (272)
                      +++....... |+.  ..|..+...+...|++++|..++++...... .+..... +  .++..+...|....+.+.   
T Consensus       171 l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~  250 (355)
T cd05804         171 MESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDL  250 (355)
T ss_pred             HHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHH
Confidence            9998875322 222  3455678889999999999999999854422 1222211 1  223333344433322222   


Q ss_pred             HHHHHHcCC-CccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--c------HHhHHHHHHHHHHhhhHHHHHHHH
Q 048616          173 WNDMVEKGF-GSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKP--S------QVSFRRIKALMELANKQEALQNLS  243 (272)
Q Consensus       173 ~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p--~------~~~~~~l~~~~~~~~~~~~a~~~~  243 (272)
                      ......... ............++...|+.++|...++.+......+  .      .........++...|+.++|.+.+
T Consensus       251 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L  330 (355)
T cd05804         251 ADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELL  330 (355)
T ss_pred             HHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHH
Confidence            111111100 1111222356777889999999999999886642220  1      111111234556789999999988


Q ss_pred             HHHHhcC
Q 048616          244 NKMALFG  250 (272)
Q Consensus       244 ~~~~~~~  250 (272)
                      .......
T Consensus       331 ~~al~~a  337 (355)
T cd05804         331 GPVRDDL  337 (355)
T ss_pred             HHHHHHH
Confidence            8876543

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.96  E-value=1.3e-06  Score=63.23  Aligned_cols=119  Identities=8%  Similarity=0.113  Sum_probs=71.4

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHH-HhcCc--HHHH
Q 048616           93 AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLC-KRQEK--VEIA  169 (272)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~a  169 (272)
                      .++.+++...++...+.++. +...|..+...|...|++++|...|++..+.+ +-+...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~P~-~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            45555666666665555433 56666666666666666666666666666553 23445555555543 44454  3666


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          170 LQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      .+++++..+.+ +.+...+..+...+.+.|++++|...|+++.+.
T Consensus       130 ~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        130 REMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            67776666654 334455566666666677777777777776655

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.95  E-value=1.2e-06  Score=63.39  Aligned_cols=156  Identities=11%  Similarity=0.137  Sum_probs=120.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 048616           17 IDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRL   96 (272)
Q Consensus        17 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (272)
                      +-.|...|+++.+....+.+...    .        ..+...++.+++...+++..+.. +.+...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~----~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADP----L--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCc----c--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCH
Confidence            44688899998876555333211    1        01223667788888888887764 56888999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHH-hhcCC--hhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHH
Q 048616           97 RDASGLMDEMVEKGLSPNATTYNLFFRVF-YWSND--LRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLW  173 (272)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  173 (272)
                      ++|...|++....... +...+..+..++ ...|+  .++|.+++++..+.+ +-+...+..+...+.+.|++++|...|
T Consensus        90 ~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         90 DNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999988654 677777777764 67777  599999999998875 446778888889999999999999999


Q ss_pred             HHHHHcCCCccHHHH
Q 048616          174 NDMVEKGFGSYILVS  188 (272)
Q Consensus       174 ~~~~~~~~~~~~~~~  188 (272)
                      +.+.+.. +|+..-+
T Consensus       168 ~~aL~l~-~~~~~r~  181 (198)
T PRK10370        168 QKVLDLN-SPRVNRT  181 (198)
T ss_pred             HHHHhhC-CCCccHH
Confidence            9998876 4454433

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.94  E-value=4e-07  Score=73.05  Aligned_cols=221  Identities=12%  Similarity=0.036  Sum_probs=171.5

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 048616           19 VYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRD   98 (272)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   98 (272)
                      -+.+.|++.+|.-.|+...+.++. +...|..|.......++-..|+..+++..+.. +-+....-.|.-.|...|.-..
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHH
Confidence            356889999999999999888654 88899999999999999999999999999874 3467788888889999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHH-----------HHHhhcCChhhHHHHHHHH-HhCCCCCCHhhHHHHHHHHHhcCcH
Q 048616           99 ASGLMDEMVEKGLSPNATTYNLFF-----------RVFYWSNDLRSSWNLYCRM-MGTGCLPNTQSCMFLVKLCKRQEKV  166 (272)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~-----------~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~  166 (272)
                      |++.++.-+...++     |..+.           ..+..........++|-++ ...+..+|..+...|--.|--.|.+
T Consensus       372 Al~~L~~Wi~~~p~-----y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~ef  446 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPK-----YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEF  446 (579)
T ss_pred             HHHHHHHHHHhCcc-----chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHH
Confidence            99999887654321     00000           1112222334455555555 4445457888888888888889999


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHh-HHHHHHHHHHhhhHHHHHHHHHH
Q 048616          167 EIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVS-FRRIKALMELANKQEALQNLSNK  245 (272)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~  245 (272)
                      ++|...|+..+... +.|..+||.|.-.++...+.++|...|.+.++.  +|+-+- ...|.-.|...|.+++|...|-.
T Consensus       447 draiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~  523 (579)
T KOG1125|consen  447 DRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLE  523 (579)
T ss_pred             HHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHH
Confidence            99999999998875 667789999999999999999999999999885  665442 22378889999999999988877


Q ss_pred             HHhc
Q 048616          246 MALF  249 (272)
Q Consensus       246 ~~~~  249 (272)
                      .+..
T Consensus       524 AL~m  527 (579)
T KOG1125|consen  524 ALSM  527 (579)
T ss_pred             HHHh
Confidence            6543

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.90  E-value=5.6e-07  Score=65.44  Aligned_cols=164  Identities=15%  Similarity=0.047  Sum_probs=132.0

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFR  123 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (272)
                      |... ..+-..+...|+-+....+..+.... .+.|.......+....+.|++..|...+++...... +|..+|+.+.-
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p-~d~~~~~~lga  142 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAP-TDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCC-CChhhhhHHHH
Confidence            4444 55667778888888888888776543 245667777789999999999999999999987754 58999999999


Q ss_pred             HHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHH
Q 048616          124 VFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVE  203 (272)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  203 (272)
                      +|.+.|+++.|..-|.+..+.. .-+...++.+.-.+.-.|+++.|..++......+ .-+..+-..+.......|++++
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHH
Confidence            9999999999999999887763 3456678888888889999999999999988775 4455666777788889999999


Q ss_pred             HHHHHHHHH
Q 048616          204 AEKSFLEMI  212 (272)
Q Consensus       204 a~~~~~~~~  212 (272)
                      |.++...-.
T Consensus       221 A~~i~~~e~  229 (257)
T COG5010         221 AEDIAVQEL  229 (257)
T ss_pred             HHhhccccc
Confidence            998876543

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.90  E-value=5.9e-07  Score=74.07  Aligned_cols=222  Identities=13%  Similarity=0.033  Sum_probs=135.6

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAA   86 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (272)
                      +|=-..=..+...+...|-...|..+|+++.         .|..++.+|...|+..+|..+..+..++  +|++..|..+
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~L  463 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLL  463 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHh
Confidence            3333334455566777788888888877653         4666777888888888888877777763  5777777777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcH
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKV  166 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (272)
                      .+......-+++|.++.+.....       +-..+.....+.++++++.+.|+.-.+.+ +....+|...-.+..+.+++
T Consensus       464 GDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~  535 (777)
T KOG1128|consen  464 GDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKE  535 (777)
T ss_pred             hhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhh
Confidence            77666655566676666654432       11111122233566667766666554443 33455666666666666777


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHH
Q 048616          167 EIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKM  246 (272)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (272)
                      +.|.+.|..-.... +-+...||.+-.+|.+.|+-.+|...+.+..+.+ .-+-..|.........-|.++.|.+.+.++
T Consensus       536 q~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  536 QAAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             HHHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            77666666555432 3344567777777777777777777777776654 223334444455556666667676666666


Q ss_pred             Hhc
Q 048616          247 ALF  249 (272)
Q Consensus       247 ~~~  249 (272)
                      ...
T Consensus       614 l~~  616 (777)
T KOG1128|consen  614 LDL  616 (777)
T ss_pred             HHh
Confidence            543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.87  E-value=1.1e-06  Score=65.27  Aligned_cols=204  Identities=15%  Similarity=0.167  Sum_probs=124.9

Q ss_pred             CCCCCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH
Q 048616            1 MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA   80 (272)
Q Consensus         1 M~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (272)
                      |...|+.--..-+.+.+..+.+..+++.|++++..-.++..+ +....+.+..+|....++..|-..++++...  .|..
T Consensus         1 M~~~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~p~-~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~   77 (459)
T KOG4340|consen    1 MAGSGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPEL   77 (459)
T ss_pred             CCcccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHH
Confidence            445666666666888888889999999999999888777533 7778899999999999999999999999875  3555


Q ss_pred             HHHHHH-HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHH--HHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHH
Q 048616           81 AAYNAA-IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFF--RVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLV  157 (272)
Q Consensus        81 ~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  157 (272)
                      .-|... ...+.+.+.+..|+++...|.+.   |+...-..-+  ......+++..+..++++....|   +..+.....
T Consensus        78 ~qYrlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~g  151 (459)
T KOG4340|consen   78 EQYRLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLG  151 (459)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccch
Confidence            555422 35566778888899888877653   1211111111  12233455555555555543322   122222222


Q ss_pred             HHHHhcCcHHHHHHHHHHHHHc-CCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048616          158 KLCKRQEKVEIALQLWNDMVEK-GFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKG  215 (272)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  215 (272)
                      ....+.|+.+.|.+-|+...+- |..| ...|+.-+. ..+.|+++.|++...++++.|
T Consensus       152 CllykegqyEaAvqkFqaAlqvsGyqp-llAYniALa-Hy~~~qyasALk~iSEIieRG  208 (459)
T KOG4340|consen  152 CLLYKEGQYEAAVQKFQAALQVSGYQP-LLAYNLALA-HYSSRQYASALKHISEIIERG  208 (459)
T ss_pred             heeeccccHHHHHHHHHHHHhhcCCCc-hhHHHHHHH-HHhhhhHHHHHHHHHHHHHhh
Confidence            2233556666666666555544 3333 244444332 234555666666666655554

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.84  E-value=4.4e-06  Score=60.92  Aligned_cols=163  Identities=7%  Similarity=0.002  Sum_probs=133.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHH
Q 048616           79 DAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVK  158 (272)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (272)
                      |... ..+-..+...|+-+....+.........+ +.......+....+.|++..|...+++..... ++|..+|+.+--
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~~~-d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lga  142 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAYPK-DRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccCcc-cHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHH
Confidence            3444 66677788889999998888887655333 66667778999999999999999999998775 789999999999


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHH
Q 048616          159 LCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEA  238 (272)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  238 (272)
                      +|.+.|+++.|..-|.+..+.. .-+....+.+.-.+.-.|+.+.|..++......+.. |...-..+..+....|++++
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHH
Confidence            9999999999999999998875 334566788888899999999999999999876433 55555568888999999999


Q ss_pred             HHHHHHHH
Q 048616          239 LQNLSNKM  246 (272)
Q Consensus       239 a~~~~~~~  246 (272)
                      |..+...-
T Consensus       221 A~~i~~~e  228 (257)
T COG5010         221 AEDIAVQE  228 (257)
T ss_pred             HHhhcccc
Confidence            99877653

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.83  E-value=1.7e-05  Score=62.87  Aligned_cols=231  Identities=13%  Similarity=0.090  Sum_probs=113.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 048616           13 YNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI   92 (272)
Q Consensus        13 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (272)
                      |-.-+.+-.++..+..|..+|++....=+. -...|--.+..=-..|++..|.++|++-.+  ..|+...|.+.+..-.+
T Consensus       110 WlkYae~Emknk~vNhARNv~dRAvt~lPR-VdqlWyKY~ymEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElR  186 (677)
T KOG1915|consen  110 WLKYAEFEMKNKQVNHARNVWDRAVTILPR-VDQLWYKYIYMEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELR  186 (677)
T ss_pred             HHHHHHHHHhhhhHhHHHHHHHHHHHhcch-HHHHHHHHHHHHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHH
Confidence            333333444444444444444444432111 112233333333344555555555555544  24566666666665556


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC-C-CCCCHhhHHHHHHHHHhcCcHHHHH
Q 048616           93 AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT-G-CLPNTQSCMFLVKLCKRQEKVEIAL  170 (272)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~a~  170 (272)
                      .+.++.|..++++.+-.  .|+..+|--....-.+.|+...+..+|+...+. | -..+...+.++..-=.++..++.|.
T Consensus       187 ykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar  264 (677)
T KOG1915|consen  187 YKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERAR  264 (677)
T ss_pred             hhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666555543  245555555555555556666666666555432 1 0111122222222223444555566


Q ss_pred             HHHHHHHHcCCCcc--HHHHHHHHHHHHhcCCHHHHHHH--------HHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHH
Q 048616          171 QLWNDMVEKGFGSY--ILVSDVLFDLLCDMGKLVEAEKS--------FLEMIEKGHKPSQVSFRRIKALMELANKQEALQ  240 (272)
Q Consensus       171 ~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~--------~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  240 (272)
                      -+|+-..++- +.+  ...|..+...=-+-|+.....+.        ++.+++.+ +-|-.+|--.+..-...|+.+...
T Consensus       265 ~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ir  342 (677)
T KOG1915|consen  265 FIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIR  342 (677)
T ss_pred             HHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHH
Confidence            6665555442 222  23344443333344443333322        22333332 335556666777777788889999


Q ss_pred             HHHHHHHhcC
Q 048616          241 NLSNKMALFG  250 (272)
Q Consensus       241 ~~~~~~~~~~  250 (272)
                      ++|++.+...
T Consensus       343 e~yErAIanv  352 (677)
T KOG1915|consen  343 ETYERAIANV  352 (677)
T ss_pred             HHHHHHHccC
Confidence            9999887644

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.82  E-value=5.3e-07  Score=61.75  Aligned_cols=95  Identities=7%  Similarity=-0.160  Sum_probs=62.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh
Q 048616           48 YTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW  127 (272)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (272)
                      +..+...+...|++++|...|++..... +.+...|..+..++.+.|++++|...|++....... +...+..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~-~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDAS-HPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHH
Confidence            4445566666777777777777766653 335666666677777777777777777777765432 55666666666777


Q ss_pred             cCChhhHHHHHHHHHhC
Q 048616          128 SNDLRSSWNLYCRMMGT  144 (272)
Q Consensus       128 ~~~~~~a~~~~~~~~~~  144 (272)
                      .|++++|...|+...+.
T Consensus       105 ~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        105 MGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            77777777777766554

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.81  E-value=1.7e-06  Score=59.24  Aligned_cols=91  Identities=11%  Similarity=-0.065  Sum_probs=45.7

Q ss_pred             HHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCC
Q 048616          121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGK  200 (272)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  200 (272)
                      +...+...|++++|...|+...... +.+...+..+..++...|++++|...|+.....+ +.+...+..+..++.+.|+
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~  107 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGE  107 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            3444455555555555555554442 2344444555555555555555555555555443 3344444445555555555


Q ss_pred             HHHHHHHHHHHHH
Q 048616          201 LVEAEKSFLEMIE  213 (272)
Q Consensus       201 ~~~a~~~~~~~~~  213 (272)
                      +++|...|+...+
T Consensus       108 ~~eAi~~~~~Al~  120 (144)
T PRK15359        108 PGLAREAFQTAIK  120 (144)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555544

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.80  E-value=4.8e-06  Score=71.15  Aligned_cols=136  Identities=9%  Similarity=0.003  Sum_probs=101.3

Q ss_pred             CCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHH
Q 048616           41 ISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL  120 (272)
Q Consensus        41 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  120 (272)
                      .+.+...+..|.....+.|.+++|..+++...+.. +-+......+...+.+.+++++|+..+++.....+. +......
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHH
Confidence            44457777777788888888888888888888753 223556667777888888888888888888877543 5666677


Q ss_pred             HHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 048616          121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK  179 (272)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (272)
                      +..++.+.|++++|..+|+++...+ +-+..++..+..++...|+.++|...|+...+.
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            7778888888888888888887642 334677777888888888888888888887655

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.79  E-value=1.9e-05  Score=57.46  Aligned_cols=125  Identities=14%  Similarity=0.084  Sum_probs=58.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH-hHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 048616           85 AAIRNYCIAKRLRDASGLMDEMVEKGLSPNAT-TYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ  163 (272)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (272)
                      .++-+....|+.+.|...++++.+.-  |.+. .-..-...+-..|++++|+++++.+.+.+ +.|..++-.-+...-..
T Consensus        57 qV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~  133 (289)
T KOG3060|consen   57 QVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQ  133 (289)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHc
Confidence            33444444555555555555555441  2211 11111112333455555555555555543 33444444444444444


Q ss_pred             CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          164 EKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      |+--+|++-+....+. +..|...|.-+.+.|...|++++|.-.+++++-
T Consensus       134 GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  134 GKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             CCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            5444555554444433 344555555555555555555555555555544

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.79  E-value=7e-06  Score=70.17  Aligned_cols=146  Identities=10%  Similarity=0.018  Sum_probs=120.0

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHH
Q 048616           76 CYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMF  155 (272)
Q Consensus        76 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (272)
                      ...+...+..|.....+.|+.++|+.+++...+..+. +......+...+.+.+++++|...+++..... +-+......
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            4556888999999999999999999999999987443 56677788899999999999999999998774 335566777


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHH
Q 048616          156 LVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRR  225 (272)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  225 (272)
                      +..++.+.|++++|..+|+++...+ +-+..++..+..++...|+.++|...|+...+. ..|....|+.
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~  227 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTR  227 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHH
Confidence            7788899999999999999999844 445678888899999999999999999999876 2334455443

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.79  E-value=3.9e-05  Score=60.87  Aligned_cols=67  Identities=21%  Similarity=0.216  Sum_probs=52.7

Q ss_pred             CCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 048616            5 GVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKE   73 (272)
Q Consensus         5 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   73 (272)
                      ...|+...|++.|+.-.+-..++.|..+|++..--  -|+..+|....+.=-+.|....|..+|+...+
T Consensus       169 ~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie  235 (677)
T KOG1915|consen  169 EWEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIE  235 (677)
T ss_pred             cCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            35799999999999999999999999999988764  37787887777777777777777777766543

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.75  E-value=6.8e-07  Score=73.72  Aligned_cols=192  Identities=14%  Similarity=0.071  Sum_probs=143.8

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      ...|.-+|.+|...|+..+|..+..+..++  +|++..|..+.+......-+++|.++.+....+       .-..+...
T Consensus       424 lemw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~  494 (777)
T KOG1128|consen  424 LEMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALL  494 (777)
T ss_pred             HHHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccc
Confidence            456888999999999999999999888773  678888998888877777778888887766432       22222233


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIA  169 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (272)
                      ..+.++++++.+.|+.-.+.+.- ...+|-.+-.+..+.++++.|.+.|....... +-+...|+.+-.+|.+.++..+|
T Consensus       495 ~~~~~~fs~~~~hle~sl~~npl-q~~~wf~~G~~ALqlek~q~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra  572 (777)
T KOG1128|consen  495 ILSNKDFSEADKHLERSLEINPL-QLGTWFGLGCAALQLEKEQAAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRA  572 (777)
T ss_pred             cccchhHHHHHHHHHHHhhcCcc-chhHHHhccHHHHHHhhhHHHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHH
Confidence            34468888888888877766432 56677777777788888888888888776652 33456788888888888888888


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          170 LQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      ...+.+..+.+ .-+...|...+-.....|.+++|.+.+.++.+
T Consensus       573 ~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  573 FRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            88888888777 44456666677777788888888888887754

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.73  E-value=2.4e-05  Score=67.97  Aligned_cols=218  Identities=10%  Similarity=0.082  Sum_probs=147.2

Q ss_pred             CCc-CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHH-----------------
Q 048616            6 VKP-DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDV-----------------   67 (272)
Q Consensus         6 ~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-----------------   67 (272)
                      +.| +...|..|+..+...+++++|.++.+...+..+. ....|-.+...+.+.++...+..+                 
T Consensus        26 ~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~-~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~  104 (906)
T PRK14720         26 YSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKK-SISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIVEH  104 (906)
T ss_pred             CCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCc-ceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhHHHH
Confidence            444 5678999999999999999999999977765322 333344444456666665555444                 


Q ss_pred             -HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCC
Q 048616           68 -LKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGC  146 (272)
Q Consensus        68 -~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  146 (272)
                       ...+...  .-+...+..+..+|-+.|+.++|..+|+++++..+. |..+.|.+...|... +.++|.+++.+....- 
T Consensus       105 ~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~-  179 (906)
T PRK14720        105 ICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-DKEKAITYLKKAIYRF-  179 (906)
T ss_pred             HHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHH-
Confidence             2222221  123356777888899999999999999999998744 788899999999999 9999999998875531 


Q ss_pred             CCCHhhHHHHHH----HH-HhcCcHHHHHHHHHHHHHc-CCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH
Q 048616          147 LPNTQSCMFLVK----LC-KRQEKVEIALQLWNDMVEK-GFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQ  220 (272)
Q Consensus       147 ~~~~~~~~~l~~----~~-~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~  220 (272)
                       .+..-|+.+..    .| ....+++.-.++.+.+... +..--..++-.+-..|...++++++..+++.+.+...+ |.
T Consensus       180 -i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~  257 (906)
T PRK14720        180 -IKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NN  257 (906)
T ss_pred             -HhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-ch
Confidence             11111222211    11 1234555555666665544 44444566677778888999999999999999987433 44


Q ss_pred             HhHHHHHHHHH
Q 048616          221 VSFRRIKALME  231 (272)
Q Consensus       221 ~~~~~l~~~~~  231 (272)
                      ....-++..|.
T Consensus       258 ~a~~~l~~~y~  268 (906)
T PRK14720        258 KAREELIRFYK  268 (906)
T ss_pred             hhHHHHHHHHH
Confidence            55555777776

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.73  E-value=1.8e-06  Score=58.51  Aligned_cols=97  Identities=9%  Similarity=0.002  Sum_probs=57.1

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 048616           46 ISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVF  125 (272)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (272)
                      .....+...+...|++++|.+.|+++.+.+ +.+...+..+...+...|++++|...+++..+.+.. +...+..+...+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPD-DPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC-ChHHHHHHHHHH
Confidence            344445555666666666666666665543 235555666666666666666666666666555322 445555555566


Q ss_pred             hhcCChhhHHHHHHHHHhC
Q 048616          126 YWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~  144 (272)
                      ...|++++|...|+...+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            6666666666666665554

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PLN02789 farnesyltranstransferase

Probab=98.73  E-value=4.1e-05  Score=59.59  Aligned_cols=198  Identities=8%  Similarity=0.020  Sum_probs=140.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHh
Q 048616           48 YTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAK-RLRDASGLMDEMVEKGLSPNATTYNLFFRVFY  126 (272)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (272)
                      +..+-..+...+..++|+.+..++.+.. +-+..+|+.-..++...| ++++++..++++.+.+.+ +..+|+.....+.
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~  117 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAE  117 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHH
Confidence            4444455566788999999999999864 234456666666666777 679999999999988665 6667776655556


Q ss_pred             hcCCh--hhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhc---CCH
Q 048616          127 WSNDL--RSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDM---GKL  201 (272)
Q Consensus       127 ~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~~  201 (272)
                      +.+..  +++..+++++.+.+ +-+..+|.....++.+.|+++++++.++++.+.++ .+...|+.....+.+.   |..
T Consensus       118 ~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~-~N~sAW~~R~~vl~~~~~l~~~  195 (320)
T PLN02789        118 KLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRYFVITRSPLLGGL  195 (320)
T ss_pred             HcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHHHHHHhccccccc
Confidence            66653  67888998888775 44778898888889999999999999999998874 4556676665555444   222


Q ss_pred             ----HHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHh----hhHHHHHHHHHHHHhcC
Q 048616          202 ----VEAEKSFLEMIEKGHKPSQVSFRRIKALMELA----NKQEALQNLSNKMALFG  250 (272)
Q Consensus       202 ----~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~  250 (272)
                          ++..++..+++.... -|...|+-+...+...    +...++..++.+....+
T Consensus       196 ~~~~e~el~y~~~aI~~~P-~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~  251 (320)
T PLN02789        196 EAMRDSELKYTIDAILANP-RNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD  251 (320)
T ss_pred             cccHHHHHHHHHHHHHhCC-CCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc
Confidence                467777777777633 3667777776666652    33456777777765533

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.71  E-value=2.3e-05  Score=57.46  Aligned_cols=221  Identities=12%  Similarity=0.075  Sum_probs=126.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHH-HHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 048616           15 CLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKAR-DVLKEMKEYGCYPDAAAYNAAIRNYCIA   93 (272)
Q Consensus        15 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (272)
                      .+-++|...|.+.....-   +.... .|.......+-.....-++.++-+ ++.+.+.......+......-...|+..
T Consensus        46 y~~raylAlg~~~~~~~e---I~~~~-~~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~  121 (299)
T KOG3081|consen   46 YMYRAYLALGQYQIVISE---IKEGK-ATPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHD  121 (299)
T ss_pred             HHHHHHHHcccccccccc---ccccc-CChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcC
Confidence            344566666765444332   22222 333444443333333344433333 3344444443333434444445567788


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHH----hcCcHHHH
Q 048616           94 KRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCK----RQEKVEIA  169 (272)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a  169 (272)
                      |++++|++......      +......=...+.+..+.+-|.+.+++|.+-+   +..|.+.|..++.    ..+.+.+|
T Consensus       122 ~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~ggek~qdA  192 (299)
T KOG3081|consen  122 GDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGGEKIQDA  192 (299)
T ss_pred             CChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccchhhhhH
Confidence            88888887776621      22233333445667777788888888886542   4556665555553    34567788


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHH-HHHHHHhhhHHHHHHHHHHHHh
Q 048616          170 LQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRI-KALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                      .-+|+++-+. ..|+..+.+-...++...|++++|..++++...+..+ +..+...+ ..+.....+.+...+...+++.
T Consensus       193 fyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  193 FYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             HHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            8888888754 3677777777777788888888888888888776443 34444433 3344444444555666666665


Q ss_pred             cC
Q 048616          249 FG  250 (272)
Q Consensus       249 ~~  250 (272)
                      ..
T Consensus       271 ~~  272 (299)
T KOG3081|consen  271 SH  272 (299)
T ss_pred             cC
Confidence            44

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.70  E-value=2.8e-06  Score=57.60  Aligned_cols=90  Identities=14%  Similarity=0.052  Sum_probs=36.6

Q ss_pred             HHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCH
Q 048616          122 FRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKL  201 (272)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  201 (272)
                      ...+...|++++|...++.....+ +.+...+..+...+.+.|++++|...++...+.+ +.+...+..+...+...|++
T Consensus        24 a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~  101 (135)
T TIGR02552        24 AYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALGEP  101 (135)
T ss_pred             HHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCCH
Confidence            333444444444444444443322 2233333344444444444444444444443332 22233333334444444444


Q ss_pred             HHHHHHHHHHHH
Q 048616          202 VEAEKSFLEMIE  213 (272)
Q Consensus       202 ~~a~~~~~~~~~  213 (272)
                      ++|.+.|+...+
T Consensus       102 ~~A~~~~~~al~  113 (135)
T TIGR02552       102 ESALKALDLAIE  113 (135)
T ss_pred             HHHHHHHHHHHH
Confidence            444444444443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.70  E-value=4.5e-05  Score=62.56  Aligned_cols=197  Identities=13%  Similarity=0.103  Sum_probs=85.9

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 048616           23 DRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGL  102 (272)
Q Consensus        23 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  102 (272)
                      .|+-++|.+....-.+.++. +.+.|+.+.-.+...+++++|++.|+.....+ +.|...+.-+.-.-++.++++.....
T Consensus        54 lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~t  131 (700)
T KOG1156|consen   54 LGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLET  131 (700)
T ss_pred             ccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHH
Confidence            34444444444444433332 44445444444444455555555555554432 22344444444444444555555555


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCC-CCCCHhhHHHHHHH------HHhcCcHHHHHHHHHH
Q 048616          103 MDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTG-CLPNTQSCMFLVKL------CKRQEKVEIALQLWND  175 (272)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~------~~~~~~~~~a~~~~~~  175 (272)
                      ..++.+..+. ....|..+..++.-.|++..|..+++...+.. -.|+...+......      ..+.|.++.|.+.+..
T Consensus       132 r~~LLql~~~-~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~  210 (700)
T KOG1156|consen  132 RNQLLQLRPS-QRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLD  210 (700)
T ss_pred             HHHHHHhhhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHh
Confidence            4444443221 23344445555555555555555555554332 13344333322211      1234444444444433


Q ss_pred             HHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHH
Q 048616          176 MVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRR  225 (272)
Q Consensus       176 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  225 (272)
                      .... +......-..-...+.+.+++++|..++..++..  .||..-|.-
T Consensus       211 ~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~  257 (700)
T KOG1156|consen  211 NEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYE  257 (700)
T ss_pred             hhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHH
Confidence            3222 1111111122334445555555555555555554  445554444

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.70  E-value=6.7e-05  Score=59.67  Aligned_cols=118  Identities=15%  Similarity=0.107  Sum_probs=91.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCC-HhhHHHHHHHHHhcCcHH
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPN-TQSCMFLVKLCKRQEKVE  167 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~  167 (272)
                      .+...|++++|+..++.++...+ -|...+......+.+.++..+|.+.++++...  .|+ ......+..++.+.|++.
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~~P-~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAAQP-DNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChH
Confidence            35567889999999999887633 25555566778888999999999999988876  444 455666778888999999


Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048616          168 IALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLE  210 (272)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  210 (272)
                      +|..+++...... +.|...|..|.++|...|+..++.....+
T Consensus       392 eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE  433 (484)
T COG4783         392 EAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAE  433 (484)
T ss_pred             HHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHH
Confidence            9999998887665 67788899999999988888777654443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.69  E-value=1.7e-05  Score=64.22  Aligned_cols=229  Identities=12%  Similarity=0.071  Sum_probs=141.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 048616           15 CLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAK   94 (272)
Q Consensus        15 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (272)
                      +=++.+...|++++|....+++...+ +-+...+..-+-+.++.+++++|+.+.+.-...  ..+...+--=.-+..+.+
T Consensus        17 t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrln   93 (652)
T KOG2376|consen   17 TDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLN   93 (652)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcc
Confidence            44667888999999999999999876 446667777888899999999999665543211  111111112233455789


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhcCcHHHHHHHH
Q 048616           95 RLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLP-NTQSCMFLVKLCKRQEKVEIALQLW  173 (272)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  173 (272)
                      ..|+|+..++-....    +..+...-...+.+.+++++|+++|+.+.+.+..- +...-..++.+-..    -.+ ++ 
T Consensus        94 k~Dealk~~~~~~~~----~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~----l~~-~~-  163 (652)
T KOG2376|consen   94 KLDEALKTLKGLDRL----DDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA----LQV-QL-  163 (652)
T ss_pred             cHHHHHHHHhccccc----chHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh----hhH-HH-
Confidence            999999999822221    34466666778899999999999999997764321 11122222221111    111 11 


Q ss_pred             HHHHHcCCCccHHHHHHH---HHHHHhcCCHHHHHHHHHHHHHc-------------CCCCcHHhHH-HHHHHHHHhhhH
Q 048616          174 NDMVEKGFGSYILVSDVL---FDLLCDMGKLVEAEKSFLEMIEK-------------GHKPSQVSFR-RIKALMELANKQ  236 (272)
Q Consensus       174 ~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~a~~~~~~~~~~-------------~~~p~~~~~~-~l~~~~~~~~~~  236 (272)
                        +......| ..+|..+   ...+...|++.+|++++....+.             ++.-...+.. .+.-++...|+.
T Consensus       164 --~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt  240 (652)
T KOG2376|consen  164 --LQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQT  240 (652)
T ss_pred             --HHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcch
Confidence              22222223 2233332   33456789999999999888321             1111112222 256677889999


Q ss_pred             HHHHHHHHHHHhcCCCCCCCHHH
Q 048616          237 EALQNLSNKMALFGPSMIPKREE  259 (272)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~p~~~~  259 (272)
                      +++..+|...+...+.-.|...+
T Consensus       241 ~ea~~iy~~~i~~~~~D~~~~Av  263 (652)
T KOG2376|consen  241 AEASSIYVDIIKRNPADEPSLAV  263 (652)
T ss_pred             HHHHHHHHHHHHhcCCCchHHHH
Confidence            99999999999887533333333

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.68  E-value=8.6e-05  Score=59.87  Aligned_cols=112  Identities=13%  Similarity=0.114  Sum_probs=87.6

Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHH-HHH
Q 048616          151 QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGS-YILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRR-IKA  228 (272)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~-l~~  228 (272)
                      .+|...++...+...++.|..+|.+.++.+..+ ++.++++++..+|. ++.+-|.++|+--.++  -+|...|.. .+.
T Consensus       367 Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk--f~d~p~yv~~Yld  443 (656)
T KOG1914|consen  367 LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK--FGDSPEYVLKYLD  443 (656)
T ss_pred             eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh--cCCChHHHHHHHH
Confidence            357778888888899999999999999887766 77788889987765 6678899999887765  556666664 788


Q ss_pred             HHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHhhc
Q 048616          229 LMELANKQEALQNLSNKMALFGPSMIPKREEYLAEMS  265 (272)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~ll~  265 (272)
                      .+...++.+.+..+|++....++...-....|..+|.
T Consensus       444 fL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~  480 (656)
T KOG1914|consen  444 FLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLE  480 (656)
T ss_pred             HHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHH
Confidence            8889999999999999998876443334466666654

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.67  E-value=5.4e-05  Score=60.19  Aligned_cols=192  Identities=14%  Similarity=0.073  Sum_probs=136.5

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      |+...+...+........-..+-.++.+..+.  .-...-|..-+ .+...|++++|+..++.+... .+-|+..+....
T Consensus       272 ~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG~A~-~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~  347 (484)
T COG4783         272 PDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYGRAL-QTYLAGQYDEALKLLQPLIAA-QPDNPYYLELAG  347 (484)
T ss_pred             ccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHHHHH-HHHHhcccchHHHHHHHHHHh-CCCCHHHHHHHH
Confidence            45555555555444333333333333332221  11222344333 445689999999999998876 334555666777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCC-HHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcH
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPN-ATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKV  166 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (272)
                      ..+.+.++..+|.+.++.+...  .|+ ......+..+|.+.|++.+|..+++...... +-|...|..|.++|...|+.
T Consensus       348 ~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~  424 (484)
T COG4783         348 DILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQAYAELGNR  424 (484)
T ss_pred             HHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCch
Confidence            8999999999999999999987  444 5566678899999999999999999987764 66889999999999999998


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHH
Q 048616          167 EIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRR  225 (272)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  225 (272)
                      .++..-..                  +.+...|+++.|...+....+. .+++..+|..
T Consensus       425 ~~a~~A~A------------------E~~~~~G~~~~A~~~l~~A~~~-~~~~~~~~aR  464 (484)
T COG4783         425 AEALLARA------------------EGYALAGRLEQAIIFLMRASQQ-VKLGFPDWAR  464 (484)
T ss_pred             HHHHHHHH------------------HHHHhCCCHHHHHHHHHHHHHh-ccCCcHHHHH
Confidence            87765543                  3456789999999999888776 4556665553

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.66  E-value=7.3e-05  Score=61.43  Aligned_cols=246  Identities=10%  Similarity=0.089  Sum_probs=174.1

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      ..|..++.+| ..+++...+++.+.+.+. .+-...+.....-.+...|+.++|......-.... .-+.+.|+.+.-.+
T Consensus         9 ~lF~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~   85 (700)
T KOG1156|consen    9 ALFRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQ   85 (700)
T ss_pred             HHHHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHH
Confidence            4455666655 567888888888888774 33345555555555667788888888887777654 34667788777777


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHH
Q 048616           91 CIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIAL  170 (272)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (272)
                      -...++++|++.|......+.. |...|.-+.-.-.+.++++........+.+.. +.....|..+..++--.|+...|.
T Consensus        86 R~dK~Y~eaiKcy~nAl~~~~d-N~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~  163 (700)
T KOG1156|consen   86 RSDKKYDEAIKCYRNALKIEKD-NLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMAL  163 (700)
T ss_pred             hhhhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHH
Confidence            7788899999999988877543 66777777667778888888888877776653 334567788888888888999999


Q ss_pred             HHHHHHHHcC-CCccHHHHHHHH------HHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHH-HHHHHHHhhhHHHHHHH
Q 048616          171 QLWNDMVEKG-FGSYILVSDVLF------DLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRR-IKALMELANKQEALQNL  242 (272)
Q Consensus       171 ~~~~~~~~~~-~~~~~~~~~~li------~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~-l~~~~~~~~~~~~a~~~  242 (272)
                      .++++..+.. -.|+...+....      ......|.+++|.+.+..-...  ..|...+.- -...+.+.++.++|..+
T Consensus       164 ~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~  241 (700)
T KOG1156|consen  164 EILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKV  241 (700)
T ss_pred             HHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHH
Confidence            9988887664 245544443322      2345678888888877766443  335555543 57778888999999999


Q ss_pred             HHHHHhcCCCCCCCHHHHHHhhccc
Q 048616          243 SNKMALFGPSMIPKREEYLAEMSAS  267 (272)
Q Consensus       243 ~~~~~~~~~~~~p~~~~~~~ll~ac  267 (272)
                      +..++...    ||...|...+..|
T Consensus       242 y~~Ll~rn----Pdn~~Yy~~l~~~  262 (700)
T KOG1156|consen  242 YRRLLERN----PDNLDYYEGLEKA  262 (700)
T ss_pred             HHHHHhhC----chhHHHHHHHHHH
Confidence            99988776    8887777665544

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.65  E-value=5.4e-08  Score=48.98  Aligned_cols=33  Identities=42%  Similarity=0.766  Sum_probs=23.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPD   44 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~   44 (272)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            567777777777777777777777777666665

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.65  E-value=0.00013  Score=60.18  Aligned_cols=43  Identities=23%  Similarity=0.285  Sum_probs=31.5

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGL   55 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   55 (272)
                      ..|.+|.+.|.+.|.+++|..+|++....-  .+..-|..+.++|
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Y  291 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAY  291 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHH
Confidence            479999999999999999999999877642  2333344444443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.64  E-value=1.1e-05  Score=65.03  Aligned_cols=228  Identities=12%  Similarity=0.080  Sum_probs=164.9

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC--------CH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYP--------DA   80 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--------~~   80 (272)
                      ++..|-.|-......++-..|+..+.+..+.++. |....-.|.-.|...|.-..|...++.-.....+-        +.
T Consensus       318 haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~  396 (579)
T KOG1125|consen  318 HAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQALKMLDKWIRNKPKYVHLVSAGENE  396 (579)
T ss_pred             HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCccchhccccCccc
Confidence            5667888888888899999999999999987654 77888888889999999999999998886543110        00


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVE-KGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKL  159 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (272)
                      ..-..  ..+.....+....++|-++.. .+..+|+.....|--.|.-.|++++|.+.|+.....+ +-|..+|+.|-..
T Consensus       397 ~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~-Pnd~~lWNRLGAt  473 (579)
T KOG1125|consen  397 DFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVK-PNDYLLWNRLGAT  473 (579)
T ss_pred             cccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcC-CchHHHHHHhhHH
Confidence            00000  111222234455566655554 4434677788888888999999999999999998874 5577899999999


Q ss_pred             HHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---------CCCCcHHhHHHHHHHH
Q 048616          160 CKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK---------GHKPSQVSFRRIKALM  230 (272)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---------~~~p~~~~~~~l~~~~  230 (272)
                      ++...+.++|+..|.+.++..+..-.+-|| |.-.|...|.+++|.+.|-..+..         +..++...|.+|-.++
T Consensus       474 LAN~~~s~EAIsAY~rALqLqP~yVR~RyN-lgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~al  552 (579)
T KOG1125|consen  474 LANGNRSEEAISAYNRALQLQPGYVRVRYN-LGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLAL  552 (579)
T ss_pred             hcCCcccHHHHHHHHHHHhcCCCeeeeehh-hhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHH
Confidence            999999999999999999875333333344 566789999999999999776532         1223445677776666


Q ss_pred             HHhhhHHHHHH
Q 048616          231 ELANKQEALQN  241 (272)
Q Consensus       231 ~~~~~~~~a~~  241 (272)
                      ...++.|-+.+
T Consensus       553 s~~~~~D~l~~  563 (579)
T KOG1125|consen  553 SAMNRSDLLQE  563 (579)
T ss_pred             HHcCCchHHHH
Confidence            66666664443

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.64  E-value=3.6e-06  Score=66.76  Aligned_cols=122  Identities=16%  Similarity=0.187  Sum_probs=58.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhc
Q 048616           49 TSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWS  128 (272)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  128 (272)
                      ..++..+...++++.|..+|+++.+..  |+  ....++..+...++-.+|.+++.+..+.... +......-...+.+.
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~-d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQ-DSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhc
Confidence            334444444455555555555555442  22  2223444444455555555555555543221 334444444445555


Q ss_pred             CChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHH
Q 048616          129 NDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDM  176 (272)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (272)
                      ++++.|+.+.+++.+.. +-+..+|..|..+|.+.|+++.|...++.+
T Consensus       248 ~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  248 KKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             CCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            55555555555554441 222335555555555555555555555443

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.63  E-value=9e-07  Score=70.46  Aligned_cols=124  Identities=15%  Similarity=0.190  Sum_probs=94.5

Q ss_pred             CCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhC--CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHH
Q 048616            5 GVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDE--DISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAA   82 (272)
Q Consensus         5 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   82 (272)
                      +.+.+......+++.+....+++.+..++.+....  ....-..|.+++++.|.+.|..+.++.+++.=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            34456667777788887778888888888877664  2222345567888888888888888888888888888888888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhc
Q 048616           83 YNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWS  128 (272)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  128 (272)
                      ++.||..+.+.|++..|.++...|...+...+..|+...+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888888888887766656667776666666554

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.62  E-value=7.7e-05  Score=54.79  Aligned_cols=228  Identities=14%  Similarity=0.073  Sum_probs=145.5

Q ss_pred             CCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHH
Q 048616            5 GVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYN   84 (272)
Q Consensus         5 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (272)
                      +-.|+-..|+  ++-+.-.|.+..++..-.......  -+...-.-+.++|...|.+.....   ++.... .|......
T Consensus         5 ~~g~~d~LF~--iRn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~~~---eI~~~~-~~~lqAvr   76 (299)
T KOG3081|consen    5 EAGPEDELFN--IRNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIVIS---EIKEGK-ATPLQAVR   76 (299)
T ss_pred             ccCcchhHHH--HHHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHccccccccc---cccccc-CChHHHHH
Confidence            3344444444  344445788888877766554432  244444557778888887654432   333222 34444444


Q ss_pred             HHHHHHHhcCCHHHHH-HHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 048616           85 AAIRNYCIAKRLRDAS-GLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ  163 (272)
Q Consensus        85 ~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (272)
                      .+......-++.+.-+ ++.+.+.......+......-...|+..+++++|++..+...      +......=+..+.+.
T Consensus        77 ~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~  150 (299)
T KOG3081|consen   77 LLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKM  150 (299)
T ss_pred             HHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHH
Confidence            4444444444444443 444555555444344444455567889999999998887621      233333344556678


Q ss_pred             CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHH
Q 048616          164 EKVEIALQLWNDMVEKGFGSYILVSDVLFDLLC----DMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEAL  239 (272)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~----~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  239 (272)
                      .+++-|.+.++.|.+..   +..+.+-|..++.    ..+.+.+|.-+|++|-++ ..|+..+.+-.+.++...+++++|
T Consensus       151 ~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeA  226 (299)
T KOG3081|consen  151 HRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEA  226 (299)
T ss_pred             HHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHH
Confidence            88999999999998653   3455554555444    456788999999999765 678888888888899999999999


Q ss_pred             HHHHHHHHhcC
Q 048616          240 QNLSNKMALFG  250 (272)
Q Consensus       240 ~~~~~~~~~~~  250 (272)
                      ..+++....+.
T Consensus       227 e~lL~eaL~kd  237 (299)
T KOG3081|consen  227 ESLLEEALDKD  237 (299)
T ss_pred             HHHHHHHHhcc
Confidence            99999988766

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.61  E-value=7.6e-08  Score=48.08  Aligned_cols=33  Identities=21%  Similarity=0.551  Sum_probs=22.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISP   43 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~   43 (272)
                      .+|+.+|.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            466667777777777777777777776666655

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.60  E-value=1.2e-05  Score=63.91  Aligned_cols=124  Identities=16%  Similarity=0.211  Sum_probs=84.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 048616           82 AYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCK  161 (272)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (272)
                      ....|+..+...++++.|..+|+++.+..  |+  ....++..+...++-.+|.+++++..... +-+......-...+.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            33455566666777888888888887763  33  33446677777777777888777776542 335555555666677


Q ss_pred             hcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048616          162 RQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEM  211 (272)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  211 (272)
                      +.++.+.|..+.++..... +.+..+|..|..+|.+.|+++.|+..++.+
T Consensus       246 ~k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            7788888888888777663 444557777888888888888887777654

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.59  E-value=2.5e-05  Score=67.89  Aligned_cols=187  Identities=10%  Similarity=0.073  Sum_probs=131.6

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC------------
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGL------------  111 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------------  111 (272)
                      +...+..|+..+...+++++|.++.+...+.. +-....|..+...+.+.++.+.+..+  .+...-.            
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~ve~~~  106 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIVEHIC  106 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhHHHHHH
Confidence            56778999999999999999999999777652 22334444444466666666666555  3332210            


Q ss_pred             ------CCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH
Q 048616          112 ------SPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYI  185 (272)
Q Consensus       112 ------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  185 (272)
                            .-+..++..+..+|-+.|+.+++...|+++.+.+ +-+..+.+.+...|+.. ++++|.+++......      
T Consensus       107 ~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~------  178 (906)
T PRK14720        107 DKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR------  178 (906)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH------
Confidence                  1123566678888889999999999999999887 55788899999999988 999999999887654      


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHc-------------------CCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHH
Q 048616          186 LVSDVLFDLLCDMGKLVEAEKSFLEMIEK-------------------GHKPSQVSFRRIKALMELANKQEALQNLSNKM  246 (272)
Q Consensus       186 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~-------------------~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (272)
                               +...+++..+.++|.++...                   |..--..++.-+-..|...++++.+..+++.+
T Consensus       179 ---------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~i  249 (906)
T PRK14720        179 ---------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKI  249 (906)
T ss_pred             ---------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHH
Confidence                     33334444555555544443                   22222334444567788888999999999999


Q ss_pred             HhcC
Q 048616          247 ALFG  250 (272)
Q Consensus       247 ~~~~  250 (272)
                      .+..
T Consensus       250 L~~~  253 (906)
T PRK14720        250 LEHD  253 (906)
T ss_pred             HhcC
Confidence            8765

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.58  E-value=2.4e-06  Score=68.14  Aligned_cols=125  Identities=14%  Similarity=0.208  Sum_probs=106.0

Q ss_pred             CCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 048616           39 EDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY--GCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNAT  116 (272)
Q Consensus        39 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  116 (272)
                      .+.+.+......+++.+....+++.+..++.+....  ....-+.|.+++++.|...|..+.++.+++.=...|+-||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            344567778888899998889999999999998865  232334566799999999999999999999999999999999


Q ss_pred             hHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 048616          117 TYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ  163 (272)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (272)
                      +++.|+..+.+.|++..|.++...|..++...+..|+...+.+|.+-
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999999999999999999999998877777777777777766554

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.58  E-value=1.3e-07  Score=47.50  Aligned_cols=33  Identities=39%  Similarity=0.687  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc
Q 048616          187 VSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS  219 (272)
Q Consensus       187 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~  219 (272)
                      +|+.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            567777777777777777777777777777776

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.57  E-value=9.1e-06  Score=60.58  Aligned_cols=201  Identities=11%  Similarity=0.049  Sum_probs=143.9

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHH-HHHH
Q 048616           46 ISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL-FFRV  124 (272)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~  124 (272)
                      .-+...+..+.+..+++.|++++..-.++. +.+....+.|..+|....++..|-..++++...  .|...-|.. -...
T Consensus        11 Geftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQS   87 (459)
T KOG4340|consen   11 GEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQS   87 (459)
T ss_pred             CchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHH
Confidence            346677777788899999999999888774 237778889999999999999999999999876  344444432 3456


Q ss_pred             HhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHH--HhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHH
Q 048616          125 FYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLC--KRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLV  202 (272)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  202 (272)
                      +.+.+.+..|+.+...|...   |....-..-+.+.  -..+++..+..+.++....|   +..+.+.......+.|+++
T Consensus        88 LY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyE  161 (459)
T KOG4340|consen   88 LYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYE  161 (459)
T ss_pred             HHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHH
Confidence            77889999999999888643   2322222222222  35678888888887765433   2333344444566899999


Q ss_pred             HHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCC
Q 048616          203 EAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPK  256 (272)
Q Consensus       203 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~  256 (272)
                      .|.+-|+...+.+---....|+.-+ +.-+.++.+.|.++..+++++|.+-.|.
T Consensus       162 aAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPE  214 (459)
T KOG4340|consen  162 AAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPE  214 (459)
T ss_pred             HHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCc
Confidence            9999999988764444556777544 4445688899999999999988765553

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.56  E-value=0.00026  Score=57.77  Aligned_cols=115  Identities=13%  Similarity=0.159  Sum_probs=76.6

Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHH--------HHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCcH
Q 048616          151 QSCMFLVKLCKRQEKVEIALQLWN--------DMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK--GHKPSQ  220 (272)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~p~~  220 (272)
                      .+....+......|+++.|.+++.        .+.+.+..|..+  ..++..+.+.++-+.|..++++.+..  .-.+..
T Consensus       377 ~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V--~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s  454 (652)
T KOG2376|consen  377 VVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTV--GAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGS  454 (652)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHH--HHHHHHHHhccCCccHHHHHHHHHHHHHHhcccc
Confidence            445555666778899999999988        555555555543  55666677777777777777766532  001111


Q ss_pred             H----hHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHhhcccccC
Q 048616          221 V----SFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEMSASDSF  270 (272)
Q Consensus       221 ~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~ll~ac~~~  270 (272)
                      .    ++.-.+..-.+.|+.+++..+++++.+..+   +|..+...++.|++.+
T Consensus       455 ~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~---~d~~~l~~lV~a~~~~  505 (652)
T KOG2376|consen  455 IALLSLMREAAEFKLRHGNEEEASSLLEELVKFNP---NDTDLLVQLVTAYARL  505 (652)
T ss_pred             hHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCC---chHHHHHHHHHHHHhc
Confidence            2    223345555677999999999999998663   7777788888776554

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.54  E-value=0.0002  Score=55.98  Aligned_cols=238  Identities=14%  Similarity=0.090  Sum_probs=157.7

Q ss_pred             CCcCHHhHHHHHHHHHh--cCCHHHHHHHHHHHhh-CCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH-H
Q 048616            6 VKPDIVSYNCLIDVYCK--DRQVEKAYKIVEKMRD-EDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA-A   81 (272)
Q Consensus         6 ~~p~~~~~~~li~~~~~--~g~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~   81 (272)
                      +.|........+.+++.  .++...|...+-.+.. .-++-|......+.+.+...|+.++|+..|++....+  |+. .
T Consensus       190 ~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d--py~i~  267 (564)
T KOG1174|consen  190 VPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN--PDNVE  267 (564)
T ss_pred             cCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC--hhhhh
Confidence            34444444444554443  3444455555544433 2356678888999999999999999999999988653  332 2


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 048616           82 AYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCK  161 (272)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (272)
                      ......-.+.+.|+.+....+...+....- -+...|-.-.......++++.|+.+-++.++.+ +-+...+..--..+.
T Consensus       268 ~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~-~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~  345 (564)
T KOG1174|consen  268 AMDLYAVLLGQEGGCEQDSALMDYLFAKVK-YTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLI  345 (564)
T ss_pred             hHHHHHHHHHhccCHhhHHHHHHHHHhhhh-cchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHH
Confidence            333334445678888888888888875521 134445445556667889999999999887764 234445554556778


Q ss_pred             hcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----------------------------
Q 048616          162 RQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE----------------------------  213 (272)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----------------------------  213 (272)
                      ..++.++|.-.|+...... +.+..+|.-|+.+|...|++.+|.-.-+...+                            
T Consensus       346 ~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAK  424 (564)
T KOG1174|consen  346 ALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAK  424 (564)
T ss_pred             hccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHH
Confidence            8999999999999887653 46778999999999999999887765443322                            


Q ss_pred             ----cC--CCCcHH-hHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 048616          214 ----KG--HKPSQV-SFRRIKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       214 ----~~--~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                          ++  +.|+-. ..+.+...+...|..+.+..++++...
T Consensus       425 kf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~  466 (564)
T KOG1174|consen  425 KFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI  466 (564)
T ss_pred             HHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHh
Confidence                11  223322 233466677777777777777777554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.53  E-value=0.00013  Score=53.27  Aligned_cols=188  Identities=9%  Similarity=0.071  Sum_probs=139.0

Q ss_pred             cCCHHHHHHHHHHHhh---CC-CCCCHh-hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 048616           23 DRQVEKAYKIVEKMRD---ED-ISPDVI-SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLR   97 (272)
Q Consensus        23 ~g~~~~a~~~~~~~~~---~~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (272)
                      ..+.++..+++.++..   .| ..++.. .|..++-+....|+.+.|...++++... ++-+..+-..-.-.+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchh
Confidence            3578888888888864   33 445554 4566677777889999999999999876 3334444333333355679999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 048616           98 DASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMV  177 (272)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (272)
                      +|.++++.+++.++. |..++---+...-..|...+|++-+....+. +..|...|.-+...|...|++++|.-.++++.
T Consensus       104 ~A~e~y~~lL~ddpt-~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  104 EAIEYYESLLEDDPT-DTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hHHHHHHHHhccCcc-hhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            999999999988643 6667766666666677777888887777665 57799999999999999999999999999998


Q ss_pred             HcCCCccHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHc
Q 048616          178 EKGFGSYILVSDVLFDLLCDM---GKLVEAEKSFLEMIEK  214 (272)
Q Consensus       178 ~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~~~~~  214 (272)
                      -.. +.+...+..+.+.+-..   .+.+.+.++|.+.++.
T Consensus       182 l~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  182 LIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            765 45555556666654444   3566788888888775

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.53  E-value=2e-05  Score=54.14  Aligned_cols=115  Identities=15%  Similarity=0.147  Sum_probs=55.0

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCC---HHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCH--hhHHHHHHHHHhcCcHH
Q 048616           93 AKRLRDASGLMDEMVEKGLSPN---ATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNT--QSCMFLVKLCKRQEKVE  167 (272)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~  167 (272)
                      .++...+...++.+...... +   ....-.+...+...|++++|...|+........|+.  .....+...+...|+++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~-s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPS-SPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            45555555555555554221 1   112222334555556666666666655554312211  12333444555566666


Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048616          168 IALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLE  210 (272)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  210 (272)
                      +|...++.....  ......+....+.+.+.|+.++|...|+.
T Consensus       103 ~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  103 EALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            666665443222  22233444555556666666666665554

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.53  E-value=1.6e-05  Score=54.60  Aligned_cols=85  Identities=7%  Similarity=0.066  Sum_probs=36.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCC--HHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCc
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPN--ATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEK  165 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (272)
                      ..+...|++++|...|+........|+  ......+...+...|++++|+..++.....  ......+.....++.+.|+
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~  133 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGD  133 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCC
Confidence            444445555555555555554432111  112223344444555555555555442221  1222233344445555555


Q ss_pred             HHHHHHHHH
Q 048616          166 VEIALQLWN  174 (272)
Q Consensus       166 ~~~a~~~~~  174 (272)
                      .++|...|+
T Consensus       134 ~~~A~~~y~  142 (145)
T PF09976_consen  134 YDEARAAYQ  142 (145)
T ss_pred             HHHHHHHHH
Confidence            555555544

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.53  E-value=2.3e-07  Score=46.29  Aligned_cols=33  Identities=30%  Similarity=0.325  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 048616          186 LVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKP  218 (272)
Q Consensus       186 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p  218 (272)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            356666666666666666666666666666655

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.53  E-value=0.00015  Score=65.24  Aligned_cols=239  Identities=12%  Similarity=0.029  Sum_probs=151.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCC-CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc----CCC--C-C
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDE----DIS-PDVISYTSIIGGLGLVGQPDKARDVLKEMKEY----GCY--P-D   79 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~   79 (272)
                      .++.+...+...|++++|...+.+....    |.. +...++..+...+...|+++.|...+++....    +..  + .
T Consensus       493 a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~  572 (903)
T PRK04841        493 ATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMH  572 (903)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHH
Confidence            4455666677889999999998887642    111 11234455666778899999999998876642    211  1 2


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCC--CHHhHHHHHHHHhhcCChhhHHHHHHHHHhC----CCCCCH-
Q 048616           80 AAAYNAAIRNYCIAKRLRDASGLMDEMVEKG--LSP--NATTYNLFFRVFYWSNDLRSSWNLYCRMMGT----GCLPNT-  150 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-  150 (272)
                      ...+..+...+...|++++|...+++.....  ..+  ....+..+...+...|+++.|...+++....    +..... 
T Consensus       573 ~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~  652 (903)
T PRK04841        573 EFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWI  652 (903)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHh
Confidence            2334455566777899999999988876431  112  2334444566778899999999988877432    111111 


Q ss_pred             hhH-HHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCcH-H
Q 048616          151 QSC-MFLVKLCKRQEKVEIALQLWNDMVEKGFGSY---ILVSDVLFDLLCDMGKLVEAEKSFLEMIEK----GHKPSQ-V  221 (272)
Q Consensus       151 ~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~~-~  221 (272)
                      ... ...+..+...|+.+.|...+...........   ...+..+..++...|+.++|...+++....    |..++. .
T Consensus       653 ~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~  732 (903)
T PRK04841        653 ANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNR  732 (903)
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHH
Confidence            000 1122344567889998888776543221111   111345667788999999999999887653    322222 2


Q ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          222 SFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      +...+..++...|+.++|...+.+..+..
T Consensus       733 ~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        733 NLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            34456778889999999999999887654

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.50  E-value=0.00053  Score=58.63  Aligned_cols=224  Identities=17%  Similarity=0.155  Sum_probs=146.0

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHH--HHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 048616           20 YCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGG--LGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLR   97 (272)
Q Consensus        20 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (272)
                      ....+++..|......+.+..  |+. .|..++.+  ..+.|+.++|..+++.....+.. |..|...+-.+|.+.++.+
T Consensus        19 ~ld~~qfkkal~~~~kllkk~--Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKH--PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHC--CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhh
Confidence            346788999999999888763  343 24445554  45789999999888888766544 8889999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc----C------cHH
Q 048616           98 DASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ----E------KVE  167 (272)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~------~~~  167 (272)
                      +|..+|++....  .|+......+..+|++.+++.+-.+.--++-+. .+-....+=.+++.....    +      -..
T Consensus        95 ~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~  171 (932)
T KOG2053|consen   95 EAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLA  171 (932)
T ss_pred             HHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHH
Confidence            999999999877  466777777888888888876543333233221 222233332333333211    1      123


Q ss_pred             HHHHHHHHHHHcC-CCccHHHHHHHHHHHHhcCCHHHHHHHHH-HHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHH
Q 048616          168 IALQLWNDMVEKG-FGSYILVSDVLFDLLCDMGKLVEAEKSFL-EMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNK  245 (272)
Q Consensus       168 ~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~-~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (272)
                      -|....+.+.+.+ .--+..-.......+...|++++|.+++. ...+.-..-+...-+.-...+...+++.+..++..+
T Consensus       172 LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~  251 (932)
T KOG2053|consen  172 LAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSR  251 (932)
T ss_pred             HHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHH
Confidence            4555666665553 22222222233444567888999999984 444442333333444567778888889999999999


Q ss_pred             HHhcC
Q 048616          246 MALFG  250 (272)
Q Consensus       246 ~~~~~  250 (272)
                      +...+
T Consensus       252 Ll~k~  256 (932)
T KOG2053|consen  252 LLEKG  256 (932)
T ss_pred             HHHhC
Confidence            88888

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.46  E-value=0.0006  Score=57.37  Aligned_cols=230  Identities=12%  Similarity=0.074  Sum_probs=151.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcC
Q 048616           16 LIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY-GCYPDAAAYNAAIRNYCIAK   94 (272)
Q Consensus        16 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~   94 (272)
                      +---|+..++.+.|.+...+..+.+..-+...|..+.-.+...+++.+|+.+.+..... |.  |-.....-++.-...+
T Consensus       484 lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~--N~~l~~~~~~i~~~~~  561 (799)
T KOG4162|consen  484 LALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD--NHVLMDGKIHIELTFN  561 (799)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh--hhhhchhhhhhhhhcc
Confidence            33446678889999999999888766668888988888888889999999888776543 21  0000000011111122


Q ss_pred             CHHHHHHHHHHHH---------------------------------------------------HcC---------C--C
Q 048616           95 RLRDASGLMDEMV---------------------------------------------------EKG---------L--S  112 (272)
Q Consensus        95 ~~~~a~~~~~~~~---------------------------------------------------~~~---------~--~  112 (272)
                      +.++++.....+.                                                   ..|         .  .
T Consensus       562 ~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~  641 (799)
T KOG4162|consen  562 DREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPG  641 (799)
T ss_pred             cHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcccccCC
Confidence            2222222111110                                                   000         0  0


Q ss_pred             CC------HHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHH
Q 048616          113 PN------ATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYIL  186 (272)
Q Consensus       113 ~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  186 (272)
                      |+      ...|......+.+.++.++|...+.+..... +.....|......+...|.+++|.+.|......+ +.++.
T Consensus       642 ~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ld-P~hv~  719 (799)
T KOG4162|consen  642 PDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALALD-PDHVP  719 (799)
T ss_pred             CCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcC-CCCcH
Confidence            11      1123344455666777777777777665542 3445556666667778899999999998887765 44556


Q ss_pred             HHHHHHHHHHhcCCHHHHHH--HHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          187 VSDVLFDLLCDMGKLVEAEK--SFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       187 ~~~~li~~~~~~g~~~~a~~--~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ...++...+.+.|+..-|..  ++.++.+.+. -+...|..+...+.+.|+.++|.+.|+...+..
T Consensus       720 s~~Ala~~lle~G~~~la~~~~~L~dalr~dp-~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  720 SMTALAELLLELGSPRLAEKRSLLSDALRLDP-LNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             HHHHHHHHHHHhCCcchHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence            67889999999998887777  8999988753 377788889999999999999999999876543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.42  E-value=0.00064  Score=61.33  Aligned_cols=233  Identities=11%  Similarity=-0.001  Sum_probs=149.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCH----hhHHHHHHHHHhcCChhHHHHHHHHHHHcCC---CC--CHHHHHHHH
Q 048616           17 IDVYCKDRQVEKAYKIVEKMRDEDISPDV----ISYTSIIGGLGLVGQPDKARDVLKEMKEYGC---YP--DAAAYNAAI   87 (272)
Q Consensus        17 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~   87 (272)
                      -..+...|++++|...+++....-...+.    ...+.+...+...|++++|...+++.....-   .+  ...++..+.
T Consensus       459 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la  538 (903)
T PRK04841        459 AQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQS  538 (903)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHH
Confidence            34556789999999999988763111121    2345566667789999999999988874311   11  123455666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc----CCC--C-CHHhHHHHHHHHhhcCChhhHHHHHHHHHhC--CCCC--CHhhHHHH
Q 048616           88 RNYCIAKRLRDASGLMDEMVEK----GLS--P-NATTYNLFFRVFYWSNDLRSSWNLYCRMMGT--GCLP--NTQSCMFL  156 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~--~~~~~~~l  156 (272)
                      ..+...|++++|...+++..+.    +..  + ....+..+...+...|++++|...+++....  ...+  ....+..+
T Consensus       539 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  618 (903)
T PRK04841        539 EILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAML  618 (903)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHH
Confidence            7788899999999999887643    221  1 1233445556677789999999998877442  1112  23344445


Q ss_pred             HHHHHhcCcHHHHHHHHHHHHHcC--CCccHH--H--HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH---HhHHHHH
Q 048616          157 VKLCKRQEKVEIALQLWNDMVEKG--FGSYIL--V--SDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQ---VSFRRIK  227 (272)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~--~--~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~---~~~~~l~  227 (272)
                      .......|+.+.|...+.......  ......  .  ....+..+...|+.+.|.+++............   ..+..+.
T Consensus       619 a~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a  698 (903)
T PRK04841        619 AKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIA  698 (903)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHH
Confidence            667788999999999988875431  111110  0  011224455689999999998775432111111   1123467


Q ss_pred             HHHHHhhhHHHHHHHHHHHHhc
Q 048616          228 ALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      .++...|+.++|...+++....
T Consensus       699 ~~~~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        699 RAQILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            7788889999999999887654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.40  E-value=3.4e-05  Score=50.84  Aligned_cols=99  Identities=7%  Similarity=-0.105  Sum_probs=61.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC--CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCC--CCHHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDIS--PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCY--PDAAAYNAAI   87 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~   87 (272)
                      ++-.+...+.+.|++++|.+.|+.+.+....  .....+..+..++.+.|+++.|...|+++......  .....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            4455666666777777777777777654221  11334555666777777777777777777654211  1234556666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcC
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKG  110 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~  110 (272)
                      .++.+.|+.++|.+.++++.+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHC
Confidence            66677777777777777776663

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.38  E-value=5.7e-07  Score=43.75  Aligned_cols=29  Identities=41%  Similarity=0.775  Sum_probs=20.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDED   40 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~   40 (272)
                      +|+++|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56777777777777777777777776655

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.38  E-value=1.2e-05  Score=50.92  Aligned_cols=76  Identities=17%  Similarity=0.310  Sum_probs=39.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 048616           52 IGGLGLVGQPDKARDVLKEMKEYGC-YPDAAAYNAAIRNYCIAK--------RLRDASGLMDEMVEKGLSPNATTYNLFF  122 (272)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (272)
                      |..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        .+-..+.+|+.|+..+++|+..+|+.++
T Consensus        32 I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl  111 (120)
T PF08579_consen   32 INSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVL  111 (120)
T ss_pred             HHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHH
Confidence            3333344555555555555555555 455555555554444321        2334555666666666666666666666


Q ss_pred             HHHhh
Q 048616          123 RVFYW  127 (272)
Q Consensus       123 ~~~~~  127 (272)
                      ..+.+
T Consensus       112 ~~Llk  116 (120)
T PF08579_consen  112 GSLLK  116 (120)
T ss_pred             HHHHH
Confidence            55543

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.37  E-value=1.3e-05  Score=50.71  Aligned_cols=70  Identities=11%  Similarity=0.239  Sum_probs=35.2

Q ss_pred             hcCcHHHHHHHHHHHHHcCC-CccHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHH
Q 048616          162 RQEKVEIALQLWNDMVEKGF-GSYILVSDVLFDLLCDMG--------KLVEAEKSFLEMIEKGHKPSQVSFRRIKALME  231 (272)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g--------~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  231 (272)
                      ..+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ++-..+.+++.|+..+++|+..+|+.++..+.
T Consensus        37 ~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~Ll  115 (120)
T PF08579_consen   37 ENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGSLL  115 (120)
T ss_pred             hhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHH
Confidence            33444444444444444444 444444544444444322        22344555666666666666666666555443

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.33  E-value=2.6e-05  Score=48.76  Aligned_cols=94  Identities=18%  Similarity=0.177  Sum_probs=51.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 048616           13 YNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI   92 (272)
Q Consensus        13 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (272)
                      |..+...+...|++++|...+++..+.... +...+..+...+...+++++|.+.+++..+.. +.+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            344455555566666666666665554221 33445555555556666666666666655543 2233455555555556


Q ss_pred             cCCHHHHHHHHHHHHH
Q 048616           93 AKRLRDASGLMDEMVE  108 (272)
Q Consensus        93 ~~~~~~a~~~~~~~~~  108 (272)
                      .|+.+.|...+....+
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            6666666666555543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.33  E-value=0.0012  Score=56.63  Aligned_cols=207  Identities=13%  Similarity=0.127  Sum_probs=140.4

Q ss_pred             CCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHH
Q 048616            4 MGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAY   83 (272)
Q Consensus         4 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (272)
                      ++-.|-+.++.++.  ..+.|+.++|..+++.....+.. |..|...+-.+|.+.++.++|..+|++..+.  -|+....
T Consensus        39 ~Pn~~~a~vLkaLs--l~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell  113 (932)
T KOG2053|consen   39 HPNALYAKVLKALS--LFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELL  113 (932)
T ss_pred             CCCcHHHHHHHHHH--HHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHH
Confidence            33333344444433  45789999999999888776555 8889999999999999999999999999976  4677777


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcC-Ch---------hhHHHHHHHHHhCC-CCCCHhh
Q 048616           84 NAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSN-DL---------RSSWNLYCRMMGTG-CLPNTQS  152 (272)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~---------~~a~~~~~~~~~~~-~~~~~~~  152 (272)
                      ..+..+|.|.+++.+-.+.--++-+. .+-+...|-.+++.+.+.. ..         .-|.+.++.+.+.+ ..-+..-
T Consensus       114 ~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE  192 (932)
T KOG2053|consen  114 YHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAE  192 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHH
Confidence            88888999988887766655555543 2224444444555444321 11         22555566665543 2222333


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHH-HHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 048616          153 CMFLVKLCKRQEKVEIALQLWN-DMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGH  216 (272)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  216 (272)
                      ...-...+...|++++|..++. ...+.-...+...-+.-++.+...+++.+..++-.++..+|.
T Consensus       193 ~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~  257 (932)
T KOG2053|consen  193 IILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGN  257 (932)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCC
Confidence            3334455678899999999994 444443344445556777888899999999999999888754

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.32  E-value=0.00071  Score=51.86  Aligned_cols=226  Identities=12%  Similarity=0.059  Sum_probs=164.0

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCC------------Hh--hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHH
Q 048616           19 VYCKDRQVEKAYKIVEKMRDEDISPD------------VI--SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYN   84 (272)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~------------~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (272)
                      .+.+.|.+++|..=|+..++....-+            ..  .....+..+...|+...|+....++.+-. +-|...+.
T Consensus       115 vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~  193 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQ  193 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHH
Confidence            46789999999999999988643211            11  12234455667899999999999999863 34777788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHH-------HH
Q 048616           85 AAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMF-------LV  157 (272)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------l~  157 (272)
                      .-..+|...|++..|+.=++...+..-. +..++..+-..+...|+.+.++...++..+.  .||...+..       +.
T Consensus       194 ~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~  270 (504)
T KOG0624|consen  194 ARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVV  270 (504)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHH
Confidence            8889999999999999888777766433 5666667778888899999999998888765  455432211       11


Q ss_pred             ------HHHHhcCcHHHHHHHHHHHHHcCCCccH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-HHhHHHHH
Q 048616          158 ------KLCKRQEKVEIALQLWNDMVEKGFGSYI---LVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS-QVSFRRIK  227 (272)
Q Consensus       158 ------~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~  227 (272)
                            ......++|.++.+-.+...+.......   ..+..+-.++...|++.+|++...+.++.  .|| ..++.--.
T Consensus       271 K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv~~l~dRA  348 (504)
T KOG0624|consen  271 KSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDVQVLCDRA  348 (504)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHHHHHHHHH
Confidence                  1234566777787777777766533222   23344556777889999999999998875  555 66676678


Q ss_pred             HHHHHhhhHHHHHHHHHHHHhcC
Q 048616          228 ALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      .+|.....++.|+.-|++..+.+
T Consensus       349 eA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  349 EAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHhhhHHHHHHHHHHHHHHhcC
Confidence            88998899999999999887655

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.31  E-value=9e-05  Score=56.85  Aligned_cols=82  Identities=12%  Similarity=0.135  Sum_probs=34.5

Q ss_pred             cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH---HhHHHHHHHHHHhhhHHHHHH
Q 048616          165 KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQ---VSFRRIKALMELANKQEALQN  241 (272)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~~~~~~a~~  241 (272)
                      +.+.|..+|+...+. +..+...|...++.+...++.+.|..+|++.... +.++.   ..|...+..=.+.|+.+.+..
T Consensus        51 d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~  128 (280)
T PF05843_consen   51 DPKRARKIFERGLKK-FPSDPDFWLEYLDFLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRK  128 (280)
T ss_dssp             -HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHH
T ss_pred             CHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            333344444444433 2333444444444444445555555555444433 11111   244444444444455555555


Q ss_pred             HHHHHHh
Q 048616          242 LSNKMAL  248 (272)
Q Consensus       242 ~~~~~~~  248 (272)
                      +.+++.+
T Consensus       129 v~~R~~~  135 (280)
T PF05843_consen  129 VEKRAEE  135 (280)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5554444

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.30  E-value=4.9e-05  Score=58.29  Aligned_cols=142  Identities=14%  Similarity=0.171  Sum_probs=98.5

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh-cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGL-VGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      .+|-.+|+..-+.+..+.|..+|.+.++.+ ..+..+|......-.. .++.+.|..+|+...+. +..+...|...+..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            578888888888888999999999888643 2345555555555333 56677799999888876 55677888888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCH----HhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNA----TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVK  158 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (272)
                      +...++.+.|..+|++.... + |..    ..|...+..-.+.|+.+.+.++.+++.+.  .|+...+..++.
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l-~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~  148 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-L-PKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSD  148 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-S-SCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHC
T ss_pred             HHHhCcHHHHHHHHHHHHHh-c-CchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHH
Confidence            88889999999999888765 2 233    47888888888888888888888887664  334333333433

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.30  E-value=0.00017  Score=61.28  Aligned_cols=211  Identities=11%  Similarity=0.112  Sum_probs=106.4

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhC---------CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDE---------DISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD   79 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   79 (272)
                      +..+|..+..+|.+..+.+-|.-.+-.|...         .-.|+ .+=..+.-.....|.+++|+.+|++-+..     
T Consensus       756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~-----  829 (1416)
T KOG3617|consen  756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKRY-----  829 (1416)
T ss_pred             hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH-----
Confidence            3445555666665555555554444333211         00111 11111222233455566666666555442     


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHH----------HhCC----
Q 048616           80 AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRM----------MGTG----  145 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----------~~~~----  145 (272)
                          ..|=..|-..|.|++|.++-+.--...+   ..||.....-+-..++.+.|++.|++.          ....    
T Consensus       830 ----DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~  902 (1416)
T KOG3617|consen  830 ----DLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQI  902 (1416)
T ss_pred             ----HHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHH
Confidence                2233445556666666665543222211   234444555555566666666666542          1110    


Q ss_pred             -----CCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH
Q 048616          146 -----CLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQ  220 (272)
Q Consensus       146 -----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~  220 (272)
                           ...|...|.-....+...|+.+.|+.+|...++.         -.+++..|-.|+.++|-++-++-      -|.
T Consensus       903 e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~---------fs~VrI~C~qGk~~kAa~iA~es------gd~  967 (1416)
T KOG3617|consen  903 EQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDY---------FSMVRIKCIQGKTDKAARIAEES------GDK  967 (1416)
T ss_pred             HHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhh---------hhheeeEeeccCchHHHHHHHhc------ccH
Confidence                 0122233333344444566666666666554432         34455555666666666655442      244


Q ss_pred             HhHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          221 VSFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       221 ~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      .....|.+.|...|++.+|..+|-+..
T Consensus       968 AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  968 AACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            455568888888888888888887754

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.28  E-value=9e-05  Score=48.80  Aligned_cols=97  Identities=10%  Similarity=-0.082  Sum_probs=48.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--CHHhHHHHHH
Q 048616           48 YTSIIGGLGLVGQPDKARDVLKEMKEYGCY--PDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSP--NATTYNLFFR  123 (272)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~  123 (272)
                      +..+...+.+.|++++|.+.|+++.+....  .....+..+..++.+.|++++|.+.|+.+.......  ....+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            344455555556666666666665543210  112344445555556666666666666555432111  1233444455


Q ss_pred             HHhhcCChhhHHHHHHHHHhC
Q 048616          124 VFYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~  144 (272)
                      ++.+.+++++|...++++.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            555555555555555555544

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.26  E-value=8.5e-05  Score=56.93  Aligned_cols=192  Identities=12%  Similarity=-0.000  Sum_probs=118.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-------CHHHHHHHHHHHHHcCCCCCH-HhHHHHH
Q 048616           51 IIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAK-------RLRDASGLMDEMVEKGLSPNA-TTYNLFF  122 (272)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~-~~~~~l~  122 (272)
                      |+--|.+.+++.+|..+.+++.-    .++.-|-.-.-.+.+.|       .+.-|.+.|+-.-..+..-|. .--..+.
T Consensus       291 L~iYyL~q~dVqeA~~L~Kdl~P----ttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmA  366 (557)
T KOG3785|consen  291 LIIYYLNQNDVQEAISLCKDLDP----TTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMA  366 (557)
T ss_pred             heeeecccccHHHHHHHHhhcCC----CChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHH
Confidence            44456788888888888776632    12222221122222222       345566666554444433222 2244566


Q ss_pred             HHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHH
Q 048616          123 RVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLV  202 (272)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  202 (272)
                      ..+.-..++++++..+..+...=...|...+ .+..+.+..|++.+|+++|-.+....++.+..-...+.++|.+.++++
T Consensus       367 s~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~  445 (557)
T KOG3785|consen  367 SYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQ  445 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCch
Confidence            6667777888888888887765333344444 477888889999999999977765554444333355677889999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHhHH-HHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          203 EAEKSFLEMIEKGHKPSQVSFR-RIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       203 ~a~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      .|++++-.+.   -+.+..+.- .+..-|-+.+.+--+.+.|+.+....
T Consensus       446 lAW~~~lk~~---t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD  491 (557)
T KOG3785|consen  446 LAWDMMLKTN---TPSERFSLLQLIANDCYKANEFYYAAKAFDELEILD  491 (557)
T ss_pred             HHHHHHHhcC---CchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC
Confidence            8888776553   222233333 35667888888777777888776544

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.25  E-value=8.3e-05  Score=46.36  Aligned_cols=93  Identities=15%  Similarity=0.083  Sum_probs=55.0

Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHh
Q 048616          154 MFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELA  233 (272)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  233 (272)
                      ..+...+...|++++|...+....+.. +.+...+..+...+...|++++|.+.++...+... .+...+..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDP-DNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC-cchhHHHHHHHHHHHH
Confidence            344455556666666666666665543 22334455566666666777777777766665422 2334555566666667


Q ss_pred             hhHHHHHHHHHHHHh
Q 048616          234 NKQEALQNLSNKMAL  248 (272)
Q Consensus       234 ~~~~~a~~~~~~~~~  248 (272)
                      |+.+.+...+.+..+
T Consensus        82 ~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 GKYEEALEAYEKALE   96 (100)
T ss_pred             HhHHHHHHHHHHHHc
Confidence            777777776666554

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.24  E-value=1.7e-06  Score=42.02  Aligned_cols=29  Identities=38%  Similarity=0.572  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048616          187 VSDVLFDLLCDMGKLVEAEKSFLEMIEKG  215 (272)
Q Consensus       187 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~  215 (272)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45556666666666666666666665544

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.24  E-value=0.00089  Score=58.36  Aligned_cols=158  Identities=8%  Similarity=0.023  Sum_probs=92.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHH
Q 048616           79 DAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVK  158 (272)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (272)
                      .+.+|..+..+-.+.|...+|.+-|-+.      -|+..|...+....+.|.|++..+.+....+....|...  +.++-
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~ 1174 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIF 1174 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHH
Confidence            3456666666666666666666554322      155566667777777777777666666555544444332  34666


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHH
Q 048616          159 LCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEA  238 (272)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  238 (272)
                      +|++.+++.+.++++.       .|+..-...+.+-|...|.++.|.-++..         ...|..+...+...|++..
T Consensus      1175 AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~ 1238 (1666)
T KOG0985|consen 1175 AYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQG 1238 (1666)
T ss_pred             HHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHH
Confidence            6667666666555442       34444455556666666666666555433         3456667777777777777


Q ss_pred             HHHHHHHHHhcCCCCCCCHHHHHHhhcccc
Q 048616          239 LQNLSNKMALFGPSMIPKREEYLAEMSASD  268 (272)
Q Consensus       239 a~~~~~~~~~~~~~~~p~~~~~~~ll~ac~  268 (272)
                      |.+--++.        .+..||..+=.||-
T Consensus      1239 AVD~aRKA--------ns~ktWK~VcfaCv 1260 (1666)
T KOG0985|consen 1239 AVDAARKA--------NSTKTWKEVCFACV 1260 (1666)
T ss_pred             HHHHhhhc--------cchhHHHHHHHHHh
Confidence            77655542        33455555555553

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.23  E-value=3.8e-06  Score=51.73  Aligned_cols=81  Identities=15%  Similarity=0.137  Sum_probs=37.5

Q ss_pred             cCCHHHHHHHHHHHhhCCCC-CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 048616           23 DRQVEKAYKIVEKMRDEDIS-PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASG  101 (272)
Q Consensus        23 ~g~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (272)
                      .|+++.|+.+++++.+.... ++...+..+..++.+.|++++|..++++ .+.+. .+......+..++.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            35555566666555554321 1233333455555555666666555555 21111 122333334555555555555555


Q ss_pred             HHHH
Q 048616          102 LMDE  105 (272)
Q Consensus       102 ~~~~  105 (272)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            5543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.21  E-value=0.00011  Score=58.37  Aligned_cols=94  Identities=13%  Similarity=-0.012  Sum_probs=81.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 048616           16 LIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKR   95 (272)
Q Consensus        16 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (272)
                      -...+...|++++|++.|++..+.+.. +...|..+..++.+.|++++|+..++++.+.. +.+...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            345667889999999999999987544 77888889999999999999999999999874 3467788899999999999


Q ss_pred             HHHHHHHHHHHHHcCC
Q 048616           96 LRDASGLMDEMVEKGL  111 (272)
Q Consensus        96 ~~~a~~~~~~~~~~~~  111 (272)
                      +++|...|++.++.+.
T Consensus        86 ~~eA~~~~~~al~l~P  101 (356)
T PLN03088         86 YQTAKAALEKGASLAP  101 (356)
T ss_pred             HHHHHHHHHHHHHhCC
Confidence            9999999999998743

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.18  E-value=9.7e-05  Score=50.35  Aligned_cols=98  Identities=6%  Similarity=-0.100  Sum_probs=72.4

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRV  124 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (272)
                      ....-.+...+...|++++|..+|+-+.... +-+..-|..|.-++-..|++.+|+..|.......+. ++..+-.+..+
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c  112 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAEC  112 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHH
Confidence            3344445556667888888888888887764 235566667777788888888888888888877653 67777778888


Q ss_pred             HhhcCChhhHHHHHHHHHhC
Q 048616          125 FYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~  144 (272)
                      +...|+.+.|.+.|+..+..
T Consensus       113 ~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        113 YLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            88888888888888877554

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.17  E-value=0.0016  Score=54.88  Aligned_cols=207  Identities=13%  Similarity=0.081  Sum_probs=126.3

Q ss_pred             CCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-HHHHH
Q 048616            6 VKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD-AAAYN   84 (272)
Q Consensus         6 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~   84 (272)
                      +.-|...|..+--+....|+++.+.+.|++....-+. ....|..+-..+...|.-..|..+++........|+ +..+-
T Consensus       319 ~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~-~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFG-EHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhh-hHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            4456777888888888888888888888877653222 556777788888888887788888777664432343 33332


Q ss_pred             HHHHHHH-hcCCHHHHHHHHHHHHHc--CC--CCCHHhHHHHHHHHhhc-----------CChhhHHHHHHHHHhCCCCC
Q 048616           85 AAIRNYC-IAKRLRDASGLMDEMVEK--GL--SPNATTYNLFFRVFYWS-----------NDLRSSWNLYCRMMGTGCLP  148 (272)
Q Consensus        85 ~l~~~~~-~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~  148 (272)
                      ..-..|. +.+..++++.+-.+....  +.  ......|..+.-+|...           ....++.+.+++..+.+.. 
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~-  476 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT-  476 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC-
Confidence            2223332 355666666666655541  10  01222333333333221           1234566677776555422 


Q ss_pred             CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          149 NTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       149 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      |......+.--|+..++++.|.+..++..+.+...+...|..+.-.+...+++.+|+.+.+...+.
T Consensus       477 dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E  542 (799)
T KOG4162|consen  477 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE  542 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence            222222233345667788888888888887765777778887777788888888888888776543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.17  E-value=0.00028  Score=59.35  Aligned_cols=107  Identities=11%  Similarity=0.064  Sum_probs=57.5

Q ss_pred             HHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCH
Q 048616          122 FRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKL  201 (272)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  201 (272)
                      +.+....++|.+|+.+++.+..++.  -..-|..+...|+..|+++.|+++|-+.-         .++--|..|.+.|++
T Consensus       739 ieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccH
Confidence            4445556677777777776655432  23345566667777777777777664421         223445666677777


Q ss_pred             HHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHH
Q 048616          202 VEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQN  241 (272)
Q Consensus       202 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  241 (272)
                      ++|.++-.+..  |.......|.+-..-...+|.+.+|++
T Consensus       808 ~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeq  845 (1636)
T KOG3616|consen  808 EDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQ  845 (1636)
T ss_pred             HHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhh
Confidence            77766655542  222233334333333444444444443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.16  E-value=0.00031  Score=49.80  Aligned_cols=115  Identities=10%  Similarity=0.033  Sum_probs=68.0

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD--AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFF  122 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (272)
                      ...+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++..+.... +...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHH
Confidence            34456666666667777777777777665432221  345666666777777777777777776665322 344455555


Q ss_pred             HHHhhcCC--------------hhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 048616          123 RVFYWSND--------------LRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQE  164 (272)
Q Consensus       123 ~~~~~~~~--------------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (272)
                      ..+...|+              +++|.+++++....+  |+.  |..++..+...|
T Consensus       114 ~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~--p~~--~~~~~~~~~~~~  165 (172)
T PRK02603        114 VIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLA--PNN--YIEAQNWLKTTG  165 (172)
T ss_pred             HHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhC--chh--HHHHHHHHHhcC
Confidence            55555555              567888888776543  332  444555444443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.16  E-value=6.9e-06  Score=50.58  Aligned_cols=79  Identities=15%  Similarity=0.159  Sum_probs=34.3

Q ss_pred             CChhHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHH
Q 048616           59 GQPDKARDVLKEMKEYGCY-PDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNL  137 (272)
Q Consensus        59 ~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  137 (272)
                      |+++.|+.+++++.+.... ++...+..+..++.+.|++++|..++++ .+.+.. +......+..++.+.|++++|++.
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHHHH
Confidence            4555555555555544221 1233333345555555555555555554 211111 112222334455555555555555


Q ss_pred             HH
Q 048616          138 YC  139 (272)
Q Consensus       138 ~~  139 (272)
                      ++
T Consensus        81 l~   82 (84)
T PF12895_consen   81 LE   82 (84)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.14  E-value=0.00022  Score=56.73  Aligned_cols=87  Identities=10%  Similarity=-0.015  Sum_probs=41.7

Q ss_pred             HhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHH
Q 048616          125 FYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEA  204 (272)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  204 (272)
                      +...|++++|+..|++..+.+ +-+...|..+..++.+.|++++|...++...... +.+...|..+..+|...|++++|
T Consensus        12 a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~eA   89 (356)
T PLN03088         12 AFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQTA   89 (356)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHHHH
Confidence            334445555555555544432 2233444444445555555555555555554443 22334444445555555555555


Q ss_pred             HHHHHHHHH
Q 048616          205 EKSFLEMIE  213 (272)
Q Consensus       205 ~~~~~~~~~  213 (272)
                      ...|++.++
T Consensus        90 ~~~~~~al~   98 (356)
T PLN03088         90 KAALEKGAS   98 (356)
T ss_pred             HHHHHHHHH
Confidence            555555544

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.13  E-value=0.0028  Score=51.34  Aligned_cols=219  Identities=12%  Similarity=0.044  Sum_probs=114.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHH-------HHHH
Q 048616           13 YNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAA-------AYNA   85 (272)
Q Consensus        13 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~   85 (272)
                      ...+.++.-+..+++.|++-+.......  -+..-++....++...|.+......-....+.|.. ...       .+..
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r  303 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALAR  303 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHH
Confidence            4456667777788888888888887764  25555566667777777777766666665554421 111       2222


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCH-hhHHHHHHHHHhcC
Q 048616           86 AIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNT-QSCMFLVKLCKRQE  164 (272)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~  164 (272)
                      +..+|.+.++++.+...|.+.....-.|+..         .+....+++....+...-.+  |.. .-...-...+.+.|
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a~~~--pe~A~e~r~kGne~Fk~g  372 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKALKEAERKAYIN--PEKAEEEREKGNEAFKKG  372 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHHHHHHHHHhhC--hhHHHHHHHHHHHHHhcc
Confidence            3445666778888888888766543333221         11222233333332222111  111 00111123344555


Q ss_pred             cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-HHhHHHHHHHHHHhhhHHHHHHHH
Q 048616          165 KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS-QVSFRRIKALMELANKQEALQNLS  243 (272)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~  243 (272)
                      ++..|...|.++.+.. +.|...|..-.-+|.+.|.+..|++-.+..++.  .|+ ...|..=..++....+++.|.+.|
T Consensus       373 dy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~RKg~al~~mk~ydkAleay  449 (539)
T KOG0548|consen  373 DYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKAYLRKGAALRAMKEYDKALEAY  449 (539)
T ss_pred             CHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666655554 444555555555556666666555555555443  222 222222333444445555555555


Q ss_pred             HHHHh
Q 048616          244 NKMAL  248 (272)
Q Consensus       244 ~~~~~  248 (272)
                      ++..+
T Consensus       450 ~eale  454 (539)
T KOG0548|consen  450 QEALE  454 (539)
T ss_pred             HHHHh
Confidence            55443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.12  E-value=0.0018  Score=48.54  Aligned_cols=183  Identities=11%  Similarity=0.054  Sum_probs=108.8

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHH
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAY---NAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLF  121 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (272)
                      ...+-.....+.+.|++++|.+.|+++...-.. +....   -.+..++.+.+++++|...+++..+..+......+...
T Consensus        32 ~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~-s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y  110 (243)
T PRK10866         32 PSEIYATAQQKLQDGNWKQAITQLEALDNRYPF-GPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            333334455556788999999999998875322 22222   35567788889999999999998877544333344444


Q ss_pred             HHHHhh--cC---------------Ch---hhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 048616          122 FRVFYW--SN---------------DL---RSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGF  181 (272)
Q Consensus       122 ~~~~~~--~~---------------~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (272)
                      +.+.+.  .+               +.   .+|+..|               ..+++-|=...-..+|...+..+...= 
T Consensus       111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~---------------~~li~~yP~S~ya~~A~~rl~~l~~~l-  174 (243)
T PRK10866        111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDF---------------SKLVRGYPNSQYTTDATKRLVFLKDRL-  174 (243)
T ss_pred             HHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHH---------------HHHHHHCcCChhHHHHHHHHHHHHHHH-
Confidence            444332  10               11   1222333               334444434444555555444443320 


Q ss_pred             CccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          182 GSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK--GHKPSQVSFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       182 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                        -..- -.+.+.|.+.|.+..|..-++.+++.  +.+........+..+|...|..+++..+.+.+.
T Consensus       175 --a~~e-~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        175 --AKYE-LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             --HHHH-HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence              0011 24566788899999999999998875  222233344457888999999998888777654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.11  E-value=0.0017  Score=50.09  Aligned_cols=185  Identities=10%  Similarity=0.050  Sum_probs=99.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 048616           17 IDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRL   96 (272)
Q Consensus        17 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (272)
                      +.-+....++..|+.+++--...+-.-...+-.-+..++...|++++|...+.-+.+. -.++...+..|.-++.-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~-~~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNK-DDAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhcc-CCCCcccchhHHHHHHHHHHH
Confidence            3445556677777777765543332212222233455666777777777777777664 345566666666666666777


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHH
Q 048616           97 RDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDM  176 (272)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (272)
                      .+|.++-....+     ++---..+...-.+.++-++...+-+.+...     ..--.++....-..-.+++|++++..+
T Consensus       108 ~eA~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrv  177 (557)
T KOG3785|consen  108 IEAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRV  177 (557)
T ss_pred             HHHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            777665544322     2222233444455566655555544444321     111222333222334667777777777


Q ss_pred             HHcCCCccHHHHHH-HHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          177 VEKGFGSYILVSDV-LFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       177 ~~~~~~~~~~~~~~-li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ...+  |.-...|. +.-+|.+..-++-+.++++-....
T Consensus       178 L~dn--~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q  214 (557)
T KOG3785|consen  178 LQDN--PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ  214 (557)
T ss_pred             HhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh
Confidence            6553  33333333 333456667777777777776655

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.11  E-value=0.00025  Score=50.76  Aligned_cols=103  Identities=11%  Similarity=0.044  Sum_probs=55.8

Q ss_pred             CHHhHHHHHHHHhhc-----CChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHH
Q 048616          114 NATTYNLFFRVFYWS-----NDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVS  188 (272)
Q Consensus       114 ~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  188 (272)
                      +..+|..++..|.+.     |..+-....+..|.+.|+.-|..+|+.|++.+=+ |.+-               |.. .+
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv---------------p~n-~f  108 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV---------------PRN-FF  108 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc---------------ccc-HH
Confidence            555555555555432     3444445555555555555555555555555432 1110               110 00


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhh
Q 048616          189 DVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANK  235 (272)
Q Consensus       189 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  235 (272)
                      .++..  -.-.+-+-|.+++++|...|+-||..++..++..+.+.+.
T Consensus       109 Q~~F~--hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  109 QAEFM--HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHhc--cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            00000  0112345678888888888888888888888888876654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=98.10  E-value=9e-05  Score=53.01  Aligned_cols=111  Identities=17%  Similarity=0.302  Sum_probs=81.7

Q ss_pred             HHHHHHHHhhCCCCCCHhhHHHHHHHHHh-----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-----------
Q 048616           29 AYKIVEKMRDEDISPDVISYTSIIGGLGL-----VGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI-----------   92 (272)
Q Consensus        29 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----------   92 (272)
                      -.+.|+.....  ..+..+|..++..+.+     .|..+-....++.|.+.|+..|..+|+.|++.+=+           
T Consensus        33 ~~~~f~~~~~~--~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~  110 (228)
T PF06239_consen   33 HEELFERAPGQ--AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQA  110 (228)
T ss_pred             hHHHHHHHhhc--cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHH
Confidence            34555555322  2367778888877764     46777788888888888888899999888887543           


Q ss_pred             -----cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCCh-hhHHHHHHHH
Q 048616           93 -----AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDL-RSSWNLYCRM  141 (272)
Q Consensus        93 -----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~  141 (272)
                           -.+.+-|++++++|...|+.||..++..++..+.+.+.. .+..++.-.|
T Consensus       111 ~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWm  165 (228)
T PF06239_consen  111 EFMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWM  165 (228)
T ss_pred             HhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence                 124577899999999999999999999999999887765 3444444444

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.10  E-value=0.00061  Score=48.29  Aligned_cols=116  Identities=9%  Similarity=0.082  Sum_probs=77.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHH
Q 048616           80 AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPN--ATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLV  157 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  157 (272)
                      ...+..+...+...|++++|...|++....+..+.  ...+..+...+.+.|++++|...+++..+.. +-+...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            44566777778888888888888888876543322  3567777788888888888888888877653 22455566666


Q ss_pred             HHHHhcCc--------------HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCC
Q 048616          158 KLCKRQEK--------------VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGK  200 (272)
Q Consensus       158 ~~~~~~~~--------------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  200 (272)
                      ..+...|+              +++|.+++......+  |+.  |..++..+...|+
T Consensus       114 ~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~--p~~--~~~~~~~~~~~~~  166 (172)
T PRK02603        114 VIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLA--PNN--YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhC--chh--HHHHHHHHHhcCc
Confidence            66666665              577888888877653  332  4455555555443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.09  E-value=0.00055  Score=57.01  Aligned_cols=137  Identities=14%  Similarity=0.132  Sum_probs=83.1

Q ss_pred             CCCCCHhhHHHHHHHHHhc-----CChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhc--------CCHHHHHHHHHH
Q 048616           40 DISPDVISYTSIIGGLGLV-----GQPDKARDVLKEMKEYGCYPD-AAAYNAAIRNYCIA--------KRLRDASGLMDE  105 (272)
Q Consensus        40 ~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~--------~~~~~a~~~~~~  105 (272)
                      ..+.+...|...+++....     ++.+.|..+|++..+..  |+ ...|..+..++...        .++..+.+...+
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld--P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE--PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            3455667777777764432     22567777788777753  44 33444333333221        123344444444


Q ss_pred             HHHc-CCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 048616          106 MVEK-GLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG  180 (272)
Q Consensus       106 ~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (272)
                      .... ....+...|..+.......|++++|...+++....+  |+...|..+...+...|+.++|.+.+.+....+
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3332 122345666666555666788888888888887764  567778888888888888888888888776654

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.08  E-value=0.0044  Score=51.56  Aligned_cols=128  Identities=8%  Similarity=0.019  Sum_probs=63.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC---HhhHHHHHHHHHhcCChhHHHHHHHHHHHcC-----------CC
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPD---VISYTSIIGGLGLVGQPDKARDVLKEMKEYG-----------CY   77 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----------~~   77 (272)
                      .|-.+...|-..|+.+.|..+|++..+-..+--   ..+|..-...=.+..+++.|+++.++.....           .+
T Consensus       389 Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~p  468 (835)
T KOG2047|consen  389 LWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEP  468 (835)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCc
Confidence            456666666677777777777777665433311   2344444444445566666666666554211           01


Q ss_pred             C------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHH
Q 048616           78 P------DAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCR  140 (272)
Q Consensus        78 ~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  140 (272)
                      +      +...|...+..--..|-++....+++++++..+. ++...-.....+-.+..++++.+.|++
T Consensus       469 vQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YEr  536 (835)
T KOG2047|consen  469 VQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYER  536 (835)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHc
Confidence            1      2233444444444556666666666666655432 222211222223334444555555544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.07  E-value=0.0003  Score=49.65  Aligned_cols=114  Identities=9%  Similarity=-0.086  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHHh-hCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHhcCCHHHHHHH
Q 048616           26 VEKAYKIVEKMR-DEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYP--DAAAYNAAIRNYCIAKRLRDASGL  102 (272)
Q Consensus        26 ~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~  102 (272)
                      +..+...+..+. ..+..-....|..+...+...|++++|+..|++.......+  ...++..+..++...|++++|+..
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            334444444443 22222234456666677777788888888888776543222  234677777778888888888888


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHh-------hcCChhhHHHHHHH
Q 048616          103 MDEMVEKGLSPNATTYNLFFRVFY-------WSNDLRSSWNLYCR  140 (272)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~~~a~~~~~~  140 (272)
                      +++....... ...++..+...+.       ..|+++.|...+++
T Consensus        95 ~~~Al~~~~~-~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033         95 YFQALERNPF-LPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHhCcC-cHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            8777765322 3444555555555       66776655544443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.07  E-value=0.0023  Score=48.04  Aligned_cols=183  Identities=9%  Similarity=-0.023  Sum_probs=110.8

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhH---HHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISY---TSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAA   86 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (272)
                      ...+-.....+.+.|++++|.+.|+.+....+. +...-   -.+..++.+.+++++|...+++..+........-+...
T Consensus        32 ~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~-s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y  110 (243)
T PRK10866         32 PSEIYATAQQKLQDGNWKQAITQLEALDNRYPF-GPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            333434455566789999999999999886433 23222   34667889999999999999999986432222333333


Q ss_pred             HHHHHh--cC---------------C---HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCC
Q 048616           87 IRNYCI--AK---------------R---LRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGC  146 (272)
Q Consensus        87 ~~~~~~--~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  146 (272)
                      +.+.+.  .+               |   ..+|+..|+++++.  -|++.             -..+|...+..+...  
T Consensus       111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S~-------------ya~~A~~rl~~l~~~--  173 (243)
T PRK10866        111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNSQ-------------YTTDATKRLVFLKDR--  173 (243)
T ss_pred             HHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCCh-------------hHHHHHHHHHHHHHH--
Confidence            333321  11               1   23455666666655  23332             233343333333211  


Q ss_pred             CCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc--CCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616          147 LPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK--GFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMI  212 (272)
Q Consensus       147 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  212 (272)
                       .-..-+ .+.+-|.+.|.+..|..-++.+.+.  +-+......-.++.+|...|..++|.++...+.
T Consensus       174 -la~~e~-~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        174 -LAKYEL-SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             -HHHHHH-HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence             011111 4556677888888888888888766  223334555677788888888888888776653

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.06  E-value=0.001  Score=51.21  Aligned_cols=26  Identities=23%  Similarity=0.187  Sum_probs=14.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKM   36 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~   36 (272)
                      ..|....+.|...|++++|.+.|.+.
T Consensus        36 ~~y~~Aa~~fk~~~~~~~A~~ay~kA   61 (282)
T PF14938_consen   36 DLYEKAANCFKLAKDWEKAAEAYEKA   61 (282)
T ss_dssp             HHHHHHHHHHHHTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccchhHHHHHHH
Confidence            34555555565666666666666554

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.06  E-value=0.0011  Score=45.36  Aligned_cols=98  Identities=9%  Similarity=-0.037  Sum_probs=77.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 048616           80 AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKL  159 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (272)
                      ......+...+...|++++|.++|+-+....+. +...|..|..++-..|++++|+..|......+ +-+...+-.+..+
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c  112 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAEC  112 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            344455666677889999999999888877544 66677788888888999999999999887776 3567777788888


Q ss_pred             HHhcCcHHHHHHHHHHHHHc
Q 048616          160 CKRQEKVEIALQLWNDMVEK  179 (272)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~  179 (272)
                      +...|+.+.|.+-|+.....
T Consensus       113 ~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        113 YLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            88999999999999887765

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.04  E-value=0.001  Score=51.25  Aligned_cols=199  Identities=16%  Similarity=0.153  Sum_probs=104.1

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCCC--H
Q 048616           46 ISYTSIIGGLGLVGQPDKARDVLKEMKEY----GCYPD-AAAYNAAIRNYCIAKRLRDASGLMDEMVEK---GLSPN--A  115 (272)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~--~  115 (272)
                      ..|......|-..+++++|.+.|.+..+.    +-+.. ...|.....+|.+ .++++|...+++..+.   .-.|+  .
T Consensus        36 ~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~-~~~~~Ai~~~~~A~~~y~~~G~~~~aA  114 (282)
T PF14938_consen   36 DLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKK-GDPDEAIECYEKAIEIYREAGRFSQAA  114 (282)
T ss_dssp             HHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TTHHHHHHHHHHHHHHHHHCT-HHHHH
T ss_pred             HHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-hCHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            34666677777788888888888776432    21111 2234444444444 4788888877776542   11122  2


Q ss_pred             HhHHHHHHHHhhc-CChhhHHHHHHHHHh----CCCCCC--HhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-----c
Q 048616          116 TTYNLFFRVFYWS-NDLRSSWNLYCRMMG----TGCLPN--TQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFG-----S  183 (272)
Q Consensus       116 ~~~~~l~~~~~~~-~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~  183 (272)
                      ..+..+...|... |++++|.+.|++..+    .+ .+.  ..++..+...+.+.|++++|.++|+++......     .
T Consensus       115 ~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~  193 (282)
T PF14938_consen  115 KCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKY  193 (282)
T ss_dssp             HHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccch
Confidence            3455566667676 778888887777633    22 111  234556666777778888888888777654221     1


Q ss_pred             cHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCcH--HhHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          184 YIL-VSDVLFDLLCDMGKLVEAEKSFLEMIEKG--HKPSQ--VSFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       184 ~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      +.. .+-..+-++...|++..|.+.+++.....  +..+.  .....|+.++. .++.+...+.+.+..
T Consensus       194 ~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~-~~D~e~f~~av~~~d  261 (282)
T PF14938_consen  194 SAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYE-EGDVEAFTEAVAEYD  261 (282)
T ss_dssp             HHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHH-TT-CCCHHHHCHHHT
T ss_pred             hHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHH-hCCHHHHHHHHHHHc
Confidence            111 22222334555677777777777776542  11111  11122344443 455555555555543

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.03  E-value=0.0038  Score=54.48  Aligned_cols=182  Identities=13%  Similarity=0.063  Sum_probs=101.4

Q ss_pred             HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048616           26 VEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDE  105 (272)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  105 (272)
                      ...|+..|-+..+.... =...|..|...|....+...|.+.|++..+.. ..+..........|++..+++.|..+.-.
T Consensus       474 ~~~al~ali~alrld~~-~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVS-LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            44555555444443322 23456666666666666677777777776653 23555666667777777777777776322


Q ss_pred             HHHcCCC-CCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc
Q 048616          106 MVEKGLS-PNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSY  184 (272)
Q Consensus       106 ~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  184 (272)
                      .-+.... .-..-|...--.|...++..++..-|+...+.+ +-|...|..+..+|...|++..|.++|.+....  .|+
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~  628 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPL  628 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcH
Confidence            2222110 001112223334556667777777777666554 346667777777777777777777777666544  232


Q ss_pred             HHHHHHHHH--HHHhcCCHHHHHHHHHHHHH
Q 048616          185 ILVSDVLFD--LLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       185 ~~~~~~li~--~~~~~g~~~~a~~~~~~~~~  213 (272)
                       ..|...-.  ..+..|.+.+|...+.....
T Consensus       629 -s~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  629 -SKYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             -hHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence             22222222  23456667777666665543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.02  E-value=0.00066  Score=57.26  Aligned_cols=168  Identities=18%  Similarity=0.197  Sum_probs=91.8

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 048616           19 VYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRD   98 (272)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   98 (272)
                      +......|.+|+.+++.+.....  ...-|..+...|+..|+++.|.++|.+.-         .++-.|.+|.+.|+|..
T Consensus       741 aai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  741 AAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHH
Confidence            33445566666777766665432  23345666677777777777777765432         23445667777777777


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 048616           99 ASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVE  178 (272)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (272)
                      |.++-.+..  |.......|-+-..-+-+.|.+.+|.++|-...    .|+.     .|..|-+.|..+..+++..+-..
T Consensus       810 a~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~k~h~  878 (1636)
T KOG3616|consen  810 AFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVEKHHG  878 (1636)
T ss_pred             HHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHHHhCh
Confidence            777655543  223344455555555566666666666553321    2332     34455566665555555443221


Q ss_pred             cCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048616          179 KGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEM  211 (272)
Q Consensus       179 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  211 (272)
                         ..-..|...+..-+...|++..|..-|-+.
T Consensus       879 ---d~l~dt~~~f~~e~e~~g~lkaae~~flea  908 (1636)
T KOG3616|consen  879 ---DHLHDTHKHFAKELEAEGDLKAAEEHFLEA  908 (1636)
T ss_pred             ---hhhhHHHHHHHHHHHhccChhHHHHHHHhh
Confidence               111233344555555666666666555443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.02  E-value=0.0051  Score=50.13  Aligned_cols=185  Identities=10%  Similarity=0.108  Sum_probs=128.5

Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHc-CCCCCHHhHHHHHHHHhhcCChhhHHHH
Q 048616           62 DKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAK---RLRDASGLMDEMVEK-GLSPNATTYNLFFRVFYWSNDLRSSWNL  137 (272)
Q Consensus        62 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~  137 (272)
                      +++..++++....-...+..+|..+..---..-   ..+.....++++... ...| ..+|..++..--+..-...|..+
T Consensus       310 ~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~-tLv~~~~mn~irR~eGlkaaR~i  388 (656)
T KOG1914|consen  310 DEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDL-TLVYCQYMNFIRRAEGLKAARKI  388 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCC-ceehhHHHHHHHHhhhHHHHHHH
Confidence            445555555544322233344443332211111   245555666666543 3343 34577788888888899999999


Q ss_pred             HHHHHhCCCCC-CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 048616          138 YCRMMGTGCLP-NTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGH  216 (272)
Q Consensus       138 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  216 (272)
                      |.+..+.+..+ +..++.+++..+| .++.+-|.++|+.-.+. +..++..-...++.+...++-..+..+|++....++
T Consensus       389 F~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l  466 (656)
T KOG1914|consen  389 FKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVL  466 (656)
T ss_pred             HHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccC
Confidence            99998887777 6777888888775 57789999999875544 233444556788888999999999999999998866


Q ss_pred             CCcH--HhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          217 KPSQ--VSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       217 ~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      .|+.  ..|..++..=..-|+...+.++-+++...
T Consensus       467 ~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  467 SADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             ChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            5544  67889999989999999999888887653

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.01  E-value=0.00034  Score=49.37  Aligned_cols=81  Identities=10%  Similarity=0.025  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHH
Q 048616           80 AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSP--NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLV  157 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  157 (272)
                      ...+..+...+...|++++|+..|++.......+  ...++..+...+...|++++|+..+++..... +....++..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            4455666666677777888887777776553222  12456666777777777777777777766542 22233344444


Q ss_pred             HHHH
Q 048616          158 KLCK  161 (272)
Q Consensus       158 ~~~~  161 (272)
                      ..+.
T Consensus       114 ~i~~  117 (168)
T CHL00033        114 VICH  117 (168)
T ss_pred             HHHH
Confidence            4444

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.00  E-value=0.0012  Score=43.29  Aligned_cols=90  Identities=17%  Similarity=0.002  Sum_probs=45.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCC--HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHhc
Q 048616           18 DVYCKDRQVEKAYKIVEKMRDEDISPD--VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCY--PDAAAYNAAIRNYCIA   93 (272)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~   93 (272)
                      .++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..++++.......  .+......+.-++...
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~   88 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNL   88 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHC
Confidence            344455666666666666666554432  223444555566666666666666665543110  0112222223344555


Q ss_pred             CCHHHHHHHHHHHH
Q 048616           94 KRLRDASGLMDEMV  107 (272)
Q Consensus        94 ~~~~~a~~~~~~~~  107 (272)
                      |+.++|++.+-...
T Consensus        89 gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   89 GRPKEALEWLLEAL  102 (120)
T ss_pred             CCHHHHHHHHHHHH
Confidence            66666666554444

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.99  E-value=0.0032  Score=55.12  Aligned_cols=83  Identities=17%  Similarity=0.135  Sum_probs=44.8

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      .+|..+..+-.+.|.+.+|++-|-+.      -|+..|..+++...+.|.|++-.+++.-..+..-+|...  +.|+-+|
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~Ay 1176 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAY 1176 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHH
Confidence            45555555555566666655554322      144456666666666666666666665555544334332  3455556


Q ss_pred             HhcCCHHHHHH
Q 048616           91 CIAKRLRDASG  101 (272)
Q Consensus        91 ~~~~~~~~a~~  101 (272)
                      ++.+++.+.++
T Consensus      1177 Akt~rl~elE~ 1187 (1666)
T KOG0985|consen 1177 AKTNRLTELEE 1187 (1666)
T ss_pred             HHhchHHHHHH
Confidence            66555554443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.99  E-value=0.0008  Score=58.40  Aligned_cols=164  Identities=10%  Similarity=0.042  Sum_probs=123.2

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCC-CCCHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGC-YPDAAAYNAAIRN   89 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~   89 (272)
                      ..|..|-..|....+..+|...|+...+.+.. +...+......|++..+++.|..+.-..-+... ..-..-|....-.
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPY  571 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccc
Confidence            57888888898888999999999999887544 777889999999999999999998433332210 0011223334455


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHH--HHHHhcCcHH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLV--KLCKRQEKVE  167 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~~~  167 (272)
                      |...++..+|..-|+......+. |...|..+..+|.+.|++..|.++|.+....  .|+. +|...-  -.-+..|.+.
T Consensus       572 yLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s-~y~~fk~A~~ecd~GkYk  647 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLS-KYGRFKEAVMECDNGKYK  647 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHh-HHHHHHHHHHHHHhhhHH
Confidence            77889999999999999887655 8889999999999999999999999988765  3443 232222  2335788999


Q ss_pred             HHHHHHHHHHHc
Q 048616          168 IALQLWNDMVEK  179 (272)
Q Consensus       168 ~a~~~~~~~~~~  179 (272)
                      ++...+..+...
T Consensus       648 eald~l~~ii~~  659 (1238)
T KOG1127|consen  648 EALDALGLIIYA  659 (1238)
T ss_pred             HHHHHHHHHHHH
Confidence            999888877643

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.97  E-value=0.0038  Score=52.14  Aligned_cols=144  Identities=13%  Similarity=0.002  Sum_probs=78.2

Q ss_pred             CCCCHHHHHHHHHHHHh--c---CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCC--------hhhHHHHHHHHH
Q 048616           76 CYPDAAAYNAAIRNYCI--A---KRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSND--------LRSSWNLYCRMM  142 (272)
Q Consensus        76 ~~~~~~~~~~l~~~~~~--~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--------~~~a~~~~~~~~  142 (272)
                      .+.+...|...+.+...  .   ++...|..+|++..+..+. ....|..+..++.....        ...+.+..++..
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~-~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPD-FTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            34566777777766433  2   2266777788887776322 23334433333322111        122222222222


Q ss_pred             hC-CCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHH
Q 048616          143 GT-GCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQV  221 (272)
Q Consensus       143 ~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  221 (272)
                      .. ....+...+..+.-.....|++++|...+++....+  |+...|..+...+...|+.++|.+.+++....  .|...
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~p  487 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGEN  487 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCc
Confidence            21 122334555555555555677777777777776654  35566677777777777777777777776654  45555


Q ss_pred             hHH
Q 048616          222 SFR  224 (272)
Q Consensus       222 ~~~  224 (272)
                      +|.
T Consensus       488 t~~  490 (517)
T PRK10153        488 TLY  490 (517)
T ss_pred             hHH
Confidence            544

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.95  E-value=0.0047  Score=47.54  Aligned_cols=195  Identities=9%  Similarity=0.010  Sum_probs=146.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 048616           15 CLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAK   94 (272)
Q Consensus        15 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (272)
                      ..+..+...|+...|++....+++..+- +...+..-..+|...|++..|+.=++...+.. ..+..++..+-..+...|
T Consensus       160 ~ql~s~~~~GD~~~ai~~i~~llEi~~W-da~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vg  237 (504)
T KOG0624|consen  160 QQLKSASGSGDCQNAIEMITHLLEIQPW-DASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVG  237 (504)
T ss_pred             HHHHHHhcCCchhhHHHHHHHHHhcCcc-hhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhh
Confidence            3445566789999999999999987544 88889989999999999999998888777653 346677777888889999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHhHH----HH---------HHHHhhcCChhhHHHHHHHHHhCCCCCCH---hhHHHHHH
Q 048616           95 RLRDASGLMDEMVEKGLSPNATTYN----LF---------FRVFYWSNDLRSSWNLYCRMMGTGCLPNT---QSCMFLVK  158 (272)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~----~l---------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~  158 (272)
                      +.+.++...++.++.+  ||...+.    .+         +......++|.++++-.+...+.......   ..+..+-.
T Consensus       238 d~~~sL~~iRECLKld--pdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~  315 (504)
T KOG0624|consen  238 DAENSLKEIRECLKLD--PDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCT  315 (504)
T ss_pred             hHHHHHHHHHHHHccC--cchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeee
Confidence            9999999999998763  4433221    11         12345567777777777777665432222   23445556


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          159 LCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ++...+++.+|++.-.++.+.. +.|..++.--..+|.-...++.|..-|+...+.
T Consensus       316 C~~~d~~~~eAiqqC~evL~~d-~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  316 CYREDEQFGEAIQQCKEVLDID-PDDVQVLCDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             cccccCCHHHHHHHHHHHHhcC-chHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            7778899999999999988764 455778877888899999999999999888775

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.93  E-value=8.2e-05  Score=43.61  Aligned_cols=52  Identities=15%  Similarity=0.208  Sum_probs=26.5

Q ss_pred             hcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          162 RQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ..|++++|.++++.+.... +.+...+..+..+|.+.|++++|.++++.+...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3455555555555555443 223444445555555555555555555555544

...

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.87  E-value=7.3e-05  Score=43.82  Aligned_cols=52  Identities=15%  Similarity=0.218  Sum_probs=25.5

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616           57 LVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      +.|++++|+++|+++.+.. +-+...+..+..+|.+.|++++|.++++++...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3455555555555555442 224444445555555555555555555555544

...

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.84  E-value=0.00068  Score=50.87  Aligned_cols=99  Identities=12%  Similarity=-0.009  Sum_probs=74.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHH
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVE  167 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (272)
                      .-+.+.+++.+|+..|.+.++..+. |.+.|..-..+|.+.|+++.|++-.+.....+ +-...+|..|-.+|...|+++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHH
Confidence            3466778888888888888887544 67777778888888888888888877776654 334578888888888888888


Q ss_pred             HHHHHHHHHHHcCCCccHHHHHH
Q 048616          168 IALQLWNDMVEKGFGSYILVSDV  190 (272)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~  190 (272)
                      +|.+.|++.++.  .|+-.+|-.
T Consensus       167 ~A~~aykKaLel--dP~Ne~~K~  187 (304)
T KOG0553|consen  167 EAIEAYKKALEL--DPDNESYKS  187 (304)
T ss_pred             HHHHHHHhhhcc--CCCcHHHHH
Confidence            888888877665  455444433

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.82  E-value=0.00029  Score=40.86  Aligned_cols=53  Identities=15%  Similarity=0.132  Sum_probs=23.1

Q ss_pred             HHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          160 CKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      +.+.|++++|...|+.+.+.. +-+...+..+..++...|++++|..+|+++++
T Consensus         7 ~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    7 LYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444444444444444433 22334444444444444444444444444443

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.81  E-value=0.0019  Score=44.39  Aligned_cols=71  Identities=15%  Similarity=0.192  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHH-----hCCCCCCHhhH
Q 048616           82 AYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMM-----GTGCLPNTQSC  153 (272)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~  153 (272)
                      ....++..+...|++++|..+.+.+....+. +...|..+|.+|...|+...|.+.|+++.     +.|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPY-DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            3444555666667777777777776666433 56666677777777777777777666552     23666666543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.81  E-value=0.00019  Score=41.61  Aligned_cols=56  Identities=14%  Similarity=0.078  Sum_probs=29.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048616           18 DVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY   74 (272)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (272)
                      ..+.+.|++++|.+.|+++.+..+. +...+..+..++...|++++|...|+++.+.
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3445555555555555555554322 4455555555555555555555555555543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.81  E-value=0.003  Score=41.48  Aligned_cols=92  Identities=13%  Similarity=0.090  Sum_probs=57.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--CHHhHHHHHHHHh
Q 048616           51 IIGGLGLVGQPDKARDVLKEMKEYGCYPD--AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSP--NATTYNLFFRVFY  126 (272)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~  126 (272)
                      +..++-..|+.++|+.+|++....|....  ...+-.+.+.+...|++++|+.++++.....+.+  +......+..++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            44556667788888888888877765443  2345556667777788888888887777652210  1112222334666


Q ss_pred             hcCChhhHHHHHHHHH
Q 048616          127 WSNDLRSSWNLYCRMM  142 (272)
Q Consensus       127 ~~~~~~~a~~~~~~~~  142 (272)
                      ..|+.++|++.+-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            7777777777765543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.76  E-value=0.0082  Score=44.54  Aligned_cols=155  Identities=10%  Similarity=0.031  Sum_probs=81.9

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCCh
Q 048616           52 IGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDL  131 (272)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (272)
                      +..+-.....+..+++|++-..       .+.+.++..+.-.|.+.-....+.+.++...+.++.....+.+.-.+.|+.
T Consensus       156 i~~~e~~~~~ESsv~lW~KRl~-------~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~  228 (366)
T KOG2796|consen  156 LANLEQGLAEESSIRLWRKRLG-------RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDI  228 (366)
T ss_pred             HHHHHhccchhhHHHHHHHHHH-------HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccH
Confidence            3333333333555555554432       233445555555566666666666666655444555556666666666666


Q ss_pred             hhHHHHHHHHHhCCCCCCHhhHHHHH-----HHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHH
Q 048616          132 RSSWNLYCRMMGTGCLPNTQSCMFLV-----KLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEK  206 (272)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~l~-----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  206 (272)
                      +.|...|++..+..-..+..+.+.++     ..+.-++++..|...+.++...+ ..+....|.-.-+..-.|+..+|.+
T Consensus       229 k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK  307 (366)
T KOG2796|consen  229 KTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALK  307 (366)
T ss_pred             HHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHH
Confidence            66666666554432233333333322     23344556666666666665554 3333333433334445677777777


Q ss_pred             HHHHHHHc
Q 048616          207 SFLEMIEK  214 (272)
Q Consensus       207 ~~~~~~~~  214 (272)
                      .++.|.+.
T Consensus       308 ~~e~~~~~  315 (366)
T KOG2796|consen  308 QLEAMVQQ  315 (366)
T ss_pred             HHHHHhcc
Confidence            77777665

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.75  E-value=0.00093  Score=50.17  Aligned_cols=102  Identities=15%  Similarity=0.099  Sum_probs=66.4

Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhH
Q 048616           55 LGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSS  134 (272)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  134 (272)
                      ..+.+++++|+..|.+.++.. +-|++.|..-..+|++.|.++.|++=.+..+..... -..+|..|-.+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHHHH
Confidence            445677777777777777653 335556666677777777777777766666655322 355677777777777777777


Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHH
Q 048616          135 WNLYCRMMGTGCLPNTQSCMFLVKLC  160 (272)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (272)
                      .+.|++..+.  .|+..+|-.=+...
T Consensus       169 ~~aykKaLel--dP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  169 IEAYKKALEL--DPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHhhhcc--CCCcHHHHHHHHHH
Confidence            7777766554  56666665555544

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.75  E-value=0.0002  Score=42.08  Aligned_cols=63  Identities=13%  Similarity=0.061  Sum_probs=31.1

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAK-RLRDASGLMDEMVE  108 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~  108 (272)
                      +.+|..+...+...|++++|+..|++..+.. +.+...|..+..++...| ++++|++.+++.++
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            3444455555555555555555555555442 223444455555555555 45555555555443

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.74  E-value=0.0018  Score=49.09  Aligned_cols=97  Identities=11%  Similarity=-0.032  Sum_probs=45.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC--CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcC--CCCCHHHHHHHHH
Q 048616           13 YNCLIDVYCKDRQVEKAYKIVEKMRDEDISP--DVISYTSIIGGLGLVGQPDKARDVLKEMKEYG--CYPDAAAYNAAIR   88 (272)
Q Consensus        13 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~   88 (272)
                      |...+..+.+.|++++|...|+.+.+..+..  ....+..+..+|...|++++|...|+.+.+.-  .+.....+..+..
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~  225 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGV  225 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence            4444443344555555555555555432110  01234445555555555555555555555431  0111233333444


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 048616           89 NYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      .+...|+.++|..+|+++.+.
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            455555555555555555544

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.72  E-value=0.002  Score=47.67  Aligned_cols=159  Identities=9%  Similarity=-0.002  Sum_probs=115.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 048616           16 LIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKR   95 (272)
Q Consensus        16 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (272)
                      +++.+-.....+..+++|++-.       ....+.++..+.-.|.+.-....+++..+...+.++.....|++.-.+.||
T Consensus       155 ii~~~e~~~~~ESsv~lW~KRl-------~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD  227 (366)
T KOG2796|consen  155 ILANLEQGLAEESSIRLWRKRL-------GRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGD  227 (366)
T ss_pred             HHHHHHhccchhhHHHHHHHHH-------HHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhccc
Confidence            3344433344477777776543       334567888888889999999999999998777788899999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHH-----HHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHH
Q 048616           96 LRDASGLMDEMVEKGLSPNATTYNLF-----FRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIAL  170 (272)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l-----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (272)
                      .+.|...|++..+..-..+..+++.+     ...|.-.+++..|...+.+....+ +.+....+.-.-+..-.|+..+|.
T Consensus       228 ~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAi  306 (366)
T KOG2796|consen  228 IKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDAL  306 (366)
T ss_pred             HHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHH
Confidence            99999999977755333344444433     345666788889999998887664 345555555555556678999999


Q ss_pred             HHHHHHHHcCCC
Q 048616          171 QLWNDMVEKGFG  182 (272)
Q Consensus       171 ~~~~~~~~~~~~  182 (272)
                      +.+..+....+.
T Consensus       307 K~~e~~~~~~P~  318 (366)
T KOG2796|consen  307 KQLEAMVQQDPR  318 (366)
T ss_pred             HHHHHHhccCCc
Confidence            999999887433

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.70  E-value=0.00037  Score=40.93  Aligned_cols=63  Identities=16%  Similarity=0.180  Sum_probs=35.5

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC-ChhHHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVG-QPDKARDVLKEMKE   73 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~   73 (272)
                      +.+|..+-..+...|++++|+..|++..+.+.. +...|..+..++...| ++++|++.+++..+
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            445555555666666666666666665554322 4455555555555555 45666666555544

...

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.68  E-value=0.02  Score=46.66  Aligned_cols=192  Identities=13%  Similarity=0.005  Sum_probs=104.2

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHH-------HHHHHHhcCChhHHHHHHHHHHHcCCCCCHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTS-------IIGGLGLVGQPDKARDVLKEMKEYGCYPDAAA   82 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   82 (272)
                      +.-++..-..|...|.+.+....-+...+.|-. ...-|+.       +..++.+.++++.++..|.+.....-.|+.  
T Consensus       257 it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~--  333 (539)
T KOG0548|consen  257 ITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDL--  333 (539)
T ss_pred             hHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHH--
Confidence            334455556777777777777766665555432 2222332       334566678888999999887654333321  


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 048616           83 YNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKR  162 (272)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (272)
                             ..+....+++.+......-.+... ..-.-.-...+.+.|++..|...|.+++..+ +-|...|....-+|.+
T Consensus       334 -------ls~lk~~Ek~~k~~e~~a~~~pe~-A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~k  404 (539)
T KOG0548|consen  334 -------LSKLKEAEKALKEAERKAYINPEK-AEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLK  404 (539)
T ss_pred             -------HHHHHHHHHHHHHHHHHHhhChhH-HHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHH
Confidence                   222233344444444333332211 1111122445566677777777777766654 4456666666666677


Q ss_pred             cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          163 QEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      .|.+..|..=.+...+.+ ++....|..=..++....++++|.+.|.+.++.
T Consensus       405 L~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale~  455 (539)
T KOG0548|consen  405 LGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALEL  455 (539)
T ss_pred             HhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            776666666555554443 333334444444444455666666666666554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.68  E-value=0.0073  Score=51.92  Aligned_cols=166  Identities=11%  Similarity=0.082  Sum_probs=106.1

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 048616           20 YCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDA   99 (272)
Q Consensus        20 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   99 (272)
                      ....|..++|+.+|.+-.+         |..|=+.|-..|.|++|.++-+.=-.-.   -..||.....-+-..++.+.|
T Consensus       810 AieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~A  877 (1416)
T KOG3617|consen  810 AIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAA  877 (1416)
T ss_pred             HHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHH
Confidence            3466888888888887665         3334456667889999988765432221   234566666666667888888


Q ss_pred             HHHHHHHH----------HcCC---------CCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 048616          100 SGLMDEMV----------EKGL---------SPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLC  160 (272)
Q Consensus       100 ~~~~~~~~----------~~~~---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (272)
                      ++.|++..          ...+         ..|...|.....-+-..|+.+.|+.+|....         -|-.+++..
T Consensus       878 leyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~---------D~fs~VrI~  948 (1416)
T KOG3617|consen  878 LEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK---------DYFSMVRIK  948 (1416)
T ss_pred             HHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh---------hhhhheeeE
Confidence            88776532          1110         1233344444444455666666766666543         355677777


Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616          161 KRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMI  212 (272)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  212 (272)
                      |-+|+.++|-++-++-      -|....-.+.+.|...|++.+|..+|.+.+
T Consensus       949 C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  949 CIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             eeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            7888888888776652      244444567888888888888888887654

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.68  E-value=0.012  Score=44.45  Aligned_cols=99  Identities=14%  Similarity=0.104  Sum_probs=43.7

Q ss_pred             CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc---CcHHHHHHHHHHHHHcCCCccHHHHHH
Q 048616          114 NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ---EKVEIALQLWNDMVEKGFGSYILVSDV  190 (272)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (272)
                      |...|..|..+|...|+++.|..-|.+..+.. .++...+..+..++..+   ..-.++..+++++...+ +.+......
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHHH
Confidence            44445555555555555555555555444331 22333333333333221   12334445555554443 233333334


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          191 LFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       191 li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      |...+...|++.+|...|+.|.+.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhc
Confidence            444444555555555555555443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.66  E-value=0.011  Score=43.07  Aligned_cols=46  Identities=20%  Similarity=0.181  Sum_probs=23.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhH----HHHHHHHHHhhhHHH
Q 048616          191 LFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSF----RRIKALMELANKQEA  238 (272)
Q Consensus       191 li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~----~~l~~~~~~~~~~~~  238 (272)
                      +...|.+.|.+..|..-++.+++.  -|+....    ..++.++.+.|..+.
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~~  196 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQA  196 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChHH
Confidence            445566666666666666666654  3333322    335556666665553

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.65  E-value=0.012  Score=43.01  Aligned_cols=179  Identities=10%  Similarity=0.034  Sum_probs=94.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCC--CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 048616           16 LIDVYCKDRQVEKAYKIVEKMRDEDIS--PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIA   93 (272)
Q Consensus        16 li~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (272)
                      ....+...|++.+|.+.|+.+...-+.  -.....-.++.++.+.|+++.|...++++.+.-......-+...+.+.+..
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~   90 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYY   90 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHH
Confidence            344455778888888888887764221  123345556777778888888888888877653221122222223322221


Q ss_pred             CCHHHHHHHHHHHHHcCCCC-----CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHH
Q 048616           94 KRLRDASGLMDEMVEKGLSP-----NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEI  168 (272)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (272)
                      .......       .....+     -...+..++.-|-......+|...+..+.+.   .-.. -..+.+.|.+.|.+..
T Consensus        91 ~~~~~~~-------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~---la~~-e~~ia~~Y~~~~~y~a  159 (203)
T PF13525_consen   91 KQIPGIL-------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR---LAEH-ELYIARFYYKRGKYKA  159 (203)
T ss_dssp             HHHHHHH--------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH---HHHH-HHHHHHHHHCTT-HHH
T ss_pred             HhCccch-------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH---HHHH-HHHHHHHHHHcccHHH
Confidence            1111111       000000     1234566666666666666666655555322   1111 1235567888999999


Q ss_pred             HHHHHHHHHHcCC--CccHHHHHHHHHHHHhcCCHHHHH
Q 048616          169 ALQLWNDMVEKGF--GSYILVSDVLFDLLCDMGKLVEAE  205 (272)
Q Consensus       169 a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~  205 (272)
                      |..-++.+.+.-.  +......-.++.++.+.|..+.+.
T Consensus       160 A~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  160 AIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            9999988887621  112234566778888888877544

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.63  E-value=0.003  Score=47.82  Aligned_cols=98  Identities=13%  Similarity=0.104  Sum_probs=69.0

Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc----HHhHH
Q 048616          151 QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSY--ILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS----QVSFR  224 (272)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~----~~~~~  224 (272)
                      ..|...+....+.|++++|...|+.+.+..+...  ...+-.+..+|...|++++|...|+.+.+.  .|+    ...+.
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~--yP~s~~~~dAl~  221 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKN--YPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhHHHH
Confidence            3455555555667888888888888887642221  245567788888889999999998888765  232    23333


Q ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          225 RIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      .+...+...|+.++|..+|+++.+..
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            45667778888899999888888766

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.60  E-value=0.013  Score=44.37  Aligned_cols=102  Identities=15%  Similarity=0.096  Sum_probs=78.2

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcC---ChhhHHHHHHHHHhCCCCCCHhhH
Q 048616           77 YPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSN---DLRSSWNLYCRMMGTGCLPNTQSC  153 (272)
Q Consensus        77 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~  153 (272)
                      +-|...|-.|...|.+.|+.+.|..-|.+..+... ++...+..+..++....   .-.++..+|+++...+ +-+..+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g-~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAG-DNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            45788899999999999999999999988887643 25666666666554432   3467888899888775 4466777


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 048616          154 MFLVKLCKRQEKVEIALQLWNDMVEKG  180 (272)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (272)
                      ..+...+...|++.+|...|+.|.+..
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            777788889999999999999998875

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.52  E-value=0.0026  Score=43.71  Aligned_cols=71  Identities=20%  Similarity=0.123  Sum_probs=41.0

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----HcCCCCcHHhH
Q 048616          152 SCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMI-----EKGHKPSQVSF  223 (272)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-----~~~~~p~~~~~  223 (272)
                      +...++..+...|+++.|..+...+.... +.+...|..+|.++...|+..+|.++|+.+.     +.|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            34445555666777777777777766665 5566667777777777777777777776653     23666666543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.52  E-value=0.0026  Score=42.22  Aligned_cols=48  Identities=15%  Similarity=0.205  Sum_probs=25.4

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCCHHhHHHHHH
Q 048616           76 CYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK-GLSPNATTYNLFFR  123 (272)
Q Consensus        76 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~  123 (272)
                      ..|+..+..+++.+|+..|++..|.++++...+. +++.+..+|..|+.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            3455555555555555555555555555555433 34444455555544

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.48  E-value=0.004  Score=41.31  Aligned_cols=85  Identities=11%  Similarity=0.096  Sum_probs=70.9

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHh---------------hCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMR---------------DEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKE   73 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~---------------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   73 (272)
                      |..++..+|.++++.|+.+....+++..=               .....|+..+..+++.+|+..+++..|+++.+...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            56789999999999999999999987651               123468899999999999999999999999999875


Q ss_pred             -cCCCCCHHHHHHHHHHHHhc
Q 048616           74 -YGCYPDAAAYNAAIRNYCIA   93 (272)
Q Consensus        74 -~~~~~~~~~~~~l~~~~~~~   93 (272)
                       -+++.+..+|..|+.-....
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHHHh
Confidence             46777888999888765443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.45  E-value=0.0016  Score=38.62  Aligned_cols=55  Identities=20%  Similarity=0.247  Sum_probs=29.8

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048616           19 VYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY   74 (272)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (272)
                      .|.+.+++++|.++++.+...++. +...|.....++.+.|++++|.+.|++..+.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            445555555555555555554322 4445555555555555555555555555544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.41  E-value=0.0023  Score=37.95  Aligned_cols=50  Identities=20%  Similarity=0.128  Sum_probs=19.1

Q ss_pred             hcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616          162 RQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMI  212 (272)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  212 (272)
                      +.++++.|.++++.+...+ +.+...+.....++.+.|++++|.+.|+...
T Consensus         7 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    7 QQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             hCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3344444444444433332 2223333333333344444444444444443

>PRK15331 chaperone protein SicA; Provisional

Probab=97.37  E-value=0.016  Score=39.97  Aligned_cols=87  Identities=8%  Similarity=-0.039  Sum_probs=48.6

Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhH
Q 048616           55 LGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSS  134 (272)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  134 (272)
                      +...|++++|..+|+-+...++ -+..-|..|..++-..+++++|...|......+.. |+..+--...++...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCCHHHH
Confidence            3456666666666666665432 24444555555556666666666666555443321 333333345566666666666


Q ss_pred             HHHHHHHHh
Q 048616          135 WNLYCRMMG  143 (272)
Q Consensus       135 ~~~~~~~~~  143 (272)
                      ...|+...+
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            666666554

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.32  E-value=0.028  Score=39.60  Aligned_cols=169  Identities=12%  Similarity=0.132  Sum_probs=113.3

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhc
Q 048616           49 TSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWS  128 (272)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  128 (272)
                      ..+..+..+.=|++...+-..+-.+  .-|+..--..|..+..+.|+..+|...|++...--+.-|......+.++....
T Consensus        60 ~~~~~a~~q~ldP~R~~Rea~~~~~--~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~  137 (251)
T COG4700          60 HTLLMALQQKLDPERHLREATEELA--IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAI  137 (251)
T ss_pred             HHHHHHHHHhcChhHHHHHHHHHHh--hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhh
Confidence            3344555555566655544333333  35777777788889999999999999998887654555777777888888889


Q ss_pred             CChhhHHHHHHHHHhCC---CCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHH
Q 048616          129 NDLRSSWNLYCRMMGTG---CLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAE  205 (272)
Q Consensus       129 ~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  205 (272)
                      +++..+...++.+.+..   ..|  .+...+.+.+...|...+|+.-|+.....-..|...+  ..-..+.+.|+.+++.
T Consensus       138 ~~~A~a~~tLe~l~e~~pa~r~p--d~~Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~--~Y~e~La~qgr~~ea~  213 (251)
T COG4700         138 QEFAAAQQTLEDLMEYNPAFRSP--DGHLLFARTLAAQGKYADAESAFEVAISYYPGPQARI--YYAEMLAKQGRLREAN  213 (251)
T ss_pred             ccHHHHHHHHHHHhhcCCccCCC--CchHHHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHH--HHHHHHHHhcchhHHH
Confidence            99999999998886653   123  3455667888889999999999998887643333333  3445567788777666


Q ss_pred             HHHHHHHHcCCCCcHHhHH
Q 048616          206 KSFLEMIEKGHKPSQVSFR  224 (272)
Q Consensus       206 ~~~~~~~~~~~~p~~~~~~  224 (272)
                      .-+..+.+. ..-+...|.
T Consensus       214 aq~~~v~d~-~~r~~~H~r  231 (251)
T COG4700         214 AQYVAVVDT-AKRSRPHYR  231 (251)
T ss_pred             HHHHHHHHH-HHhcchhHH
Confidence            544444332 122444554

>PRK15331 chaperone protein SicA; Provisional

Probab=97.26  E-value=0.03  Score=38.72  Aligned_cols=87  Identities=14%  Similarity=0.068  Sum_probs=51.8

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIA  169 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (272)
                      +...|++++|..+|.-+...++. +..-|..|..++...+++++|...|......+. -|...+-....++...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHH
Confidence            44567777777777666655443 455556666666667777777777665543332 2333344455566666666666


Q ss_pred             HHHHHHHHH
Q 048616          170 LQLWNDMVE  178 (272)
Q Consensus       170 ~~~~~~~~~  178 (272)
                      ...|.....
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            666666554

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.23  E-value=0.003  Score=49.79  Aligned_cols=228  Identities=11%  Similarity=0.018  Sum_probs=133.3

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCH----hhHHHHHHHHHhcCChhHHHHHHHHHH--H--cCCCC-CHHHHHHHHHH
Q 048616           19 VYCKDRQVEKAYKIVEKMRDEDISPDV----ISYTSIIGGLGLVGQPDKARDVLKEMK--E--YGCYP-DAAAYNAAIRN   89 (272)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~--~--~~~~~-~~~~~~~l~~~   89 (272)
                      -+++.|+...-..+|+...+-|.. |.    .+|..|.++|.-.+++++|+++...=.  .  .|-+. ...+...|.+.
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNt  104 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNT  104 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccch
Confidence            378899999999999999987754 33    457777888888899999998864311  1  11111 12233345555


Q ss_pred             HHhcCCHHHHHHHHHHH----HHcCCC-CCHHhHHHHHHHHhhcCC--------------------hhhHHHHHHHH---
Q 048616           90 YCIAKRLRDASGLMDEM----VEKGLS-PNATTYNLFFRVFYWSND--------------------LRSSWNLYCRM---  141 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~----~~~~~~-~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~---  141 (272)
                      +--.|.+++|.-.-.+-    .+.|-+ .....+..+...|...|.                    ++.|.++|.+=   
T Consensus       105 lKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l  184 (639)
T KOG1130|consen  105 LKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLEL  184 (639)
T ss_pred             hhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence            55667777776432221    122211 123344455666654432                    22233343321   


Q ss_pred             -HhCCCC-CCHhhHHHHHHHHHhcCcHHHHHHHHHHHHH----cCC-CccHHHHHHHHHHHHhcCCHHHHHHHHHHHH--
Q 048616          142 -MGTGCL-PNTQSCMFLVKLCKRQEKVEIALQLWNDMVE----KGF-GSYILVSDVLFDLLCDMGKLVEAEKSFLEMI--  212 (272)
Q Consensus       142 -~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~--  212 (272)
                       ...|-. .--..|..+-..|--.|+++.|+...+.-..    .|- ......+..+..++.-.|+++.|.+.++.-.  
T Consensus       185 ~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~L  264 (639)
T KOG1130|consen  185 SEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNL  264 (639)
T ss_pred             HHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHH
Confidence             111110 1113455555555567889999887765432    221 2234566778888888999999999887643  


Q ss_pred             --HcCC-CCcHHhHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          213 --EKGH-KPSQVSFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       213 --~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                        +.|- .....+..+|...|--..++++|+.++++-.
T Consensus       265 Aielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHL  302 (639)
T KOG1130|consen  265 AIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHL  302 (639)
T ss_pred             HHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence              2222 2233344457778888888888888877643

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.18  E-value=0.021  Score=49.18  Aligned_cols=177  Identities=18%  Similarity=0.221  Sum_probs=118.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHH----HHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIG----GLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      ....-++...+...++-|+.+-+.-   +.  +..+...+..    -+.+.|++++|...|-+-... +.|+     .++
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~---~~--d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi  404 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQ---HL--DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVI  404 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhc---CC--CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHH
Confidence            3445677777888888887776543   22  3333444444    455789999999888777643 2232     245


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHH
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVE  167 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (272)
                      .-|....++..-..+++.+.+.|+. +...-..|+.+|.+.++.++..++.+... .|..  ..-....+..+.+.+-.+
T Consensus       405 ~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~  480 (933)
T KOG2114|consen  405 KKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLD  480 (933)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHH
Confidence            6667777888888899999999986 56666889999999999999888877654 2221  123456667777778888


Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048616          168 IALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEM  211 (272)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  211 (272)
                      +|..+-.....     +......+   +-..+++++|.+++..+
T Consensus       481 ~a~~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  481 EAELLATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcC
Confidence            87766554332     22222333   44678888888888765

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.15  E-value=0.0022  Score=38.65  Aligned_cols=61  Identities=21%  Similarity=0.224  Sum_probs=28.0

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCC-CC-HhhHHHHHHHHHhcCChhHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDE----DIS-PD-VISYTSIIGGLGLVGQPDKARDVLKEM   71 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~   71 (272)
                      .+|+.+-..|...|++++|+..|++..+.    |.. |. ..++..+..++...|++++|++.+++.
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34555555555555555555555544321    100 11 233444444555555555555555444

...

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.10  E-value=0.0043  Score=37.34  Aligned_cols=62  Identities=13%  Similarity=0.155  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC-CCc-HHhHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          186 LVSDVLFDLLCDMGKLVEAEKSFLEMIEK----GH-KPS-QVSFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       186 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      .+++.+...|...|++++|.+.|++..+.    |- .|+ ..++..+...+...|++++|.+++++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34555666666666666666666665432    11 111 2344446666666777777776666654

...

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.04  E-value=0.11  Score=41.26  Aligned_cols=167  Identities=12%  Similarity=0.054  Sum_probs=93.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcC---CCCCHHhHHHHHHHHhh---cCChhhHHHHHHHHHhCCCCCCHhhHHH
Q 048616           82 AYNAAIRNYCIAKRLRDASGLMDEMVEKG---LSPNATTYNLFFRVFYW---SNDLRSSWNLYCRMMGTGCLPNTQSCMF  155 (272)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (272)
                      +...++-.|-...+++...++++.+...-   +.-....-....-++.+   .|+.++|++++..+......++..++..
T Consensus       143 iv~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL  222 (374)
T PF13281_consen  143 IVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGL  222 (374)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHH
Confidence            33445556778888888888888887651   11122222234455666   7888888888888655555777778877


Q ss_pred             HHHHHHh---------cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCC-HH---HHHHHH----HHHHHcCCC-
Q 048616          156 LVKLCKR---------QEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGK-LV---EAEKSF----LEMIEKGHK-  217 (272)
Q Consensus       156 l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~---~a~~~~----~~~~~~~~~-  217 (272)
                      +.+.|-.         ...+++|...|.+.-+..  |+...--.++..+.-.|. .+   +..++-    ....++|.. 
T Consensus       223 ~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~  300 (374)
T PF13281_consen  223 LGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIE--PDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLE  300 (374)
T ss_pred             HHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCC--ccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccc
Confidence            7776632         224566666666554432  332211112222222332 11   222222    122233332 


Q ss_pred             --CcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          218 --PSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       218 --p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                        .|-..+.+++.++.-.|+.++|.+..++|.+..
T Consensus       301 ~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  301 KMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence              233333457888888888888888888887543

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.03  E-value=0.11  Score=40.78  Aligned_cols=84  Identities=12%  Similarity=0.064  Sum_probs=58.9

Q ss_pred             hHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 048616          117 TYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLC  196 (272)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  196 (272)
                      +.+.-+.-+...|+...|.++-.+..    .|+...|-..+.+++..++|++..++-..   .   -.+.-|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHHHH
Confidence            44555666677787777777766552    46778888888888888888877765432   1   12356677888888


Q ss_pred             hcCCHHHHHHHHHH
Q 048616          197 DMGKLVEAEKSFLE  210 (272)
Q Consensus       197 ~~g~~~~a~~~~~~  210 (272)
                      +.|+..+|..+...
T Consensus       249 ~~~~~~eA~~yI~k  262 (319)
T PF04840_consen  249 KYGNKKEASKYIPK  262 (319)
T ss_pred             HCCCHHHHHHHHHh
Confidence            88888888877766

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.00  E-value=0.043  Score=43.35  Aligned_cols=96  Identities=15%  Similarity=0.110  Sum_probs=73.3

Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHH-HHHH
Q 048616          151 QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRR-IKAL  229 (272)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~-l~~~  229 (272)
                      .++..+..++.+.+++..|+..-+..+..+ ++|....-.=..++...|+++.|+..|+.+++.  .|+....+. |+..
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l  334 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKL  334 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHH
Confidence            356778888899999999999999998887 556555555678899999999999999999885  777777776 6555


Q ss_pred             HHHhhhHH-HHHHHHHHHHhc
Q 048616          230 MELANKQE-ALQNLSNKMALF  249 (272)
Q Consensus       230 ~~~~~~~~-~a~~~~~~~~~~  249 (272)
                      -.+..... ...++|..|...
T Consensus       335 ~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHhhc
Confidence            55555444 446788888653

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.97  E-value=0.036  Score=44.75  Aligned_cols=64  Identities=8%  Similarity=-0.005  Sum_probs=45.7

Q ss_pred             CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCH----hhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 048616          114 NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNT----QSCMFLVKLCKRQEKVEIALQLWNDMVEK  179 (272)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (272)
                      +...++.+..+|.+.|++++|+..|++..+.  .|+.    .+|..+..+|...|+.++|...++...+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4566777777777788888888888777665  3442    34777777777778888887777777664

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.95  E-value=0.12  Score=41.64  Aligned_cols=144  Identities=17%  Similarity=0.209  Sum_probs=73.8

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCC-CCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHH-HHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDED-ISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAA-YNAAIR   88 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~   88 (272)
                      .+|-..|+...+..-++.|..+|-++.+.+ +.++..++++++..++ .|+..-|..+|+-=... + ||... -+..+.
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~-f-~d~~~y~~kyl~  474 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK-F-PDSTLYKEKYLL  474 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh-C-CCchHHHHHHHH
Confidence            345555555555555666666666666655 3455555666665544 35555666666543332 1 23322 234455


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCC--HHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPN--ATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLC  160 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (272)
                      .+.+.++-..|..+|+..+.. +..+  ...|..+|.--..-|+...+..+-++|.+.  -|...+...+..-|
T Consensus       475 fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry  545 (660)
T COG5107         475 FLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRY  545 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHH
Confidence            555666666666666643322 0111  344566666556666666665555555443  33443444444433

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=96.95  E-value=0.069  Score=37.25  Aligned_cols=137  Identities=12%  Similarity=0.162  Sum_probs=85.5

Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 048616          100 SGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK  179 (272)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (272)
                      .++++.+.+.+++|+...+..++..+.+.|++.....    +...++-+|.......+-.+..  ....+.++=-+|.++
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~q----llq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQ----LLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH----HHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            4556666777888888888888888888887655444    4455566666655555433332  223344444444433


Q ss_pred             CCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          180 GFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       180 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      = .   ..+..+++.+...|++-+|.++.+.....    +......++.+..+.+|...-..+++-..+.+
T Consensus        88 L-~---~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~n  150 (167)
T PF07035_consen   88 L-G---TAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEERN  150 (167)
T ss_pred             h-h---hhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            0 0   12356777888999999999988775322    22333557778877777776666666665543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.94  E-value=0.075  Score=37.54  Aligned_cols=135  Identities=11%  Similarity=0.035  Sum_probs=96.3

Q ss_pred             CCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC---CCccHHHH
Q 048616          112 SPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG---FGSYILVS  188 (272)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~  188 (272)
                      .|+..--..|..++.+.|+..+|...|++...--..-|......+.++....+++..|...++++.+..   -.||.  .
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~--~  163 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG--H  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc--h
Confidence            466666677888899999999999999888765556677788888888888999999999998887653   24443  3


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHH----HHHHHHHHHHhcC
Q 048616          189 DVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQE----ALQNLSNKMALFG  250 (272)
Q Consensus       189 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~----~a~~~~~~~~~~~  250 (272)
                      -.+.+.+...|++.+|...|+.....  .|+...-......+.+.|+.+    +..++++.+++..
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~d~~~r~~  227 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAVVDTAKRSR  227 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcc
Confidence            45677888899999999999988876  555544433444455555433    3445666665443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.92  E-value=0.069  Score=43.21  Aligned_cols=66  Identities=14%  Similarity=-0.016  Sum_probs=55.8

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH---hhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDV---ISYTSIIGGLGLVGQPDKARDVLKEMKEY   74 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (272)
                      .+...|+.+-.+|.+.|++++|+..|++..+.++. +.   .+|..+..+|...|+.++|++.+++..+.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd-~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELNPN-PDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            46678899999999999999999999998876433 22   35888999999999999999999999875

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.83  E-value=0.2  Score=40.98  Aligned_cols=159  Identities=12%  Similarity=0.153  Sum_probs=92.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHH--HHHHHHhhc
Q 048616           51 IIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYN--LFFRVFYWS  128 (272)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~  128 (272)
                      +|.-..+..+.+.-++.-++..+.  .|+..+.-.++ +--......+|++++++..+.|-.    .+.  ....   ..
T Consensus       174 IMq~AWRERnp~aRIkaA~eALei--~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkAgE~----~lg~s~~~~---~~  243 (539)
T PF04184_consen  174 IMQKAWRERNPQARIKAAKEALEI--NPDCADAYILL-AEEEASTIVEAEELLRQAVKAGEA----SLGKSQFLQ---HH  243 (539)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHh--hhhhhHHHhhc-ccccccCHHHHHHHHHHHHHHHHH----hhchhhhhh---cc
Confidence            444444556666666666666653  34443322222 222345578899999888776321    111  0111   11


Q ss_pred             CChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-ccHHHHHHHHHHHHhcCCHHHHHHH
Q 048616          129 NDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFG-SYILVSDVLFDLLCDMGKLVEAEKS  207 (272)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~  207 (272)
                      |.      .++........|-..+-..+..++-+.|+.++|.+.++++.+.... .+..+...|++++...+.+.++..+
T Consensus       244 g~------~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~l  317 (539)
T PF04184_consen  244 GH------FWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQAL  317 (539)
T ss_pred             cc------hhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHH
Confidence            11      1111222222333344445666777899999999999999865422 3445677899999999999999999


Q ss_pred             HHHHHHcCCC-CcHHhHHH
Q 048616          208 FLEMIEKGHK-PSQVSFRR  225 (272)
Q Consensus       208 ~~~~~~~~~~-p~~~~~~~  225 (272)
                      +.+..+...+ .-...|+.
T Consensus       318 L~kYdDi~lpkSAti~YTa  336 (539)
T PF04184_consen  318 LAKYDDISLPKSATICYTA  336 (539)
T ss_pred             HHHhccccCCchHHHHHHH
Confidence            9998654322 22334555

The molecular function of this protein is uncertain.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.83  E-value=0.1  Score=39.12  Aligned_cols=99  Identities=13%  Similarity=0.095  Sum_probs=67.8

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC--CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCC-CC-CHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDIS--PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGC-YP-DAAAYNA   85 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~-~~~~~~~   85 (272)
                      ...|+.-+..+ +.|++..|...|....+..+.  -....+-.|..++...|++++|..+|..+.+.-. .| -+..+-.
T Consensus       142 ~~~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         142 TKLYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             hHHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            34677766655 567788888888887765321  1223344578888888888888888888876421 11 2356666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc
Q 048616           86 AIRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      |..+..+.|+.++|..+|+++.+.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            777777888888888888888876

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.78  E-value=0.18  Score=39.58  Aligned_cols=109  Identities=14%  Similarity=0.131  Sum_probs=70.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 048616           82 AYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCK  161 (272)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (272)
                      +.+.-+.-+...|+...|.++-.+..    .|+...|...+.+++..++|++...+-..   .   -++.-|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHHHH
Confidence            33444555666677776666655442    25777788888888888888776665432   1   13366777888888


Q ss_pred             hcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048616          162 RQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLE  210 (272)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  210 (272)
                      +.|+..+|..+...+     + +    ..-+..|.+.|++.+|.+...+
T Consensus       249 ~~~~~~eA~~yI~k~-----~-~----~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI-----P-D----EERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HCCCHHHHHHHHHhC-----C-h----HHHHHHHHHCCCHHHHHHHHHH
Confidence            888888777777651     1 1    3456667788888877765544

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.73  E-value=0.17  Score=38.54  Aligned_cols=145  Identities=11%  Similarity=0.111  Sum_probs=90.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHH
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVE  167 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (272)
                      ......|++.+|...|+...+.... +...--.+..+|...|+.+.|..++..+....-.........-+..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            3456778999999999888877444 345566788899999999999999988755432222222223334444444444


Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CcHHhHHHHHHHHHHhhh
Q 048616          168 IALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHK-PSQVSFRRIKALMELANK  235 (272)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~~~  235 (272)
                      +...+-...-..  +-|...--.+...+...|+.++|.+.+-.+.+++.. -|...-..++..+..-|.
T Consensus       221 ~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~  287 (304)
T COG3118         221 EIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGP  287 (304)
T ss_pred             CHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCC
Confidence            444444433322  335555566777888889999988888777665332 233344456666655553

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.66  E-value=0.16  Score=38.17  Aligned_cols=99  Identities=9%  Similarity=-0.028  Sum_probs=72.0

Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC--CccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CCcHHhHHHH
Q 048616          151 QSCMFLVKLCKRQEKVEIALQLWNDMVEKGF--GSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGH--KPSQVSFRRI  226 (272)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~p~~~~~~~l  226 (272)
                      ..|+..+..+ +.|++..|..-|....+...  .-....+-.|.+++...|++++|..+|..+.+.-.  +.-+.++-.|
T Consensus       143 ~~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl  221 (262)
T COG1729         143 KLYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH
Confidence            3577766665 67789999999988887632  11223445688899999999999999998876511  1122345557


Q ss_pred             HHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          227 KALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      .......|+.++|...|+++.+.-
T Consensus       222 g~~~~~l~~~d~A~atl~qv~k~Y  245 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQVIKRY  245 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHC
Confidence            778888899999999999988766

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.59  E-value=0.11  Score=34.50  Aligned_cols=67  Identities=16%  Similarity=0.163  Sum_probs=41.1

Q ss_pred             HhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 048616          150 TQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHK  217 (272)
Q Consensus       150 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  217 (272)
                      ...+...+.++..+|+.+.-.+++.++.+.+ .+++...-.+..+|.+.|+..++.+++.+..+.|++
T Consensus        86 se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   86 SEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             -HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            3445566667777777777777777776543 555666667777777777777777777777777654

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.58  E-value=0.28  Score=39.15  Aligned_cols=169  Identities=11%  Similarity=0.035  Sum_probs=108.1

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcC---CCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCCCHHh
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYG---CYPDAAAYNAAIRNYCI---AKRLRDASGLMDEMVEKGLSPNATT  117 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~  117 (272)
                      +..+...++-+|....+++..+++.+.+....   +......-....-++.+   .|+.++|++++..+......+++.+
T Consensus       140 s~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~  219 (374)
T PF13281_consen  140 SPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDT  219 (374)
T ss_pred             ChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHH
Confidence            34445566777999999999999999998652   11223333344556667   8999999999999766666678888


Q ss_pred             HHHHHHHHhh---------cCChhhHHHHHHHHHhCCCCCCHhh---HHHHHHHHHhcC-cHHHHHHHH---HH-HHHcC
Q 048616          118 YNLFFRVFYW---------SNDLRSSWNLYCRMMGTGCLPNTQS---CMFLVKLCKRQE-KVEIALQLW---ND-MVEKG  180 (272)
Q Consensus       118 ~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~-~~~~a~~~~---~~-~~~~~  180 (272)
                      |..+.+.|-.         ....++|...|.+.-+.  .|+...   +..++....... .-.+..++-   .. +.+.|
T Consensus       220 ~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg  297 (374)
T PF13281_consen  220 LGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKG  297 (374)
T ss_pred             HHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhc
Confidence            8888776532         22467788888876554  244433   222333222111 112222222   22 22233


Q ss_pred             C---CccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          181 F---GSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       181 ~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      .   ..+-..+..++.+..-.|+.++|.+..+.|.+.
T Consensus       298 ~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  298 SLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            2   234445567889999999999999999999875

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.55  E-value=0.41  Score=40.67  Aligned_cols=215  Identities=10%  Similarity=0.107  Sum_probs=113.6

Q ss_pred             HHHHHHHHhcCC--HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-HHHHHH-----
Q 048616           14 NCLIDVYCKDRQ--VEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD-AAAYNA-----   85 (272)
Q Consensus        14 ~~li~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~-----   85 (272)
                      +..=.+|.+..+  +-+.+.-++++.++|-.|+...   +...++-.|++.+|-++|.+-   |.+.. ...|+-     
T Consensus       602 ~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~---G~enRAlEmyTDlRMFD  675 (1081)
T KOG1538|consen  602 ETARKAYIRVRDLRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRS---GHENRALEMYTDLRMFD  675 (1081)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHc---CchhhHHHHHHHHHHHH
Confidence            333344544443  2233334456667777777643   445566677888888777653   22111 011110     


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc--CCCCCHHhHHHHHHHHhhcCChhhHHHHHHH------HHhCCC---CCCHhhHH
Q 048616           86 AIRNYCIAKRLRDASGLMDEMVEK--GLSPNATTYNLFFRVFYWSNDLRSSWNLYCR------MMGTGC---LPNTQSCM  154 (272)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~------~~~~~~---~~~~~~~~  154 (272)
                      ...-+...|+.++-..+.++-.+-  +++-    =.+....+...|+.++|..+.-+      +.+-+.   ..+..+..
T Consensus       676 ~aQE~~~~g~~~eKKmL~RKRA~WAr~~ke----PkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~  751 (1081)
T KOG1538|consen  676 YAQEFLGSGDPKEKKMLIRKRADWARNIKE----PKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLL  751 (1081)
T ss_pred             HHHHHhhcCChHHHHHHHHHHHHHhhhcCC----cHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHH
Confidence            112233333333333333222111  1110    11233445556666666654321      111111   22344555


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHh-----------H
Q 048616          155 FLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVS-----------F  223 (272)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~-----------~  223 (272)
                      .+...+.+...+..|-++|..|-+.         ..+++.....+++++|..+.+..-+.  .||...           |
T Consensus       752 ~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrF  820 (1081)
T KOG1538|consen  752 LCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRF  820 (1081)
T ss_pred             HHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhH
Confidence            5555556677778888888877543         35677788899999999888876543  344321           2


Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          224 RRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      .-.-.+|.++|+..+|.++++++...
T Consensus       821 eEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  821 EEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            22345788888888888888887543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.54  E-value=0.038  Score=41.65  Aligned_cols=89  Identities=19%  Similarity=0.245  Sum_probs=52.9

Q ss_pred             CcCHHhHHHHHHHHHhc-----CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC----------------ChhHHH
Q 048616            7 KPDIVSYNCLIDVYCKD-----RQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVG----------------QPDKAR   65 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a~   65 (272)
                      +.|-.+|-..+..+...     +.++-....++.|.+-|+.-|..+|+.|++.+-+..                +-+=++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            34555666666655433     445555555666667777777777777776654321                112356


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 048616           66 DVLKEMKEYGCYPDAAAYNAAIRNYCIAKR   95 (272)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (272)
                      +++++|...|+.||-.+-..|+++|.+.+-
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            666666666666666666666666655443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.51  E-value=0.21  Score=39.70  Aligned_cols=126  Identities=8%  Similarity=0.012  Sum_probs=88.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc-----CCC---------CCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhh
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEK-----GLS---------PNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQS  152 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~-----~~~---------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (272)
                      .+.|.+.|++..|...|++....     +..         .-...++.+..++.+.+++..|+..-......+ ++|...
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KA  293 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhH
Confidence            34577778888888777765432     111         122356677788899999999999998888775 667777


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHH-HHHHHHHHHHHc
Q 048616          153 CMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLV-EAEKSFLEMIEK  214 (272)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~-~a~~~~~~~~~~  214 (272)
                      ...--.++...|+++.|+..|+.+.+.. +.|..+-+.++..-.+..... ...++|..|...
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~~-P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKLE-PSNKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            7778889999999999999999998875 444455555555544444433 346777777643

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.47  E-value=0.069  Score=40.62  Aligned_cols=97  Identities=16%  Similarity=0.203  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048616           26 VEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDE  105 (272)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  105 (272)
                      +........+..+.   --..++..++..+...|+.+.+...++++.... +-+...|..+|.+|.+.|+...|+..|++
T Consensus       137 f~~WV~~~R~~l~e---~~~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~  212 (280)
T COG3629         137 FDEWVLEQRRALEE---LFIKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQ  212 (280)
T ss_pred             HHHHHHHHHHHHHH---HHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHH
Confidence            54544444444432   134567888899999999999999999998874 56888999999999999999999999988


Q ss_pred             HHH-----cCCCCCHHhHHHHHHHHh
Q 048616          106 MVE-----KGLSPNATTYNLFFRVFY  126 (272)
Q Consensus       106 ~~~-----~~~~~~~~~~~~l~~~~~  126 (272)
                      +..     .|+.|...+.........
T Consensus       213 l~~~~~edlgi~P~~~~~~~y~~~~~  238 (280)
T COG3629         213 LKKTLAEELGIDPAPELRALYEEILR  238 (280)
T ss_pred             HHHHhhhhcCCCccHHHHHHHHHHhc
Confidence            765     488898888777776643

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.45  E-value=0.13  Score=34.01  Aligned_cols=91  Identities=13%  Similarity=0.058  Sum_probs=51.3

Q ss_pred             HHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhH---HHHHHHHhhcCC
Q 048616           54 GLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTY---NLFFRVFYWSND  130 (272)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~  130 (272)
                      +.+..|+.+.|++.|.+.... .+-....||.-..++--.|+.++|+.=+.+..+..-.-+...+   ..-...|-..|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            455566666676666666654 2345566666666666666666666666665544211122222   222234555666


Q ss_pred             hhhHHHHHHHHHhCC
Q 048616          131 LRSSWNLYCRMMGTG  145 (272)
Q Consensus       131 ~~~a~~~~~~~~~~~  145 (272)
                      -+.|..-|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            666666666665554

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.45  E-value=0.15  Score=34.59  Aligned_cols=22  Identities=27%  Similarity=0.453  Sum_probs=10.2

Q ss_pred             HHHHHHHHhcCcHHHHHHHHHH
Q 048616          154 MFLVKLCKRQEKVEIALQLWND  175 (272)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~  175 (272)
                      ..+++.|.+.+.++++..++..
T Consensus        73 ~~~~~~c~~~~l~~~~~~l~~k   94 (140)
T smart00299       73 EKVGKLCEKAKLYEEAVELYKK   94 (140)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHh
Confidence            3344444444444444444443

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.44  E-value=0.1  Score=39.39  Aligned_cols=99  Identities=18%  Similarity=0.206  Sum_probs=75.7

Q ss_pred             CHhhHHHHHHHHHh-----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc----------------CCHHHHHHH
Q 048616           44 DVISYTSIIGGLGL-----VGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIA----------------KRLRDASGL  102 (272)
Q Consensus        44 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------~~~~~a~~~  102 (272)
                      |...|-..+..+..     .+.++-....++.|.+.|+..|..+|+.|++.+-+-                .+-+-++++
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~v  145 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKV  145 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHH
Confidence            56667777766643     356777777889999999999999999999875432                233557899


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHhhcCCh-hhHHHHHHHHH
Q 048616          103 MDEMVEKGLSPNATTYNLFFRVFYWSNDL-RSSWNLYCRMM  142 (272)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~  142 (272)
                      +++|...|+.||..+-..++.++.+.+.. .+..++.-.|.
T Consensus       146 LeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  146 LEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             HHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence            99999999999999999999999887765 34555555553

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.42  E-value=0.25  Score=38.38  Aligned_cols=152  Identities=6%  Similarity=-0.100  Sum_probs=86.3

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCCCHHhHHHHHHHHhhcCChhhH
Q 048616           58 VGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK---GLSPNATTYNLFFRVFYWSNDLRSS  134 (272)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a  134 (272)
                      .|+..+|-..++++.+. .+.|...+...=.++.-.|+.+.-...++++...   +++-.+..-..+.-++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            45566666666666654 4456666666666777777777777777776644   2211122223344455667777777


Q ss_pred             HHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc---HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048616          135 WNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSY---ILVSDVLFDLLCDMGKLVEAEKSFLEM  211 (272)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~  211 (272)
                      ++.-++..+.+ +.|.-.-.+....+.-.|++.++.++..+-...--..+   ..-|-...-.+...+.++.|+++|+.-
T Consensus       195 Ek~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~e  273 (491)
T KOG2610|consen  195 EKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDRE  273 (491)
T ss_pred             HHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHHH
Confidence            77777766554 34555566666666667777777776655433210000   111222233344557777777777643

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.40  E-value=0.46  Score=39.62  Aligned_cols=158  Identities=16%  Similarity=0.144  Sum_probs=104.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcC-CCCCHH------hHHHHHHHHhh----cCChhhHHHHHHHHHhCCCCCCHhhHHH
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKG-LSPNAT------TYNLFFRVFYW----SNDLRSSWNLYCRMMGTGCLPNTQSCMF  155 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~------~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (272)
                      ++...=.||-+.+++.+.+..+.+ +. .+.      .|+..+..++.    ..+.+.+.++++.+.+.  -|+...|..
T Consensus       195 l~~vGF~gdR~~GL~~L~~~~~~~~i~-~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~  271 (468)
T PF10300_consen  195 LSFVGFSGDRELGLRLLWEASKSENIR-SPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLF  271 (468)
T ss_pred             HhhcCcCCcHHHHHHHHHHHhccCCcc-hHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHH
Confidence            333444688899998888776542 22 221      34444443333    45668899999998776  566665554


Q ss_pred             HH-HHHHhcCcHHHHHHHHHHHHHcC---CCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHH-HHH
Q 048616          156 LV-KLCKRQEKVEIALQLWNDMVEKG---FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIK-ALM  230 (272)
Q Consensus       156 l~-~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~-~~~  230 (272)
                      .- +.+...|++++|.+.++......   .......+--+...+.-..++++|.+.|..+.+.. ..+...|.-+. .++
T Consensus       272 ~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~  350 (468)
T PF10300_consen  272 FEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAACL  350 (468)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHH
Confidence            43 45678899999999999755321   12333455567777888999999999999998864 34566666543 344


Q ss_pred             HHhhhH-------HHHHHHHHHHHh
Q 048616          231 ELANKQ-------EALQNLSNKMAL  248 (272)
Q Consensus       231 ~~~~~~-------~~a~~~~~~~~~  248 (272)
                      ...++.       ++|.+++.++..
T Consensus       351 ~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  351 LMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HhhccchhhhhhHHHHHHHHHHHHH
Confidence            555666       788888888654

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=96.39  E-value=0.18  Score=34.80  Aligned_cols=52  Identities=15%  Similarity=0.008  Sum_probs=26.4

Q ss_pred             hhcCChhhHHHHHHHHHhCCCCCCHhhHHH-HHHHHHhcCcHHHHHHHHHHHHHc
Q 048616          126 YWSNDLRSSWNLYCRMMGTGCLPNTQSCMF-LVKLCKRQEKVEIALQLWNDMVEK  179 (272)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~  179 (272)
                      .+.++.+++..++..+.-.  .|....... -...+...|++.+|..+|+++...
T Consensus        21 l~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            4455666666666666443  233222111 112334566666666666665544

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=96.37  E-value=0.32  Score=37.49  Aligned_cols=222  Identities=13%  Similarity=0.056  Sum_probs=126.9

Q ss_pred             HhcCCHHHHHHHHHHHhhCC--CCCCH------hhHHHHHHHHHhcC-ChhHHHHHHHHHHHc--------CCCCCH---
Q 048616           21 CKDRQVEKAYKIVEKMRDED--ISPDV------ISYTSIIGGLGLVG-QPDKARDVLKEMKEY--------GCYPDA---   80 (272)
Q Consensus        21 ~~~g~~~~a~~~~~~~~~~~--~~~~~------~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~~---   80 (272)
                      .+.|+.+.|...+.+.....  ..|+.      ..|+.-.. ..+.+ +++.|..++++..+.        ...|+.   
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~-l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKS-LLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHH-HHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            46899999999999887642  22332      12333333 33455 888888888776543        122332   


Q ss_pred             --HHHHHHHHHHHhcCCHH---HHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHH
Q 048616           81 --AAYNAAIRNYCIAKRLR---DASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMF  155 (272)
Q Consensus        81 --~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (272)
                        .++..++.+|...+..+   +|.++++.+...... .+..+..-+..+.+.++.+.+.+.+.+|...- ......+..
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~  160 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDS  160 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHH
Confidence              46677888888877654   455666666544322 34555566777777899999999999998762 223444555


Q ss_pred             HHHHH---HhcCcHHHHHHHHHHHHHcCCCccHH-HH-HHHHHH---HHhcC------CHHHHHHHHHHHHH-cCCCCcH
Q 048616          156 LVKLC---KRQEKVEIALQLWNDMVEKGFGSYIL-VS-DVLFDL---LCDMG------KLVEAEKSFLEMIE-KGHKPSQ  220 (272)
Q Consensus       156 l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~-~~-~~li~~---~~~~g------~~~~a~~~~~~~~~-~~~~p~~  220 (272)
                      ++..+   .... ...+...+..+....+.|... .. ..++..   ..+.+      +++...++++...+ .+.+.+.
T Consensus       161 ~l~~i~~l~~~~-~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~  239 (278)
T PF08631_consen  161 ILHHIKQLAEKS-PELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSA  239 (278)
T ss_pred             HHHHHHHHHhhC-cHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCH
Confidence            55544   3433 345666666655544444432 11 111111   11211      24555555554332 2233344


Q ss_pred             HhHHHH-------HHHHHHhhhHHHHHHHHHHH
Q 048616          221 VSFRRI-------KALMELANKQEALQNLSNKM  246 (272)
Q Consensus       221 ~~~~~l-------~~~~~~~~~~~~a~~~~~~~  246 (272)
                      .+-.++       ...+.+.++++.|.++|+-.
T Consensus       240 ~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  240 EAASAIHTLLWNKGKKHYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHH
Confidence            443333       33456678899999988853

It is also involved in sporulation [].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.35  E-value=0.39  Score=38.21  Aligned_cols=158  Identities=13%  Similarity=0.091  Sum_probs=77.0

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 048616           22 KDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASG  101 (272)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (272)
                      -.|+++.|.+-|+-|... +..-.--...|.-..-+.|+.+.|.+.-++.-... +--...+...+...+..|+|+.|++
T Consensus       132 ~eG~~~~Ar~kfeAMl~d-PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~Alk  209 (531)
T COG3898         132 LEGDYEDARKKFEAMLDD-PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALK  209 (531)
T ss_pred             hcCchHHHHHHHHHHhcC-hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHH
Confidence            357888888888877753 11011112222222345667777777666665442 1223456677777788888888888


Q ss_pred             HHHHHHHcC-CCCCHH--hHHHHHHHHh---hcCChhhHHHHHHHHHhCCCCCCHhh-HHHHHHHHHhcCcHHHHHHHHH
Q 048616          102 LMDEMVEKG-LSPNAT--TYNLFFRVFY---WSNDLRSSWNLYCRMMGTGCLPNTQS-CMFLVKLCKRQEKVEIALQLWN  174 (272)
Q Consensus       102 ~~~~~~~~~-~~~~~~--~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~  174 (272)
                      +++.-.... +.++..  .-..|+.+-.   -.-+...|.+.-.+..  .+.|+..- -....+++.+.|+..++-.+++
T Consensus       210 Lvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~--KL~pdlvPaav~AAralf~d~~~rKg~~ilE  287 (531)
T COG3898         210 LVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEAN--KLAPDLVPAAVVAARALFRDGNLRKGSKILE  287 (531)
T ss_pred             HHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHh--hcCCccchHHHHHHHHHHhccchhhhhhHHH
Confidence            877655332 222211  1111111100   0112333333322222  22344322 2223355666666666666666


Q ss_pred             HHHHcCCCc
Q 048616          175 DMVEKGFGS  183 (272)
Q Consensus       175 ~~~~~~~~~  183 (272)
                      .+-+....|
T Consensus       288 ~aWK~ePHP  296 (531)
T COG3898         288 TAWKAEPHP  296 (531)
T ss_pred             HHHhcCCCh
Confidence            666553333

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.28  E-value=0.54  Score=39.23  Aligned_cols=160  Identities=17%  Similarity=0.180  Sum_probs=106.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcC-CCCCH-----HHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 048616           50 SIIGGLGLVGQPDKARDVLKEMKEYG-CYPDA-----AAYNAAIRNYCI----AKRLRDASGLMDEMVEKGLSPNATTYN  119 (272)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-----~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  119 (272)
                      .++...+-.||-+.+++.+.+..+.+ +.-..     -.|+..+..++.    ..+.+.|.++++.+.+.  .|+...|.
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl  270 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFL  270 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHH
Confidence            34445566799999999998877643 22111     234444444433    45678899999999987  56776665


Q ss_pred             HH-HHHHhhcCChhhHHHHHHHHHhCCC---CCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHH-H
Q 048616          120 LF-FRVFYWSNDLRSSWNLYCRMMGTGC---LPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFD-L  194 (272)
Q Consensus       120 ~l-~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~-~  194 (272)
                      .. .+.+...|++++|.+.|++......   +.....+--+.-.+.-..++++|.+.|..+.+.. ..+..+|.-+.- +
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHH
Confidence            43 3566778999999999997653211   1122334445566778899999999999999875 445555544333 3


Q ss_pred             HHhcCCH-------HHHHHHHHHHH
Q 048616          195 LCDMGKL-------VEAEKSFLEMI  212 (272)
Q Consensus       195 ~~~~g~~-------~~a~~~~~~~~  212 (272)
                      +...|+.       ++|.++|.+..
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHH
Confidence            4567777       88888887664

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.27  E-value=0.35  Score=39.88  Aligned_cols=105  Identities=14%  Similarity=0.038  Sum_probs=47.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh
Q 048616           48 YTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW  127 (272)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (272)
                      .+.++..+-+.|-.+.|+++-++-..            -.....+.|+++.|.++.+++      ++...|..|.....+
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL~  359 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLDIALEIAKEL------DDPEKWKQLGDEALR  359 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHHH
Confidence            45555555555555555554332211            123344455555555443322      244455555555555


Q ss_pred             cCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 048616          128 SNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK  179 (272)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (272)
                      .|+++-|++.|++..         -+..++-.|.-.|+.+...++.+.....
T Consensus       360 ~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  360 QGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             TTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            555555555554432         1333444444455555544444444433

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.26  E-value=0.2  Score=34.01  Aligned_cols=84  Identities=11%  Similarity=0.030  Sum_probs=42.0

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcC
Q 048616           50 SIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSN  129 (272)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  129 (272)
                      .++..+.+.+.......+++.+...+ ..+...++.++..|++.+ ..+..+.+..   .   ++......++..|.+.+
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~---~---~~~yd~~~~~~~c~~~~   83 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN---K---SNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh---c---cccCCHHHHHHHHHHcC
Confidence            34555555555566666666655554 245555566666665542 2223333321   1   12233344555666666


Q ss_pred             ChhhHHHHHHHH
Q 048616          130 DLRSSWNLYCRM  141 (272)
Q Consensus       130 ~~~~a~~~~~~~  141 (272)
                      .++++.-++.++
T Consensus        84 l~~~~~~l~~k~   95 (140)
T smart00299       84 LYEEAVELYKKD   95 (140)
T ss_pred             cHHHHHHHHHhh
Confidence            666666666554

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.25  E-value=0.028  Score=29.43  Aligned_cols=27  Identities=19%  Similarity=0.198  Sum_probs=14.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616           83 YNAAIRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      +..+...|.+.|++++|+++|++.++.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444455555555555555555555554

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.21  E-value=0.48  Score=37.92  Aligned_cols=158  Identities=11%  Similarity=0.071  Sum_probs=94.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhH---HHHH-------
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSC---MFLV-------  157 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~-------  157 (272)
                      .++.-.|+.++|.+.--...+.... +......--.++...++.+.+...|++....+  |+...-   ....       
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld~~-n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k  253 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLDAT-NAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKK  253 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhcccc-hhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHH
Confidence            3455667777777776666655221 22222222233445667777888887776553  443221   1111       


Q ss_pred             ---HHHHhcCcHHHHHHHHHHHHHc---CCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH-HhHHHHHHHH
Q 048616          158 ---KLCKRQEKVEIALQLWNDMVEK---GFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQ-VSFRRIKALM  230 (272)
Q Consensus       158 ---~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~  230 (272)
                         .-..+.|++..|.+.|.+.+..   +..++...|........+.|+.++|+.--++..+.  .|.. ..|..-..++
T Consensus       254 ~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i--D~syikall~ra~c~  331 (486)
T KOG0550|consen  254 ERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI--DSSYIKALLRRANCH  331 (486)
T ss_pred             hhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc--CHHHHHHHHHHHHHH
Confidence               2234678888888888887755   34566666766666777888888888887777653  2111 1122234456


Q ss_pred             HHhhhHHHHHHHHHHHHhcC
Q 048616          231 ELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       231 ~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ...+++++|.+-+++..+..
T Consensus       332 l~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  332 LALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHHHHHHHhhc
Confidence            66778888888887766544

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.19  E-value=0.17  Score=41.69  Aligned_cols=131  Identities=14%  Similarity=0.060  Sum_probs=92.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYC   91 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (272)
                      ..+.++..+-+.|..+.|+++..         |+   ..-.....+.|+++.|.++.++.      .+...|..|.....
T Consensus       297 ~~~~i~~fL~~~G~~e~AL~~~~---------D~---~~rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL  358 (443)
T PF04053_consen  297 QGQSIARFLEKKGYPELALQFVT---------DP---DHRFELALQLGNLDIALEIAKEL------DDPEKWKQLGDEAL  358 (443)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHSS----------H---HHHHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHhhcC---------Ch---HHHhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHH
Confidence            36667777777777777776642         22   23456667889999998775443      47789999999999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHH
Q 048616           92 IAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQ  171 (272)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  171 (272)
                      +.|+++-|++.|.+..+         |..|+-.|.-.|+.++..++.+.....|      -++....++...|+.++..+
T Consensus       359 ~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~------~~n~af~~~~~lgd~~~cv~  423 (443)
T PF04053_consen  359 RQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG------DINIAFQAALLLGDVEECVD  423 (443)
T ss_dssp             HTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHH
T ss_pred             HcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc------CHHHHHHHHHHcCCHHHHHH
Confidence            99999999999987643         5667778888999888888887777665      24555566667788888877


Q ss_pred             HHHH
Q 048616          172 LWND  175 (272)
Q Consensus       172 ~~~~  175 (272)
                      ++.+
T Consensus       424 lL~~  427 (443)
T PF04053_consen  424 LLIE  427 (443)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7754

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.17  E-value=0.35  Score=35.91  Aligned_cols=195  Identities=13%  Similarity=0.080  Sum_probs=99.2

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC------HhhHHHHHHHHHhcCChhHHHHHHHHHH----HcCCCCCH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPD------VISYTSIIGGLGLVGQPDKARDVLKEMK----EYGCYPDA   80 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~   80 (272)
                      ..|..-..+|....++++|...+.+..+- ...+      ...|...+...-....+.++..++++..    +.| .|++
T Consensus        32 s~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~G-spdt  109 (308)
T KOG1585|consen   32 SLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECG-SPDT  109 (308)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhC-Ccch
Confidence            45666667787888888888877666531 1112      2234444444455566667777776654    333 3443


Q ss_pred             HHHHH-HHHHHHhcCCHHHHHHHHHHHHHc---CCC--CCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC----CCCCC-
Q 048616           81 AAYNA-AIRNYCIAKRLRDASGLMDEMVEK---GLS--PNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT----GCLPN-  149 (272)
Q Consensus        81 ~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~---~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-  149 (272)
                      ..... -..-....-++++|+++|++....   +-.  --...+...-..+++.+.+.+|-..+.+-...    .--++ 
T Consensus       110 AAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~  189 (308)
T KOG1585|consen  110 AAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQ  189 (308)
T ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccH
Confidence            32210 011123445667777777665422   100  01223444555666666666655544332110    00111 


Q ss_pred             HhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC---CCccHHHHHHHHHHHHhcCCHHHHHHHH
Q 048616          150 TQSCMFLVKLCKRQEKVEIALQLWNDMVEKG---FGSYILVSDVLFDLLCDMGKLVEAEKSF  208 (272)
Q Consensus       150 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~  208 (272)
                      -..|...|-.+....++..|+..++.--+.+   -.-+..+...|+.+| ..|+.+++.+++
T Consensus       190 ~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  190 CKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            1234445555556667777777776633321   123445556666665 456666666554

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.13  E-value=0.14  Score=39.07  Aligned_cols=78  Identities=5%  Similarity=0.055  Sum_probs=50.3

Q ss_pred             HhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHH-----cCCCccHHHHHH
Q 048616          116 TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVE-----KGFGSYILVSDV  190 (272)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~  190 (272)
                      .++..++..+...++.+.+.+.++++.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            345566666666777777777777666653 45666677777777777777777766666554     366666666555


Q ss_pred             HHHH
Q 048616          191 LFDL  194 (272)
Q Consensus       191 li~~  194 (272)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5555

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.11  E-value=0.39  Score=35.90  Aligned_cols=186  Identities=11%  Similarity=0.058  Sum_probs=100.2

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYG--CYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFF  122 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (272)
                      ...|+..+. -.+.|++++|.+.|+.+..+.  -+-...+.-.++.++.+.+++++|+..+++.....+......|-.-|
T Consensus        35 ~~LY~~g~~-~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Yl  113 (254)
T COG4105          35 SELYNEGLT-ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYL  113 (254)
T ss_pred             HHHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHH
Confidence            334444443 446788888888888888652  12234455666777788888888888888888775444444555555


Q ss_pred             HHHhhc-------CChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 048616          123 RVFYWS-------NDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLL  195 (272)
Q Consensus       123 ~~~~~~-------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  195 (272)
                      .+++.-       ++...+..-+..+.            .++.-|=.+.-...|..-+..+...=-..+    ..+.+.|
T Consensus       114 kgLs~~~~i~~~~rDq~~~~~A~~~f~------------~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~E----m~IaryY  177 (254)
T COG4105         114 KGLSYFFQIDDVTRDQSAARAAFAAFK------------ELVQRYPNSRYAPDAKARIVKLNDALAGHE----MAIARYY  177 (254)
T ss_pred             HHHHHhccCCccccCHHHHHHHHHHHH------------HHHHHCCCCcchhhHHHHHHHHHHHHHHHH----HHHHHHH
Confidence            555531       22222222222221            111111111112222222222211100000    2456677


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcHHh---HHHHHHHHHHhhhHHHHHHHHHHHHh
Q 048616          196 CDMGKLVEAEKSFLEMIEKGHKPSQVS---FRRIKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       196 ~~~g~~~~a~~~~~~~~~~~~~p~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                      .+.|.+..|..-+++|++. .+-+..+   +-.+..+|...|-.++|...-+-+..
T Consensus       178 ~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         178 LKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            7888888888888888776 2222222   23356677777777777766655544

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.08  E-value=0.4  Score=35.82  Aligned_cols=81  Identities=14%  Similarity=0.020  Sum_probs=56.4

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCC--CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDI--SPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      ...|+.-+. -.+.|++++|.+.|+.+....+  +-...+...++-++.+.++++.|+..+++....-......-|..-|
T Consensus        35 ~~LY~~g~~-~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Yl  113 (254)
T COG4105          35 SELYNEGLT-ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYL  113 (254)
T ss_pred             HHHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHH
Confidence            345555554 4589999999999999987532  2234556667778889999999999999998764333334444445


Q ss_pred             HHHH
Q 048616           88 RNYC   91 (272)
Q Consensus        88 ~~~~   91 (272)
                      .+++
T Consensus       114 kgLs  117 (254)
T COG4105         114 KGLS  117 (254)
T ss_pred             HHHH
Confidence            5444

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.99  E-value=0.4  Score=35.01  Aligned_cols=225  Identities=15%  Similarity=0.062  Sum_probs=142.9

Q ss_pred             cCCHHHHHHHHHHHhhCCCC-CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCCHHHHH
Q 048616           23 DRQVEKAYKIVEKMRDEDIS-PDVISYTSIIGGLGLVGQPDKARDVLKEMKEY-GCYPDAAAYNAAIRNYCIAKRLRDAS  100 (272)
Q Consensus        23 ~g~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (272)
                      .+....+...+......... .....+......+...+++..+...+...... ........+......+...++...+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            46666677777666654322 13556677777777888888888877777652 23345566666677777777788888


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHH-HHhhcCChhhHHHHHHHHHhCCC--CCCHhhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 048616          101 GLMDEMVEKGLSPNATTYNLFFR-VFYWSNDLRSSWNLYCRMMGTGC--LPNTQSCMFLVKLCKRQEKVEIALQLWNDMV  177 (272)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (272)
                      +.+.........+ ......... .+...++++.+...+.+......  ......+......+...++.+.+...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            8888877654332 122222333 67788888888888888754221  1223334444444667788888888888877


Q ss_pred             HcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-HHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          178 EKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS-QVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       178 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ..........+..+...+...++++.+...+......  .|+ ...+..+...+...+..+.+...+.+.....
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (291)
T COG0457         195 KLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALELD  266 (291)
T ss_pred             hhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            6642213566677777777888888888888887765  333 3334444444445566777777777766544

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.95  E-value=0.034  Score=29.12  Aligned_cols=27  Identities=15%  Similarity=0.209  Sum_probs=14.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 048616           13 YNCLIDVYCKDRQVEKAYKIVEKMRDE   39 (272)
Q Consensus        13 ~~~li~~~~~~g~~~~a~~~~~~~~~~   39 (272)
                      |..+...|.+.|++++|+++|++..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444455555555555555555555554

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.90  E-value=0.61  Score=36.42  Aligned_cols=154  Identities=8%  Similarity=-0.004  Sum_probs=107.2

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHhcCCHHH
Q 048616           22 KDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY---GCYPDAAAYNAAIRNYCIAKRLRD   98 (272)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~   98 (272)
                      ..|+..+|-..++++++. .|.|...+...=.+|.-.|+.+.-...++++...   +++....+...+.-++..+|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            356777888888888875 4557788888888999999999988999988754   222222333344455678999999


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC---CCCCCHhhHHHHHHHHHhcCcHHHHHHHHHH
Q 048616           99 ASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT---GCLPNTQSCMFLVKLCKRQEKVEIALQLWND  175 (272)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (272)
                      |++.-++..+.+.. |...-.+....+..+++..++.++..+-...   +-..-...|=...-.+...+.++.|+++|+.
T Consensus       194 AEk~A~ralqiN~~-D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQINRF-DCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCCCc-chHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            99999999887643 7777888889999999999998887654221   1000011122222234456899999999976


Q ss_pred             HH
Q 048616          176 MV  177 (272)
Q Consensus       176 ~~  177 (272)
                      -.
T Consensus       273 ei  274 (491)
T KOG2610|consen  273 EI  274 (491)
T ss_pred             HH
Confidence            43

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.78  E-value=0.32  Score=32.29  Aligned_cols=92  Identities=12%  Similarity=0.021  Sum_probs=68.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhh---HHHHHHHHHhcC
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQS---CMFLVKLCKRQE  164 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~  164 (272)
                      -+....|+++.|++.|.+.+..-++ ....||.-..++--.|+.++|++-+++..+..-.-+...   |..-...|...|
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~-raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPE-RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhccc-chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            3567889999999999998876433 778899999999999999999998888766422223333   333334566788


Q ss_pred             cHHHHHHHHHHHHHcC
Q 048616          165 KVEIALQLWNDMVEKG  180 (272)
Q Consensus       165 ~~~~a~~~~~~~~~~~  180 (272)
                      +.+.|..=|...-+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            8888888887776665

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.70  E-value=0.63  Score=39.62  Aligned_cols=194  Identities=13%  Similarity=0.122  Sum_probs=109.1

Q ss_pred             CCCCCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHH-----HHHHHHhcCChhHHHHHHHHHHHc-
Q 048616            1 MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTS-----IIGGLGLVGQPDKARDVLKEMKEY-   74 (272)
Q Consensus         1 M~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-----l~~~~~~~~~~~~a~~~~~~~~~~-   74 (272)
                      |+++|-.|+.....   ..++-.|++.+|-++|.+--..+-  -...|+-     ...-+...|+.++-..+.++-.+. 
T Consensus       626 ~k~rge~P~~iLlA---~~~Ay~gKF~EAAklFk~~G~enR--AlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~WA  700 (1081)
T KOG1538|consen  626 RKKRGETPNDLLLA---DVFAYQGKFHEAAKLFKRSGHENR--ALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADWA  700 (1081)
T ss_pred             HHhcCCCchHHHHH---HHHHhhhhHHHHHHHHHHcCchhh--HHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHh
Confidence            45677778876543   445667888888888865322110  0111111     222334445444444444333221 


Q ss_pred             -CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH------HHHHcCCCC---CHHhHHHHHHHHhhcCChhhHHHHHHHHHhC
Q 048616           75 -GCYPDAAAYNAAIRNYCIAKRLRDASGLMD------EMVEKGLSP---NATTYNLFFRVFYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus        75 -~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~------~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (272)
                       +++-.    .+...++...|+.++|..+.-      -+.+.+-+.   +..+...+..-+.+...+.-|-++|..|-..
T Consensus       701 r~~keP----kaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~  776 (1081)
T KOG1538|consen  701 RNIKEP----KAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL  776 (1081)
T ss_pred             hhcCCc----HHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccH
Confidence             11111    223455667788888876532      222222222   3445555555566677788899999887432


Q ss_pred             CCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH-----------HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          145 GCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYI-----------LVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       145 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                               ..++......++|++|..+-+...+.  .+++           .-|..--.+|.+.|+-.+|.++++++..
T Consensus       777 ---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  777 ---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             ---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence                     34666777889999999887765443  2332           1223344567788888888888887754


Q ss_pred             c
Q 048616          214 K  214 (272)
Q Consensus       214 ~  214 (272)
                      .
T Consensus       846 n  846 (1081)
T KOG1538|consen  846 N  846 (1081)
T ss_pred             h
Confidence            4

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.66  E-value=0.76  Score=35.74  Aligned_cols=130  Identities=18%  Similarity=0.219  Sum_probs=81.8

Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh--c----CCHHHHHHHHHHHHHcCCC---CCHHhHHHHHHHHhhcCCh
Q 048616           61 PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI--A----KRLRDASGLMDEMVEKGLS---PNATTYNLFFRVFYWSNDL  131 (272)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~----~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~  131 (272)
                      +++.+.+++.|.+.|++.+..+|-+.......  .    .....|.++|+.|.+..+-   ++...+..++..  ..++.
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            44567788889999998887766554333332  1    2356788999999987432   344455555443  33333


Q ss_pred             ----hhHHHHHHHHHhCCCCCCH--hhHHHHHHHHHhcCc--HHHHHHHHHHHHHcCCCccHHHHHHHH
Q 048616          132 ----RSSWNLYCRMMGTGCLPNT--QSCMFLVKLCKRQEK--VEIALQLWNDMVEKGFGSYILVSDVLF  192 (272)
Q Consensus       132 ----~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~li  192 (272)
                          +.++.+|+.+.+.|+..+.  .....++..+.....  ...+.++++.+.+.|+++....|..+.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence                5567788888877766543  334444443332222  457888999999999888776665543

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=95.60  E-value=0.44  Score=33.93  Aligned_cols=96  Identities=9%  Similarity=0.107  Sum_probs=58.8

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCCCHHhHHH
Q 048616           46 ISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD--AAAYNAAIRNYCIAKRLRDASGLMDEMVEK---GLSPNATTYNL  120 (272)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~  120 (272)
                      ..+..+...|.+.|+.++|.+.|.++.+....+.  ...+-.++....-.+++..+...+.+....   |..++...--.
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            4567778888888888888888888776543333  335566777777788888887777665533   22111111111


Q ss_pred             HHH--HHhhcCChhhHHHHHHHH
Q 048616          121 FFR--VFYWSNDLRSSWNLYCRM  141 (272)
Q Consensus       121 l~~--~~~~~~~~~~a~~~~~~~  141 (272)
                      ...  .+...+++..|-+.|-..
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHcc
Confidence            111  234467788877777655

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.54  E-value=0.48  Score=38.02  Aligned_cols=240  Identities=13%  Similarity=0.039  Sum_probs=135.0

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHH--Hhh--CCCC-CCHhhHHHHHHHHHhcCChhHHHHHHHH-H---HHcCCC-CCH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEK--MRD--EDIS-PDVISYTSIIGGLGLVGQPDKARDVLKE-M---KEYGCY-PDA   80 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~--~~~--~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~---~~~~~~-~~~   80 (272)
                      ..|..|-++|.-.+++++|++.-..  ...  .|-+ -.......|.+.+--.|.+++|+-.-.+ +   .+.|-. ...
T Consensus        56 AIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~  135 (639)
T KOG1130|consen   56 AIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTLKVKGAFDEALTCCFRHLDFARELGDRVLES  135 (639)
T ss_pred             HHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchhhhhcccchHHHHHHHHhHHHHHHhHHHhhh
Confidence            4566777777778889998886432  111  0100 0122233344444455666666543221 1   122211 123


Q ss_pred             HHHHHHHHHHHhcCC--------------------HHHHHHHHHHHHHc----CCC-CCHHhHHHHHHHHhhcCChhhHH
Q 048616           81 AAYNAAIRNYCIAKR--------------------LRDASGLMDEMVEK----GLS-PNATTYNLFFRVFYWSNDLRSSW  135 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~  135 (272)
                      ..+..+...|...|+                    ++.|.++|.+=++.    |-. ..-..|..|-..|.-.|+++.|+
T Consensus       136 RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai  215 (639)
T KOG1130|consen  136 RALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAI  215 (639)
T ss_pred             HHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHH
Confidence            455556666665442                    33344444332211    100 01234555666666778898887


Q ss_pred             HHHHHH----HhCCCC-CCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc----C-CCccHHHHHHHHHHHHhcCCHHHHH
Q 048616          136 NLYCRM----MGTGCL-PNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK----G-FGSYILVSDVLFDLLCDMGKLVEAE  205 (272)
Q Consensus       136 ~~~~~~----~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~li~~~~~~g~~~~a~  205 (272)
                      ..-+.-    .+.|-+ .....+..+..++.-.|+++.|.+.|+.....    | -.......-+|...|.-...+++|+
T Consensus       216 ~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI  295 (639)
T KOG1130|consen  216 HFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAI  295 (639)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHH
Confidence            665432    222322 23456778888888999999999988775432    2 1222333445777777778888888


Q ss_pred             HHHHHHHHc-----CCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          206 KSFLEMIEK-----GHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       206 ~~~~~~~~~-----~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      .++.+-+..     ...-....+.+|..++...|..++|..+...-++..
T Consensus       296 ~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~s  345 (639)
T KOG1130|consen  296 TYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRSS  345 (639)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence            887654321     112344567778888888888888888777655443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.52  E-value=0.45  Score=32.20  Aligned_cols=70  Identities=13%  Similarity=0.067  Sum_probs=32.7

Q ss_pred             HhcCChhHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 048616           56 GLVGQPDKARDVLKEMKEYGC--YPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVF  125 (272)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (272)
                      .+.|++++|.+.|+.+..+-.  +-.....-.++.+|.+.+++++|...+++.++.++.....-|-..+.++
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL   92 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGL   92 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHH
Confidence            345555555555555554310  1122334445555555555555555555555554332233333333333

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.51  E-value=0.36  Score=37.22  Aligned_cols=128  Identities=10%  Similarity=0.082  Sum_probs=78.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHH----------HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCCCHHh
Q 048616           51 IIGGLGLVGQPDKARDVLKEMK----------EYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK---GLSPNATT  117 (272)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~----------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~  117 (272)
                      |.++|.....|+.-....-++-          ..|.+.+..+...++..-....+++.++..+-++...   -..|+...
T Consensus        25 LsS~fs~e~~w~~r~~~~~kla~~g~~~~kkF~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~  104 (418)
T KOG4570|consen   25 LSSAFSDEHKWEAREKEHYKLADLGSLMDKKFERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI  104 (418)
T ss_pred             hHHHhhhhhhhhHHHHHHHHHhcccccchhhhhcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH
Confidence            4555666666655444432332          2234445555555565555567778887777777643   11222222


Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 048616          118 YNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG  180 (272)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (272)
                      + +.++. +-.-++++++.++..=++.|+-||..+++.+++.+.+.+++.+|.++.-.|....
T Consensus       105 ~-~~irl-llky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  105 H-TWIRL-LLKYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             H-HHHHH-HHccChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            1 22222 2334667777777777788888888888888888888888888888777776554

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.48  E-value=0.43  Score=31.76  Aligned_cols=139  Identities=15%  Similarity=0.161  Sum_probs=77.0

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 048616           22 KDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASG  101 (272)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (272)
                      -.|.+++..++..+...+.   +..-+|-+|--....-+-+-..++++.+   |---|..          .+|++.....
T Consensus        14 ldG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsI---GkiFDis----------~C~NlKrVi~   77 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSI---GKIFDIS----------KCGNLKRVIE   77 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHH---GGGS-GG----------G-S-THHHHH
T ss_pred             HhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHH---hhhcCch----------hhcchHHHHH
Confidence            3566666677766665532   3344444554444444444433333333   2112221          2344443333


Q ss_pred             HHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 048616          102 LMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGF  181 (272)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (272)
                      .+-.+   |  .++......+..+...|.-+...+++..+...+ .++......+..+|.+.|+..++.+++.+.-+.|+
T Consensus        78 C~~~~---n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   78 CYAKR---N--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHT---T-----HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHh---c--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            33222   1  145566778888889999999999998886543 67788888899999999999999999999888875


Q ss_pred             C
Q 048616          182 G  182 (272)
Q Consensus       182 ~  182 (272)
                      +
T Consensus       152 k  152 (161)
T PF09205_consen  152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            3

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.41  E-value=1.1  Score=35.87  Aligned_cols=190  Identities=13%  Similarity=0.037  Sum_probs=115.9

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHH--HHhcCChhHHHHHHHHHHHcCCCCCHHH--HHHHHHHHHhcCCHHH
Q 048616           23 DRQVEKAYKIVEKMRDEDISPDVISYTSIIGG--LGLVGQPDKARDVLKEMKEYGCYPDAAA--YNAAIRNYCIAKRLRD   98 (272)
Q Consensus        23 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~   98 (272)
                      .|+-..|.+.-.+..+. +.-|......++.+  -.-.|+++.|.+-|+.|...   |....  ..-|.-.--+.|+.+.
T Consensus        97 AGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~Garea  172 (531)
T COG3898          97 AGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREA  172 (531)
T ss_pred             cCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHH
Confidence            46666776666554322 22244444444443  33469999999999999853   32222  2223333457889999


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCC-CCCCHh--hHHHHHHH--HHh-cCcHHHHHHH
Q 048616           99 ASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTG-CLPNTQ--SCMFLVKL--CKR-QEKVEIALQL  172 (272)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~--~~~~l~~~--~~~-~~~~~~a~~~  172 (272)
                      |.++-++.-..... -...+...+...+..|+|+.|+++++.-.... +.++..  .-..|+.+  -.. .-+...|...
T Consensus       173 Ar~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~  251 (531)
T COG3898         173 ARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDD  251 (531)
T ss_pred             HHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHH
Confidence            99888887766433 35677889999999999999999998765432 233332  12222222  111 2245566655


Q ss_pred             HHHHHHcCCCccHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc
Q 048616          173 WNDMVEKGFGSYILV-SDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS  219 (272)
Q Consensus       173 ~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~  219 (272)
                      -.+..+.  .|+..- -..-..++.+.|+..++-.+++.+=+....|+
T Consensus       252 A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~  297 (531)
T COG3898         252 ALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD  297 (531)
T ss_pred             HHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH
Confidence            5554443  444322 12334678899999999999998877655554

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.40  E-value=0.16  Score=39.02  Aligned_cols=104  Identities=19%  Similarity=0.288  Sum_probs=72.6

Q ss_pred             CCCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCC---CCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH
Q 048616            4 MGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDED---ISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA   80 (272)
Q Consensus         4 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (272)
                      .|.+.++.+...++..-....+++.++..+-+++...   ..|+. +-...++.+.+ =++++++.++..=.+.|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irlllk-y~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHHHc-cChHHHHHHHhCcchhccccch
Confidence            3555666666666666666778888888877776431   12222 12223333332 3577888888888888999999


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      .+++.+|..+.+.+++.+|.++.-.|...
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            99999999999999999988888777654

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.39  E-value=0.89  Score=34.80  Aligned_cols=147  Identities=12%  Similarity=0.037  Sum_probs=98.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCCh
Q 048616           52 IGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDL  131 (272)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (272)
                      .......|++.+|..+|+...+..- -+...--.+..+|...|+.+.|..++..+...--.........-|..+.+....
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~~-~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAAP-ENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhCc-ccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            3445678899999999999887642 345666678889999999999999999887552222333333445666666666


Q ss_pred             hhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC-CccHHHHHHHHHHHHhcCCH
Q 048616          132 RSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGF-GSYILVSDVLFDLLCDMGKL  201 (272)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~  201 (272)
                      .+...+-.+.-..  +-|...-..+...+...|+.+.|.+.+-.+.+.+. .-|...-..+++.+.--|.-
T Consensus       220 ~~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~  288 (304)
T COG3118         220 PEIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPA  288 (304)
T ss_pred             CCHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCC
Confidence            6666666555443  33666667777888889999999887777665532 22334445666666555533

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=95.38  E-value=0.32  Score=34.63  Aligned_cols=62  Identities=16%  Similarity=0.119  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HHhHHHHHHHHhhcCChhhHHHHHHHHH
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPN--ATTYNLFFRVFYWSNDLRSSWNLYCRMM  142 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (272)
                      ..+..+...|.+.|+.+.|.+.|.++.+....+.  ...+-.+|+.....+++..+...+.+..
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3566777778888888888888888776643332  2345566677777777777777766653

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=95.37  E-value=0.57  Score=32.41  Aligned_cols=20  Identities=25%  Similarity=0.303  Sum_probs=10.0

Q ss_pred             HHhcCCHHHHHHHHHHHHHc
Q 048616           90 YCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~  109 (272)
                      +.+.|++.+|..+|+++.+.
T Consensus        54 ~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   54 HIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HHHhCCHHHHHHHHHHHhcc
Confidence            44445555555555554443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.36  E-value=1.2  Score=36.25  Aligned_cols=132  Identities=9%  Similarity=0.154  Sum_probs=88.3

Q ss_pred             HHhHHHHHHHHhhcCChhhHHHHHHHHHhCC-CCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 048616          115 ATTYNLFFRVFYWSNDLRSSWNLYCRMMGTG-CLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFD  193 (272)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  193 (272)
                      ...|...+....+..-.+.|..+|-++.+.+ +.++..++++++..++ .|+...|..+|+.-... ++.+....+-.+.
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~-f~d~~~y~~kyl~  474 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK-FPDSTLYKEKYLL  474 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh-CCCchHHHHHHHH
Confidence            3456667777777777888888888887776 5677777888877764 56777788888764443 1223333345666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCc--HHhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          194 LLCDMGKLVEAEKSFLEMIEKGHKPS--QVSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       194 ~~~~~g~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      .+...++-+.|..+|+..+++ +..+  ...|..++..=..-|+...+..+-++|.+.
T Consensus       475 fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~  531 (660)
T COG5107         475 FLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL  531 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH
Confidence            777788888888888855443 2222  356777777777777777777776666653

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.31  E-value=1.7  Score=37.56  Aligned_cols=184  Identities=9%  Similarity=0.016  Sum_probs=90.8

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhh-CCCCCC--------HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCC
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRD-EDISPD--------VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCY   77 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   77 (272)
                      .|-...|..+.......-.++.|+..|-+... .|++.-        ...-..=+.  +--|++++|.+++-++-++.+ 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~--~~~g~feeaek~yld~drrDL-  765 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEIS--AFYGEFEEAEKLYLDADRRDL-  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHh--hhhcchhHhhhhhhccchhhh-
Confidence            46677888887777777777888777765543 222210        000011111  223778888887777655432 


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--CCHHhHHHHHHHHhhcCChhhHHHHHHH-------------HH
Q 048616           78 PDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS--PNATTYNLFFRVFYWSNDLRSSWNLYCR-------------MM  142 (272)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~-------------~~  142 (272)
                              .+..+.+.|++-...++++.-. .+..  .-...|+.+...+.....|++|.+.|..             +.
T Consensus       766 --------Aielr~klgDwfrV~qL~r~g~-~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~e~~~ecly~le  836 (1189)
T KOG2041|consen  766 --------AIELRKKLGDWFRVYQLIRNGG-SDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDTENQIECLYRLE  836 (1189)
T ss_pred             --------hHHHHHhhhhHHHHHHHHHccC-CCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHhHHHHHHHHH
Confidence                    2334444455444444332210 0000  0012333333333333333333333322             10


Q ss_pred             --------hCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048616          143 --------GTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEM  211 (272)
Q Consensus       143 --------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  211 (272)
                              ...++-+....-.+...+...|.-++|.+.+-+   .+ .|     ..-+..|....++.+|.++.+..
T Consensus       837 ~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr---~s-~p-----kaAv~tCv~LnQW~~avelaq~~  904 (1189)
T KOG2041|consen  837 LFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLR---RS-LP-----KAAVHTCVELNQWGEAVELAQRF  904 (1189)
T ss_pred             hhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHh---cc-Cc-----HHHHHHHHHHHHHHHHHHHHHhc
Confidence                    012233445555666777777777777665532   22 22     23456677777777777776654

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.26  E-value=1.6  Score=37.79  Aligned_cols=185  Identities=12%  Similarity=0.072  Sum_probs=102.1

Q ss_pred             CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc-CCC--------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 048616           42 SPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY-GCY--------PDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS  112 (272)
Q Consensus        42 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  112 (272)
                      .|.+..|..+.......-+++-|...|-+.... |++        .+...-.+=+.+|  -|++++|++++-++-...  
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrD--  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRD--  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhh--
Confidence            577888888887777777777777776655431 221        1112222223333  388999999987776542  


Q ss_pred             CCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC-C-------------CCCCHhhHHHHHHHHHhcCcHHHHHHHHHH---
Q 048616          113 PNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT-G-------------CLPNTQSCMFLVKLCKRQEKVEIALQLWND---  175 (272)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~---  175 (272)
                             ..|..+.+.|+|-.+.++++.--.. +             .-.+...|......|...|+.+.-.+.+-.   
T Consensus       765 -------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~e~~~ecly~le~  837 (1189)
T KOG2041|consen  765 -------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDTENQIECLYRLEL  837 (1189)
T ss_pred             -------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHhHHHHHHHHHh
Confidence                   2345555566665555555421000 0             011222344444444444444332222211   


Q ss_pred             ---HHH--cCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHH
Q 048616          176 ---MVE--KGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKM  246 (272)
Q Consensus       176 ---~~~--~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (272)
                         +..  ..++-+....-.+.+++.+.|.-++|.+.+-+-   +. |     ...+..|...+++.+|.++-++.
T Consensus       838 f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~---s~-p-----kaAv~tCv~LnQW~~avelaq~~  904 (1189)
T KOG2041|consen  838 FGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLRR---SL-P-----KAAVHTCVELNQWGEAVELAQRF  904 (1189)
T ss_pred             hhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHhc---cC-c-----HHHHHHHHHHHHHHHHHHHHHhc
Confidence               111  123445556667778888888888888776443   11 1     23566788888888888877764

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=95.25  E-value=0.66  Score=32.49  Aligned_cols=131  Identities=12%  Similarity=0.169  Sum_probs=56.3

Q ss_pred             HHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 048616           33 VEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS  112 (272)
Q Consensus        33 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  112 (272)
                      ++.+.+.+++|+...+..+++.+.+.|++..    +.++.+.++-+|.......+-.+.  +....+.++=-+|...   
T Consensus        17 irSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkR---   87 (167)
T PF07035_consen   17 IRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKR---   87 (167)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHH---
Confidence            3344445566666666666666666665433    233333333344333332221111  1222333333333322   


Q ss_pred             CCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 048616          113 PNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMV  177 (272)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (272)
                       =...+..+++.+...|++-+|.++.+.....    +......++.+..+.++...-..+++-..
T Consensus        88 -L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~  147 (167)
T PF07035_consen   88 -LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFE  147 (167)
T ss_pred             -hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence             0112344555555666666666655543221    11122334455555555444444444433

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=95.19  E-value=0.61  Score=31.76  Aligned_cols=19  Identities=5%  Similarity=0.184  Sum_probs=10.0

Q ss_pred             HhcCcHHHHHHHHHHHHHc
Q 048616          161 KRQEKVEIALQLWNDMVEK  179 (272)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~  179 (272)
                      ...|++.+|.++++++.+.
T Consensus        55 i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        55 IARGNYDEAARILRELLSS   73 (153)
T ss_pred             HHcCCHHHHHHHHHhhhcc
Confidence            3455555555555555444

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.13  E-value=0.63  Score=31.53  Aligned_cols=79  Identities=8%  Similarity=0.001  Sum_probs=55.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCC--CCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 048616           86 AIRNYCIAKRLRDASGLMDEMVEKGLS--PNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ  163 (272)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (272)
                      -.....+.|++++|.+.|+.+...-+.  -...+-..++.+|.+.+++++|...+++.++....-...-|...+.+++..
T Consensus        16 ~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~   95 (142)
T PF13512_consen   16 EAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYY   95 (142)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHH
Confidence            344456679999999999998876221  134555678889999999999999999988875443345566666665543


Q ss_pred             C
Q 048616          164 E  164 (272)
Q Consensus       164 ~  164 (272)
                      .
T Consensus        96 ~   96 (142)
T PF13512_consen   96 E   96 (142)
T ss_pred             H
Confidence            3

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.09  E-value=1.2  Score=34.64  Aligned_cols=133  Identities=12%  Similarity=0.168  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh--cC----ChhhHHHHHHHHHhCCC---CCCHhhHHHHHHHHHhcCc-
Q 048616           96 LRDASGLMDEMVEKGLSPNATTYNLFFRVFYW--SN----DLRSSWNLYCRMMGTGC---LPNTQSCMFLVKLCKRQEK-  165 (272)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~-  165 (272)
                      +++...+++.|.+.|+.-+..+|-+.......  ..    ...++..+|+.|++...   .++...+..++..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            44556788899999998777776553333333  22    34668899999987632   2344455555443  3333 


Q ss_pred             ---HHHHHHHHHHHHHcCCCccHH--HHHHHHHHHHhcCC--HHHHHHHHHHHHHcCCCCcHHhHHHHHHHH
Q 048616          166 ---VEIALQLWNDMVEKGFGSYIL--VSDVLFDLLCDMGK--LVEAEKSFLEMIEKGHKPSQVSFRRIKALM  230 (272)
Q Consensus       166 ---~~~a~~~~~~~~~~~~~~~~~--~~~~li~~~~~~g~--~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  230 (272)
                         .+.++.+|+.+.+.|+..+-.  ..+.++........  ..++.++++.+.+.|+++....|..+.-..
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLa  227 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLA  227 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHH
Confidence               356778888888877755433  33333333322222  457889999999999998888887654443

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=95.04  E-value=1.2  Score=34.15  Aligned_cols=137  Identities=9%  Similarity=0.109  Sum_probs=86.6

Q ss_pred             CHHHHHHHHHHHHH-cCCCCCHHhHHHHHHHHhhcCC--hhhHHHHHHHHHh-CCCCCCHhhHHHHHHHHHhcCcHHHHH
Q 048616           95 RLRDASGLMDEMVE-KGLSPNATTYNLFFRVFYWSND--LRSSWNLYCRMMG-TGCLPNTQSCMFLVKLCKRQEKVEIAL  170 (272)
Q Consensus        95 ~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (272)
                      .+.+|+++|+.... ..+--|......+++......+  ...-.++.+-+.. .+..++..+...++..+++.+++....
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            35566666663221 1233466777777777766322  2223333333322 234677788888889999999999999


Q ss_pred             HHHHHHHHc-CCCccHHHHHHHHHHHHhcCCHHHHHHHHHHH-----HHcCCCCcHHhHHHHHHHHH
Q 048616          171 QLWNDMVEK-GFGSYILVSDVLFDLLCDMGKLVEAEKSFLEM-----IEKGHKPSQVSFRRIKALME  231 (272)
Q Consensus       171 ~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~-----~~~~~~p~~~~~~~l~~~~~  231 (272)
                      ++|...... +...|...|..+|+.....|+..-...+.++-     .+.|+..+...-.++-+.+.
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~  289 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFK  289 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHH
Confidence            988877655 56778888889999999999988776666542     23345555554444444443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.03  E-value=0.081  Score=26.25  Aligned_cols=24  Identities=17%  Similarity=0.086  Sum_probs=13.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHH
Q 048616           83 YNAAIRNYCIAKRLRDASGLMDEM  106 (272)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~  106 (272)
                      |..|...|.+.|++++|+++|++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            455556666666666666666653

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.01  E-value=1.5  Score=35.30  Aligned_cols=157  Identities=13%  Similarity=0.001  Sum_probs=94.9

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHH-------------HHH
Q 048616           19 VYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAA-------------YNA   85 (272)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------------~~~   85 (272)
                      ++.-.|++++|.+.--...+.+.. +....-.--.++.-.++.+.+...|++....+  |+-..             +..
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld~~-n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~  254 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLDAT-NAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKE  254 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcccc-hhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHh
Confidence            444567788887777666665322 33322222234445677778888887776543  33221             122


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc---CCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 048616           86 AIRNYCIAKRLRDASGLMDEMVEK---GLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKR  162 (272)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (272)
                      -.+-..+.|++..|.+.|.+.+..   +..|+...|........+.|+..+|+.--+.....+ ..-...+..-..++..
T Consensus       255 ~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD-~syikall~ra~c~l~  333 (486)
T KOG0550|consen  255 RGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID-SSYIKALLRRANCHLA  333 (486)
T ss_pred             hhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC-HHHHHHHHHHHHHHHH
Confidence            223355778888888888888755   344555666666677788888888887777665432 0111223333345556


Q ss_pred             cCcHHHHHHHHHHHHHc
Q 048616          163 QEKVEIALQLWNDMVEK  179 (272)
Q Consensus       163 ~~~~~~a~~~~~~~~~~  179 (272)
                      .++|++|.+-++...+.
T Consensus       334 le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  334 LEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            77888888888776655

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.98  E-value=1.6  Score=36.07  Aligned_cols=82  Identities=15%  Similarity=0.079  Sum_probs=56.1

Q ss_pred             CccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHH-hHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHH
Q 048616          182 GSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQV-SFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEY  260 (272)
Q Consensus       182 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~  260 (272)
                      .+-..+-..+..++.+.|+.++|.+.+++|.+....-|.. ....|+.++...+.+.++..++.+-.+... .+.-...|
T Consensus       256 ~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~l-pkSAti~Y  334 (539)
T PF04184_consen  256 NVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISL-PKSATICY  334 (539)
T ss_pred             chhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccC-CchHHHHH
Confidence            3334444567778889999999999999998753221222 333489999999999999999998754332 12334556


Q ss_pred             HHhh
Q 048616          261 LAEM  264 (272)
Q Consensus       261 ~~ll  264 (272)
                      ...|
T Consensus       335 TaAL  338 (539)
T PF04184_consen  335 TAAL  338 (539)
T ss_pred             HHHH
Confidence            5554

The molecular function of this protein is uncertain.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.93  E-value=0.079  Score=26.30  Aligned_cols=23  Identities=30%  Similarity=0.351  Sum_probs=11.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHH
Q 048616           13 YNCLIDVYCKDRQVEKAYKIVEK   35 (272)
Q Consensus        13 ~~~li~~~~~~g~~~~a~~~~~~   35 (272)
                      |+.|-..|.+.|++++|+++|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            34444555555555555555544

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.90  E-value=0.54  Score=29.62  Aligned_cols=65  Identities=11%  Similarity=0.162  Sum_probs=34.2

Q ss_pred             HHhHHHHHHHHHhcCCHH--HHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048616           10 IVSYNCLIDVYCKDRQVE--KAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY   74 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (272)
                      -..|++--..|....+.+  +..+-++.+...++.|++.+....+++|.+.+++..|.++|+-++..
T Consensus         8 ~eeF~ary~~~F~~~~iD~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen    8 DEEFDARYEKYFNRPDIDGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHHHHHH-TT--HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCccccHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            333444444444433333  45555666666666667777777777777777777777777666543

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.86  E-value=0.89  Score=31.94  Aligned_cols=123  Identities=10%  Similarity=0.069  Sum_probs=51.8

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHH-hHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHh-hHHHHHH--HHHhcCcHH
Q 048616           92 IAKRLRDASGLMDEMVEKGLSPNAT-TYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQ-SCMFLVK--LCKRQEKVE  167 (272)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~--~~~~~~~~~  167 (272)
                      +.+..++|+.-|.++.+.|...=+. ...-......+.|+-..|...|++.-.....|-.. -...+=.  .+...|.++
T Consensus        70 ~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy~  149 (221)
T COG4649          70 QENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSYD  149 (221)
T ss_pred             HcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccHH
Confidence            3344555555555555543321000 11111223344555555555555554332222221 1111111  123455555


Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          168 IALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ....-.+.+...+-+.-...-..|.-+-.+.|++.+|..+|..+...
T Consensus       150 dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         150 DVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            55555554443332222223334444445566666666666655543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.81  E-value=1.2  Score=33.20  Aligned_cols=196  Identities=14%  Similarity=0.050  Sum_probs=105.8

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHH------HHHHHHHHHHhcCCHHHHHHHHHHHH----HcCCCCC
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAA------AYNAAIRNYCIAKRLRDASGLMDEMV----EKGLSPN  114 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~  114 (272)
                      ...|..-..+|...+++++|...+.+..+- .+.+..      .|...+-..-....+.++..++++..    +.| .|+
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~G-spd  108 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECG-SPD  108 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhC-Ccc
Confidence            345666777888889999998888777632 122222      23333333444555666666666554    223 344


Q ss_pred             HHhHH-HHHHHHhhcCChhhHHHHHHHHHh---CC--CCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc----CCCcc
Q 048616          115 ATTYN-LFFRVFYWSNDLRSSWNLYCRMMG---TG--CLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK----GFGSY  184 (272)
Q Consensus       115 ~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~---~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~  184 (272)
                      ...-. --..-...+.++++|+++|++...   .+  ...-...+...-+.+.+...+++|-..+.+-...    .-.++
T Consensus       109 tAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~  188 (308)
T KOG1585|consen  109 TAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNS  188 (308)
T ss_pred             hHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhccc
Confidence            33211 011123456677777777776532   11  1111233455556667777777766555443211    11111


Q ss_pred             -HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC---CCCcHHhHHHHHHHHHHhhhHHHHHHHH
Q 048616          185 -ILVSDVLFDLLCDMGKLVEAEKSFLEMIEKG---HKPSQVSFRRIKALMELANKQEALQNLS  243 (272)
Q Consensus       185 -~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~p~~~~~~~l~~~~~~~~~~~~a~~~~  243 (272)
                       -..|...|-.+....++..|.+.++.--+.+   -.-+..+...|+.+|- .|+.+++..++
T Consensus       189 ~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-~gD~E~~~kvl  250 (308)
T KOG1585|consen  189 QCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-cCCHHHHHHHH
Confidence             1234455556667778999999998754332   1224456666887776 45666665543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.78  E-value=1.1  Score=32.60  Aligned_cols=202  Identities=15%  Similarity=0.055  Sum_probs=130.3

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDE-DISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      ...+......+...+.+..+...+...... ........+......+...+++..+.+.+.........+ .........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHH
Confidence            456666777777788888888888777652 223355566667777777778888888888887654333 122222223


Q ss_pred             -HHHhcCCHHHHHHHHHHHHHcCC--CCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhcC
Q 048616           89 -NYCIAKRLRDASGLMDEMVEKGL--SPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLP-NTQSCMFLVKLCKRQE  164 (272)
Q Consensus        89 -~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~  164 (272)
                       .+...|+++.|...+.+......  ......+......+...++.+.+...+....... .. ....+..+...+...+
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         138 GALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHcc
Confidence             67788888888888888755321  1123334444444667778888888888876653 22 3566777777777788


Q ss_pred             cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          165 KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      .++.+...+......... ....+..+...+...+..+++...+......
T Consensus       217 ~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         217 KYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             cHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888888888877765322 2233333444444667788888888777665

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.76  E-value=1.4  Score=33.73  Aligned_cols=147  Identities=11%  Similarity=0.098  Sum_probs=99.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHh-cC-CHHHHHHHHHHHHHc-CCCCCHHhHHHHHH
Q 048616           48 YTSIIGGLGLVGQPDKARDVLKEMKE-YGCYPDAAAYNAAIRNYCI-AK-RLRDASGLMDEMVEK-GLSPNATTYNLFFR  123 (272)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~  123 (272)
                      |..++.   +...+.+|+++|+.... ..+--|..+...+++.... .+ ....-.++.+-+... +-.++..+...++.
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~  210 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILE  210 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHH
Confidence            555554   34456778888874332 3355677888888877766 22 233333444444432 44567777888999


Q ss_pred             HHhhcCChhhHHHHHHHHHhC-CCCCCHhhHHHHHHHHHhcCcHHHHHHHHHH-----HHHcCCCccHHHHHHHHHHHHh
Q 048616          124 VFYWSNDLRSSWNLYCRMMGT-GCLPNTQSCMFLVKLCKRQEKVEIALQLWND-----MVEKGFGSYILVSDVLFDLLCD  197 (272)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~li~~~~~  197 (272)
                      .++..++|.+.+++++..... +..-|...|..+|+.....|+..-...+.++     +.+.++..+...-..+-+.+.+
T Consensus       211 ~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~~  290 (292)
T PF13929_consen  211 ILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFKK  290 (292)
T ss_pred             HHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHHh
Confidence            999999999999999887654 5566888899999999999998887777765     3345666666665555554443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.68  E-value=1  Score=31.69  Aligned_cols=139  Identities=9%  Similarity=-0.001  Sum_probs=83.3

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHh---HH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAY-NAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATT---YN  119 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~  119 (272)
                      +...|..-++ +.+.+..++|+.-|.++.+.|...-+..- -.......+.|+...|...|+++-.....|-..-   -.
T Consensus        58 sgd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          58 SGDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             chHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            4455555555 34566677888888888776654333221 2233445667888888888888776544443321   11


Q ss_pred             HHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 048616          120 LFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGS  183 (272)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  183 (272)
                      --...+..+|.++......+-+...+-+.-...-..|--+.-+.|++..|.+.|..+......|
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            1223456677788777777777555534444445556566667888888888887776543333

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.53  E-value=3.1  Score=36.70  Aligned_cols=141  Identities=13%  Similarity=0.090  Sum_probs=96.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 048616           18 DVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLR   97 (272)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (272)
                      +.+.+.|++++|...|-+-... +.|     ..++.-|....+..+-..+++.+.+.|+. +...-..|+.+|.+.++.+
T Consensus       376 d~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~  448 (933)
T KOG2114|consen  376 DYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVE  448 (933)
T ss_pred             HHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchH
Confidence            3455789999999888776543 232     23666677777888888899999999874 5566678999999999998


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHH
Q 048616           98 DASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDM  176 (272)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (272)
                      +-.++.+... .|..  ..-....+..+-+.+-.++|..+-.....     .......++   -..+++++|.+++..+
T Consensus       449 kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  449 KLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            8877776554 3321  11245567777777777777766654422     333444444   3567888988888765

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.41  E-value=0.54  Score=29.30  Aligned_cols=45  Identities=13%  Similarity=0.139  Sum_probs=26.3

Q ss_pred             HHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048616           28 KAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMK   72 (272)
Q Consensus        28 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   72 (272)
                      ++.+-++.+...++.|++.+..+.+++|.+.+|+..|.++|+-.+
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            444555555555555666666666666666666666666666554

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PRK11906 transcriptional regulator; Provisional

Probab=94.03  E-value=2.9  Score=34.39  Aligned_cols=157  Identities=10%  Similarity=0.060  Sum_probs=94.3

Q ss_pred             HHHHHHHHhc-----CCHHHHHHHHHHHhhC-CCCCC-HhhHHHHHHHHHh---------cCChhHHHHHHHHHHHcCCC
Q 048616           14 NCLIDVYCKD-----RQVEKAYKIVEKMRDE-DISPD-VISYTSIIGGLGL---------VGQPDKARDVLKEMKEYGCY   77 (272)
Q Consensus        14 ~~li~~~~~~-----g~~~~a~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~   77 (272)
                      ...+.+....     ...+.|..+|.+.... ...|+ ...|..+..++..         ..+..+|.++-++..+.+ +
T Consensus       257 d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~  335 (458)
T PRK11906        257 DEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-T  335 (458)
T ss_pred             HHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-C
Confidence            4555554442     2356788888888721 22333 3334333333221         233456777777777765 4


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCH---hhHH
Q 048616           78 PDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNT---QSCM  154 (272)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~  154 (272)
                      .|+.....+..+..-.++++.|...|++....++. ...+|....-...-.|+.++|.+.+++..+.  .|..   ....
T Consensus       336 ~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~~~~~~  412 (458)
T PRK11906        336 VDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRKAVVIK  412 (458)
T ss_pred             CCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhHHHHHH
Confidence            57777777777777778889999999888877532 4555555555667788888888888886554  3332   2333


Q ss_pred             HHHHHHHhcCcHHHHHHHHHH
Q 048616          155 FLVKLCKRQEKVEIALQLWND  175 (272)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~  175 (272)
                      ..+..|+.. .++.+..++-+
T Consensus       413 ~~~~~~~~~-~~~~~~~~~~~  432 (458)
T PRK11906        413 ECVDMYVPN-PLKNNIKLYYK  432 (458)
T ss_pred             HHHHHHcCC-chhhhHHHHhh
Confidence            334455443 45666666543

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=94.03  E-value=1.1  Score=32.39  Aligned_cols=81  Identities=10%  Similarity=0.045  Sum_probs=63.4

Q ss_pred             HHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCCCHHhHHHHHHHHhhcC
Q 048616           53 GGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK---GLSPNATTYNLFFRVFYWSN  129 (272)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~  129 (272)
                      -.+.+.|+ +.|.+.|-++...+.--++.....|...|. ..+.+++..++.+..+.   +-.+|+..+..|...+.+.+
T Consensus       115 y~Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~  192 (203)
T PF11207_consen  115 YHWSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLK  192 (203)
T ss_pred             HHhhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhc
Confidence            34555554 678888989988776667777777777666 57889999999888754   33678999999999999999


Q ss_pred             ChhhHH
Q 048616          130 DLRSSW  135 (272)
Q Consensus       130 ~~~~a~  135 (272)
                      +++.|.
T Consensus       193 ~~e~AY  198 (203)
T PF11207_consen  193 NYEQAY  198 (203)
T ss_pred             chhhhh
Confidence            999885

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.58  E-value=4.3  Score=34.88  Aligned_cols=182  Identities=20%  Similarity=0.159  Sum_probs=106.6

Q ss_pred             HHHHHHHHHHHhhCCCCCCHhhHHHHH--HH-HHhcCChhHHHHHHHHHHH-------cCCCCCHHHHHHHHHHHHhcC-
Q 048616           26 VEKAYKIVEKMRDEDISPDVISYTSII--GG-LGLVGQPDKARDVLKEMKE-------YGCYPDAAAYNAAIRNYCIAK-   94 (272)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~-   94 (272)
                      ...|...++...+.|.. ........+  .+ +...+|.+.|+.+|+...+       .|   .+....-+..+|.+.. 
T Consensus       228 ~~~a~~~~~~~a~~g~~-~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHS-EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhcch-HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            46788888888777632 222121122  22 4466789999999998876       44   3335566777776643 


Q ss_pred             ----CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh-cCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHH--hcCcHH
Q 048616           95 ----RLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW-SNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCK--RQEKVE  167 (272)
Q Consensus        95 ----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~  167 (272)
                          +.+.|..++....+.|. |+...+-..+..... ..+...|.++|......|.. ....+..++....  ...+..
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~gv~r~~~  381 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVERNLE  381 (552)
T ss_pred             CccccHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcCCCHH
Confidence                66779999988888875 355544333333333 35678899999998888743 2222222222221  334778


Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048616          168 IALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKG  215 (272)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  215 (272)
                      .|..++...-+.|....... ...+..+.. ++++.+.-.+..+.+.|
T Consensus       382 ~A~~~~k~aA~~g~~~A~~~-~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  382 LAFAYYKKAAEKGNPSAAYL-LGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             HHHHHHHHHHHccChhhHHH-HHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence            88888888887772222222 222223333 66666655555554443

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.12  E-value=0.31  Score=24.72  Aligned_cols=27  Identities=22%  Similarity=0.347  Sum_probs=14.1

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHh
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMR   37 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~   37 (272)
                      .+++.+...|...|++++|..++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            345555555555555555555555543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=92.98  E-value=3.9  Score=32.59  Aligned_cols=225  Identities=12%  Similarity=0.074  Sum_probs=125.2

Q ss_pred             hcCCHHHHHHHHHHHhhC--CCCCCHhhHHHHHHHHHhcCChhHHHHHHH-HH---HHcC-CCCCHHHHHHHHHHHHhcC
Q 048616           22 KDRQVEKAYKIVEKMRDE--DISPDVISYTSIIGGLGLVGQPDKARDVLK-EM---KEYG-CYPDAAAYNAAIRNYCIAK   94 (272)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-~~---~~~~-~~~~~~~~~~l~~~~~~~~   94 (272)
                      ...+.++|+..|..-..+  +..-.-.++..+..+.++.|.+++++..-- +|   .+.. -..--..|..+..++-+..
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~   97 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLC   97 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456777787777665543  111122356666677777787776654321 11   1110 0011234455555555555


Q ss_pred             CHHHHHHHHHHHHHc-CCCCC---HHhHHHHHHHHhhcCChhhHHHHHHHHHhC-----CCCCCHhhHHHHHHHHHhcCc
Q 048616           95 RLRDASGLMDEMVEK-GLSPN---ATTYNLFFRVFYWSNDLRSSWNLYCRMMGT-----GCLPNTQSCMFLVKLCKRQEK  165 (272)
Q Consensus        95 ~~~~a~~~~~~~~~~-~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~  165 (272)
                      ++.+++.+-..-... |..|.   -....++-.+....+.++++++.|+...+.     +......++..+-..|.+..+
T Consensus        98 ~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D  177 (518)
T KOG1941|consen   98 EFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKD  177 (518)
T ss_pred             HhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHh
Confidence            566666555444332 22221   122334556677777888888888876442     112234567788888888888


Q ss_pred             HHHHHHHHHHHHHc----CCCccHHHHH-----HHHHHHHhcCCHHHHHHHHHHHHHcCC-CCcHHhHH----HHHHHHH
Q 048616          166 VEIALQLWNDMVEK----GFGSYILVSD-----VLFDLLCDMGKLVEAEKSFLEMIEKGH-KPSQVSFR----RIKALME  231 (272)
Q Consensus       166 ~~~a~~~~~~~~~~----~~~~~~~~~~-----~li~~~~~~g~~~~a~~~~~~~~~~~~-~p~~~~~~----~l~~~~~  231 (272)
                      +++|.-+.....+.    ++..-..-|.     .+.-++...|...+|.+.-++..+..+ .-|..++.    .+...|.
T Consensus       178 ~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR  257 (518)
T KOG1941|consen  178 YEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYR  257 (518)
T ss_pred             hhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHH
Confidence            88887766654432    2222222222     234456677888788877776543311 12333333    4677888


Q ss_pred             HhhhHHHHHHHHHHH
Q 048616          232 LANKQEALQNLSNKM  246 (272)
Q Consensus       232 ~~~~~~~a~~~~~~~  246 (272)
                      ..|+.+.+..-|+..
T Consensus       258 ~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  258 SRGDLERAFRRYEQA  272 (518)
T ss_pred             hcccHhHHHHHHHHH
Confidence            888888877666653

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.92  E-value=6  Score=34.61  Aligned_cols=110  Identities=9%  Similarity=-0.038  Sum_probs=77.6

Q ss_pred             CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 048616          114 NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFD  193 (272)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  193 (272)
                      ...+.+--+..+...|+-.+|.++-.+.+    .||...|-.-+.+++..+++++-+++-+..+.      +.-|..++.
T Consensus       683 ~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskks------PIGy~PFVe  752 (829)
T KOG2280|consen  683 VDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS------PIGYLPFVE  752 (829)
T ss_pred             ccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC------CCCchhHHH
Confidence            34455556667778888888888877664    67888998889999999999987776654331      345677889


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHH
Q 048616          194 LLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNL  242 (272)
Q Consensus       194 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  242 (272)
                      +|.+.|+.++|.+++-+...     ..    -...+|.+.|++.+|.++
T Consensus       753 ~c~~~~n~~EA~KYiprv~~-----l~----ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  753 ACLKQGNKDEAKKYIPRVGG-----LQ----EKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             HHHhcccHHHHhhhhhccCC-----hH----HHHHHHHHhccHHHHHHH
Confidence            99999999999998876521     11    244455555555555443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.86  E-value=0.52  Score=22.67  Aligned_cols=27  Identities=19%  Similarity=0.171  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616           82 AYNAAIRNYCIAKRLRDASGLMDEMVE  108 (272)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  108 (272)
                      +|..+..++...|++++|+..|++.++
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            344444445555555555555554444

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=92.83  E-value=3.6  Score=31.80  Aligned_cols=199  Identities=10%  Similarity=0.026  Sum_probs=111.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhC--------CCCCC-----HhhHHHHHHHHHhcCChh---HHHHHHHHHHHcC
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDE--------DISPD-----VISYTSIIGGLGLVGQPD---KARDVLKEMKEYG   75 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~--------~~~~~-----~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~   75 (272)
                      .||.-...+.+..+++.|..++++..+.        ...|+     ..++..++.++...+..+   +|..+++.+....
T Consensus        38 ~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~  117 (278)
T PF08631_consen   38 CYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRLLESEY  117 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC
Confidence            4555555554443888888877765432        12222     245667778888777655   5566666665442


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh--cCChhhHHHHHHHHHhCCCCCCHh-h
Q 048616           76 CYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW--SNDLRSSWNLYCRMMGTGCLPNTQ-S  152 (272)
Q Consensus        76 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~-~  152 (272)
                       .-.+.++..-+..+.+.++.+.+.+.+.+|+..-.. ....+...+..+..  ......+...+..+....+.|... .
T Consensus       118 -~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~-~e~~~~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~  195 (278)
T PF08631_consen  118 -GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDH-SESNFDSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQW  195 (278)
T ss_pred             -CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhccc-ccchHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChhHH
Confidence             223556656677777789999999999999976221 33445555555422  233456667776665555555553 1


Q ss_pred             HHH-HHH-H--HHhcC------cHHHHHHHHHHHHHc-CCCccHHHHHHH-------HHHHHhcCCHHHHHHHHHHHH
Q 048616          153 CMF-LVK-L--CKRQE------KVEIALQLWNDMVEK-GFGSYILVSDVL-------FDLLCDMGKLVEAEKSFLEMI  212 (272)
Q Consensus       153 ~~~-l~~-~--~~~~~------~~~~a~~~~~~~~~~-~~~~~~~~~~~l-------i~~~~~~g~~~~a~~~~~~~~  212 (272)
                      ... ++. .  ..+.+      .++...+++..+... +.+.+..+-.++       ...+.+.+++++|.++|+-..
T Consensus       196 ~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  196 LEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            111 111 1  11211      245555555543332 223333332222       233457899999999998543

It is also involved in sporulation [].

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=92.80  E-value=0.19  Score=24.59  Aligned_cols=21  Identities=29%  Similarity=0.335  Sum_probs=10.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHH
Q 048616           79 DAAAYNAAIRNYCIAKRLRDA   99 (272)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a   99 (272)
                      +...|+.+...|...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            344444444444444444444

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.78  E-value=0.42  Score=24.20  Aligned_cols=28  Identities=29%  Similarity=0.401  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVE  108 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~  108 (272)
                      .+++.+...|...|++++|+.++++...
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            3556666666666666666666666543

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.71  E-value=6  Score=34.06  Aligned_cols=181  Identities=17%  Similarity=0.111  Sum_probs=109.5

Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHH-----HHhcCCHHHHHHHHHHHHH-------cCCCCCHHhHHHHHHHHhhc
Q 048616           61 PDKARDVLKEMKEYGCYPDAAAYNAAIRN-----YCIAKRLRDASGLMDEMVE-------KGLSPNATTYNLFFRVFYWS  128 (272)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~  128 (272)
                      ...+.++++...+.|.   ......+..+     +....+.+.|+..|+....       .|   .......+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g~---~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGH---SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhcc---hHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            4678899998888763   3332223322     4456789999999998877       44   233455666677664


Q ss_pred             C-----ChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHh-cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH--hcCC
Q 048616          129 N-----DLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKR-QEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLC--DMGK  200 (272)
Q Consensus       129 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~--~~g~  200 (272)
                      .     +.+.|..++......| .|+.......+.-... ..+...|.++|...-+.|.. ....+..+.....  -..+
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~gv~r~  379 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVERN  379 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcCCC
Confidence            3     6677999999988887 4455444333333322 34678999999999888843 2222222222111  3347


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCC
Q 048616          201 LVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGP  251 (272)
Q Consensus       201 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  251 (272)
                      .+.|..++++..++|......... .+..+.. +..+.+.-.+..+.+.|.
T Consensus       380 ~~~A~~~~k~aA~~g~~~A~~~~~-~~~~~g~-~~~~~~~~~~~~~a~~g~  428 (552)
T KOG1550|consen  380 LELAFAYYKKAAEKGNPSAAYLLG-AFYEYGV-GRYDTALALYLYLAELGY  428 (552)
T ss_pred             HHHHHHHHHHHHHccChhhHHHHH-HHHHHcc-ccccHHHHHHHHHHHhhh
Confidence            889999999999887332222222 2222222 555555555555555553

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.69  E-value=0.52  Score=22.68  Aligned_cols=26  Identities=19%  Similarity=0.170  Sum_probs=11.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          188 SDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       188 ~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      |..+..++...|++++|...|++.++
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            33444444444444444444444443

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=92.60  E-value=0.051  Score=37.08  Aligned_cols=53  Identities=9%  Similarity=0.090  Sum_probs=25.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 048616           52 IGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMD  104 (272)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  104 (272)
                      +..+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            34444445555555555555544433445555555555555544444444443

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=92.53  E-value=1.1  Score=32.72  Aligned_cols=76  Identities=16%  Similarity=0.104  Sum_probs=53.7

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCcHHhHHHHHH
Q 048616          152 SCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKG--HKPSQVSFRRIKA  228 (272)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~p~~~~~~~l~~  228 (272)
                      |...-++.+.+.+.+.+++...++-.+.+ +.+..+-..+++.++-.|++++|..-++-.-...  ..+-..+|..++.
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir   80 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIR   80 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            34555677778899999999988877775 5566666778999999999999998777665431  2233344444443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=92.43  E-value=0.22  Score=24.36  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=12.9

Q ss_pred             CHHhHHHHHHHHhhcCChhhHH
Q 048616          114 NATTYNLFFRVFYWSNDLRSSW  135 (272)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~  135 (272)
                      +...|+.+...|...|++++|.
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            4555666666666666665553

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.34  E-value=0.66  Score=22.17  Aligned_cols=26  Identities=12%  Similarity=0.162  Sum_probs=12.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616           83 YNAAIRNYCIAKRLRDASGLMDEMVE  108 (272)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~  108 (272)
                      +..+...+...|++++|.+.|++..+
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34444445555555555555555444

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=92.27  E-value=3.9  Score=31.24  Aligned_cols=57  Identities=7%  Similarity=-0.071  Sum_probs=25.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616           51 IIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMV  107 (272)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (272)
                      -|.+++..++|.+++...-+--+.--+..+.....-|-.|.+.+++..+.++-..-.
T Consensus        89 GIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL  145 (309)
T PF07163_consen   89 GIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWL  145 (309)
T ss_pred             hHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            345555555555555444433322112223333333444555555555555544443

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.26  E-value=2.6  Score=28.84  Aligned_cols=50  Identities=16%  Similarity=0.100  Sum_probs=22.7

Q ss_pred             cCCHHHHHHHHHHHhhCCCC-CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048616           23 DRQVEKAYKIVEKMRDEDIS-PDVISYTSIIGGLGLVGQPDKARDVLKEMKEY   74 (272)
Q Consensus        23 ~g~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (272)
                      .++.+++..+++.|.-..+. |...++.  ...+...|+|++|.++|+++.+.
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~~e~d~~d--g~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNLKELDMFD--GWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccccchhH--HHHHHHcCCHHHHHHHHHhhhcc
Confidence            45555555555555432111 1112222  22334555555555555555544

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=92.16  E-value=6.3  Score=33.02  Aligned_cols=164  Identities=13%  Similarity=0.136  Sum_probs=85.9

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFR  123 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (272)
                      |.....+++..++...++.-+..+-.+|..-|  -+-..|..++.+|... ..++-..+|+++.+..+. |...-..|..
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHH
Confidence            34444555555555555555555556666543  3555566666666665 445566666666665442 3333333333


Q ss_pred             HHhhcCChhhHHHHHHHHHhCCCCC------CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc-CCCccHHHHHHHHHHHH
Q 048616          124 VFYWSNDLRSSWNLYCRMMGTGCLP------NTQSCMFLVKLCKRQEKVEIALQLWNDMVEK-GFGSYILVSDVLFDLLC  196 (272)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~  196 (272)
                      -|-+ .+.+++...|.+....= .|      -...|.-+....  ..+.+....+...+... |...-...+.-+-.-|.
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~yrf-I~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKALYRF-IPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHHHh-cchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            3333 56666666666554321 11      112333333211  23555555555555433 33334445555556677


Q ss_pred             hcCCHHHHHHHHHHHHHcC
Q 048616          197 DMGKLVEAEKSFLEMIEKG  215 (272)
Q Consensus       197 ~~g~~~~a~~~~~~~~~~~  215 (272)
                      ...++.+|.+++..+.+.+
T Consensus       217 ~~eN~~eai~Ilk~il~~d  235 (711)
T COG1747         217 ENENWTEAIRILKHILEHD  235 (711)
T ss_pred             cccCHHHHHHHHHHHhhhc
Confidence            7777777777777776653

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.14  E-value=0.66  Score=22.17  Aligned_cols=24  Identities=25%  Similarity=0.277  Sum_probs=10.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          190 VLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       190 ~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      .+...+.+.|++++|.+.|++..+
T Consensus         6 ~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    6 YLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHH
Confidence            344444444444444444444443

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=92.04  E-value=0.13  Score=35.04  Aligned_cols=85  Identities=12%  Similarity=0.194  Sum_probs=58.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCc
Q 048616           86 AIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEK  165 (272)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (272)
                      +++.+.+.+.+.....+++.+...+...+....+.++..|++.+..++..++++..       +..-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcch
Confidence            45667777888888888888887665556778888888888888778888777621       11333456667777777


Q ss_pred             HHHHHHHHHHHH
Q 048616          166 VEIALQLWNDMV  177 (272)
Q Consensus       166 ~~~a~~~~~~~~  177 (272)
                      ++++..++..+.
T Consensus        86 ~~~a~~Ly~~~~   97 (143)
T PF00637_consen   86 YEEAVYLYSKLG   97 (143)
T ss_dssp             HHHHHHHHHCCT
T ss_pred             HHHHHHHHHHcc
Confidence            777777666543

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=91.91  E-value=2.3  Score=31.18  Aligned_cols=77  Identities=17%  Similarity=0.106  Sum_probs=52.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcC--CCCCHHHHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYG--CYPDAAAYNAAIRN   89 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~   89 (272)
                      |.+..+..+.+.+..++++....+-.+.++. +..+-..+++.++-.|+|++|..-++-.-+..  ..+...+|..++.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            3455667778888888888888777766433 66667778888888888888877766655432  23344566665554

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=91.85  E-value=4.2  Score=31.09  Aligned_cols=89  Identities=8%  Similarity=-0.006  Sum_probs=53.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHH---
Q 048616           85 AAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCK---  161 (272)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---  161 (272)
                      .=|.+++..++|.+++...-+--+.--+........-|-.|.+.+++..+.++-..-.+.--.-+...|..++..|.   
T Consensus        88 vGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~V  167 (309)
T PF07163_consen   88 VGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHV  167 (309)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHH
Confidence            34677788888888777665544331112233445555667788888777777766544322223334666655554   


Q ss_pred             --hcCcHHHHHHHH
Q 048616          162 --RQEKVEIALQLW  173 (272)
Q Consensus       162 --~~~~~~~a~~~~  173 (272)
                        =.|.+++|+++.
T Consensus       168 LlPLG~~~eAeelv  181 (309)
T PF07163_consen  168 LLPLGHFSEAEELV  181 (309)
T ss_pred             HhccccHHHHHHHH
Confidence              467888887776

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.75  E-value=2.2  Score=26.99  Aligned_cols=58  Identities=12%  Similarity=0.261  Sum_probs=32.1

Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHH
Q 048616          134 SWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLF  192 (272)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  192 (272)
                      ..+-+..+...++.|+..+..+.+++|.+.+++..|.++++-++..- .+....|..++
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~l   86 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYIL   86 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHH
Confidence            44445555556667777777777777777777777777777666441 22222555544

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.70  E-value=8.7  Score=33.70  Aligned_cols=226  Identities=14%  Similarity=0.015  Sum_probs=122.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC----CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcC-----------
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDIS----PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYG-----------   75 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----------   75 (272)
                      .+|..+..-.-..|+++-|..+++.=...+..    .+..-+...+.-+...|+.+-...++-++...-           
T Consensus       508 iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~  587 (829)
T KOG2280|consen  508 ISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRN  587 (829)
T ss_pred             eeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45556666666788888888887543222111    122234556666777888887777776665431           


Q ss_pred             CCCCHHHHHHHHH--------HHHhcCCHHHHHHHH--HHHHHc-CCCCCHHhHHHHHHHHhhcCChhh----------H
Q 048616           76 CYPDAAAYNAAIR--------NYCIAKRLRDASGLM--DEMVEK-GLSPNATTYNLFFRVFYWSNDLRS----------S  134 (272)
Q Consensus        76 ~~~~~~~~~~l~~--------~~~~~~~~~~a~~~~--~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~----------a  134 (272)
                      .+.....|.-+++        .+.+.++..++...|  +..... -+.+-..........+.+.....-          -
T Consensus       588 ~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed~~kL  667 (829)
T KOG2280|consen  588 QPLALSLYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALEDQMKL  667 (829)
T ss_pred             chhhhHHHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHHHHHH
Confidence            1111122222222        011122222222211  110000 001111112223334444333111          1


Q ss_pred             HHHHHHHHh-CCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          135 WNLYCRMMG-TGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       135 ~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      +++.+.+.. .|.....-+.+--+.-+...|+-.+|.++-.+.+    .||...|-.=+.+++..+++++-+++-+... 
T Consensus       668 l~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk-  742 (829)
T KOG2280|consen  668 LKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK-  742 (829)
T ss_pred             HHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC-
Confidence            222222211 2223333455556666778888888888776653    6788888888899999999998777665542 


Q ss_pred             cCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHH
Q 048616          214 KGHKPSQVSFRRIKALMELANKQEALQNLSNKM  246 (272)
Q Consensus       214 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (272)
                           ++.-|.-+..+|.+.|+.++|..++.+.
T Consensus       743 -----sPIGy~PFVe~c~~~~n~~EA~KYiprv  770 (829)
T KOG2280|consen  743 -----SPIGYLPFVEACLKQGNKDEAKKYIPRV  770 (829)
T ss_pred             -----CCCCchhHHHHHHhcccHHHHhhhhhcc
Confidence                 2466777889999999999999888774

>PRK11906 transcriptional regulator; Provisional

Probab=91.67  E-value=6.7  Score=32.38  Aligned_cols=80  Identities=6%  Similarity=-0.035  Sum_probs=43.1

Q ss_pred             hhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048616          132 RSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEM  211 (272)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  211 (272)
                      .+|.++-++..+.+ +-|......+..+....++++.|...|++....+ +....+|......+.-.|+.++|.+.+++.
T Consensus       321 ~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~a  398 (458)
T PRK11906        321 QKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKS  398 (458)
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34455555555544 3355555555555555566666666666666553 222233333344445566666666666665


Q ss_pred             HH
Q 048616          212 IE  213 (272)
Q Consensus       212 ~~  213 (272)
                      .+
T Consensus       399 lr  400 (458)
T PRK11906        399 LQ  400 (458)
T ss_pred             hc
Confidence            44

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=91.64  E-value=3.9  Score=29.61  Aligned_cols=79  Identities=13%  Similarity=0.053  Sum_probs=59.4

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC---CCCCCHhhHHHHHHHHHhcCcH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT---GCLPNTQSCMFLVKLCKRQEKV  166 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~  166 (272)
                      ..+.|+ +.|.+.|-++...+.--++..-. .+..|.-..+.+++..++.+..+.   +-.+|...+..|+..+-+.+++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~-aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQY-ALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHH-HHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            345555 77899998888776554555444 445555578899999999887543   3478899999999999999999


Q ss_pred             HHHH
Q 048616          167 EIAL  170 (272)
Q Consensus       167 ~~a~  170 (272)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            9874

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=91.47  E-value=7.6  Score=32.57  Aligned_cols=179  Identities=8%  Similarity=0.098  Sum_probs=124.0

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      |-...-+++..+.++.++.-+..+-.+|..-|  -+...|..++.+|... ..+.-..+|+++.+..+. |...-..|..
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHH
Confidence            44566778889999999999999999998865  3677889999999988 678888999999987542 3444444444


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCC-----CCHHhHHHHHHHHhhcCChhhHHHHHHHHHh-CCCCCCHhhHHHHHHHHHh
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLS-----PNATTYNLFFRVFYWSNDLRSSWNLYCRMMG-TGCLPNTQSCMFLVKLCKR  162 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~  162 (272)
                      -| ..++.+.+...|..+...=++     .-...|..+...-  ..+.+..+.+...+.. .|..--...+.-+-.-|..
T Consensus       141 ~y-Ekik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~  217 (711)
T COG1747         141 KY-EKIKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSE  217 (711)
T ss_pred             HH-HHhchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcc
Confidence            44 448889999999888765221     0122455444321  4566777777777644 3434445566667788889


Q ss_pred             cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 048616          163 QEKVEIALQLWNDMVEKGFGSYILVSDVLFDLL  195 (272)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  195 (272)
                      ..++.+|++++..+.+++ ..|...-..++.-+
T Consensus       218 ~eN~~eai~Ilk~il~~d-~k~~~ar~~~i~~l  249 (711)
T COG1747         218 NENWTEAIRILKHILEHD-EKDVWARKEIIENL  249 (711)
T ss_pred             ccCHHHHHHHHHHHhhhc-chhhhHHHHHHHHH
Confidence            999999999999888775 44444444444433

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=91.22  E-value=0.89  Score=21.46  Aligned_cols=25  Identities=0%  Similarity=-0.169  Sum_probs=15.5

Q ss_pred             HHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          226 IKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      +..++.+.|+.++|.+.|+++.+.-
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~~~   30 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIKRY   30 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHC
Confidence            4555556666666666666666544

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=91.00  E-value=4.9  Score=29.59  Aligned_cols=186  Identities=12%  Similarity=-0.004  Sum_probs=105.4

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 048616           20 YCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDA   99 (272)
Q Consensus        20 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   99 (272)
                      |-..|-+.-|.-=|.+.....+. -+.+||-+.--+...|+++.|.+.|+...+....-+-...|.-|.. .-.|++..|
T Consensus        75 YDSlGL~~LAR~DftQaLai~P~-m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~-YY~gR~~LA  152 (297)
T COG4785          75 YDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIAL-YYGGRYKLA  152 (297)
T ss_pred             hhhhhHHHHHhhhhhhhhhcCCC-cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceee-eecCchHhh
Confidence            44456666666666666654322 4567888888888999999999999999887544343444444433 345888888


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHH-HHHHhCCCCCCHhhHHHHH-HHHHhcCcHHHHHHHHHHHH
Q 048616          100 SGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLY-CRMMGTGCLPNTQSCMFLV-KLCKRQEKVEIALQLWNDMV  177 (272)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~-~~~~~~~~~~~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~  177 (272)
                      .+=|.+.-+.... |+. -..-+..--+.-++.+|..-+ ++....    |..-|...| ..|...=..+   .+++.+.
T Consensus       153 q~d~~~fYQ~D~~-DPf-R~LWLYl~E~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~yLgkiS~e---~l~~~~~  223 (297)
T COG4785         153 QDDLLAFYQDDPN-DPF-RSLWLYLNEQKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFYLGKISEE---TLMERLK  223 (297)
T ss_pred             HHHHHHHHhcCCC-ChH-HHHHHHHHHhhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHHHhhccHH---HHHHHHH
Confidence            8877776665332 221 111222223344566665443 333322    333333222 2222111111   2222222


Q ss_pred             HcCC------CccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 048616          178 EKGF------GSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGH  216 (272)
Q Consensus       178 ~~~~------~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  216 (272)
                      ...-      ..-..||--+.+.+...|+.++|..+|+-.+..++
T Consensus       224 a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         224 ADATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             hhccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence            2110      11135777788899999999999999998876643

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=90.95  E-value=6.9  Score=32.51  Aligned_cols=120  Identities=11%  Similarity=0.036  Sum_probs=77.9

Q ss_pred             hcCChhhHHH-HHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHH
Q 048616          127 WSNDLRSSWN-LYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAE  205 (272)
Q Consensus       127 ~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  205 (272)
                      ..|+.-.|-+ ++..+....-.|+...  .....+...|+++.+.+.+....+. +.....+...+++.....|++++|.
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~--l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~  377 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQ--LRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREAL  377 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhH--HHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHH
Confidence            3455544433 3333443322344333  3334556789999998888776544 3444566778888888999999999


Q ss_pred             HHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          206 KSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       206 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ..-..|....+. +..............|-++++.-.|+++...+
T Consensus       378 s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        378 STAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             HHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            999888876554 44444444445566778888888888887544

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=90.78  E-value=3.9  Score=32.30  Aligned_cols=88  Identities=10%  Similarity=0.081  Sum_probs=39.9

Q ss_pred             HHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHH
Q 048616          124 VFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVE  203 (272)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  203 (272)
                      .|.+.|.+++|++.|..-.... +-+.+++..-..+|.+...+..|+.=-......+ ......|+.-..+-...|+..+
T Consensus       106 ~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~E  183 (536)
T KOG4648|consen  106 TYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNNME  183 (536)
T ss_pred             hhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHHH
Confidence            3455566666666665544331 1255555555555655555555544433333222 1222233333333333444444


Q ss_pred             HHHHHHHHHH
Q 048616          204 AEKSFLEMIE  213 (272)
Q Consensus       204 a~~~~~~~~~  213 (272)
                      |.+=++..++
T Consensus       184 AKkD~E~vL~  193 (536)
T KOG4648|consen  184 AKKDCETVLA  193 (536)
T ss_pred             HHHhHHHHHh
Confidence            4444444443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.74  E-value=7.2  Score=31.05  Aligned_cols=66  Identities=11%  Similarity=-0.005  Sum_probs=42.2

Q ss_pred             ccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC---cHHhHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 048616          183 SYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKP---SQVSFRRIKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       183 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                      ....+|..+...+.+.|+++.|...+..+...+..+   +......-+...-..|+..+|...++...+
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344567777777888888888888888776643221   222233345566666777777777777665

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.49  E-value=5.6  Score=29.33  Aligned_cols=183  Identities=9%  Similarity=-0.006  Sum_probs=98.5

Q ss_pred             cCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHH
Q 048616           58 VGQPDKARDVLKEMKEYGCYPD-AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWN  136 (272)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  136 (272)
                      .|-+.-|.-=|.+....  .|+ +.+||-+.--+...|+++.|.+.|+...+..+.-+-...|-= -++.--|++.-|.+
T Consensus        78 lGL~~LAR~DftQaLai--~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRg-i~~YY~gR~~LAq~  154 (297)
T COG4785          78 LGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRG-IALYYGGRYKLAQD  154 (297)
T ss_pred             hhHHHHHhhhhhhhhhc--CCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccc-eeeeecCchHhhHH
Confidence            34444444444444443  344 668888888888999999999999999887544232222222 23445678888877


Q ss_pred             HHHHHHhCCC-CCCHhhHHHHHHHHHhcCcHHHHHHHHHH-HHHcCCCccHHHHH-HHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          137 LYCRMMGTGC-LPNTQSCMFLVKLCKRQEKVEIALQLWND-MVEKGFGSYILVSD-VLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       137 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~-~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      -+...-+.+. .|-...|..+..   ..-++.+|..-+.+ ..+.    +..-|. .++..|...=..+.+.+-...-..
T Consensus       155 d~~~fYQ~D~~DPfR~LWLYl~E---~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~yLgkiS~e~l~~~~~a~a~  227 (297)
T COG4785         155 DLLAFYQDDPNDPFRSLWLYLNE---QKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFYLGKISEETLMERLKADAT  227 (297)
T ss_pred             HHHHHHhcCCCChHHHHHHHHHH---hhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHHHhhccHHHHHHHHHhhcc
Confidence            7666644431 222333333332   33456666544433 3222    222332 233333333222222222211111


Q ss_pred             cCC---CCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          214 KGH---KPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       214 ~~~---~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      .+-   ..=..||--+...+...|+.++|..+|+-....+
T Consensus       228 ~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         228 DNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             chHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            100   0123577778888999999999999888776544

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=90.45  E-value=15  Score=34.20  Aligned_cols=53  Identities=9%  Similarity=0.036  Sum_probs=30.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcHHh--HHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          192 FDLLCDMGKLVEAEKSFLEMIEKGHKPSQVS--FRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       192 i~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      +.+|...|+|.+|+.+..++..   .-+...  -..|..-+...+++-+|.++..+..
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~---~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSE---GKDELVILAEELVSRLVEQRKHYEAAKILLEYL 1026 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcC---CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHh
Confidence            4555666666666666555521   112222  1346777777777777777776653

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=90.17  E-value=0.71  Score=21.83  Aligned_cols=23  Identities=13%  Similarity=0.286  Sum_probs=11.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      ..++.+.|++++|.+.|+++++.
T Consensus         7 a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    7 ARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHH
Confidence            33444445555555555555443

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.80  E-value=15  Score=33.31  Aligned_cols=116  Identities=16%  Similarity=0.218  Sum_probs=56.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCC---CCCHhhHHHHHHHHHhcCCh--hHHHHHHHHHHHcCCCCCHHHHH--
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDI---SPDVISYTSIIGGLGLVGQP--DKARDVLKEMKEYGCYPDAAAYN--   84 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~--   84 (272)
                      -|..|+..|...|+.++|+++|.+.....-   .--...+..++.-..+.+..  +-..++-+...+....-....+.  
T Consensus       506 ~y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~~~Li~~y~~wvl~~~p~~gi~Ift~~  585 (877)
T KOG2063|consen  506 KYRELIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAENLDLILEYADWVLNKNPEAGIQIFTSE  585 (877)
T ss_pred             cHHHHHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccchhHHHHHhhhhhccCchhheeeeecc
Confidence            467788888888888888888888766310   00111223333333333332  22222222222211000000000  


Q ss_pred             ----------HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh
Q 048616           85 ----------AAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW  127 (272)
Q Consensus        85 ----------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (272)
                                ..+-.|......+-+..+++.+....-.++....+.++..|.+
T Consensus       586 ~~~~~~sis~~~Vl~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~e  638 (877)
T KOG2063|consen  586 DKQEAESISRDDVLNYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYLE  638 (877)
T ss_pred             ChhhhccCCHHHHHHHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHHH
Confidence                      1122345556666677777777655444456666666665544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.56  E-value=3.6  Score=25.78  Aligned_cols=59  Identities=12%  Similarity=0.260  Sum_probs=35.8

Q ss_pred             hHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHH
Q 048616          133 SSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLF  192 (272)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  192 (272)
                      ++.+-++.+...+..|+..+..+.+++|-+.+++..|.++++-++..- ..+...|..++
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-~~~~~~y~~~l   83 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-GAHKEIYPYIL   83 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cCchhhHHHHH
Confidence            444555555566667777777777777777777777777777665331 11333454444

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=89.42  E-value=0.71  Score=20.80  Aligned_cols=18  Identities=17%  Similarity=0.132  Sum_probs=8.3

Q ss_pred             HHHHHHhcCCHHHHHHHH
Q 048616           86 AIRNYCIAKRLRDASGLM  103 (272)
Q Consensus        86 l~~~~~~~~~~~~a~~~~  103 (272)
                      +...+...|++++|..++
T Consensus         7 la~~~~~~G~~~eA~~~l   24 (26)
T PF07721_consen    7 LARALLAQGDPDEAERLL   24 (26)
T ss_pred             HHHHHHHcCCHHHHHHHH
Confidence            344444444444444444

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=89.38  E-value=1.5  Score=20.97  Aligned_cols=27  Identities=19%  Similarity=0.197  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616           82 AYNAAIRNYCIAKRLRDASGLMDEMVE  108 (272)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  108 (272)
                      +|..+...|...|++++|.+.|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            445555666666666666666666554

...

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.90  E-value=14  Score=31.73  Aligned_cols=151  Identities=15%  Similarity=0.044  Sum_probs=97.5

Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 048616           21 CKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDAS  100 (272)
Q Consensus        21 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (272)
                      .-.|+++.|..++..+.       ....+.+...+.+.|-.++|+++         .+|+..-   .....+.|+++.|.
T Consensus       597 vmrrd~~~a~~vLp~I~-------k~~rt~va~Fle~~g~~e~AL~~---------s~D~d~r---Felal~lgrl~iA~  657 (794)
T KOG0276|consen  597 VLRRDLEVADGVLPTIP-------KEIRTKVAHFLESQGMKEQALEL---------STDPDQR---FELALKLGRLDIAF  657 (794)
T ss_pred             hhhccccccccccccCc-------hhhhhhHHhHhhhccchHhhhhc---------CCChhhh---hhhhhhcCcHHHHH
Confidence            34677777777654443       22345566667777777776654         2332221   23345668888888


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 048616          101 GLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG  180 (272)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (272)
                      ++..+..      +..-|..|..+..+.+++..|.+.|.+...         |..|+-.+...|+-+....+-....+.|
T Consensus       658 ~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g  722 (794)
T KOG0276|consen  658 DLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQG  722 (794)
T ss_pred             HHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhc
Confidence            7766543      566788888888899999988888876543         4456666777777776666666666665


Q ss_pred             CCccHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048616          181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEM  211 (272)
Q Consensus       181 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  211 (272)
                       +.|     .-.-++...|+++++.+++.+-
T Consensus       723 -~~N-----~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  723 -KNN-----LAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             -ccc-----hHHHHHHHcCCHHHHHHHHHhc
Confidence             333     2334566788888888877654

>PHA02875 ankyrin repeat protein; Provisional

Probab=88.62  E-value=8.9  Score=31.51  Aligned_cols=76  Identities=14%  Similarity=0.161  Sum_probs=33.1

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHhh--HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHH--HHHHHHHHHHhcCC
Q 048616           20 YCKDRQVEKAYKIVEKMRDEDISPDVIS--YTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAA--AYNAAIRNYCIAKR   95 (272)
Q Consensus        20 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~   95 (272)
                      .++.|+.+-+..++    +.|..|+...  ..+.+...+..|+.+    +.+.+.+.|..|+..  .....+...+..|+
T Consensus         9 A~~~g~~~iv~~Ll----~~g~~~n~~~~~g~tpL~~A~~~~~~~----~v~~Ll~~ga~~~~~~~~~~t~L~~A~~~g~   80 (413)
T PHA02875          9 AILFGELDIARRLL----DIGINPNFEIYDGISPIKLAMKFRDSE----AIKLLMKHGAIPDVKYPDIESELHDAVEEGD   80 (413)
T ss_pred             HHHhCCHHHHHHHH----HCCCCCCccCCCCCCHHHHHHHcCCHH----HHHHHHhCCCCccccCCCcccHHHHHHHCCC
Confidence            34556665544443    3454443321  222344444556554    333344445444322  11123444555666


Q ss_pred             HHHHHHHH
Q 048616           96 LRDASGLM  103 (272)
Q Consensus        96 ~~~a~~~~  103 (272)
                      .+.+..++
T Consensus        81 ~~~v~~Ll   88 (413)
T PHA02875         81 VKAVEELL   88 (413)
T ss_pred             HHHHHHHH
Confidence            65544444

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.36  E-value=1.7  Score=22.69  Aligned_cols=20  Identities=15%  Similarity=0.209  Sum_probs=8.5

Q ss_pred             HHHHhcCcHHHHHHHHHHHH
Q 048616          158 KLCKRQEKVEIALQLWNDMV  177 (272)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~  177 (272)
                      .+|...|+.+.|.++++++.
T Consensus         7 ~ayie~Gd~e~Ar~lL~evl   26 (44)
T TIGR03504         7 RAYIEMGDLEGARELLEEVI   26 (44)
T ss_pred             HHHHHcCChHHHHHHHHHHH
Confidence            34444444444444444443

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.22  E-value=1.6  Score=22.88  Aligned_cols=19  Identities=26%  Similarity=0.379  Sum_probs=7.6

Q ss_pred             HHHhcCChhHHHHHHHHHH
Q 048616           54 GLGLVGQPDKARDVLKEMK   72 (272)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~   72 (272)
                      +|...|+.+.|.++++++.
T Consensus         8 ayie~Gd~e~Ar~lL~evl   26 (44)
T TIGR03504         8 AYIEMGDLEGARELLEEVI   26 (44)
T ss_pred             HHHHcCChHHHHHHHHHHH
Confidence            3333444444444444333

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=87.99  E-value=1.9  Score=20.55  Aligned_cols=26  Identities=15%  Similarity=0.184  Sum_probs=12.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHH
Q 048616           48 YTSIIGGLGLVGQPDKARDVLKEMKE   73 (272)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~   73 (272)
                      |..+...+...|++++|...|++..+
T Consensus         4 ~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    4 YYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44444445555555555555554443

...

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.99  E-value=13  Score=31.85  Aligned_cols=133  Identities=14%  Similarity=-0.022  Sum_probs=93.1

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      ..-+.+...+-+.|-.++|+++-         +|..   .-.....+.|+++.|.++..+..      +..-|..|..+.
T Consensus       615 ~~rt~va~Fle~~g~~e~AL~~s---------~D~d---~rFelal~lgrl~iA~~la~e~~------s~~Kw~~Lg~~a  676 (794)
T KOG0276|consen  615 EIRTKVAHFLESQGMKEQALELS---------TDPD---QRFELALKLGRLDIAFDLAVEAN------SEVKWRQLGDAA  676 (794)
T ss_pred             hhhhhHHhHhhhccchHhhhhcC---------CChh---hhhhhhhhcCcHHHHHHHHHhhc------chHHHHHHHHHH
Confidence            35566777777777777776542         3332   12344557789999988776653      567799999999


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHH
Q 048616           91 CIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIAL  170 (272)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (272)
                      .+.+++..|.+.|.+..+         |..|+-.+...|+-+....+-....+.|. .+.     ...+|...|+++++.
T Consensus       677 l~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~-~N~-----AF~~~~l~g~~~~C~  741 (794)
T KOG0276|consen  677 LSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK-NNL-----AFLAYFLSGDYEECL  741 (794)
T ss_pred             hhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc-cch-----HHHHHHHcCCHHHHH
Confidence            999999999999977654         45566677778887777777666666663 232     233556789999998


Q ss_pred             HHHHHH
Q 048616          171 QLWNDM  176 (272)
Q Consensus       171 ~~~~~~  176 (272)
                      +++..-
T Consensus       742 ~lLi~t  747 (794)
T KOG0276|consen  742 ELLIST  747 (794)
T ss_pred             HHHHhc
Confidence            887653

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=87.93  E-value=6.7  Score=26.82  Aligned_cols=117  Identities=10%  Similarity=0.153  Sum_probs=75.9

Q ss_pred             CCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHh--hHHHHHHHHHhcCChhHHHHHHHHHHHcC-----CC
Q 048616            5 GVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVI--SYTSIIGGLGLVGQPDKARDVLKEMKEYG-----CY   77 (272)
Q Consensus         5 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~   77 (272)
                      .+.++..+|...+...            ...|.+.+..++..  ..+.++.-....+++...+.+++.+....     -.
T Consensus         9 ~~~~nL~~w~~fi~~~------------~~y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~   76 (145)
T PF13762_consen    9 NVLANLEVWKTFINSH------------LPYMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGW   76 (145)
T ss_pred             chhhhHHHHHHHHHHH------------HHHhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhh
Confidence            4456666776666543            33444444444442  35666776677777877777777764221     13


Q ss_pred             CCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhh
Q 048616           78 PDAAAYNAAIRNYCIAKR-LRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRS  133 (272)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  133 (272)
                      .+...|..++.+..+... ---+..+|.-+.+.+.+++..-|..++.++.+....+.
T Consensus        77 ~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~g~~~~~  133 (145)
T PF13762_consen   77 LDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLIKAALRGYFHDS  133 (145)
T ss_pred             cccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcCCCCcc
Confidence            466788888888866555 44566778888877788888888889888777644333

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=87.73  E-value=17  Score=31.11  Aligned_cols=186  Identities=10%  Similarity=-0.011  Sum_probs=117.9

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      ++..+|+.-+..-.+.|+++.+.-+|++.... ...=...|-..+.-....|+.+-|..++....+--++..+.+.-.-.
T Consensus       295 aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a  373 (577)
T KOG1258|consen  295 AQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEA  373 (577)
T ss_pred             HHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHH
Confidence            46678999999999999999999999887642 11123456666666666799888888887777654333322222222


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHH-hHHHHHHHHhhcCChhhHH---HHHHHHHhCCCCCCHhhHHHHHH-----
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNAT-TYNLFFRVFYWSNDLRSSW---NLYCRMMGTGCLPNTQSCMFLVK-----  158 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~---~~~~~~~~~~~~~~~~~~~~l~~-----  158 (272)
                      ...-..|+++.|..+++.+...-  |+.. .-..-+....+.|+.+.+.   +++......  .-+..+...+.-     
T Consensus       374 ~f~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~--~~~~~i~~~l~~~~~r~  449 (577)
T KOG1258|consen  374 RFEESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEG--KENNGILEKLYVKFARL  449 (577)
T ss_pred             HHHHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccc--ccCcchhHHHHHHHHHH
Confidence            22344689999999999998763  4432 2223344556677777776   333333222  112222222221     


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcC
Q 048616          159 LCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMG  199 (272)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  199 (272)
                      .+.-.++.+.|..++.++.+.- +++...|..++......+
T Consensus       450 ~~~i~~d~~~a~~~l~~~~~~~-~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  450 RYKIREDADLARIILLEANDIL-PDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHhcCHHHHHHHHHHhhhcC-CccHHHHHHHHHHHHhCC
Confidence            2234578899999999988764 777788888888776665

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=87.67  E-value=7  Score=26.82  Aligned_cols=62  Identities=13%  Similarity=0.091  Sum_probs=32.7

Q ss_pred             HHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 048616           32 IVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAK   94 (272)
Q Consensus        32 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (272)
                      +.+.+.+.|++++.. -..++..+.+.++.-.|.++++++.+.+...+..|-..-+..+...|
T Consensus         8 ~~~~lk~~glr~T~q-R~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~G   69 (145)
T COG0735           8 AIERLKEAGLRLTPQ-RLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAG   69 (145)
T ss_pred             HHHHHHHcCCCcCHH-HHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCC
Confidence            334445555554443 34455555555555666666666666655555444444444444443

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=87.38  E-value=6.5  Score=26.08  Aligned_cols=58  Identities=12%  Similarity=0.208  Sum_probs=37.8

Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHH
Q 048616          134 SWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLF  192 (272)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  192 (272)
                      ..+-+..+...++.|+.......+++|-+.+++..|.++|+-++.. ..+....|-.++
T Consensus        68 vrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~v  125 (149)
T KOG4077|consen   68 VRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYYV  125 (149)
T ss_pred             HHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHHH
Confidence            3444555566677788888888888888888888888888776654 233333444443

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=86.91  E-value=12  Score=28.65  Aligned_cols=203  Identities=9%  Similarity=0.077  Sum_probs=115.6

Q ss_pred             CCCCCcCHHhHHHHHHHH-HhcCCHHHHHHHHHHHhhCCCCCCHh---hHHHHHHHHHhcCChhHHHHHHHHHHHc---C
Q 048616            3 EMGVKPDIVSYNCLIDVY-CKDRQVEKAYKIVEKMRDEDISPDVI---SYTSIIGGLGLVGQPDKARDVLKEMKEY---G   75 (272)
Q Consensus         3 ~~g~~p~~~~~~~li~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~   75 (272)
                      +.|-+||+..=|..-+.- .+...+++|+.-|.+..+.......+   ....++....+.+++++....+.++...   .
T Consensus        19 ds~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSA   98 (440)
T KOG1464|consen   19 DSNSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSA   98 (440)
T ss_pred             ccCCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHH
Confidence            456778887766544432 23457899999999887743222333   3456788899999999999999888521   1


Q ss_pred             C--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----c-CCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC----
Q 048616           76 C--YPDAAAYNAAIRNYCIAKRLRDASGLMDEMVE----K-GLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT----  144 (272)
Q Consensus        76 ~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  144 (272)
                      +  .-+....|+++.--....+.+...+.++.-.+    . +-..--.|-..|-..|...+++.+..++++++..+    
T Consensus        99 VTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~e  178 (440)
T KOG1464|consen   99 VTRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTE  178 (440)
T ss_pred             HhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccc
Confidence            1  12445667777665555555555555443322    1 00001112345666777777777777777776442    


Q ss_pred             -CC------CCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc-CCCccHHHHHHHHHHH-----HhcCCHHHHHH
Q 048616          145 -GC------LPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK-GFGSYILVSDVLFDLL-----CDMGKLVEAEK  206 (272)
Q Consensus       145 -~~------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~-----~~~g~~~~a~~  206 (272)
                       |-      ..-..+|..=|..|..+.+-.....++++.... ..-|.+.... +|+-|     .+.|++++|..
T Consensus       179 dGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhT  252 (440)
T KOG1464|consen  179 DGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHT  252 (440)
T ss_pred             cCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHh
Confidence             10      011245666666676666666666666654422 2234433322 23322     34566666543

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=86.88  E-value=3.3  Score=22.12  Aligned_cols=32  Identities=16%  Similarity=0.135  Sum_probs=19.0

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHH
Q 048616          196 CDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIK  227 (272)
Q Consensus       196 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~  227 (272)
                      .+.|-++++..++++|.+.|+..+...+..++
T Consensus        13 k~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   13 KRRGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             HHcCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            45566666666666666666666555555443

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=86.81  E-value=4.1  Score=23.17  Aligned_cols=46  Identities=20%  Similarity=0.159  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          166 VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      ++...++++.++..  ..|-.---.+|.++.+.|++++|.++++++.+
T Consensus         6 ~~~~~~~~~~lR~~--RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~~   51 (62)
T PF14689_consen    6 LEELEELIDSLRAQ--RHDFLNHLQVIYGLLQLGKYEEAKEYIKELSK   51 (62)
T ss_dssp             HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH--hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34444444444432  22222223466677777777777777766643

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=86.73  E-value=8  Score=26.53  Aligned_cols=61  Identities=15%  Similarity=0.134  Sum_probs=32.1

Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 048616          103 MDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQE  164 (272)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (272)
                      ...+.+.|.+++.. -..++..+...++.-.|.++++++.+.+...+..|...-++.+...|
T Consensus         9 ~~~lk~~glr~T~q-R~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~G   69 (145)
T COG0735           9 IERLKEAGLRLTPQ-RLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAG   69 (145)
T ss_pred             HHHHHHcCCCcCHH-HHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCC
Confidence            33444555554433 23455555555555666666666666555555555444555554444

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=86.14  E-value=11  Score=27.48  Aligned_cols=87  Identities=15%  Similarity=0.143  Sum_probs=43.0

Q ss_pred             hhcCChhhHHHHHHHHHhCCCCCCH-----hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCC
Q 048616          126 YWSNDLRSSWNLYCRMMGTGCLPNT-----QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGK  200 (272)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  200 (272)
                      ..+|++++|.+-|...... +++..     ..|..-..++.+.+.++.|+.--....+.+. .+......-..+|.+...
T Consensus       106 F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~p-ty~kAl~RRAeayek~ek  183 (271)
T KOG4234|consen  106 FKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNP-TYEKALERRAEAYEKMEK  183 (271)
T ss_pred             hhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCc-hhHHHHHHHHHHHHhhhh
Confidence            4455555555555555443 11111     1233333444556666666655555555442 122222233345666666


Q ss_pred             HHHHHHHHHHHHHc
Q 048616          201 LVEAEKSFLEMIEK  214 (272)
Q Consensus       201 ~~~a~~~~~~~~~~  214 (272)
                      +++|++=|+.+.+.
T Consensus       184 ~eealeDyKki~E~  197 (271)
T KOG4234|consen  184 YEEALEDYKKILES  197 (271)
T ss_pred             HHHHHHHHHHHHHh
Confidence            66666666666654

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=86.01  E-value=21  Score=30.54  Aligned_cols=185  Identities=10%  Similarity=0.000  Sum_probs=117.2

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFR  123 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (272)
                      +..+|..-+.--.+.|+.+.+.-+|++..-- +..-...|-..+.-....|+.+.|..++....+-.++-.+.+--.-..
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            4567888888889999999999999988642 222344555555555556999999988877766544433333222222


Q ss_pred             HHhhcCChhhHHHHHHHHHhCCCCCCH-hhHHHHHHHHHhcCcHHHHH---HHHHHHHHcCCCccHHHHHHHHHH-----
Q 048616          124 VFYWSNDLRSSWNLYCRMMGTGCLPNT-QSCMFLVKLCKRQEKVEIAL---QLWNDMVEKGFGSYILVSDVLFDL-----  194 (272)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~---~~~~~~~~~~~~~~~~~~~~li~~-----  194 (272)
                      ..-..|++..|..+++.+.+.-  |+. ..-..-+....+.|+.+.+.   +++.......  .+..+...+.--     
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~--~~~~i~~~l~~~~~r~~  450 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGK--ENNGILEKLYVKFARLR  450 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccc--cCcchhHHHHHHHHHHH
Confidence            3445789999999999997763  443 23333444556788888887   4444333221  122222222211     


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhh
Q 048616          195 LCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELAN  234 (272)
Q Consensus       195 ~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  234 (272)
                      +.-.++.+.|..++.++.+. .+++...|..++.......
T Consensus       451 ~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  451 YKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence            33468889999999999876 4556666766766665544

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=85.93  E-value=6.8  Score=24.83  Aligned_cols=51  Identities=16%  Similarity=0.040  Sum_probs=23.9

Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          158 KLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ..+...|++++|..+.+..    ..||...|-++-.  .+.|.-+++..-+.+|..+
T Consensus        47 sSLmNrG~Yq~Al~l~~~~----~~pdlepw~ALce--~rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        47 SSLMNRGDYQSALQLGNKL----CYPDLEPWLALCE--WRLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHHHccchHHHHHHhcCCC----CCchHHHHHHHHH--HhhccHHHHHHHHHHHHhC
Confidence            3444555555555554433    2445444443332  2445555555545454444

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PRK09687 putative lyase; Provisional

Probab=85.60  E-value=15  Score=28.49  Aligned_cols=236  Identities=9%  Similarity=-0.014  Sum_probs=148.7

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCCh----hHHHHHHHHHHHcCCCCCHHH
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQP----DKARDVLKEMKEYGCYPDAAA   82 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~   82 (272)
                      .+|..+....+.++...|.. .+...+..+...   ++...-...+.++++.|+.    +++...+..+...  .++..+
T Consensus        34 d~d~~vR~~A~~aL~~~~~~-~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~V  107 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGGQ-DVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACV  107 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCcc-hHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHH
Confidence            35667777788888888764 444445555543   3566666677788888864    4677778777443  367777


Q ss_pred             HHHHHHHHHhcCCH-----HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHH
Q 048616           83 YNAAIRNYCIAKRL-----RDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLV  157 (272)
Q Consensus        83 ~~~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  157 (272)
                      -...+.++...+..     ..+...+......   ++..+-...+.++.+.++ ..+...+-.+.+.   ++...-...+
T Consensus       108 R~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D---~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~  180 (280)
T PRK09687        108 RASAINATGHRCKKNPLYSPKIVEQSQITAFD---KSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAA  180 (280)
T ss_pred             HHHHHHHHhcccccccccchHHHHHHHHHhhC---CCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHH
Confidence            76677776655421     2334444333332   466666777888888877 4566666666553   3445555566


Q ss_pred             HHHHhcC-cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhH
Q 048616          158 KLCKRQE-KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQ  236 (272)
Q Consensus       158 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  236 (272)
                      .++.+.+ +-+.+...+..+..   .++..+-...+.++.+.|+. .|...+....+.+   +  .....+.++..-|+.
T Consensus       181 ~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~  251 (280)
T PRK09687        181 FALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK  251 (280)
T ss_pred             HHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH
Confidence            6666543 23456666666553   34556667788888898884 5666666666542   2  233477788888885


Q ss_pred             HHHHHHHHHHHhcCCCCCCCHHHHHHhhccccc
Q 048616          237 EALQNLSNKMALFGPSMIPKREEYLAEMSASDS  269 (272)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~p~~~~~~~ll~ac~~  269 (272)
                       ++...+..+....    ||...-...+.+|..
T Consensus       252 -~a~p~L~~l~~~~----~d~~v~~~a~~a~~~  279 (280)
T PRK09687        252 -TLLPVLDTLLYKF----DDNEIITKAIDKLKR  279 (280)
T ss_pred             -hHHHHHHHHHhhC----CChhHHHHHHHHHhc
Confidence             5777788877644    777777777777653

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=85.40  E-value=17  Score=28.88  Aligned_cols=76  Identities=3%  Similarity=-0.077  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHh---cCcHHHHHHHHHH
Q 048616           99 ASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKR---QEKVEIALQLWND  175 (272)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~  175 (272)
                      -+.++++.++.+. .+......++..+.+..+.++..+-++++.... +-+...|...+.....   .-.++....+|.+
T Consensus        50 klsilerAL~~np-~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~-~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~  127 (321)
T PF08424_consen   50 KLSILERALKHNP-DSERLLLGYLEEGEKVWDSEKLAKKWEELLFKN-PGSPELWREYLDFRQSNFASFTVSDVRDVYEK  127 (321)
T ss_pred             HHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHhccCcHHHHHHHHHH
Confidence            3445555555433 244445555555555555555555555555442 2234444444443322   2234445444444


Q ss_pred             H
Q 048616          176 M  176 (272)
Q Consensus       176 ~  176 (272)
                      .
T Consensus       128 ~  128 (321)
T PF08424_consen  128 C  128 (321)
T ss_pred             H
Confidence            3

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=85.39  E-value=15  Score=28.45  Aligned_cols=50  Identities=12%  Similarity=0.018  Sum_probs=22.4

Q ss_pred             HHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHH
Q 048616          123 RVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLW  173 (272)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  173 (272)
                      ..|..+|.+.+|.++.++....+ +.+...+-.++..+...|+--.+..-+
T Consensus       287 ~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khy  336 (361)
T COG3947         287 RAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHY  336 (361)
T ss_pred             HHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHH
Confidence            34444445555554444444432 334444444444444444433333333

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=85.28  E-value=33  Score=32.18  Aligned_cols=78  Identities=21%  Similarity=0.122  Sum_probs=37.3

Q ss_pred             HhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHH
Q 048616          125 FYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEA  204 (272)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  204 (272)
                      +.+...+++|.-.|+..-+         ..-.+.+|...|+|.+|..+..++.... .--..+-..|+.-+...++.-+|
T Consensus       949 L~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~~-de~~~~a~~L~s~L~e~~kh~eA 1018 (1265)
T KOG1920|consen  949 LREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEGK-DELVILAEELVSRLVEQRKHYEA 1018 (1265)
T ss_pred             HHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHcccchhH
Confidence            3345555555555544311         1223455556666666666665543211 00011113455555666666666


Q ss_pred             HHHHHHHH
Q 048616          205 EKSFLEMI  212 (272)
Q Consensus       205 ~~~~~~~~  212 (272)
                      -++..+..
T Consensus      1019 a~il~e~~ 1026 (1265)
T KOG1920|consen 1019 AKILLEYL 1026 (1265)
T ss_pred             HHHHHHHh
Confidence            66655543

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=85.16  E-value=4.2  Score=21.71  Aligned_cols=31  Identities=3%  Similarity=0.173  Sum_probs=16.3

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHhhHHHHH
Q 048616           22 KDRQVEKAYKIVEKMRDEDISPDVISYTSII   52 (272)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~   52 (272)
                      +.|-.+++..++++|.+.|+..+...+..++
T Consensus        14 ~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   14 RRGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             HcCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            4455555555555555555555555554444

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=85.02  E-value=7.6  Score=24.62  Aligned_cols=88  Identities=17%  Similarity=0.067  Sum_probs=59.2

Q ss_pred             cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHH
Q 048616          165 KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSN  244 (272)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  244 (272)
                      ..++|..+-+.+...+-. ....--+=+..+.+.|++++|..+.+.+    ..||...|-++.  -.+.|..+++..-+.
T Consensus        20 cHqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~----~~pdlepw~ALc--e~rlGl~s~l~~rl~   92 (115)
T TIGR02508        20 CHQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKL----CYPDLEPWLALC--EWRLGLGSALESRLN   92 (115)
T ss_pred             HHHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCC----CCchHHHHHHHH--HHhhccHHHHHHHHH
Confidence            456777777777655422 2222233445678999999999988776    589998887764  345677777777777


Q ss_pred             HHHhcCCCCCCCHHHHHH
Q 048616          245 KMALFGPSMIPKREEYLA  262 (272)
Q Consensus       245 ~~~~~~~~~~p~~~~~~~  262 (272)
                      +|...|   .|....|..
T Consensus        93 rla~sg---~p~lq~Faa  107 (115)
T TIGR02508        93 RLAASG---DPRLQTFVA  107 (115)
T ss_pred             HHHhCC---CHHHHHHHH
Confidence            776665   466666554

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PRK09687 putative lyase; Provisional

Probab=84.36  E-value=17  Score=28.16  Aligned_cols=186  Identities=10%  Similarity=-0.020  Sum_probs=94.7

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH----HHHHHHHHHHHHcCCCCCHHhHH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRL----RDASGLMDEMVEKGLSPNATTYN  119 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~~  119 (272)
                      +.......+.++...|. +.+...+..+...   +|...-...+.++...|+.    +++...+..+...  .|+...-.
T Consensus        36 d~~vR~~A~~aL~~~~~-~~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~  109 (280)
T PRK09687         36 NSLKRISSIRVLQLRGG-QDVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRA  109 (280)
T ss_pred             CHHHHHHHHHHHHhcCc-chHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHH
Confidence            55566666666666664 3444444445432   4556666666667776653    4566666666433  24555555


Q ss_pred             HHHHHHhhcCCh-----hhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 048616          120 LFFRVFYWSNDL-----RSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDL  194 (272)
Q Consensus       120 ~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  194 (272)
                      ..+.++...+..     ..+...+.....   .++..+-...+.++.+.++ +.+...+-.+.+.   ++..+-...+.+
T Consensus       110 ~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~a  182 (280)
T PRK09687        110 SAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFA  182 (280)
T ss_pred             HHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHH
Confidence            555555554321     223333333322   2355555566667766666 3455555555442   222333444555


Q ss_pred             HHhcC-CHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHH
Q 048616          195 LCDMG-KLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNK  245 (272)
Q Consensus       195 ~~~~g-~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (272)
                      +.+.+ ..+.+...+..+..   .++...-...+.++.+.++......+.+.
T Consensus       183 Lg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~~~av~~Li~~  231 (280)
T PRK09687        183 LNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKDKRVLSVLIKE  231 (280)
T ss_pred             HhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCChhHHHHHHHH
Confidence            55542 23455555555553   33444444456666666664433333333

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=84.17  E-value=18  Score=28.14  Aligned_cols=180  Identities=12%  Similarity=0.031  Sum_probs=110.0

Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHH------hcC-----CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChh
Q 048616           64 ARDVLKEMKEYGCYPDAAAYNAAIRNYC------IAK-----RLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLR  132 (272)
Q Consensus        64 a~~~~~~~~~~~~~~~~~~~~~l~~~~~------~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  132 (272)
                      -.+...+..+.-.+....++...++++.      ++|     ...+|+++|.-+.+..-  .+.+-..++..+-...+..
T Consensus       106 LnraIdr~~k~ve~~~eee~~~~iscfgg~ev~~rqg~~vkWis~KA~ELFayLv~hkg--k~v~~~~~ie~lwpe~D~k  183 (361)
T COG3947         106 LNRAIDRRLKRVELTAEEESGTQISCFGGTEVVLRQGQQVKWISRKALELFAYLVEHKG--KEVTSWEAIEALWPEKDEK  183 (361)
T ss_pred             HHHHHHHHhccccccchhccCeeeEeccceeeeccCCceeeehhhHHHHHHHHHHHhcC--CcccHhHHHHHHccccchh
Confidence            3333444443333334556666666665      122     24689999999887632  2344456777777777777


Q ss_pred             hHHHHHHHH-------Hh-------------------CCCCCCHhhHHHHHHHHHh-cCcHHHHHHHHHHHHHcCCCc--
Q 048616          133 SSWNLYCRM-------MG-------------------TGCLPNTQSCMFLVKLCKR-QEKVEIALQLWNDMVEKGFGS--  183 (272)
Q Consensus       133 ~a~~~~~~~-------~~-------------------~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~--  183 (272)
                      +|...+...       ..                   .++.-|..-|...++.... ...++++.++.......-++-  
T Consensus       184 ka~s~lhTtvyqlRKaLs~L~~ne~vts~d~~Ykld~~~~k~Dv~e~es~~rqi~~inltide~kelv~~ykgdyl~e~~  263 (361)
T COG3947         184 KASSLLHTTVYQLRKALSRLNANEAVTSQDRKYKLDAGLPKYDVQEYESLARQIEAINLTIDELKELVGQYKGDYLPEAD  263 (361)
T ss_pred             hHHHHHHHHHHHHHHHhchhccCceEEEcCCceEEecCCccccHHHHHHHhhhhhccccCHHHHHHHHHHhcCCcCCccc
Confidence            777665432       11                   1234555666666665532 346677777776653221111  


Q ss_pred             --------------cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-cHHhHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          184 --------------YILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKP-SQVSFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       184 --------------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                                    ...+++.....|..+|.+.+|.++.+..+..  .| +...+-.+++.+...|+.-.+..-++++.
T Consensus       264 y~Waedererle~ly~kllgkva~~yle~g~~neAi~l~qr~ltl--dpL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         264 YPWAEDERERLEQLYMKLLGKVARAYLEAGKPNEAIQLHQRALTL--DPLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             cccccchHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHhhc--ChhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence                          1224455667888999999999999998775  44 44444458899999998666666666553

>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]

Probab=83.93  E-value=13  Score=32.49  Aligned_cols=75  Identities=13%  Similarity=0.127  Sum_probs=47.7

Q ss_pred             HHHHHHhhcCChhhHHHHHHHHHhC--CCCCCHhhHHHHHHHHHhcCcHHH------HHHHHHHHHHcCCCccHHHHHHH
Q 048616          120 LFFRVFYWSNDLRSSWNLYCRMMGT--GCLPNTQSCMFLVKLCKRQEKVEI------ALQLWNDMVEKGFGSYILVSDVL  191 (272)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~------a~~~~~~~~~~~~~~~~~~~~~l  191 (272)
                      .|+.+|..+|++..+.++++.+...  |-+.-...++..++...+.|.++-      +.+.++..   .+.-|..||..+
T Consensus        33 sl~eacv~n~~~~rs~~ll~s~~~~~~~~k~~l~~~nlyi~~~~q~~sf~l~~~~~~~~~~lq~a---~ln~d~~t~all  109 (1117)
T COG5108          33 SLFEACVYNGDFLRSKQLLKSFIDHNKGDKILLPMINLYIREIIQRGSFELTDVLSNAKELLQQA---RLNGDSLTYALL  109 (1117)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCcCCeeehhHHHHHHHHHHhcCCccHHHHHHHHHHHHHHh---hcCCcchHHHHH
Confidence            6788888888888888888887543  333445567777788888776543      23333332   245566677666


Q ss_pred             HHHHHh
Q 048616          192 FDLLCD  197 (272)
Q Consensus       192 i~~~~~  197 (272)
                      +.+-..
T Consensus       110 ~~~sln  115 (1117)
T COG5108         110 CQASLN  115 (1117)
T ss_pred             HHhhcC
Confidence            655443

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=83.87  E-value=12  Score=26.77  Aligned_cols=41  Identities=7%  Similarity=0.218  Sum_probs=23.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCC
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSND  130 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  130 (272)
                      +-.|.+.|.+++|.+++++....   |+......-+....+.++
T Consensus       118 V~VCm~~g~Fk~A~eiLkr~~~d---~~~~~~r~kL~~II~~Kd  158 (200)
T cd00280         118 VAVCMENGEFKKAEEVLKRLFSD---PESQKLRMKLLMIIREKD  158 (200)
T ss_pred             HHHHHhcCchHHHHHHHHHHhcC---CCchhHHHHHHHHHHccc
Confidence            34567777777777777777653   344444444444444433

Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=83.77  E-value=24  Score=29.32  Aligned_cols=80  Identities=15%  Similarity=0.150  Sum_probs=38.9

Q ss_pred             cHHHHHHHHHHHHHcCCCccH----HHHHHHHHH--HHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHH
Q 048616          165 KVEIALQLWNDMVEKGFGSYI----LVSDVLFDL--LCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEA  238 (272)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~--~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  238 (272)
                      .+..-..+-+-+.+.|++|-.    ..-|.+.++  +..+|++.++.-.-.-+.+  +.|++.+|..+.-......++++
T Consensus       436 ~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~e  513 (549)
T PF07079_consen  436 AIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQE  513 (549)
T ss_pred             hHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHH
Confidence            344444444444455544432    222333322  3345666655543333322  35566666655555555556666


Q ss_pred             HHHHHHHH
Q 048616          239 LQNLSNKM  246 (272)
Q Consensus       239 a~~~~~~~  246 (272)
                      |..++..+
T Consensus       514 A~~~l~~L  521 (549)
T PF07079_consen  514 AWEYLQKL  521 (549)
T ss_pred             HHHHHHhC
Confidence            66666654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=83.69  E-value=10  Score=25.16  Aligned_cols=47  Identities=19%  Similarity=0.349  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616           63 KARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        63 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      +..+-++.+....+.|++.....-+.++-+.+|+..|.++|+-+..+
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K  113 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK  113 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            34455566666667777777777777777777777777777766644

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=83.64  E-value=20  Score=28.48  Aligned_cols=66  Identities=20%  Similarity=0.211  Sum_probs=45.1

Q ss_pred             CCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc---cHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          148 PNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGS---YILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      ....++..+.+.+.+.|.++.|...+..+...+...   .+...-.-.+.+...|+..+|...++...+
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344567777888888888888888888877643111   223334455666777888888888877766

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=82.47  E-value=33  Score=30.07  Aligned_cols=183  Identities=15%  Similarity=0.099  Sum_probs=106.0

Q ss_pred             HHHHHHHHh-hCCCCCC--HhhHHHHHHHHH-hcCChhHHHHHHHHHHHcCCCCCHH-----HHHHHHHHHHhcCCHHHH
Q 048616           29 AYKIVEKMR-DEDISPD--VISYTSIIGGLG-LVGQPDKARDVLKEMKEYGCYPDAA-----AYNAAIRNYCIAKRLRDA   99 (272)
Q Consensus        29 a~~~~~~~~-~~~~~~~--~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~~a   99 (272)
                      |+..++-+. +..++|.  ..++-.+...+. ...+++.|...+++.....-.++..     ....++..+.+.+... |
T Consensus        40 ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a  118 (608)
T PF10345_consen   40 AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-A  118 (608)
T ss_pred             HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-H
Confidence            444555555 3333332  334555555555 5688999999999876443222221     2335566677766666 9


Q ss_pred             HHHHHHHHHcC----CCCCHHhHHHH-HHHHhhcCChhhHHHHHHHHHhCC---CCCCHhhHHHHHHHHH--hcCcHHHH
Q 048616          100 SGLMDEMVEKG----LSPNATTYNLF-FRVFYWSNDLRSSWNLYCRMMGTG---CLPNTQSCMFLVKLCK--RQEKVEIA  169 (272)
Q Consensus       100 ~~~~~~~~~~~----~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~--~~~~~~~a  169 (272)
                      ...+++.++.-    ..+-...|..+ +..+...+++..|.+.++.+...-   ..|...++..++.+..  +.+..+++
T Consensus       119 ~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~  198 (608)
T PF10345_consen  119 LKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDV  198 (608)
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhH
Confidence            98888877541    11122223333 222333479999999998875431   2444555555665553  45666777


Q ss_pred             HHHHHHHHHcC---------CCccHHHHHHHHHHHH--hcCCHHHHHHHHHHHH
Q 048616          170 LQLWNDMVEKG---------FGSYILVSDVLFDLLC--DMGKLVEAEKSFLEMI  212 (272)
Q Consensus       170 ~~~~~~~~~~~---------~~~~~~~~~~li~~~~--~~g~~~~a~~~~~~~~  212 (272)
                      .+.++.+....         ..|...+|..+++.++  ..|+++.+...++++.
T Consensus       199 ~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  199 LELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             HHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            77777663321         2345667777776544  6778777777766554

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=82.38  E-value=16  Score=26.43  Aligned_cols=57  Identities=9%  Similarity=-0.035  Sum_probs=24.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          192 FDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       192 i~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      .+.....|.+++|+..++...+.+..  ......-..++...|+.++|..-|++..+..
T Consensus       133 Arvq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         133 ARVQLQQKKADAALKTLDTIKEESWA--AIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            33444455555555555444332111  1111122344555555555555555554443

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=82.35  E-value=21  Score=30.67  Aligned_cols=87  Identities=10%  Similarity=0.047  Sum_probs=47.9

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHH
Q 048616           57 LVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWN  136 (272)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  136 (272)
                      -.|+...|...+.........-.......|.+...+.|-...|..++.+..... ...+-++..+..++....+.++|++
T Consensus       619 ~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~-~sepl~~~~~g~~~l~l~~i~~a~~  697 (886)
T KOG4507|consen  619 AVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAIN-SSEPLTFLSLGNAYLALKNISGALE  697 (886)
T ss_pred             ecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhc-ccCchHHHhcchhHHHHhhhHHHHH
Confidence            356666666666555432211122233344455555556666666666555543 2344555666666666677777777


Q ss_pred             HHHHHHhC
Q 048616          137 LYCRMMGT  144 (272)
Q Consensus       137 ~~~~~~~~  144 (272)
                      .|++..+.
T Consensus       698 ~~~~a~~~  705 (886)
T KOG4507|consen  698 AFRQALKL  705 (886)
T ss_pred             HHHHHHhc
Confidence            77666554

>PHA02875 ankyrin repeat protein; Provisional

Probab=82.32  E-value=26  Score=28.77  Aligned_cols=193  Identities=15%  Similarity=0.175  Sum_probs=91.9

Q ss_pred             CCCCCcCHHh--HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHh--hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC
Q 048616            3 EMGVKPDIVS--YNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVI--SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYP   78 (272)
Q Consensus         3 ~~g~~p~~~~--~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   78 (272)
                      +.|..|+...  ..+.+...+..|+.+-+    +.+.+.|..|+..  .....+...+..|+.+.+..+++    .|...
T Consensus        23 ~~g~~~n~~~~~g~tpL~~A~~~~~~~~v----~~Ll~~ga~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll~----~~~~~   94 (413)
T PHA02875         23 DIGINPNFEIYDGISPIKLAMKFRDSEAI----KLLMKHGAIPDVKYPDIESELHDAVEEGDVKAVEELLD----LGKFA   94 (413)
T ss_pred             HCCCCCCccCCCCCCHHHHHHHcCCHHHH----HHHHhCCCCccccCCCcccHHHHHHHCCCHHHHHHHHH----cCCcc
Confidence            3566665532  33445556677887544    4444555544422  11234555667788776655554    33211


Q ss_pred             CHH---HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHh--HHHHHHHHhhcCChhhHHHHHHHHHhCCCCCC---H
Q 048616           79 DAA---AYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATT--YNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPN---T  150 (272)
Q Consensus        79 ~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~  150 (272)
                      +..   .-...+...+..|+.    ++++.+.+.|..|+...  -.+.+...+..|+.+-+..++    +.|..++   .
T Consensus        95 ~~~~~~~g~tpL~~A~~~~~~----~iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v~~Ll----~~g~~~~~~d~  166 (413)
T PHA02875         95 DDVFYKDGMTPLHLATILKKL----DIMKLLIARGADPDIPNTDKFSPLHLAVMMGDIKGIELLI----DHKACLDIEDC  166 (413)
T ss_pred             cccccCCCCCHHHHHHHhCCH----HHHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHH----hcCCCCCCCCC
Confidence            110   011233444555665    45555566665554321  123444555677765544444    3333322   2


Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHH---HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH
Q 048616          151 QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILV---SDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQ  220 (272)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~  220 (272)
                      .-.+.+ ...+..|+.+-+    +.+.+.|..++...   ....+...+..|+.+-    .+.+.+.|..|+.
T Consensus       167 ~g~TpL-~~A~~~g~~eiv----~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~i----v~~Ll~~gad~n~  230 (413)
T PHA02875        167 CGCTPL-IIAMAKGDIAIC----KMLLDSGANIDYFGKNGCVAALCYAIENNKIDI----VRLFIKRGADCNI  230 (413)
T ss_pred             CCCCHH-HHHHHcCCHHHH----HHHHhCCCCCCcCCCCCCchHHHHHHHcCCHHH----HHHHHHCCcCcch
Confidence            222333 334456765544    44445555444321   1234444456676653    3444556666654

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=82.27  E-value=29  Score=29.15  Aligned_cols=88  Identities=10%  Similarity=0.120  Sum_probs=49.7

Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhH
Q 048616           55 LGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSS  134 (272)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  134 (272)
                      ....|+++.+.+.+...... +-....+...++......|++++|..+-.-|....+. +...........-..|-++++
T Consensus       333 ~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~  410 (831)
T PRK15180        333 FSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKS  410 (831)
T ss_pred             HHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHH
Confidence            34556777776666655432 2334455666666666677777777776666655443 333333333333445556666


Q ss_pred             HHHHHHHHhC
Q 048616          135 WNLYCRMMGT  144 (272)
Q Consensus       135 ~~~~~~~~~~  144 (272)
                      ...|+++...
T Consensus       411 ~~~wk~~~~~  420 (831)
T PRK15180        411 YHYWKRVLLL  420 (831)
T ss_pred             HHHHHHHhcc
Confidence            6666666443

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=82.11  E-value=11  Score=27.31  Aligned_cols=62  Identities=11%  Similarity=0.127  Sum_probs=41.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616           48 YTSIIGGLGLVGQPDKARDVLKEMKE-YGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      +...+......++.+......+...+ ....|++.+|..++..+...|+.++|.++..++...
T Consensus       111 ~~~~l~~~~~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  111 YAALLLLARLPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             HHHHHHhhcCCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            33334433455555444443333332 124689999999999999999999999999998876

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=81.82  E-value=13  Score=26.83  Aligned_cols=33  Identities=15%  Similarity=-0.087  Sum_probs=22.1

Q ss_pred             CccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          182 GSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       182 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      .|+..+|..++.++...|+.++|.++..++...
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            566666666677777777777777666666553

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=81.63  E-value=6.5  Score=23.61  Aligned_cols=46  Identities=9%  Similarity=-0.032  Sum_probs=20.8

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCCHHHHHHH
Q 048616           57 LVGQPDKARDVLKEMKEYGCYPD--AAAYNAAIRNYCIAKRLRDASGL  102 (272)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~  102 (272)
                      ...+-++|+..|+...+.-..+.  -.++..++.+++..|++.++++.
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555544322211  12344445555555555554443

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>PF09454 Vps23_core: Vps23 core domain; InterPro: IPR017916 The Endosomal Sorting Complex Required for Transport (ESCRT) complexes form the machinery driving protein sorting from endosomes to lysosomes

Probab=81.12  E-value=5.6  Score=22.91  Aligned_cols=50  Identities=12%  Similarity=0.157  Sum_probs=27.6

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGL   57 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   57 (272)
                      .|+...++.++..+++..-.+.++..+.+..+.|. .+..+|.--++.+++
T Consensus         5 ~~~~~l~~Ql~el~Aed~AieDtiy~L~~al~~g~-I~~d~~lK~vR~LaR   54 (65)
T PF09454_consen    5 VAEDPLSNQLYELVAEDHAIEDTIYYLDRALQRGS-IDLDTFLKQVRSLAR   54 (65)
T ss_dssp             E-SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-S-HHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHH
Confidence            45555666666666666666666666666666553 244455444444443

ESCRT complexes are central to receptor down-regulation, lysosome biogenesis, and budding of HIV. Yeast ESCRT-I consists of three protein subunits, VPS23, VPS28, and VPS37. In humans, ESCRT-I comprises TSG101, VPS28, and one of four potential human VPS37 homologues. The main role of ESCRT-I is to recognise ubiquitinated cargo via the UEV domain of the VPS23/TSG101 subunit. The assembly of the ESCRT-I complex is directed by the C-terminal steadiness box (SB) of VPS23, the N-terminal half of VPS28, and the C-terminal half of VPS37. The structure is primarily composed of three long, parallel helical hairpins, each corresponding to a different subunit. The additional domains and motifs extending beyond the core serve as gripping tools for ESCRT-I critical functions [, ]. This entry represents the Steadiness box domain.; PDB: 2CAZ_A 2F66_D 2F6M_A 2P22_A.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=81.00  E-value=19  Score=26.32  Aligned_cols=92  Identities=13%  Similarity=0.080  Sum_probs=67.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCH----HhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNA----TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ  163 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (272)
                      +-+...|++++|..-|.+.++.-+....    ..|..-..++.+.+.++.|+.--...++.+ +........-..+|.+.
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEKM  181 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHhh
Confidence            4577889999999999999987332222    234444567888889999988887777764 22334444556678889


Q ss_pred             CcHHHHHHHHHHHHHcC
Q 048616          164 EKVEIALQLWNDMVEKG  180 (272)
Q Consensus       164 ~~~~~a~~~~~~~~~~~  180 (272)
                      ..+++|+.=|..+.+..
T Consensus       182 ek~eealeDyKki~E~d  198 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESD  198 (271)
T ss_pred             hhHHHHHHHHHHHHHhC
Confidence            99999999999988774

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=80.89  E-value=24  Score=27.37  Aligned_cols=36  Identities=19%  Similarity=0.153  Sum_probs=22.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHH----HHcCCCCcHHhHH
Q 048616          189 DVLFDLLCDMGKLVEAEKSFLEM----IEKGHKPSQVSFR  224 (272)
Q Consensus       189 ~~li~~~~~~g~~~~a~~~~~~~----~~~~~~p~~~~~~  224 (272)
                      .-++..+.+.|++.+|..+...+    .+.+-+|+..+..
T Consensus       129 ~Kli~l~y~~~~YsdalalIn~ll~ElKk~DDK~~Li~vh  168 (421)
T COG5159         129 CKLIYLLYKTGKYSDALALINPLLHELKKYDDKINLITVH  168 (421)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHHHhhcCccceeehh
Confidence            44677788888888888765543    3334455544443

>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF

Probab=80.66  E-value=1.9  Score=28.76  Aligned_cols=21  Identities=38%  Similarity=0.545  Sum_probs=11.0

Q ss_pred             CChhHHHHHHHHHHHcCCCCC
Q 048616           59 GQPDKARDVLKEMKEYGCYPD   79 (272)
Q Consensus        59 ~~~~~a~~~~~~~~~~~~~~~   79 (272)
                      |.-..|..+|++|.++|-+||
T Consensus       109 gsk~DaY~VF~kML~~G~pPd  129 (140)
T PF11663_consen  109 GSKTDAYAVFRKMLERGNPPD  129 (140)
T ss_pred             ccCCcHHHHHHHHHhCCCCCc
Confidence            344445555555555555544

The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=80.43  E-value=40  Score=29.65  Aligned_cols=221  Identities=13%  Similarity=0.122  Sum_probs=91.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHh---c
Q 048616           18 DVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYG-CYPDAAAYNAAIRNYCI---A   93 (272)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~---~   93 (272)
                      ..+.-.|+++.|++.+-+  ..+...+...+...+.-|.-.+-.+...   ..+.... -.|...-+..||..|.+   .
T Consensus       266 ~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~~  340 (613)
T PF04097_consen  266 QVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFEI  340 (613)
T ss_dssp             HHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTTT
T ss_pred             HHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHhc
Confidence            445567888888888766  2233445555555555443322222211   2222111 01122456778888876   4


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHhHHHHH-HHHhhcCChhhHH-----------HHHHH---HHhCCCCCCHh---hHHH
Q 048616           94 KRLRDASGLMDEMVEKGLSPNATTYNLFF-RVFYWSNDLRSSW-----------NLYCR---MMGTGCLPNTQ---SCMF  155 (272)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~~~~~~~~a~-----------~~~~~---~~~~~~~~~~~---~~~~  155 (272)
                      .+..+|.++|--+....-+.....+...+ ......++++..+           .++++   +.... .++..   +...
T Consensus       341 td~~~Al~Y~~li~~~~~~~~~~l~~~~l~eLvletref~~LLG~i~~dG~r~~G~i~~~~~Li~~~-~~~~~~~~i~~~  419 (613)
T PF04097_consen  341 TDPREALQYLYLICLFKDPEQRNLFHECLRELVLETREFDLLLGDINPDGSRTPGLIERRLSLIKFD-DDEDFLREIIEQ  419 (613)
T ss_dssp             T-HHHHHHHHHGGGGS-SCCHHHHHHHHHHHHHHHH--HHHHHEEE-TTS-EEE-HHHHTGGGGT-S-SSSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHccCCHHHHCCCCCCCCccccceeeccccccCCC-CcHHHHHHHHHH
Confidence            56778888776665432211122222222 2222233222111           11221   11111 11222   2333


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHH-HHHhcCC-----------HHHHHHHHHHHHHcC-----C-C
Q 048616          156 LVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFD-LLCDMGK-----------LVEAEKSFLEMIEKG-----H-K  217 (272)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~-~~~~~g~-----------~~~a~~~~~~~~~~~-----~-~  217 (272)
                      ...-+...|++++|..+|.-..+.+  .-..+.|..+. +......           ...|..+.+.....+     + .
T Consensus       420 ~A~~~e~~g~~~dAi~Ly~La~~~d--~vl~lln~~Ls~~l~~~~~~~~~~s~~~~l~~la~~i~~~y~~~~~~~~~~~~  497 (613)
T PF04097_consen  420 AAREAEERGRFEDAILLYHLAEEYD--KVLSLLNRLLSQVLSQPSSSSLSDSERERLIELAKEILERYKSNPHISSKVSR  497 (613)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHTT-HH--HHHHHHHHHHHHHHHCSSTSSSSSTTTTSHHHHHHHHHHHHTTSHHHHTTS-H
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhhHH--HHHHHHHHHHHHHHcCccccccccchhhhHHHHHHHHHHHHHhCcchHhhccH
Confidence            3445667888999988887655331  11223333333 2222222           334555554443221     1 1


Q ss_pred             CcHHhHHHHHHH-----HHHhhhHHHHHHHHHHH
Q 048616          218 PSQVSFRRIKAL-----MELANKQEALQNLSNKM  246 (272)
Q Consensus       218 p~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~  246 (272)
                      .+..|+..|+..     ....|+++.|.+.++++
T Consensus       498 ~~~~t~~~Ll~L~~ff~~~~~g~~~~AL~~i~~L  531 (613)
T PF04097_consen  498 KNRETFQLLLDLAEFFDLYHAGQYEQALDIIEKL  531 (613)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhC
Confidence            223455544332     35678888888777765

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	272
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-14
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	1e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 70.6 bits (171), Expect = 6e-14
 Identities = 24/250 (9%), Positives = 65/250 (26%), Gaps = 4/250 (1%)

Query: 1   MREMGVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ 60
            R+    P       L+        ++       +     +S       +      L  Q
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 61  PDKARDVL---KEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATT 117
              A  +L      ++         YNA +  +      ++   ++  + + GL+P+  +
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 118 YNLFFRVFY-WSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDM 176
           Y    +       D  +      +M   G          L+    R   ++   ++    
Sbjct: 203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF 262

Query: 177 VEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQ 236
                    + +  L   +      V   K  L +        +     + + + + + +
Sbjct: 263 SLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVE 322

Query: 237 EALQNLSNKM 246
           +         
Sbjct: 323 KPTLPSKEVK 332

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 41.6 bits (97), Expect = 1e-04
 Identities = 38/258 (14%), Positives = 74/258 (28%), Gaps = 40/258 (15%)

Query: 26  VEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNA 85
           + +A ++     + D+  DV  Y + +       +     D +K        P+  A   
Sbjct: 19  INEAQRVKPSSPERDVERDVFLYRAYLA----QRKYGVVLDEIKPS----SAPELQAVRM 70

Query: 86  AIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSND--------LRSSWNL 137
                    R       +D  + + +    TT+ L     Y+ +         L    +L
Sbjct: 71  FAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQGDSL 130

Query: 138 YCRMMGTGCL-----------------------PNTQSCMFLVKLCKRQEKVEIALQLWN 174
            C  M    L                         TQ     V L    EK++ A  ++ 
Sbjct: 131 ECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQ 190

Query: 175 DMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELAN 234
           +M +K     +L+ +         G+   AE    E ++K     +     +     L  
Sbjct: 191 EMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLSQHLGK 249

Query: 235 KQEALQNLSNKMALFGPS 252
             E      +++     S
Sbjct: 250 PPEVTNRYLSQLKDAHRS 267

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 40.2 bits (93), Expect = 6e-04
 Identities = 31/233 (13%), Positives = 67/233 (28%), Gaps = 62/233 (26%)

Query: 14  NCLI---DVYCKDRQVEKAY----KIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARD 66
           NCL+   +V   + +   A+    KI+   R + ++ D +S                   
Sbjct: 245 NCLLVLLNVQ--NAKAWNAFNLSCKILLTTRFKQVT-DFLS-------------AATTTH 288

Query: 67  VLKEMKEYGCYPDAA----AYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFF 122
           +  +       PD            R   + + +   +     ++ + +     T++ + 
Sbjct: 289 ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK 348

Query: 123 RVFYW--SNDLRSSWNLYCRMMGTGCL-PNTQSCMFLVKLCKRQEKVEIALQ----LWND 175
            V     +  + SS N          L P     MF  +L        I       +W D
Sbjct: 349 HVNCDKLTTIIESSLN---------VLEPAEYRKMF-DRLSVFPPSAHIPTILLSLIWFD 398

Query: 176 MVE-------KGFGSYILVS-----------DVLFDLLCDMGKLVEAEKSFLE 210
           +++            Y LV             +  +L   +       +S ++
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVD 451

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	272
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.96
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.91
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.9
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.89
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.89
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.88
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.87
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.86
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.86
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.85
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.83
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.83
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.83
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.83
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.83
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.82
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.82
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.81
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.81
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.81
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.8
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.8
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.8
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.79
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.79
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.79
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.79
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.78
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.78
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.76
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.76
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.75
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.75
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.74
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.74
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.72
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.69
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.69
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.68
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.68
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.65
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.64
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.63
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.62
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.61
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.61
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.61
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.6
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.6
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.59
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.57
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.57
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.57
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.56
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.56
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.55
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.55
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.55
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.55
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.55
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.54
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.53
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.52
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.52
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.52
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.5
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.49
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.49
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.47
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.46
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.43
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.43
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.43
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.42
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.42
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.4
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.4
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.39
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.38
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.37
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.37
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.37
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.37
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.34
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.32
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.32
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.32
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.3
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.29
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.28
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.28
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.27
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.27
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.26
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.26
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.26
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.25
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.24
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.23
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.21
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.21
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.2
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.18
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.17
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.15
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.14
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.12
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.12
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.12
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.1
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.08
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.06
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.06
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.05
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.05
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.05
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.05
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.04
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.03
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.03
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.02
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.0
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.0
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.0
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.99
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.98
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.97
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.97
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.97
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.96
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.96
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.95
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.94
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.93
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.93
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.91
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.91
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.89
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.88
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.88
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.87
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.84
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.83
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.83
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.82
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.81
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.8
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.8
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.79
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.79
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.79
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.78
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.77
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.77
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.77
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.72
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.72
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.71
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.71
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.7
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.7
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.69
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.68
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.67
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.63
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.62
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.6
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.59
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.59
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.56
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.56
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.56
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.53
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.51
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.5
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.48
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.48
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.48
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.47
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.45
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.43
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.43
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.4
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.36
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.35
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.34
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.34
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.32
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.29
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.25
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.23
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.21
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.18
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.15
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.11
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.11
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.11
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.1
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.05
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.94
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.83
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.79
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.72
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.71
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.64
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.61
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.47
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.46
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.46
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.45
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.37
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.26
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.19
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.19
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.17
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.15
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.07
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.05
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.88
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.81
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.77
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.72
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.53
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.42
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.26
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	96.16
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.11
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.01
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.66
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.56
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.51
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.42
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.96
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.89
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.77
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.24
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	92.52
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	92.5
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	92.43
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	92.17
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	91.9
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	91.28
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	90.82
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.74
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	90.23
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	90.14
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	90.05
2p58_C	116	Putative type III secretion protein YSCG; type III	89.8
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	89.67
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	89.21
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	88.89
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	88.64
2p58_C	116	Putative type III secretion protein YSCG; type III	88.54
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	87.25
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	86.01
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	85.8
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	85.21
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	85.16
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	84.97
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	84.4
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	82.93
2d2s_A	235	Exocyst complex component EXO84; tethering complex	81.67
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	81.4
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	80.83
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	80.24

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=4.1e-38  Score=256.81  Aligned_cols=208  Identities=15%  Similarity=0.126  Sum_probs=175.0

Q ss_pred             HHHHHHHHHHhhCCCCCCH-hhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC---------H
Q 048616           27 EKAYKIVEKMRDEDISPDV-ISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKR---------L   96 (272)
Q Consensus        27 ~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~   96 (272)
                      ..+..+.+++.+.+..+++ ..++.+|.+|++.|++++|+++|++|.+.|++||..+|+.||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            3455666777777665544 35788899999999999999999999999999999999999999887654         6


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHH
Q 048616           97 RDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDM  176 (272)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (272)
                      ++|.++|++|...|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhh
Q 048616          177 VEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELAN  234 (272)
Q Consensus       177 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  234 (272)
                      .+.|+.||..+|+.||.+|++.|++++|.+++++|.+.|..|+..||+.|+..|...+
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~  224 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEV  224 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCc
Confidence            9999999999999999999999999999999999999999999999999988887654

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=6.2e-38  Score=255.74  Aligned_cols=197  Identities=13%  Similarity=0.179  Sum_probs=183.1

Q ss_pred             CCCCCCcCH-HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC---------hhHHHHHHHHH
Q 048616            2 REMGVKPDI-VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ---------PDKARDVLKEM   71 (272)
Q Consensus         2 ~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~a~~~~~~~   71 (272)
                      ++.++.++. ..++.+|++|++.|++++|+++|++|.+.|++||..+|+.||.+|++.+.         +++|.++|++|
T Consensus        17 ~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M   96 (501)
T 4g26_A           17 KKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQM   96 (501)
T ss_dssp             -------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHH
T ss_pred             HHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHH
Confidence            456666554 46899999999999999999999999999999999999999999987765         57899999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHh
Q 048616           72 KEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQ  151 (272)
Q Consensus        72 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  151 (272)
                      .+.|+.||..||+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..
T Consensus        97 ~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~  176 (501)
T 4g26_A           97 IVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEP  176 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhc
Q 048616          152 SCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDM  198 (272)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  198 (272)
                      ||+.+|.+|++.|++++|.+++++|.+.+..|+..||+.++..|...
T Consensus       177 ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          177 ELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999998864

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.96  E-value=1.9e-26  Score=193.72  Aligned_cols=257  Identities=11%  Similarity=0.022  Sum_probs=205.2

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAA   86 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (272)
                      +++..+|+.++..|.+.|++++|.++|+++.+.+.. +..++..++.++.+.|++++|.++++++.+.. +.+..+++.+
T Consensus       302 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l  379 (597)
T 2xpi_A          302 EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAV  379 (597)
T ss_dssp             GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHH
Confidence            589999999999999999999999999999876533 67788888888888888888888888887653 4567788888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcH
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKV  166 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (272)
                      +.+|.+.|++++|.++|+++.+.... +..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..++..++.+|.+.|++
T Consensus       380 ~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  457 (597)
T 2xpi_A          380 GIYYLCVNKISEARRYFSKSSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNI  457 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCH
Confidence            88888888888888888888876432 67788888888888888888888888887664 44677888888888888888


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCc--HHhHHHHHHHHHHhhhHHHHH
Q 048616          167 EIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK----GHKPS--QVSFRRIKALMELANKQEALQ  240 (272)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~~~~~~a~  240 (272)
                      ++|.++|+++.+.. +.+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..+..+|.+.|++++|.
T Consensus       458 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~  536 (597)
T 2xpi_A          458 LLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAI  536 (597)
T ss_dssp             HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHH
Confidence            88888888887765 446777888888888888888888888888765    56776  667888888888888888888


Q ss_pred             HHHHHHHhcCCCCCCCHHHHHHhhcccccCC
Q 048616          241 NLSNKMALFGPSMIPKREEYLAEMSASDSFS  271 (272)
Q Consensus       241 ~~~~~~~~~~~~~~p~~~~~~~ll~ac~~~~  271 (272)
                      ++++++.+.++   ++..+|..+..++...|
T Consensus       537 ~~~~~~~~~~p---~~~~~~~~l~~~~~~~g  564 (597)
T 2xpi_A          537 DALNQGLLLST---NDANVHTAIALVYLHKK  564 (597)
T ss_dssp             HHHHHHHHHSS---CCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCC---CChHHHHHHHHHHHHhC
Confidence            88888877661   35566666666554443

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.95  E-value=1.1e-24  Score=182.96  Aligned_cols=238  Identities=7%  Similarity=-0.054  Sum_probs=215.3

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      .+..+|+.++.++.+.|++++|.++|+++.+.. +.+..+|..++..|.+.|++++|.++|+++.+.. +.+..+|+.++
T Consensus       337 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  414 (597)
T 2xpi_A          337 YNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFA  414 (597)
T ss_dssp             TCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            367789999999999999999999999998754 4478899999999999999999999999998864 34688999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHH
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVE  167 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (272)
                      .+|.+.|++++|+++|+++.+.+. .+..+|..++.+|.+.|++++|.++|+++.+.. +.+..+|..++..+.+.|+++
T Consensus       415 ~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~  492 (597)
T 2xpi_A          415 HSFAIEGEHDQAISAYTTAARLFQ-GTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQ  492 (597)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHTTT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHH
Confidence            999999999999999999998754 378899999999999999999999999998764 457889999999999999999


Q ss_pred             HHHHHHHHHHHc----CCCcc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHH
Q 048616          168 IALQLWNDMVEK----GFGSY--ILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQN  241 (272)
Q Consensus       168 ~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  241 (272)
                      +|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.++|+++.+.+ +.+..+|..+..+|...|++++|.+
T Consensus       493 ~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~  571 (597)
T 2xpi_A          493 TAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAIT  571 (597)
T ss_dssp             HHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHH
Confidence            999999999876    55676  7899999999999999999999999998874 3478889999999999999999999


Q ss_pred             HHHHHHhcC
Q 048616          242 LSNKMALFG  250 (272)
Q Consensus       242 ~~~~~~~~~  250 (272)
                      +++++.+..
T Consensus       572 ~~~~~l~~~  580 (597)
T 2xpi_A          572 HLHESLAIS  580 (597)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHhcC
Confidence            999999876

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.91  E-value=1.2e-20  Score=150.39  Aligned_cols=238  Identities=13%  Similarity=0.067  Sum_probs=148.5

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAA   86 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (272)
                      +.+..+|..+...+.+.|++++|++.|+++.+..+ .+..+|..+..++.+.|++++|.+.|+++.+.. +.+...+..+
T Consensus        64 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  141 (388)
T 1w3b_A           64 PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKP-DFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDL  141 (388)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHH
T ss_pred             CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCc-chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            34667778888888888888888888888776532 245567777777777777777777777776653 2234455556


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCC--------------------
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGC--------------------  146 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------------------  146 (272)
                      ...+...|++++|.+.|+++.+..+. +..+|..+...+.+.|++++|...|+++.+.+.                    
T Consensus       142 ~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~  220 (388)
T 1w3b_A          142 GNLLKALGRLEEAKACYLKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFD  220 (388)
T ss_dssp             HHHHHTTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTT
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHH
Confidence            66666666666666666666655322 455566666666666666666666655543320                    


Q ss_pred             -------------CCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          147 -------------LPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       147 -------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                                   +.+..++..+..++.+.|++++|...++++.+.+ +.+..+|..+...+.+.|++++|.+.|+++.+
T Consensus       221 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  299 (388)
T 1w3b_A          221 RAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALR  299 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence                         1234455556666666666666666666666554 33345566666666666666666666666665


Q ss_pred             cCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          214 KGHKPSQVSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       214 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      .. +.+..++..+...+...|++++|...++++.+.
T Consensus       300 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  334 (388)
T 1w3b_A          300 LC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV  334 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS
T ss_pred             hC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            52 335555666666666666666666666666543

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.90  E-value=1.8e-20  Score=149.33  Aligned_cols=232  Identities=11%  Similarity=0.005  Sum_probs=172.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 048616           13 YNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI   92 (272)
Q Consensus        13 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (272)
                      +..+...+...|++++|.+.|+++.+..+ -+..+|..+...+.+.|++++|...|+++.+.+ +.+...+..+...+..
T Consensus       138 ~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~  215 (388)
T 1w3b_A          138 RSDLGNLLKALGRLEEAKACYLKAIETQP-NFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKE  215 (388)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHH
Confidence            34444444455555555555555554322 134555555666666666666666666665543 2245556666666666


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHH
Q 048616           93 AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQL  172 (272)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (272)
                      .|++++|...+++.....+. +..++..+...+.+.|++++|...|+++.+.+ +.+..++..+...+.+.|++++|...
T Consensus       216 ~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~  293 (388)
T 1w3b_A          216 ARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDC  293 (388)
T ss_dssp             TTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            66666666666666655332 57788889999999999999999999998874 34577899999999999999999999


Q ss_pred             HHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          173 WNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ++++.+.. +.+..++..+...+.+.|++++|.+.++++.+.. +.+..++..+...+.+.|++++|...++++.+..
T Consensus       294 ~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  369 (388)
T 1w3b_A          294 YNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             HHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            99999875 6677899999999999999999999999998752 3356678889999999999999999999998754

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.89  E-value=5.3e-20  Score=149.30  Aligned_cols=236  Identities=10%  Similarity=0.006  Sum_probs=144.6

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      .++..|..+...+.+.|++++|+.+|+++.+.. +.+..+|..+..++...|++++|...|+++.+.+ +.+..++..+.
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  101 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRG  101 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHH
Confidence            355677777777777788888888887777653 3366777777777777777777777777777664 33566777777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCH---HhHHHH------------HHHHhhcCChhhHHHHHHHHHhCCCCCCHhh
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNA---TTYNLF------------FRVFYWSNDLRSSWNLYCRMMGTGCLPNTQS  152 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (272)
                      .+|.+.|++++|.+.|+++.+.... +.   ..+..+            ...+...|++++|...|+++.+.. +.+..+
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  179 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAEL  179 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHH
Confidence            7777777777777777777765321 22   333333            233566666666666666665542 334555


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHh-HHHH-----
Q 048616          153 CMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVS-FRRI-----  226 (272)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~-~~~l-----  226 (272)
                      +..+..++.+.|++++|...++.+.+.. +.+..++..+...+...|++++|.+.|+++.+.  .|+... +..+     
T Consensus       180 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~  256 (450)
T 2y4t_A          180 RELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKK  256 (450)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHH
Confidence            5666666666666666666666655543 334455556666666666666666666666543  222222 2222     


Q ss_pred             -------HHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          227 -------KALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       227 -------~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                             ...+...|++++|...++++.+..
T Consensus       257 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~  287 (450)
T 2y4t_A          257 LNKLIESAEELIRDGRYTDATSKYESVMKTE  287 (450)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence                   455555666666666666655543

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.89  E-value=9.1e-20  Score=147.94  Aligned_cols=233  Identities=14%  Similarity=0.070  Sum_probs=116.4

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH---HHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA---AAYNA   85 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~   85 (272)
                      +..+|..+..++...|++++|...|+++.+.+.. +...+..+..++.+.|++++|.+.|+++.+.. +.+.   ..+..
T Consensus        59 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~  136 (450)
T 2y4t_A           59 NYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD-FTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQ  136 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHH
Confidence            4556666666666666666666666666654322 45566666666666666666666666665542 1122   33333


Q ss_pred             H------------HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhH
Q 048616           86 A------------IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSC  153 (272)
Q Consensus        86 l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (272)
                      +            ...+...|++++|...|+++.+.... +..++..+...|.+.|++++|...|+++.+.. +.+..++
T Consensus       137 l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~  214 (450)
T 2y4t_A          137 LIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAF  214 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHH
Confidence            3            22255555555555555555544322 44455555555555555555555555554432 2234445


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHH------------HHHHHhcCCHHHHHHHHHHHHHcCCCCc--
Q 048616          154 MFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVL------------FDLLCDMGKLVEAEKSFLEMIEKGHKPS--  219 (272)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------------i~~~~~~g~~~~a~~~~~~~~~~~~~p~--  219 (272)
                      ..+...+...|++++|...++.+.+.. +.+...+..+            ...+.+.|++++|.++|+++.+.  .|+  
T Consensus       215 ~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~  291 (450)
T 2y4t_A          215 YKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIA  291 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcch
Confidence            555555555555555555555554432 1122222222            44444445555555555544443  222  


Q ss_pred             ---HHhHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 048616          220 ---QVSFRRIKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       220 ---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                         ...+..+...+.+.|++++|...++++.+
T Consensus       292 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  323 (450)
T 2y4t_A          292 EYTVRSKERICHCFSKDEKPVEAIRVCSEVLQ  323 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               12333344444444444445444444443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.88  E-value=1.6e-22  Score=171.30  Aligned_cols=151  Identities=13%  Similarity=0.097  Sum_probs=126.7

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhh---CCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRD---EDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNA   85 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (272)
                      -..+||++|++|++.|++++|.++|++|.+   .|..||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            346899999999999999999999988764   57899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCH-HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCC------HhhHHHHHH
Q 048616           86 AIRNYCIAKRL-RDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPN------TQSCMFLVK  158 (272)
Q Consensus        86 l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~  158 (272)
                      +|.++++.|+. ++|.++|++|.+.|+.||..+|+.++.+..+.    .+++.++++ ..+..|+      ..+...+.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~d  280 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRD  280 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHH
Confidence            99999999984 78999999999999999999999988765553    444444444 3334443      445556666


Q ss_pred             HHHhcC
Q 048616          159 LCKRQE  164 (272)
Q Consensus       159 ~~~~~~  164 (272)
                      .|.+.+
T Consensus       281 l~s~d~  286 (1134)
T 3spa_A          281 VYAKDG  286 (1134)
T ss_dssp             HHCCCS
T ss_pred             HHccCC
Confidence            676554

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.87  E-value=5.5e-20  Score=145.33  Aligned_cols=238  Identities=11%  Similarity=-0.075  Sum_probs=196.7

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      +...|..+...+.+.|++++|++.|+++.+..+ .+..+|..+...+...|++++|+..|+++.+.. +.+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDP-GDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            456688899999999999999999999988653 378899999999999999999999999999874 446889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCC---------CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCC-CCHhhHHHHHH
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSP---------NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCL-PNTQSCMFLVK  158 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~  158 (272)
                      +|...|++++|...|+++.+.....         ....+..+...+...|++++|...++++.+.... ++..++..+..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            9999999999999999998763210         1222334578899999999999999999876422 15788999999


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHH
Q 048616          159 LCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEA  238 (272)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  238 (272)
                      .+...|++++|...+++..+.. +.+..++..+..++...|++++|.+.|+++.+.. +.+..++..+..++...|++++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHH
Confidence            9999999999999999998875 5567889999999999999999999999998873 2246778889999999999999


Q ss_pred             HHHHHHHHHhcC
Q 048616          239 LQNLSNKMALFG  250 (272)
Q Consensus       239 a~~~~~~~~~~~  250 (272)
                      |...+++..+..
T Consensus       300 A~~~~~~al~~~  311 (365)
T 4eqf_A          300 AVSNFLTALSLQ  311 (365)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC
Confidence            999999998765

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.86  E-value=7.5e-19  Score=136.57  Aligned_cols=228  Identities=11%  Similarity=0.032  Sum_probs=114.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC-ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 048616           16 LIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVG-QPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAK   94 (272)
Q Consensus        16 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (272)
                      ++..+...|++++|..+++++.+... .+...+..+...+...| ++++|.+.|++..+.. +.+...+..+...+...|
T Consensus        62 ~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~  139 (330)
T 3hym_B           62 HIGTLVELNKANELFYLSHKLVDLYP-SNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVES  139 (330)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCT-TSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcc
Confidence            33444444444444444444443321 13344444444445555 4555555555554432 223444555555555555


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHH
Q 048616           95 RLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWN  174 (272)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  174 (272)
                      ++++|.+.+++..+.... +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++
T Consensus       140 ~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  217 (330)
T 3hym_B          140 EHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFL  217 (330)
T ss_dssp             CHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHH
Confidence            555555555555544322 23344445555555555555555555555442 2344555555556666666666666665


Q ss_pred             HHHHcC--------CCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHH
Q 048616          175 DMVEKG--------FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKM  246 (272)
Q Consensus       175 ~~~~~~--------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (272)
                      +..+..        .+.+..++..+...+...|++++|.+.+++..+... .+...+..+...+...|++++|...+++.
T Consensus       218 ~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~a  296 (330)
T 3hym_B          218 DALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIP-QNASTYSAIGYIHSLMGNFENAVDYFHTA  296 (330)
T ss_dssp             HHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCHHHHHHHHHTT
T ss_pred             HHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            554421        022234555566666666666666666666655421 23444555666666666666666666655


Q ss_pred             Hh
Q 048616          247 AL  248 (272)
Q Consensus       247 ~~  248 (272)
                      .+
T Consensus       297 l~  298 (330)
T 3hym_B          297 LG  298 (330)
T ss_dssp             TT
T ss_pred             Hc
Confidence            43

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.86  E-value=5.5e-19  Score=139.59  Aligned_cols=237  Identities=10%  Similarity=-0.052  Sum_probs=200.2

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      +...+..+...+.+.|++++|...|+++.+... .+..++..+..++...|++++|...|+++.+.. +.+..++..+..
T Consensus        63 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~  140 (368)
T 1fch_A           63 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDP-KHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAV  140 (368)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            356788899999999999999999999998753 378889999999999999999999999999875 457889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHH---------------HHHHHhhcCChhhHHHHHHHHHhCCCCC-CHhh
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNL---------------FFRVFYWSNDLRSSWNLYCRMMGTGCLP-NTQS  152 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~  152 (272)
                      .+...|++++|.+.++++...... +...+..               .+..+...|++++|...++++.+..... +..+
T Consensus       141 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~  219 (368)
T 1fch_A          141 SFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDV  219 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHH
Confidence            999999999999999999987543 2222221               2344448999999999999997763221 5788


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHH
Q 048616          153 CMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMEL  232 (272)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  232 (272)
                      +..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+..++..
T Consensus       220 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~  297 (368)
T 1fch_A          220 QCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCIN  297 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHH
Confidence            9999999999999999999999998875 4567789999999999999999999999998863 3356677889999999


Q ss_pred             hhhHHHHHHHHHHHHhcC
Q 048616          233 ANKQEALQNLSNKMALFG  250 (272)
Q Consensus       233 ~~~~~~a~~~~~~~~~~~  250 (272)
                      .|++++|...+++..+..
T Consensus       298 ~g~~~~A~~~~~~al~~~  315 (368)
T 1fch_A          298 LGAHREAVEHFLEALNMQ  315 (368)
T ss_dssp             HTCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhC
Confidence            999999999999998765

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.86  E-value=2.3e-21  Score=164.41  Aligned_cols=120  Identities=13%  Similarity=0.076  Sum_probs=100.7

Q ss_pred             HHhHHHHHHHHhhcCChhhHHHHHHHHHh---CCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHH
Q 048616          115 ATTYNLFFRVFYWSNDLRSSWNLYCRMMG---TGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVL  191 (272)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  191 (272)
                      ..||+++|.+|++.|++++|.++|++|.+   .|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..|||++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            45788899999999999999988877753   478889999999999999999999999999999888888999999999


Q ss_pred             HHHHHhcCCH-HHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhh
Q 048616          192 FDLLCDMGKL-VEAEKSFLEMIEKGHKPSQVSFRRIKALMELAN  234 (272)
Q Consensus       192 i~~~~~~g~~-~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  234 (272)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|+.++....+.+
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~  250 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT  250 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH
Confidence            9988888874 678889999988899999988888776555443

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.86  E-value=1.9e-18  Score=134.24  Aligned_cols=241  Identities=10%  Similarity=0.073  Sum_probs=206.2

Q ss_pred             CCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHH
Q 048616            5 GVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYN   84 (272)
Q Consensus         5 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (272)
                      +.+.+...+..+...+...|++++|.++|+++.+.... +...+..++..+...|++++|..+++++.+.. +.+...+.
T Consensus        17 ~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~   94 (330)
T 3hym_B           17 GLQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPF-HASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWF   94 (330)
T ss_dssp             ---CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHH
T ss_pred             hchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHH
Confidence            45667788889999999999999999999999886533 66677888899999999999999999999864 44678899


Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc
Q 048616           85 AAIRNYCIAK-RLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ  163 (272)
Q Consensus        85 ~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (272)
                      .+...+...| ++++|.+.|++..+.... +...|..+...+...|++++|...+++..+.. +.+...+..+...+...
T Consensus        95 ~l~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  172 (330)
T 3hym_B           95 AVGCYYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLT  172 (330)
T ss_dssp             HHHHHHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHH
Confidence            9999999999 999999999999987543 57788999999999999999999999998764 33456777788999999


Q ss_pred             CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--------CCCcHHhHHHHHHHHHHhhh
Q 048616          164 EKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKG--------HKPSQVSFRRIKALMELANK  235 (272)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--------~~p~~~~~~~l~~~~~~~~~  235 (272)
                      |++++|...++...+.. +.+...+..+...+...|++++|...+++..+..        .+.+...+..+...+...|+
T Consensus       173 ~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  251 (330)
T 3hym_B          173 NNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKK  251 (330)
T ss_dssp             TCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcC
Confidence            99999999999998875 5567888999999999999999999999998752        13345678889999999999


Q ss_pred             HHHHHHHHHHHHhcC
Q 048616          236 QEALQNLSNKMALFG  250 (272)
Q Consensus       236 ~~~a~~~~~~~~~~~  250 (272)
                      +++|...+++..+..
T Consensus       252 ~~~A~~~~~~a~~~~  266 (330)
T 3hym_B          252 YAEALDYHRQALVLI  266 (330)
T ss_dssp             HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhhC
Confidence            999999999998876

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.85  E-value=2.2e-18  Score=133.78  Aligned_cols=236  Identities=10%  Similarity=-0.080  Sum_probs=198.4

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      +...|..+...+...|++++|..+|+++.+.... +...+..+..++...|++++|...++++.+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            4566778888999999999999999999886533 77889999999999999999999999999874 457888999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHH--------------HH-HHhhcCChhhHHHHHHHHHhCCCCCCHhhH
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLF--------------FR-VFYWSNDLRSSWNLYCRMMGTGCLPNTQSC  153 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (272)
                      .+...|++++|.+.++++.+.... +...+..+              .. .+...|++++|...++++.+.. +.+..++
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHH
Confidence            999999999999999999987433 33333333              22 3778899999999999998764 4467889


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHh
Q 048616          154 MFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELA  233 (272)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  233 (272)
                      ..+...+...|++++|...++...+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHh
Confidence            999999999999999999999998875 4567788999999999999999999999998863 23567788899999999


Q ss_pred             hhHHHHHHHHHHHHhcC
Q 048616          234 NKQEALQNLSNKMALFG  250 (272)
Q Consensus       234 ~~~~~a~~~~~~~~~~~  250 (272)
                      |++++|...+++..+..
T Consensus       254 g~~~~A~~~~~~a~~~~  270 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIYMQ  270 (327)
T ss_dssp             TCHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC
Confidence            99999999999998766

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.83  E-value=1.1e-17  Score=125.51  Aligned_cols=244  Identities=11%  Similarity=-0.001  Sum_probs=202.4

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCC--CC----HHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCY--PD----AAA   82 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~   82 (272)
                      .+..|..+...+...|++++|...|++..+..  .+...+..+..++...|++++|...+++..+....  ++    ..+
T Consensus         4 ~a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   81 (258)
T 3uq3_A            4 MADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHH
Confidence            35678889999999999999999999998876  68889999999999999999999999999875311  12    578


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 048616           83 YNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKR  162 (272)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (272)
                      +..+...+...|++++|...|++..+..  |+.       ..+...|++++|...++++.... +.+...+..+...+..
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~  151 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFT  151 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHH
Confidence            8999999999999999999999999874  443       34666788999999999998763 3456778888899999


Q ss_pred             cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHH
Q 048616          163 QEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNL  242 (272)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  242 (272)
                      .|++++|...++...+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|+.++|...
T Consensus       152 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  229 (258)
T 3uq3_A          152 KSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALET  229 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            999999999999998876 4567888999999999999999999999998873 33567778899999999999999999


Q ss_pred             HHHHHhcCC--CCCCCHHHHHHhhcc
Q 048616          243 SNKMALFGP--SMIPKREEYLAEMSA  266 (272)
Q Consensus       243 ~~~~~~~~~--~~~p~~~~~~~ll~a  266 (272)
                      +++..+...  ...|+.......+.-
T Consensus       230 ~~~a~~~~~~~~~~p~~~~~~~~l~~  255 (258)
T 3uq3_A          230 LDAARTKDAEVNNGSSAREIDQLYYK  255 (258)
T ss_dssp             HHHHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             HHHHHHhChhhcCCCchHHHHHHHHH
Confidence            999876430  122666555555443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.83  E-value=2e-18  Score=136.36  Aligned_cols=233  Identities=12%  Similarity=0.078  Sum_probs=190.4

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC--------
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD--------   79 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------   79 (272)
                      .+..+|..+...|.+.|++++|++.|+++.+... .+..++..+..++...|++++|...++++.+..  |+        
T Consensus        97 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~  173 (365)
T 4eqf_A           97 GDAEAWQFLGITQAENENEQAAIVALQRCLELQP-NNLKALMALAVSYTNTSHQQDACEALKNWIKQN--PKYKYLVKNK  173 (365)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHCC----
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHccccHHHHHHHHHHHHHhC--ccchHHHhhh
Confidence            4678999999999999999999999999988643 368899999999999999999999999998753  22        


Q ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHH
Q 048616           80 ---AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS-PNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMF  155 (272)
Q Consensus        80 ---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (272)
                         ...+..+...+...|++++|.+.++++.+.... ++..++..+...+...|++++|...+++..+.. +.+..++..
T Consensus       174 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~  252 (365)
T 4eqf_A          174 KGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNR  252 (365)
T ss_dssp             ---------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             ccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence               223344578899999999999999999987543 157889999999999999999999999998764 456789999


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-----------CcHHhHH
Q 048616          156 LVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHK-----------PSQVSFR  224 (272)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-----------p~~~~~~  224 (272)
                      +..++...|++++|...+++..+.. +.+..++..+..+|.+.|++++|.+.|+++.+....           .+...|.
T Consensus       253 l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~  331 (365)
T 4eqf_A          253 LGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWA  331 (365)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHH
Confidence            9999999999999999999998875 445788899999999999999999999998765211           1256788


Q ss_pred             HHHHHHHHhhhHHHHHHHHHH
Q 048616          225 RIKALMELANKQEALQNLSNK  245 (272)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~  245 (272)
                      .+..++...|+.+.+..+.++
T Consensus       332 ~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          332 ALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHcCcHHHHHHHHHh
Confidence            899999999999888877665

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.83  E-value=2.1e-17  Score=126.38  Aligned_cols=232  Identities=12%  Similarity=0.075  Sum_probs=188.6

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYP-DAAAYNAAIRN   89 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~   89 (272)
                      .....+..+|...|+++.|+..++.   . -+|+..++..+...+...++.++|++.++++...+..| +...+..+...
T Consensus        35 e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~  110 (291)
T 3mkr_A           35 ERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASI  110 (291)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHH
Confidence            3556678899999999999986654   2 35677888999999999999999999999998876545 56667777899


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhH---HHHHHHHHhcCcH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSC---MFLVKLCKRQEKV  166 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~  166 (272)
                      +...|++++|++.+++      +.+...+..+...+.+.|++++|.+.++++.+..  |+....   ..++..+...|++
T Consensus       111 ~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~  182 (291)
T 3mkr_A          111 YFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKL  182 (291)
T ss_dssp             HHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHH
T ss_pred             HHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHH
Confidence            9999999999999987      3578889999999999999999999999998764  443211   2233444556999


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHH-HHHHHHH
Q 048616          167 EIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEA-LQNLSNK  245 (272)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~-a~~~~~~  245 (272)
                      ++|..+|+++.+.. +.+...++.+..++.+.|++++|.+.|++..+... -+..++..++..+...|+.++ +.+++++
T Consensus       183 ~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p-~~~~~l~~l~~~~~~~g~~~eaa~~~~~~  260 (291)
T 3mkr_A          183 QDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDS-GHPETLINLVVLSQHLGKPPEVTNRYLSQ  260 (291)
T ss_dssp             HHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            99999999999874 66788999999999999999999999999988732 266677788888888888765 6789999


Q ss_pred             HHhcCCCCCCCHHHH
Q 048616          246 MALFGPSMIPKREEY  260 (272)
Q Consensus       246 ~~~~~~~~~p~~~~~  260 (272)
                      +.+..    |+....
T Consensus       261 ~~~~~----P~~~~~  271 (291)
T 3mkr_A          261 LKDAH----RSHPFI  271 (291)
T ss_dssp             HHHHC----TTCHHH
T ss_pred             HHHhC----CCChHH
Confidence            98876    665443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.83  E-value=5.8e-17  Score=127.20  Aligned_cols=237  Identities=9%  Similarity=-0.008  Sum_probs=175.1

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      |+..+..+...+...|++++|+..|+++.+..+ .+..++..+...+...|++++|...++++.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            456777788888888888888888888877643 367778888888888888888888888888763 335677888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCC--CCHHhHHHH------------HHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHH
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLS--PNATTYNLF------------FRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCM  154 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  154 (272)
                      .+...|++++|...|++..+....  .+...+..+            ...+...|++++|...++++.+.. +.+...+.
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  158 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRE  158 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHH
Confidence            888888888888888888876320  133334333            467778888888888888887653 44667777


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHH----------
Q 048616          155 FLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFR----------  224 (272)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~----------  224 (272)
                      .+...+...|++++|...++...+.. +.+...+..+...+...|++++|.+.+++..+.... +...+.          
T Consensus       159 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~  236 (359)
T 3ieg_A          159 LRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNK  236 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHHH
Confidence            78888888888888888888887764 456677778888888888888888888888765322 222222          


Q ss_pred             --HHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          225 --RIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       225 --~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                        .+...+...|++++|...+++..+..
T Consensus       237 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~  264 (359)
T 3ieg_A          237 LIESAEELIRDGRYTDATSKYESVMKTE  264 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence              12556777888888888888887765

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.83  E-value=9.1e-17  Score=126.08  Aligned_cols=235  Identities=12%  Similarity=0.023  Sum_probs=112.4

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCC--CCHHHHHHH-
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCY--PDAAAYNAA-   86 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l-   86 (272)
                      ..+|..+...+...|++++|...|+++.+.... +...+..+...+...|++++|...+++..+....  .+...+..+ 
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~  115 (359)
T 3ieg_A           37 YIAYYRRATVFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLV  115 (359)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHH
Confidence            445555555555555555555555555543221 3445555555555555555555555555543210  122222222 


Q ss_pred             -----------HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHH
Q 048616           87 -----------IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMF  155 (272)
Q Consensus        87 -----------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (272)
                                 ...+...|++++|.+.++++.+.... +...+..+...+...|++++|...+++..+.. +.+..++..
T Consensus       116 ~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  193 (359)
T 3ieg_A          116 KADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYK  193 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence                       24444455555555555555444321 34444444444555555555555555444432 223344444


Q ss_pred             HHHHHH----------------------------------------------hcCcHHHHHHHHHHHHHcCCCccH----
Q 048616          156 LVKLCK----------------------------------------------RQEKVEIALQLWNDMVEKGFGSYI----  185 (272)
Q Consensus       156 l~~~~~----------------------------------------------~~~~~~~a~~~~~~~~~~~~~~~~----  185 (272)
                      +...+.                                              +.|++++|...++...+.... +.    
T Consensus       194 la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~  272 (359)
T 3ieg_A          194 ISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTV  272 (359)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHH
Confidence            444444                                              455555555555554443211 11    


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          186 LVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       186 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      ..+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|...+++..+.
T Consensus       273 ~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          273 RSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            112334455555555555655555555541 113444445555555566666666666655543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.83  E-value=5.4e-18  Score=124.20  Aligned_cols=199  Identities=12%  Similarity=-0.022  Sum_probs=133.9

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAA   86 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (272)
                      +++...+..+...+.+.|++++|...|++..+..+. +...+..+..++.+.|++++|+..+++..+.. +.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            566677777888888888888888888888776433 67777778888888888888888888887764 3356677777


Q ss_pred             HHHHHhc-----------CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHH
Q 048616           87 IRNYCIA-----------KRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMF  155 (272)
Q Consensus        87 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (272)
                      ..++...           |++++|+..|++..+..+. +...+..+...+...|++++|...|++..+.+  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            7777777           7777777777777776433 56667777777777777777777777776665  56666777


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048616          156 LVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEM  211 (272)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  211 (272)
                      +..++...|++++|...++...+.. +.+...+..+...+.+.|++++|.+.+++.
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            7777777777777777777776654 344566666777777777777777776654

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.82  E-value=5.3e-18  Score=133.93  Aligned_cols=234  Identities=12%  Similarity=0.080  Sum_probs=195.1

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHH--
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNA--   85 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--   85 (272)
                      .+..+|..+...+...|++++|.+.|+++.+.+. .+..++..+...+...|++++|.+.++++.+.... +...+..  
T Consensus        96 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~  173 (368)
T 1fch_A           96 KHMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAE  173 (368)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---
T ss_pred             CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHH
Confidence            4677899999999999999999999999988753 37889999999999999999999999999986422 2222221  


Q ss_pred             -------------HHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHh
Q 048616           86 -------------AIRNYCIAKRLRDASGLMDEMVEKGLSP-NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQ  151 (272)
Q Consensus        86 -------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  151 (272)
                                   .+..+...|++++|...|+++.+..... +..++..+...+.+.|++++|...++++.... +.+..
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~  252 (368)
T 1fch_A          174 EGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYL  252 (368)
T ss_dssp             ------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHH
Confidence                         2333448899999999999999875432 57889999999999999999999999987763 44678


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC----------cHH
Q 048616          152 SCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKP----------SQV  221 (272)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p----------~~~  221 (272)
                      ++..+...+...|++++|...++...+.. +.+...+..+...+.+.|++++|...|+++.+.....          ...
T Consensus       253 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  331 (368)
T 1fch_A          253 LWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSEN  331 (368)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhH
Confidence            89999999999999999999999998875 4567888999999999999999999999988752211          157


Q ss_pred             hHHHHHHHHHHhhhHHHHHHHHHH
Q 048616          222 SFRRIKALMELANKQEALQNLSNK  245 (272)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~  245 (272)
                      +|..+..++...|+.++|..++++
T Consensus       332 ~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          332 IWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             HHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             HHHHHHHHHHHhCChHhHHHhHHH
Confidence            788899999999999999988775

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.82  E-value=1.2e-17  Score=129.55  Aligned_cols=235  Identities=12%  Similarity=0.048  Sum_probs=195.3

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHH-
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAA-   86 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-   86 (272)
                      .+...|..+...+...|++++|.+.|+++.+.. +.+..++..+...+...|++++|.+.++++.+... .+...+..+ 
T Consensus        53 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~  130 (327)
T 3cv0_A           53 EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALASLRAWLLSQP-QYEQLGSVNL  130 (327)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTST-TTTTC-----
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHh
Confidence            367788899999999999999999999998864 33778899999999999999999999999997642 233333333 


Q ss_pred             -------------HH-HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhh
Q 048616           87 -------------IR-NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQS  152 (272)
Q Consensus        87 -------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (272)
                                   .. .+...|++++|.+.++++.+.... +...+..+...+...|++++|...++++.+.. +.+..+
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  208 (327)
T 3cv0_A          131 QADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN-DAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQL  208 (327)
T ss_dssp             ---------------CCTTSHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHH
Confidence                         22 377889999999999999987543 78889999999999999999999999997764 446788


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-----------cHH
Q 048616          153 CMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKP-----------SQV  221 (272)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-----------~~~  221 (272)
                      +..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.++++.+.....           +..
T Consensus       209 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~  287 (327)
T 3cv0_A          209 WNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRS  287 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHH
Confidence            9999999999999999999999998875 4567788899999999999999999999998763321           466


Q ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          222 SFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      .+..+..++...|+.++|..++++..
T Consensus       288 ~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          288 MWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            77889999999999999999887643

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.81  E-value=1.2e-16  Score=120.98  Aligned_cols=249  Identities=8%  Similarity=-0.013  Sum_probs=197.6

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC--HHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD--AAAYNAA   86 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l   86 (272)
                      |...+......+...|++++|+..|++..+..+. +...+..+..++...|++++|+..+++..+.+..++  ...|..+
T Consensus         2 n~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~l   80 (272)
T 3u4t_A            2 NDDVEFRYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYY   80 (272)
T ss_dssp             ---CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHH
Confidence            3445666778899999999999999999987543 566889999999999999999999999998432222  3348899


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcH
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKV  166 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (272)
                      ...+...|++++|.+.|++..+.... +..++..+...+...|++++|...+++..+.. +.+...+..+...+...+++
T Consensus        81 g~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~  158 (272)
T 3u4t_A           81 GKILMKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEY  158 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999987544 66789999999999999999999999987763 44566677776344455699


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHcC-CCCcH------HhHHHHHHHHHHhhhH
Q 048616          167 EIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGK---LVEAEKSFLEMIEKG-HKPSQ------VSFRRIKALMELANKQ  236 (272)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~-~~p~~------~~~~~l~~~~~~~~~~  236 (272)
                      ++|...++...+.. +.+...+..+...+...|+   +++|...+++..+.. ..|+.      ..|..+...+...|++
T Consensus       159 ~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  237 (272)
T 3u4t_A          159 VKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDK  237 (272)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCH
Confidence            99999999998875 4446777778888888888   888999999887652 12332      4666788899999999


Q ss_pred             HHHHHHHHHHHhcCCCCCCCHHHHHHhhc
Q 048616          237 EALQNLSNKMALFGPSMIPKREEYLAEMS  265 (272)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~p~~~~~~~ll~  265 (272)
                      ++|...+++..+..    |+.......+.
T Consensus       238 ~~A~~~~~~al~~~----p~~~~a~~~l~  262 (272)
T 3u4t_A          238 VKADAAWKNILALD----PTNKKAIDGLK  262 (272)
T ss_dssp             HHHHHHHHHHHHHC----TTCHHHHHHHC
T ss_pred             HHHHHHHHHHHhcC----ccHHHHHHHhh
Confidence            99999999999866    66555444443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.81  E-value=2.8e-17  Score=135.34  Aligned_cols=243  Identities=12%  Similarity=0.015  Sum_probs=207.1

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      .+..+|..+...+...|++++|...|+++.+.+..  ...+..+...+...|++++|...++++.+.. +.+..++..+.
T Consensus       235 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  311 (514)
T 2gw1_A          235 KLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRG  311 (514)
T ss_dssp             HHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHH
Confidence            35678888999999999999999999999886543  8889999999999999999999999998764 44678899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHH
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVE  167 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (272)
                      ..+...|++++|...+++..+.... +...+..+...+...|++++|...++++.+.. +.+..++..+...+...|+++
T Consensus       312 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  389 (514)
T 2gw1_A          312 QMNFILQNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFD  389 (514)
T ss_dssp             HHHHHTTCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHH
Confidence            9999999999999999999987544 67788899999999999999999999997753 345678888999999999999


Q ss_pred             HHHHHHHHHHHcCCC-cc----HHHHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHH
Q 048616          168 IALQLWNDMVEKGFG-SY----ILVSDVLFDLLCD---MGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEAL  239 (272)
Q Consensus       168 ~a~~~~~~~~~~~~~-~~----~~~~~~li~~~~~---~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  239 (272)
                      +|...++.+.+.... ++    ...+..+...+..   .|++++|.+.++.+.+.. +.+...+..+...+...|++++|
T Consensus       390 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A  468 (514)
T 2gw1_A          390 KALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEA  468 (514)
T ss_dssp             HHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHH
Confidence            999999998765321 11    3378889999999   999999999999998863 23566777899999999999999


Q ss_pred             HHHHHHHHhcCCCCCCCHHHH
Q 048616          240 QNLSNKMALFGPSMIPKREEY  260 (272)
Q Consensus       240 ~~~~~~~~~~~~~~~p~~~~~  260 (272)
                      ...+++..+..    |+....
T Consensus       469 ~~~~~~a~~~~----~~~~~~  485 (514)
T 2gw1_A          469 ITLFEESADLA----RTMEEK  485 (514)
T ss_dssp             HHHHHHHHHHC----SSHHHH
T ss_pred             HHHHHHHHHhc----cccHHH
Confidence            99999999876    655443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.81  E-value=3.1e-17  Score=135.11  Aligned_cols=237  Identities=13%  Similarity=-0.012  Sum_probs=141.7

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCC-----------
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGC-----------   76 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------   76 (272)
                      |+...|..+..++.+.|++++|++.++++.+.++ .+..+|..+..++.+.|++++|...|+++.+.+.           
T Consensus        37 p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  115 (514)
T 2gw1_A           37 EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKP-DYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLE  115 (514)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHH
T ss_pred             ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccCh-HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHH
Confidence            6777777777788888888888888877776542 2556777777777777777777777776654431           


Q ss_pred             --------------------------------------------------------------------------------
Q 048616           77 --------------------------------------------------------------------------------   76 (272)
Q Consensus        77 --------------------------------------------------------------------------------   76 (272)
                                                                                                      
T Consensus       116 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  195 (514)
T 2gw1_A          116 RNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLS  195 (514)
T ss_dssp             HHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHH
Confidence                                                                                            


Q ss_pred             --------------------------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhH
Q 048616           77 --------------------------------------YPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTY  118 (272)
Q Consensus        77 --------------------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  118 (272)
                                                            +.+..++..+...+...|++++|...++++.+...  +...+
T Consensus       196 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~--~~~~~  273 (514)
T 2gw1_A          196 NLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFP--RVNSY  273 (514)
T ss_dssp             HHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCC--CHHHH
T ss_pred             HHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCc--cHHHH
Confidence                                                  01122333344444455555555555555554432  24455


Q ss_pred             HHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhc
Q 048616          119 NLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDM  198 (272)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  198 (272)
                      ..+...+...|++++|...++++.... +.+..++..+...+...|++++|...++...+.. +.+...+..+...+...
T Consensus       274 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  351 (514)
T 2gw1_A          274 IYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRE  351 (514)
T ss_dssp             HHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHc
Confidence            555555555555555555555555442 2344455566666666666666666666666554 23445556666666666


Q ss_pred             CCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          199 GKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       199 g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      |++++|.++++++.+.. +.+...+..+...+...|++++|...++++.+..
T Consensus       352 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  402 (514)
T 2gw1_A          352 NKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELE  402 (514)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhh
Confidence            66666666666666542 2234455556666666677777777766665543

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.80  E-value=3.1e-16  Score=117.29  Aligned_cols=212  Identities=14%  Similarity=0.077  Sum_probs=174.5

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRV  124 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (272)
                      ...+..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.++++.+.... +...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSR-NARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHH
Confidence            5667888888999999999999999998764 346788888999999999999999999999887543 67788888899


Q ss_pred             HhhcCChhhHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHH
Q 048616          125 FYWSNDLRSSWNLYCRMMGTGCLP-NTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVE  203 (272)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  203 (272)
                      +...|++++|.+.++++...+..| +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999987732334 45677888888999999999999999988775 4456778889999999999999


Q ss_pred             HHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHhh
Q 048616          204 AEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEM  264 (272)
Q Consensus       204 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~ll  264 (272)
                      |..+++++.+.. +.+...+..+...+...|+.++|.++++++.+..    |+...+..++
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~----p~~~~~~~~l  249 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY----PGSLEYQEFQ  249 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----TTSHHHHHHH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC----CCCHHHHHHH
Confidence            999999988753 3455667778888999999999999999998866    6666555544

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.80  E-value=3.1e-16  Score=114.98  Aligned_cols=213  Identities=10%  Similarity=-0.021  Sum_probs=117.7

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRV  124 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (272)
                      ...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.+++..+.... +..++..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~   85 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPD-SAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-ChHHHHHHHHH
Confidence            3444555555555555555555555555442 223445555555555555666666555555554322 44455555555


Q ss_pred             Hhhc-CChhhHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHH
Q 048616          125 FYWS-NDLRSSWNLYCRMMGTGCLP-NTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLV  202 (272)
Q Consensus       125 ~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  202 (272)
                      +... |++++|...++++.+.+..| +...+..+..++...|++++|...+++..+.. +.+...+..+...+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHH
Confidence            6666 66666666666555421122 23455555566666666666666666665543 233455566666666667777


Q ss_pred             HHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHhh
Q 048616          203 EAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEM  264 (272)
Q Consensus       203 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~ll  264 (272)
                      +|.+.++++.+.....+...+..+...+...|+.+++..+++.+.+..    |+......++
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~----p~~~~~~~~l  222 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF----PYSEELQTVL  222 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----TTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC----CCCHHHHHHh
Confidence            777766666654221344445555666666666676766666665544    5544444443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.80  E-value=4.4e-17  Score=124.59  Aligned_cols=221  Identities=11%  Similarity=0.098  Sum_probs=179.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 048616           17 IDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRL   96 (272)
Q Consensus        17 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (272)
                      +......|+++.|+..++........+.......+.++|...|+++.|+..++.    .-+|+..++..+...+...++.
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcH
Confidence            345567899999999998876543222234556678999999999999987755    2356778889999999999999


Q ss_pred             HHHHHHHHHHHHcCCCC-CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHH
Q 048616           97 RDASGLMDEMVEKGLSP-NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWND  175 (272)
Q Consensus        97 ~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (272)
                      ++|++.++++...+..| +...+..+...+...|++++|++.+++      +.+...+..+...+.+.|++++|...++.
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~  155 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKK  155 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999999876545 455666777899999999999999987      46778899999999999999999999999


Q ss_pred             HHHcCCCccHHH---HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          176 MVEKGFGSYILV---SDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       176 ~~~~~~~~~~~~---~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      +.+..  |+...   ...++..+...|++++|..+|+++.+. .+.+...++.+..++...|++++|...+++..+..
T Consensus       156 ~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          156 MQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            98875  33221   123344455669999999999999987 35577788889999999999999999999999876

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.79  E-value=1.6e-15  Score=114.95  Aligned_cols=224  Identities=11%  Similarity=0.027  Sum_probs=196.5

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCCHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGL----VGQPDKARDVLKEMKEYGCYPDAAAYN   84 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (272)
                      ++.++..+-..+...|++++|.+.|++..+.+   +...+..+...+..    .+++++|...|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            56788888899999999999999999998843   56778889999999    999999999999999875   788899


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh----cCChhhHHHHHHHHHhCCCCCCHhhHHHH
Q 048616           85 AAIRNYCI----AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW----SNDLRSSWNLYCRMMGTGCLPNTQSCMFL  156 (272)
Q Consensus        85 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (272)
                      .+...|..    .+++++|++.|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            99999999    999999999999999874   67888889999999    999999999999998875   55677778


Q ss_pred             HHHHHh----cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCcHHhHHHHHH
Q 048616          157 VKLCKR----QEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCD----MGKLVEAEKSFLEMIEKGHKPSQVSFRRIKA  228 (272)
Q Consensus       157 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  228 (272)
                      ...+..    .+++++|...++...+.+   +...+..+...|..    .+++++|.++|++..+.+.   ...+..+..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~---~~a~~~l~~  226 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN---GGGCFNLGA  226 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC---HHHHHHHHH
Confidence            888887    899999999999998875   34667778888999    9999999999999998743   556677888


Q ss_pred             HHHH----hhhHHHHHHHHHHHHhcC
Q 048616          229 LMEL----ANKQEALQNLSNKMALFG  250 (272)
Q Consensus       229 ~~~~----~~~~~~a~~~~~~~~~~~  250 (272)
                      .+..    .++.++|...+++..+.+
T Consensus       227 ~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          227 MQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            8888    899999999999999887

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.79  E-value=5.8e-17  Score=118.71  Aligned_cols=200  Identities=12%  Similarity=-0.001  Sum_probs=161.3

Q ss_pred             CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHH
Q 048616           42 SPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLF  121 (272)
Q Consensus        42 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (272)
                      +++...+..+...+.+.|++++|+..|++..+.. +.+...+..+...+.+.|++++|+..+++..+..+. +...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHH
Confidence            4577888999999999999999999999999864 457888999999999999999999999999988644 67888899


Q ss_pred             HHHHhhc-----------CChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHH
Q 048616          122 FRVFYWS-----------NDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDV  190 (272)
Q Consensus       122 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (272)
                      ...+...           |++++|...+++..+.. +-+...+..+..++...|++++|...+++..+..  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            9999999           99999999999998764 3457788889999999999999999999999887  67788899


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          191 LFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       191 li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      +..++...|++++|...|++..+.. +.+...+..+..++...|+.++|...+++..
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            9999999999999999999998863 2255667778999999999999999998754

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.79  E-value=2.6e-16  Score=117.75  Aligned_cols=209  Identities=13%  Similarity=0.045  Sum_probs=179.1

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      ...|..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            5788889999999999999999999998764 3367889999999999999999999999999874 3477889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCC-CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSP-NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEI  168 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (272)
                      +...|++++|.+.++++.+.+..| +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999998833334 45678888899999999999999999987764 4467888899999999999999


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHH
Q 048616          169 ALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFR  224 (272)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  224 (272)
                      |...++...+.. +.+...+..+...+...|++++|.++++++.+.  .|+...+.
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~  246 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL--YPGSLEYQ  246 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSHHHH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCCHHHH
Confidence            999999998765 456677888899999999999999999999886  45544433

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.79  E-value=6e-16  Score=113.46  Aligned_cols=213  Identities=9%  Similarity=-0.048  Sum_probs=180.1

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      .+...|..+...+...|++++|.+.|+++.+... .+...+..+...+...|++++|.+.++++.+.. +.+..++..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~   83 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKSDP-KNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            4567889999999999999999999999988643 367889999999999999999999999999874 44778899999


Q ss_pred             HHHHhc-CCHHHHHHHHHHHHHcCCCCC-HHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCc
Q 048616           88 RNYCIA-KRLRDASGLMDEMVEKGLSPN-ATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEK  165 (272)
Q Consensus        88 ~~~~~~-~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (272)
                      ..+... |++++|...++++.+.+..|+ ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCC
Confidence            999999 999999999999998322333 5778888999999999999999999997763 3457788899999999999


Q ss_pred             HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHH
Q 048616          166 VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRR  225 (272)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  225 (272)
                      +++|...++...+.....+...+..+...+...|+.++|..+++.+.+.  .|+...+..
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~  220 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEELQT  220 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHH
Confidence            9999999999987753256677788888889999999999999998765  455554443

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.78  E-value=7.4e-16  Score=121.84  Aligned_cols=242  Identities=11%  Similarity=0.036  Sum_probs=200.5

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC-hhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ-PDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      +...|+.+...+.+.|++++|++.|++..+.... +...|+.+..++...|+ +++|+..|++..+.. +-+...|..+.
T Consensus        96 ~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g  173 (382)
T 2h6f_A           96 FRDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            3467888889999999999999999999987544 78889999999999996 999999999999875 34788999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHh-cCcH
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKR-QEKV  166 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~  166 (272)
                      .++...|++++|+..|+++++.... +...|..+..++.+.|++++|+..++++.+.+ +-+...|+.+..++.+ .|..
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcc
Confidence            9999999999999999999998655 78899999999999999999999999998875 4467889999999988 5664


Q ss_pred             HHH-----HHHHHHHHHcCCCccHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhh-----
Q 048616          167 EIA-----LQLWNDMVEKGFGSYILVSDVLFDLLCDMG--KLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELAN-----  234 (272)
Q Consensus       167 ~~a-----~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~-----  234 (272)
                      ++|     +..++...... +-+...|..+...+...|  ++++|.+.+.++ +. ...+...+..+..++...+     
T Consensus       252 ~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~  328 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCD  328 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             hHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhccccc
Confidence            777     58888888765 446678888888888888  689999999888 33 2335556667888888864     


Q ss_pred             ----hHHHHHHHHHHH-HhcCCCCCCCHHHHH
Q 048616          235 ----KQEALQNLSNKM-ALFGPSMIPKREEYL  261 (272)
Q Consensus       235 ----~~~~a~~~~~~~-~~~~~~~~p~~~~~~  261 (272)
                          ..++|..+++++ .+..    |....|.
T Consensus       329 ~~~~~~~~A~~~~~~l~~~~D----P~r~~~w  356 (382)
T 2h6f_A          329 NKEDILNKALELCEILAKEKD----TIRKEYW  356 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHTTC----GGGHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhC----chhHHHH
Confidence                358999999998 5544    7655443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.78  E-value=9.5e-17  Score=119.29  Aligned_cols=201  Identities=14%  Similarity=0.095  Sum_probs=102.5

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      +...|..+...+...|++++|...|+++.+... .+...+..+...+...|++++|...++++.+.. +.+...+..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENK-EDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            344555555566666666666666666665432 245556666666666666666666666666543 234555566666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHH
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEI  168 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (272)
                      .+...|++++|.+.++++.+.... +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAGME-NGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHTCC-SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHH
Confidence            666666666666666666655322 44555555566666666666666666554432 2244455555555555666666


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          169 ALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      |...++...+.. +.+..++..+..++...|++++|.+.++++.+.
T Consensus       178 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          178 ALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            666665555443 233445555555555556666666666555544

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.76  E-value=1.6e-15  Score=125.54  Aligned_cols=234  Identities=11%  Similarity=0.017  Sum_probs=197.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      .+|..+...+...|++++|.+.|++..+..  |+...+..+...+...|++++|...++++.+.. +.+..++..+...+
T Consensus       244 ~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  320 (537)
T 3fp2_A          244 LALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMY  320 (537)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHH
Confidence            457777788899999999999999998864  457889999999999999999999999999874 44688899999999


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHH
Q 048616           91 CIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIAL  170 (272)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (272)
                      ...|++++|...+++..+.... +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.
T Consensus       321 ~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  398 (537)
T 3fp2_A          321 FILQDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAI  398 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHH
Confidence            9999999999999999987543 56788899999999999999999999998764 445678888999999999999999


Q ss_pred             HHHHHHHHcCC-----CccHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhh
Q 048616          171 QLWNDMVEKGF-----GSYILVSDVLFDLLCDM----------GKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANK  235 (272)
Q Consensus       171 ~~~~~~~~~~~-----~~~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  235 (272)
                      ..++...+...     ......+......+.+.          |++++|...|++..+.. +.+...+..+...+...|+
T Consensus       399 ~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~  477 (537)
T 3fp2_A          399 KQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEK  477 (537)
T ss_dssp             HHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcc
Confidence            99999876531     11122234445667777          99999999999998873 2356677789999999999


Q ss_pred             HHHHHHHHHHHHhcC
Q 048616          236 QEALQNLSNKMALFG  250 (272)
Q Consensus       236 ~~~a~~~~~~~~~~~  250 (272)
                      .++|...|++..+..
T Consensus       478 ~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          478 IDEAIELFEDSAILA  492 (537)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999999998876

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.76  E-value=2.2e-15  Score=124.74  Aligned_cols=163  Identities=11%  Similarity=0.017  Sum_probs=109.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 048616           83 YNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKR  162 (272)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (272)
                      +..+...+...|++++|.+.+++..+..  |+...+..+...+...|++++|...++++.+.. +.+..++..+...+..
T Consensus       246 ~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  322 (537)
T 3fp2_A          246 LCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFI  322 (537)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHh
Confidence            4444455666677777777777776653  346666667777777777777777777776543 3345667777777777


Q ss_pred             cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHH
Q 048616          163 QEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNL  242 (272)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  242 (272)
                      .|++++|...++...+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...
T Consensus       323 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  400 (537)
T 3fp2_A          323 LQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQ  400 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            777777777777776654 3344566677777777777777777777776653 22344566677777777777777777


Q ss_pred             HHHHHhcC
Q 048616          243 SNKMALFG  250 (272)
Q Consensus       243 ~~~~~~~~  250 (272)
                      ++++.+..
T Consensus       401 ~~~a~~~~  408 (537)
T 3fp2_A          401 YDIAKRLE  408 (537)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHcC
Confidence            77766543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.75  E-value=4.9e-16  Score=115.40  Aligned_cols=203  Identities=17%  Similarity=0.138  Sum_probs=159.8

Q ss_pred             CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 048616           43 PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFF  122 (272)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (272)
                      .....|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|.+.+++..+.... +...+..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSS-AATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCc-chHHHHHHH
Confidence            355677888889999999999999999998864 456888999999999999999999999999987543 678888999


Q ss_pred             HHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHH
Q 048616          123 RVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLV  202 (272)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  202 (272)
                      ..+...|++++|...++++.+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999997764 4467788889999999999999999999998775 456778888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          203 EAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       203 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      +|.+.++++.+.. +.+..++..+..++...|+.++|...++++.+..
T Consensus       177 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          177 EALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            9999999998873 3356678889999999999999999999998876

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.75  E-value=8.9e-16  Score=116.15  Aligned_cols=224  Identities=8%  Similarity=-0.079  Sum_probs=167.9

Q ss_pred             HhcCCHHHHHHHHHHHhhCCC---CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 048616           21 CKDRQVEKAYKIVEKMRDEDI---SPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLR   97 (272)
Q Consensus        21 ~~~g~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (272)
                      ...|++++|++.|+++.+...   +.+..++..+...+...|++++|...|+++.+.. +.+..++..+...+...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            345788899999998887532   1245678888888889999999999999988764 346788888888899999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 048616           98 DASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMV  177 (272)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (272)
                      +|.+.|++..+.... +...+..+...+.+.|++++|...++++.+.  .|+.......+..+...|++++|...+....
T Consensus        95 ~A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           95 AAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            999999988887443 5777888888899999999999999888765  3444444445555567788999999997777


Q ss_pred             HcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--C-cHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          178 EKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHK--P-SQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       178 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ... +++...+ .++..+...++.++|.+.++...+....  | +...+..+...+...|++++|...+++..+..
T Consensus       172 ~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          172 EKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             hcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            654 3333343 3666777888888888888887554211  0 13566678888888999999999999888655

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.74  E-value=1.2e-17  Score=131.50  Aligned_cols=205  Identities=12%  Similarity=0.052  Sum_probs=93.3

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      ++..+|..+..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|+.+++...+.  .+++.+.+.++
T Consensus        30 ~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li  101 (449)
T 1b89_A           30 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELI  101 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHH
Confidence            44569999999999999999999999653      47779999999999999999999988877764  45678899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHH
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVE  167 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (272)
                      .+|.+.|+++++.++++       .|+..+|..+...|...|.+++|...|..+         ..|..++.++.+.|+++
T Consensus       102 ~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq  165 (449)
T 1b89_A          102 FALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQ  165 (449)
T ss_dssp             -------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHH
T ss_pred             HHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHH
Confidence            99999999999998885       367789999999999999999999999976         47999999999999999


Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          168 IALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      +|.+.+..+      .++.+|..++.+|+..|+++.|......+.   ..|+.  ...++..|.+.|.++++..+++...
T Consensus       166 ~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~---~~ad~--l~~lv~~Yek~G~~eEai~lLe~aL  234 (449)
T 1b89_A          166 AAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHADE--LEELINYYQDRGYFEELITMLEAAL  234 (449)
T ss_dssp             HHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT---TCHHH--HHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH---hCHhh--HHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            999999987      267899999999999999999976665432   34444  4468899999999999999999865

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.74  E-value=2.6e-14  Score=110.28  Aligned_cols=239  Identities=9%  Similarity=0.038  Sum_probs=189.0

Q ss_pred             CHHhHHHHHHHHHhc----CCH----HHHHHHHHHHhhCCCCCCHhhHHHHHHHHH-------hcCCh-------hHHHH
Q 048616            9 DIVSYNCLIDVYCKD----RQV----EKAYKIVEKMRDEDISPDVISYTSIIGGLG-------LVGQP-------DKARD   66 (272)
Q Consensus         9 ~~~~~~~li~~~~~~----g~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~   66 (272)
                      +...|...+....+.    ++.    ++|..+|++..+.. +-+...|..+...+.       +.|++       ++|..
T Consensus         7 ~~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~   85 (308)
T 2ond_A            7 QVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAAN   85 (308)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHH
Confidence            456777777765554    233    78999999998864 337788888888776       35886       89999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH-hHHHHHHHHhhcCChhhHHHHHHHHHhCC
Q 048616           67 VLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNAT-TYNLFFRVFYWSNDLRSSWNLYCRMMGTG  145 (272)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (272)
                      +|++..+.-.+-+...|..++..+.+.|++++|.++|++..+..+. +.. .|..+...+.+.|++++|..+|++..+..
T Consensus        86 ~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  164 (308)
T 2ond_A           86 IYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA  164 (308)
T ss_dssp             HHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            9999998312345678999999999999999999999999986332 333 78999999999999999999999998764


Q ss_pred             CCCCHhhHHHHHHHHH-hcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCC--cHH
Q 048616          146 CLPNTQSCMFLVKLCK-RQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKG-HKP--SQV  221 (272)
Q Consensus       146 ~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~p--~~~  221 (272)
                       +++...|........ ..|+.++|..+|+...+.. +.+...|..++..+.+.|++++|..+|++..... +.|  ...
T Consensus       165 -p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~  242 (308)
T 2ond_A          165 -RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGE  242 (308)
T ss_dssp             -TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHH
T ss_pred             -CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHH
Confidence             334444544333322 3799999999999988764 4467888999999999999999999999999863 455  355


Q ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHHhcCC
Q 048616          222 SFRRIKALMELANKQEALQNLSNKMALFGP  251 (272)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  251 (272)
                      .|..++......|+.+.+..+++++.+..+
T Consensus       243 l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p  272 (308)
T 2ond_A          243 IWARFLAFESNIGDLASILKVEKRRFTAFR  272 (308)
T ss_dssp             HHHHHHHHHHHHSCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHcc
Confidence            777788999999999999999999988773

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.72  E-value=2.3e-15  Score=113.93  Aligned_cols=225  Identities=10%  Similarity=-0.078  Sum_probs=178.0

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      +..+|..+...+...|++++|...|++..+.... +..+|..+...+...|++++|.+.|++..+.. +.+..++..+..
T Consensus        42 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~  119 (275)
T 1xnf_A           42 RAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGI  119 (275)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHH
Confidence            5678999999999999999999999999886533 78899999999999999999999999999874 346788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHH
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEI  168 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (272)
                      ++.+.|++++|.+.|+++.+..  |+.......+..+...|++++|...+++..... +++...+ .++..+...++.++
T Consensus       120 ~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~  195 (275)
T 1xnf_A          120 ALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQT  195 (275)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHH
Confidence            9999999999999999999874  444444555566677899999999998876653 3344444 46777788888899


Q ss_pred             HHHHHHHHHHcCCC---ccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHH
Q 048616          169 ALQLWNDMVEKGFG---SYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLS  243 (272)
Q Consensus       169 a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  243 (272)
                      |...+.........   .+...+..+...+.+.|++++|...|++..+.  .|+.  +.....++...|++++|.+.+
T Consensus       196 a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          196 LMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTT--CHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--Cchh--HHHHHHHHHHHHHHHhhHHHH
Confidence            99999887655321   12577888999999999999999999999876  4533  233355677788888887665

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.69  E-value=3.2e-14  Score=101.20  Aligned_cols=164  Identities=13%  Similarity=0.075  Sum_probs=69.6

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 048616           46 ISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVF  125 (272)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (272)
                      .+|..+...+.+.|++++|++.|++..+.. +-+..++..+..++.+.|++++|...+......... +...+..+...+
T Consensus         6 ~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~   83 (184)
T 3vtx_A            6 TIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGSAN   83 (184)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHHHH
Confidence            344444444444444444444444444432 123334444444444444444444444444433222 233333344444


Q ss_pred             hhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHH
Q 048616          126 YWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAE  205 (272)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  205 (272)
                      ...++++.+...+.+..... +.+...+..+..++.+.|++++|.+.+++..+.. +.+...|..+..++.+.|++++|.
T Consensus        84 ~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~  161 (184)
T 3vtx_A           84 FMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAV  161 (184)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHH
Confidence            44444444444444443321 2233334444444444444444444444444433 223334444444444444444444


Q ss_pred             HHHHHHHH
Q 048616          206 KSFLEMIE  213 (272)
Q Consensus       206 ~~~~~~~~  213 (272)
                      +.|++.++
T Consensus       162 ~~~~~al~  169 (184)
T 3vtx_A          162 KYFKKALE  169 (184)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            44444443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.69  E-value=2.1e-14  Score=117.29  Aligned_cols=215  Identities=13%  Similarity=0.007  Sum_probs=181.8

Q ss_pred             HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCCh-hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 048616           26 VEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQP-DKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMD  104 (272)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  104 (272)
                      +++++..+++..... +.+...+..+...+...|++ ++|++.|++..+.. +.+...|..+..+|...|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            566777777666543 34788899999999999999 99999999999874 3468899999999999999999999999


Q ss_pred             HHHHcCCCCCHHhHHHHHHHHhhc---------CChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc--------CcHH
Q 048616          105 EMVEKGLSPNATTYNLFFRVFYWS---------NDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ--------EKVE  167 (272)
Q Consensus       105 ~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~  167 (272)
                      +..+..  |+...+..+...+...         |++++|...+++..+.. +.+...+..+..++...        |+++
T Consensus       162 ~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            999874  6678888999999999         99999999999998764 44678889999999988        9999


Q ss_pred             HHHHHHHHHHHcCCC--ccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHH
Q 048616          168 IALQLWNDMVEKGFG--SYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNK  245 (272)
Q Consensus       168 ~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (272)
                      +|...|++..+....  .+...|..+..+|...|++++|.+.|++..+... -+...+..+..++...|+.++|...+.+
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDP-AWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999999999987521  5778899999999999999999999999988732 2455677788999999999999876554


Q ss_pred             H
Q 048616          246 M  246 (272)
Q Consensus       246 ~  246 (272)
                      +
T Consensus       318 ~  318 (474)
T 4abn_A          318 T  318 (474)
T ss_dssp             C
T ss_pred             c
Confidence            3

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.68  E-value=2.6e-14  Score=106.91  Aligned_cols=193  Identities=12%  Similarity=0.032  Sum_probs=166.3

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--CC----HHhH
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS--PN----ATTY  118 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~  118 (272)
                      ...+..+...+...|++++|+..|++..+..  .+...+..+..++...|++++|.+.+++..+....  ++    ..++
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4578889999999999999999999999887  78899999999999999999999999998875322  12    5788


Q ss_pred             HHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhc
Q 048616          119 NLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDM  198 (272)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  198 (272)
                      ..+...+...|++++|...+++....  .|+.       ..+.+.|++++|...++.+.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            88999999999999999999999875  3443       35667789999999999998875 44567888899999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          199 GKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       199 g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      |++++|.+.+++..+.. +.+...+..+...+...|++++|...+++..+..
T Consensus       153 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  203 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD  203 (258)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            99999999999998874 3356778889999999999999999999998876

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.68  E-value=5.1e-14  Score=100.14  Aligned_cols=175  Identities=10%  Similarity=0.001  Sum_probs=151.0

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHH
Q 048616           78 PDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLV  157 (272)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  157 (272)
                      -++.+|..+...+.+.|++++|++.|++.++..+. +..++..+..++.+.|++++|...++...... +.+...+..+.
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~   80 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILG   80 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHH
Confidence            36788999999999999999999999999988654 78889999999999999999999999987764 44567777788


Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHH
Q 048616          158 KLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQE  237 (272)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  237 (272)
                      ..+...++++.+...+....... +.+...+..+...+.+.|++++|.+.|++..+.. +.+...|..+..++...|+++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHH
Confidence            88999999999999999988875 5567788889999999999999999999998873 235667888999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCCCHHHH
Q 048616          238 ALQNLSNKMALFGPSMIPKREEY  260 (272)
Q Consensus       238 ~a~~~~~~~~~~~~~~~p~~~~~  260 (272)
                      +|...|++..+..    |+...|
T Consensus       159 ~A~~~~~~al~~~----p~~a~~  177 (184)
T 3vtx_A          159 EAVKYFKKALEKE----EKKAKY  177 (184)
T ss_dssp             HHHHHHHHHHHTT----HHHHHH
T ss_pred             HHHHHHHHHHhCC----ccCHHH
Confidence            9999999998754    766554

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.65  E-value=2.2e-14  Score=110.35  Aligned_cols=243  Identities=14%  Similarity=0.054  Sum_probs=172.7

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhC-------CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc-----
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDE-------DISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY-----   74 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----   74 (272)
                      +.+..++..+...+...|++++|..+|+++.+.       ..+.....+..+...+...|++++|...+++..+.     
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            345678999999999999999999999998763       23335667888999999999999999999998764     


Q ss_pred             -CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc------CCCC-CHHhHHHHHHHHhhcCChhhHHHHHHHHHhC-
Q 048616           75 -GC-YPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK------GLSP-NATTYNLFFRVFYWSNDLRSSWNLYCRMMGT-  144 (272)
Q Consensus        75 -~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  144 (272)
                       +. +....++..+...+...|++++|...+++..+.      +..| ....+..+...+...|++++|...+++.... 
T Consensus       104 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  183 (311)
T 3nf1_A          104 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIY  183 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence             22 234567888999999999999999999998864      2212 3456778889999999999999999988653 


Q ss_pred             -----CCCC-CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC-------CCcc-------HHHHHHHHHHHHhcCCHHHH
Q 048616          145 -----GCLP-NTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG-------FGSY-------ILVSDVLFDLLCDMGKLVEA  204 (272)
Q Consensus       145 -----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~-------~~~~~~li~~~~~~g~~~~a  204 (272)
                           +..| ...++..+...+...|++++|...+++..+..       ..+.       ...+..+...+...+.+.++
T Consensus       184 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  263 (311)
T 3nf1_A          184 QTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEY  263 (311)
T ss_dssp             HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHH
Confidence                 2122 34578888899999999999999999987531       1111       12222333334455566666


Q ss_pred             HHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          205 EKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       205 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ...+...... .+.+..++..+..++...|++++|..++++..+..
T Consensus       264 ~~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~  308 (311)
T 3nf1_A          264 GGWYKACKVD-SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSR  308 (311)
T ss_dssp             C----------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCCC-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh
Confidence            6677766543 12344566779999999999999999999987643

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.64  E-value=3.4e-14  Score=109.24  Aligned_cols=171  Identities=16%  Similarity=0.117  Sum_probs=137.9

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHc-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc------C
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEY-------GCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK------G  110 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~  110 (272)
                      +..++..+...+...|++++|..+++++.+.       ..+....++..+...+...|++++|...+++..+.      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4567888999999999999999999998863       23345667888999999999999999999998764      2


Q ss_pred             C-CCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC------CC-CCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc---
Q 048616          111 L-SPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT------GC-LPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK---  179 (272)
Q Consensus       111 ~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  179 (272)
                      - .....++..+...+...|++++|...+++..+.      +. +.....+..+...+...|++++|..++++..+.   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            1 223567788889999999999999999988653      22 223456788888999999999999999998764   


Q ss_pred             ---C-CCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          180 ---G-FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       180 ---~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                         + .+....++..+...+...|++++|.+.++++.+.
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  224 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTR  224 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence               2 1233457788899999999999999999998763

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.63  E-value=2.5e-12  Score=97.32  Aligned_cols=192  Identities=10%  Similarity=0.061  Sum_probs=168.6

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI----AKRLRDASGLMDEMVEKGLSPNATTYN  119 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  119 (272)
                      +..++..+...+...|++++|++.|++..+.   -+...+..+...+..    .+++++|.+.|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            5677888889999999999999999999984   356788889999999    999999999999999875   678888


Q ss_pred             HHHHHHhh----cCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHh----cCcHHHHHHHHHHHHHcCCCccHHHHHHH
Q 048616          120 LFFRVFYW----SNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKR----QEKVEIALQLWNDMVEKGFGSYILVSDVL  191 (272)
Q Consensus       120 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  191 (272)
                      .+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...++...+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            89999999    999999999999998875   67788888899988    999999999999999876   45566778


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHH----hhhHHHHHHHHHHHHhcC
Q 048616          192 FDLLCD----MGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMEL----ANKQEALQNLSNKMALFG  250 (272)
Q Consensus       192 i~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  250 (272)
                      ...+..    .+++++|.++|++..+.+   +...+..+...+..    .++.++|...+++..+.+
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~  216 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE  216 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC
Confidence            888888    999999999999998874   45667778889999    999999999999998876

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.62  E-value=2.8e-13  Score=102.24  Aligned_cols=208  Identities=11%  Similarity=0.090  Sum_probs=165.8

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC--HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPD--VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAA   86 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (272)
                      +...|..+...|...|++++|++.+++..+....|+  ...|..+...+...|++++|+..|++..+.. +.+..++..+
T Consensus        36 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l  114 (272)
T 3u4t_A           36 SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQI  114 (272)
T ss_dssp             CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHH
Confidence            445888899999999999999999999988432222  2348889999999999999999999999874 3467889999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCc-
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEK-  165 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-  165 (272)
                      ...+...|++++|.+.|++..+.... +...+..+...+...+++++|...|++..+.. +.+...+..+..++...|+ 
T Consensus       115 ~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~  192 (272)
T 3u4t_A          115 GSYFYNKGNFPLAIQYMEKQIRPTTT-DPKVFYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPD  192 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHGGGCCSSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHccCHHHHHHHHHHHhhcCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcc
Confidence            99999999999999999999887433 56677777734445569999999999998763 3346777778888888887 


Q ss_pred             --HHHHHHHHHHHHHcC-CCcc------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHH
Q 048616          166 --VEIALQLWNDMVEKG-FGSY------ILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQV  221 (272)
Q Consensus       166 --~~~a~~~~~~~~~~~-~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  221 (272)
                        +++|...+++..+.. -.|+      ...|..+...|...|++++|.+.|++..+.  .|+..
T Consensus       193 ~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~  255 (272)
T 3u4t_A          193 TKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILAL--DPTNK  255 (272)
T ss_dssp             CSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             hhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CccHH
Confidence              778888888876542 1222      257778889999999999999999999886  45443

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.61  E-value=9e-13  Score=104.22  Aligned_cols=215  Identities=12%  Similarity=0.086  Sum_probs=176.4

Q ss_pred             CHHhHHHHHHHHHhcCC-HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQ-VEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      +...|+.+..++...|+ +++|+..|++..+.+.. +...|..+..++...|++++|+..|+++.+.. +-+...|..+.
T Consensus       130 ~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg  207 (382)
T 2h6f_A          130 NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQ  207 (382)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHH
Confidence            56789999999999997 99999999999987654 78899999999999999999999999999875 44788999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh-cCChhhH-----HHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW-SNDLRSS-----WNLYCRMMGTGCLPNTQSCMFLVKLCK  161 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (272)
                      .++.+.|++++|+..|+++++..+. +...|+.+..++.. .|..++|     +..+++..... +-+...|..+...+.
T Consensus       208 ~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~  285 (382)
T 2h6f_A          208 WVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQ  285 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT
T ss_pred             HHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH
Confidence            9999999999999999999998665 78899999999999 6665777     48888887764 345678888888888


Q ss_pred             hcC--cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcC---------CHHHHHHHHHHH-HHcCCCCcHHhH-HHHHH
Q 048616          162 RQE--KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMG---------KLVEAEKSFLEM-IEKGHKPSQVSF-RRIKA  228 (272)
Q Consensus       162 ~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---------~~~~a~~~~~~~-~~~~~~p~~~~~-~~l~~  228 (272)
                      ..|  ++++|.+.+..+ +.. +.+...+..+...|.+.|         ..++|.++++++ .+.  .|...-| ..+..
T Consensus       286 ~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~--DP~r~~~w~~~~~  361 (382)
T 2h6f_A          286 DRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEK--DTIRKEYWRYIGR  361 (382)
T ss_dssp             TTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTT--CGGGHHHHHHHHH
T ss_pred             ccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHh--CchhHHHHHHHHH
Confidence            888  689999999888 433 556678888999998874         358999999998 554  6655443 33444


Q ss_pred             HHH
Q 048616          229 LME  231 (272)
Q Consensus       229 ~~~  231 (272)
                      .+.
T Consensus       362 ~l~  364 (382)
T 2h6f_A          362 SLQ  364 (382)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.61  E-value=1.7e-12  Score=100.01  Aligned_cols=202  Identities=8%  Similarity=0.039  Sum_probs=163.5

Q ss_pred             CHHhHHHHHHHHHh-------cCCH-------HHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048616            9 DIVSYNCLIDVYCK-------DRQV-------EKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY   74 (272)
Q Consensus         9 ~~~~~~~li~~~~~-------~g~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (272)
                      +...|..+...+..       .|++       ++|..+|++..+.-.+-+...|..++..+.+.|++++|..+|++..+.
T Consensus        49 ~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~  128 (308)
T 2ond_A           49 HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI  128 (308)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             CHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Confidence            56677777777653       5886       999999999998312236678999999999999999999999999985


Q ss_pred             CCCCC-HH-HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHh-hcCChhhHHHHHHHHHhCCCCCCHh
Q 048616           75 GCYPD-AA-AYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFY-WSNDLRSSWNLYCRMMGTGCLPNTQ  151 (272)
Q Consensus        75 ~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~  151 (272)
                        .|+ .. +|..++..+.+.|++++|..+|++..+... ++...|........ ..|++++|..+|++..+.. +-+..
T Consensus       129 --~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~  204 (308)
T 2ond_A          129 --EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPE  204 (308)
T ss_dssp             --SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHH
T ss_pred             --cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHH
Confidence              343 43 899999999999999999999999998754 34555544433322 3799999999999987753 34678


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcC-CCc--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          152 SCMFLVKLCKRQEKVEIALQLWNDMVEKG-FGS--YILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      .+..++..+.+.|++++|..+|+...... +.|  ....|..++....+.|+.++|..+++++.+.
T Consensus       205 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          205 YVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            88899999999999999999999999863 344  4678888999999999999999999999876

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.61  E-value=7.8e-14  Score=113.89  Aligned_cols=197  Identities=9%  Similarity=-0.018  Sum_probs=172.6

Q ss_pred             cCHHhHHHHHHHHHhcCCH-HHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQV-EKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAA   86 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (272)
                      .+...|..+...+...|++ ++|++.|++..+.... +...|..+..+|.+.|++++|.+.|++..+..  |+...+..+
T Consensus       100 ~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~l  176 (474)
T 4abn_A          100 VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNL  176 (474)
T ss_dssp             CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHH
Confidence            3678888999999999999 9999999999887533 68899999999999999999999999999864  678899999


Q ss_pred             HHHHHhc---------CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhc--------CChhhHHHHHHHHHhCCCC--
Q 048616           87 IRNYCIA---------KRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWS--------NDLRSSWNLYCRMMGTGCL--  147 (272)
Q Consensus        87 ~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~--  147 (272)
                      ...+...         |++++|++.|++..+.... +...|..+..+|...        |++++|...|++..+.. +  
T Consensus       177 g~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~  254 (474)
T 4abn_A          177 SMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVD-RKA  254 (474)
T ss_dssp             HHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHC-GGG
T ss_pred             HHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhC-CCc
Confidence            9999999         9999999999999988644 688899999999988        99999999999998763 2  


Q ss_pred             -CCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048616          148 -PNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLE  210 (272)
Q Consensus       148 -~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  210 (272)
                       -+...+..+..++...|++++|...|++..+.. +.+...+..+..++...|++++|.+.+..
T Consensus       255 ~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          255 SSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence             477889999999999999999999999998876 44567788888899999999998876543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.60  E-value=5.3e-14  Score=112.67  Aligned_cols=239  Identities=10%  Similarity=0.056  Sum_probs=181.3

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH----hhHHHHHHHHHhcCChhHHHHHHHHHHHc----CC-CCCH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDV----ISYTSIIGGLGLVGQPDKARDVLKEMKEY----GC-YPDA   80 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~   80 (272)
                      ...+..+...+...|++++|+..|++..+.+.. +.    ..+..+...+...|++++|...+++..+.    +. ....
T Consensus        48 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  126 (411)
T 4a1s_A           48 CLELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEA  126 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHH
Confidence            345556677888999999999999999886433 33    46888889999999999999999988753    11 2245


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC-CCCHHhHHHHHHHHhhcCC-----------------hhhHHHHH
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVEK----GL-SPNATTYNLFFRVFYWSND-----------------LRSSWNLY  138 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~  138 (272)
                      .++..+...|...|++++|...+++..+.    +- .....++..+...|...|+                 +++|...+
T Consensus       127 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~  206 (411)
T 4a1s_A          127 KSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFY  206 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHH
Confidence            67888889999999999999999887754    11 1124567788889999999                 99999988


Q ss_pred             HHHHhC----CC-CCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC-----CccHHHHHHHHHHHHhcCCHHHHHHHH
Q 048616          139 CRMMGT----GC-LPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGF-----GSYILVSDVLFDLLCDMGKLVEAEKSF  208 (272)
Q Consensus       139 ~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~a~~~~  208 (272)
                      ++..+.    +. .....++..+...+...|++++|...+++..+...     ......+..+...+...|++++|.+.+
T Consensus       207 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  286 (411)
T 4a1s_A          207 QENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHY  286 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            876432    11 12234777888899999999999999998775421     111237788889999999999999999


Q ss_pred             HHHHHcCCC-----CcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          209 LEMIEKGHK-----PSQVSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       209 ~~~~~~~~~-----p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      ++..+....     ....++..+...+...|++++|...+++..+.
T Consensus       287 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  332 (411)
T 4a1s_A          287 KRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAI  332 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            988654111     11345667888999999999999999988764

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.60  E-value=1.1e-14  Score=114.94  Aligned_cols=195  Identities=12%  Similarity=0.073  Sum_probs=102.9

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      +|...|..++..+...|++++|++.++..++.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+.
T Consensus        59 ~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IG  129 (449)
T 1b89_A           59 DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVG  129 (449)
T ss_dssp             ----------------------------------------------------CHHHHTTTTT-------CC---------
T ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHH
Confidence            67889999999999999999999988776664  3467888999999999999999998885       37778999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHH
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVE  167 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (272)
                      ..|...|.+++|...|..+         ..|..++.++.+.|++++|.+.++++      .+..+|..++.+|...|+++
T Consensus       130 d~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~  194 (449)
T 1b89_A          130 DRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFR  194 (449)
T ss_dssp             -------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHH
Confidence            9999999999999999976         36899999999999999999999988      27889999999999999999


Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHH
Q 048616          168 IALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMEL  232 (272)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  232 (272)
                      .|......     +..++.-...++..|.+.|++++|..+++...... +-....|+-+.-++.+
T Consensus       195 lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~k  253 (449)
T 1b89_A          195 LAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK  253 (449)
T ss_dssp             HHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHT
T ss_pred             HHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHh
Confidence            99655443     22333334568899999999999999999987553 3344556655555554

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.59  E-value=1.1e-12  Score=92.89  Aligned_cols=165  Identities=13%  Similarity=0.015  Sum_probs=104.2

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      ...|..+...+...|++++|.+.|+++.+... .+...+..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            34566666777777777777777777765432 256666777777777777777777777776653 3355666666677


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIA  169 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (272)
                      +...|++++|.+.++++.+... .+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEANP-INFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcCc-HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            7777777777777777666533 245555666666666666666666666655442 23345555555555566666666


Q ss_pred             HHHHHHHHH
Q 048616          170 LQLWNDMVE  178 (272)
Q Consensus       170 ~~~~~~~~~  178 (272)
                      ...++...+
T Consensus       164 ~~~~~~~~~  172 (186)
T 3as5_A          164 LPHFKKANE  172 (186)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666655543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.57  E-value=1.9e-12  Score=102.88  Aligned_cols=232  Identities=9%  Similarity=-0.060  Sum_probs=176.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhC----CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcC--C----CCCHHHHH
Q 048616           16 LIDVYCKDRQVEKAYKIVEKMRDE----DISP-DVISYTSIIGGLGLVGQPDKARDVLKEMKEYG--C----YPDAAAYN   84 (272)
Q Consensus        16 li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~----~~~~~~~~   84 (272)
                      ....+...|++++|...|++..+.    +-.+ ...++..+...+...|++++|+..+++..+..  .    .....+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            445677889999999999998763    1111 34678889999999999999999999987531  1    11245788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----HHhHHHHHHHHhhcCChhhHHHHHHHHHh-----CCCCCCHhhHH
Q 048616           85 AAIRNYCIAKRLRDASGLMDEMVEKGLS-PN----ATTYNLFFRVFYWSNDLRSSWNLYCRMMG-----TGCLPNTQSCM  154 (272)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  154 (272)
                      .+...|...|++++|...+++..+.... ++    ..++..+...|...|++++|...+++..+     ...+....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            8899999999999999999988754111 11    24678888999999999999999998866     32133456788


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHc----CCCccHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCcHH-hHHHH
Q 048616          155 FLVKLCKRQEKVEIALQLWNDMVEK----GFGSYILVSDVLFDLLCDMGK---LVEAEKSFLEMIEKGHKPSQV-SFRRI  226 (272)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~p~~~-~~~~l  226 (272)
                      .+...+.+.|++++|...+++..+.    +-+.....+..+...+...|+   +++|..++++.   +..|+.. .+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHH
Confidence            8999999999999999999987654    212223345678888889999   67777777665   3344433 45568


Q ss_pred             HHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          227 KALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ...|...|++++|...+++..+..
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999987654

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.57  E-value=4.8e-12  Score=93.07  Aligned_cols=207  Identities=9%  Similarity=-0.041  Sum_probs=156.5

Q ss_pred             CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 048616           43 PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFF  122 (272)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (272)
                      .++..+......+...|++++|+..|++..+...+++...+..+..++...|++++|++.|++..+..+. +...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            3567888889999999999999999999998764477788888999999999999999999999987543 567888899


Q ss_pred             HHHhhcCChhhHHHHHHHHHhCCCCCCH-------hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc--cHHHHHHHHH
Q 048616          123 RVFYWSNDLRSSWNLYCRMMGTGCLPNT-------QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGS--YILVSDVLFD  193 (272)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~  193 (272)
                      ..+...|++++|...+++..+.. +.+.       ..|..+...+...|++++|...++...+.+ +.  +...+..+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~  161 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT-SKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS-CHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC-CCcccHHHHHHHHH
Confidence            99999999999999999987753 2234       457777788889999999999999988764 33  3566777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHhh
Q 048616          194 LLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEM  264 (272)
Q Consensus       194 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~ll  264 (272)
                      ++...|     ...++++...+ ..+...|...  .....+.+++|...+++..+..    |+......++
T Consensus       162 ~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~--~~~~~~~~~~A~~~~~~a~~l~----p~~~~~~~~l  220 (228)
T 4i17_A          162 LFYNNG-----ADVLRKATPLA-SSNKEKYASE--KAKADAAFKKAVDYLGEAVTLS----PNRTEIKQMQ  220 (228)
T ss_dssp             HHHHHH-----HHHHHHHGGGT-TTCHHHHHHH--HHHHHHHHHHHHHHHHHHHHHC----TTCHHHHHHH
T ss_pred             HHHHHH-----HHHHHHHHhcc-cCCHHHHHHH--HHHHHHHHHHHHHHHHHHhhcC----CCCHHHHHHH
Confidence            776544     34455554442 2233444333  3445677899999999999876    6655444443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.57  E-value=1e-11  Score=102.85  Aligned_cols=236  Identities=8%  Similarity=0.030  Sum_probs=182.0

Q ss_pred             HhHHHHHHHHHhc----CCH----HHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh-------cCChh-------HHHHHH
Q 048616           11 VSYNCLIDVYCKD----RQV----EKAYKIVEKMRDEDISPDVISYTSIIGGLGL-------VGQPD-------KARDVL   68 (272)
Q Consensus        11 ~~~~~li~~~~~~----g~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~   68 (272)
                      ..|...+......    ++.    .++..+|++..... +-+...|......+.+       .|+++       +|..+|
T Consensus       231 ~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~  309 (530)
T 2ooe_A          231 DMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIY  309 (530)
T ss_dssp             HHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHH
Confidence            5666666544332    232    47888999988763 3378888888888875       78987       899999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-HhHHHHHHHHhhcCChhhHHHHHHHHHhCCCC
Q 048616           69 KEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNA-TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCL  147 (272)
Q Consensus        69 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  147 (272)
                      ++..+.-.+.+...|..++..+.+.|++++|..+|+++.+.... +. ..|..++..+.+.|++++|..+|++..+.. +
T Consensus       310 ~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~  387 (530)
T 2ooe_A          310 ERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-R  387 (530)
T ss_dssp             HHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-T
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-C
Confidence            99986323446889999999999999999999999999986322 33 578888888899999999999999998763 2


Q ss_pred             CCHhhHHHHHHH-HHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCc--HHhH
Q 048616          148 PNTQSCMFLVKL-CKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGH-KPS--QVSF  223 (272)
Q Consensus       148 ~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~p~--~~~~  223 (272)
                      .+...+...... +...|+.++|..+|+...+.. +.+...|..++..+.+.|+.++|..+|++....+. .|+  ...|
T Consensus       388 ~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw  466 (530)
T 2ooe_A          388 TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIW  466 (530)
T ss_dssp             CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHH
T ss_pred             CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHH
Confidence            223333322222 336899999999999988764 44678899999999999999999999999998743 332  3467


Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          224 RRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ...+......|+.+.+..+++++.+.-
T Consensus       467 ~~~~~~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          467 ARFLAFESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             HHHHHHHHHSSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            777888888999999999999988765

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.56  E-value=6e-13  Score=94.23  Aligned_cols=162  Identities=11%  Similarity=-0.001  Sum_probs=80.8

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHh
Q 048616           47 SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFY  126 (272)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (272)
                      .+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...+++..+... .+...+..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~   87 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAP-DNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHH
Confidence            34445555555666666666665554432 23445555555555556666666666655555432 23444555555555


Q ss_pred             hcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHH
Q 048616          127 WSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEK  206 (272)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  206 (272)
                      ..|++++|.+.++++.... +.+...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|.+
T Consensus        88 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            5555555555555554432 2233444444444555555555555555444432 2233444444444444555555555


Q ss_pred             HHHHHH
Q 048616          207 SFLEMI  212 (272)
Q Consensus       207 ~~~~~~  212 (272)
                      .+++..
T Consensus       166 ~~~~~~  171 (186)
T 3as5_A          166 HFKKAN  171 (186)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.56  E-value=5.8e-13  Score=106.21  Aligned_cols=243  Identities=10%  Similarity=0.012  Sum_probs=183.1

Q ss_pred             CCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----HhhHHHHHHHHHhcCChhHHHHHHHHHHHc----CCC
Q 048616            6 VKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPD----VISYTSIIGGLGLVGQPDKARDVLKEMKEY----GCY   77 (272)
Q Consensus         6 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~   77 (272)
                      ..+....+......+...|++++|...|++..+.+.. +    ...+..+...+...|++++|...+++..+.    +..
T Consensus         5 ~~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~   83 (406)
T 3sf4_A            5 MEASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQ   83 (406)
T ss_dssp             CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcccc
Confidence            3456777888888999999999999999999886432 3    356888889999999999999999987643    212


Q ss_pred             C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----HHhHHHHHHHHhhcCC--------------------h
Q 048616           78 P-DAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS-PN----ATTYNLFFRVFYWSND--------------------L  131 (272)
Q Consensus        78 ~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~--------------------~  131 (272)
                      | ...++..+...+...|++++|...+++..+.... ++    ..++..+...+...|+                    +
T Consensus        84 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~  163 (406)
T 3sf4_A           84 LGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDAL  163 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHH
Confidence            2 2457788889999999999999999888754110 12    3467788888999999                    9


Q ss_pred             hhHHHHHHHHHhC----CCCC-CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC-----CccHHHHHHHHHHHHhcCCH
Q 048616          132 RSSWNLYCRMMGT----GCLP-NTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGF-----GSYILVSDVLFDLLCDMGKL  201 (272)
Q Consensus       132 ~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~g~~  201 (272)
                      ++|...+++....    +..| ...++..+...+...|++++|...+++..+...     .....++..+...+...|++
T Consensus       164 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  243 (406)
T 3sf4_A          164 QAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEF  243 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCh
Confidence            9999988876432    2111 234677888889999999999999988765411     11123777888899999999


Q ss_pred             HHHHHHHHHHHHcC----CCCc-HHhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          202 VEAEKSFLEMIEKG----HKPS-QVSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       202 ~~a~~~~~~~~~~~----~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      ++|...+++..+..    ..+. ..++..+...+...|++++|...+++..+.
T Consensus       244 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  296 (406)
T 3sf4_A          244 ETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  296 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            99999999876531    1111 345666888999999999999999987664

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.55  E-value=7.9e-11  Score=96.64  Aligned_cols=222  Identities=14%  Similarity=0.071  Sum_probs=119.3

Q ss_pred             CHHhHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCCH
Q 048616            9 DIVSYNCLIDVYCK----DRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGL----VGQPDKARDVLKEMKEYGCYPDA   80 (272)
Q Consensus         9 ~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~   80 (272)
                      ++..+..+-..|..    .+++++|...|++..+.|   +...+..+...|..    .+++++|.+.|++..+.|   +.
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            44455555555555    566777777776666553   44555556666666    666666776666666554   44


Q ss_pred             HHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh----cCChhhHHHHHHHHHhCCCCCCHhh
Q 048616           81 AAYNAAIRNYCI----AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW----SNDLRSSWNLYCRMMGTGCLPNTQS  152 (272)
Q Consensus        81 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  152 (272)
                      ..+..|...|..    .+++++|.+.|++..+.|   +...+..+...|..    .+++++|.+.|++..+.+   +...
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a  185 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWS  185 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            555556666655    566666666666666553   34445555555554    556666666666655543   3444


Q ss_pred             HHHHHHHHHh----cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCcHHhHH
Q 048616          153 CMFLVKLCKR----QEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCD----MGKLVEAEKSFLEMIEKGHKPSQVSFR  224 (272)
Q Consensus       153 ~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~  224 (272)
                      +..+...|..    .++.++|...|+...+.+   +...+..+...|..    .+++++|.++|++..+.|   +...+.
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~  259 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQF  259 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4555555554    555566666555555443   22333344444443    445555555555554432   222333


Q ss_pred             HHHHHHHH----hhhHHHHHHHHHHHHh
Q 048616          225 RIKALMEL----ANKQEALQNLSNKMAL  248 (272)
Q Consensus       225 ~l~~~~~~----~~~~~~a~~~~~~~~~  248 (272)
                      .+...+..    .++.++|..+|++..+
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~  287 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAE  287 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHH
Confidence            34444444    4444555555554443

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.55  E-value=4.6e-13  Score=103.82  Aligned_cols=239  Identities=11%  Similarity=0.008  Sum_probs=177.6

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----HhhHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCC-CH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPD----VISYTSIIGGLGLVGQPDKARDVLKEMKEY----GCYP-DA   80 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~   80 (272)
                      ...+......+...|++++|...|+++.+.... +    ...+..+...+...|++++|.+.+++..+.    +..| ..
T Consensus         5 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   83 (338)
T 3ro2_A            5 CLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   83 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHH
Confidence            445566677888999999999999999886432 3    357788889999999999999999887643    2122 25


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCC----HHhHHHHHHHHhhcCC--------------------hhhHH
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVEKGL-SPN----ATTYNLFFRVFYWSND--------------------LRSSW  135 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~~a~  135 (272)
                      .++..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    +++|.
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~  163 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAV  163 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHH
Confidence            5778888899999999999999988765411 112    3367778888899999                    89999


Q ss_pred             HHHHHHHhC----CC-CCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC-----CCccHHHHHHHHHHHHhcCCHHHHH
Q 048616          136 NLYCRMMGT----GC-LPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG-----FGSYILVSDVLFDLLCDMGKLVEAE  205 (272)
Q Consensus       136 ~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~g~~~~a~  205 (272)
                      ..+++....    +. .....++..+...+...|++++|...+++..+..     ......++..+...+...|++++|.
T Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  243 (338)
T 3ro2_A          164 DLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  243 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            888876432    11 1123467778888899999999999998876541     1112336778888899999999999


Q ss_pred             HHHHHHHHcCCC-Cc----HHhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          206 KSFLEMIEKGHK-PS----QVSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       206 ~~~~~~~~~~~~-p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      +.+++..+.... ++    ..++..+...+...|++++|...+++..+.
T Consensus       244 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  292 (338)
T 3ro2_A          244 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  292 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            999987653111 11    345666888899999999999999987654

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.55  E-value=8e-11  Score=96.60  Aligned_cols=189  Identities=12%  Similarity=0.027  Sum_probs=98.0

Q ss_pred             HHhHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCCHH
Q 048616           10 IVSYNCLIDVYCK----DRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGL----VGQPDKARDVLKEMKEYGCYPDAA   81 (272)
Q Consensus        10 ~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~   81 (272)
                      ...+..+-..|..    .+++++|.+.|++..+.|   +...+..+...|..    .+++++|.+.|++..+.|   +..
T Consensus        75 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~  148 (490)
T 2xm6_A           75 TPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDS  148 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHH
Confidence            3445555555655    666666666666666543   44445555555555    556666666666665553   344


Q ss_pred             HHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh----cCChhhHHHHHHHHHhCCCCCCHhhH
Q 048616           82 AYNAAIRNYCI----AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW----SNDLRSSWNLYCRMMGTGCLPNTQSC  153 (272)
Q Consensus        82 ~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (272)
                      .+..+...|..    .++.++|.+.|++..+.|   +...+..+...|..    .+++++|.++|++..+.+   +...+
T Consensus       149 a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  222 (490)
T 2xm6_A          149 GQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQ  222 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHH
Confidence            55555555554    556666666666655543   44455555555554    555556666655554443   23334


Q ss_pred             HHHHHHHHh----cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHh----cCCHHHHHHHHHHHHH
Q 048616          154 MFLVKLCKR----QEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCD----MGKLVEAEKSFLEMIE  213 (272)
Q Consensus       154 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~  213 (272)
                      ..+...|..    .+++++|...++...+.+   +...+..+...+..    .+++++|.++|++..+
T Consensus       223 ~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~  287 (490)
T 2xm6_A          223 LHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAE  287 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH
Confidence            444444433    445555555555544432   12222333333333    4444555555544443

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.55  E-value=5.5e-12  Score=92.75  Aligned_cols=202  Identities=12%  Similarity=-0.012  Sum_probs=157.0

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      .|+..|......+...|++++|++.|++..+...+++...+..+..++...|++++|+..+++..+.. +.+...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            45688888999999999999999999999987654678888889999999999999999999999864 33567889999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCH-------HhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCC---HhhHHHHH
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNA-------TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPN---TQSCMFLV  157 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  157 (272)
                      .++...|++++|++.+++..+..+. +.       ..|..+...+...|++++|.+.|++..+.  .|+   ...+..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            9999999999999999999987543 44       45777888899999999999999999876  444   45666676


Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhH
Q 048616          158 KLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSF  223 (272)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  223 (272)
                      .++...|     ..+++.+...+ ..+...|....  ....+.+++|...+++..+.  .|+....
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~~~~  216 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNRTEI  216 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             HHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCCHHH
Confidence            7765544     34455555443 23344444433  33567789999999999886  4554433

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.55  E-value=1.6e-13  Score=109.87  Aligned_cols=240  Identities=10%  Similarity=0.009  Sum_probs=183.6

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhC----C-CCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc----CC-CCCH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDE----D-ISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY----GC-YPDA   80 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~   80 (272)
                      ..|..+...|...|++++|.+.|++..+.    + .+....++..+...+...|++++|...+++..+.    +- ....
T Consensus        87 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  166 (411)
T 4a1s_A           87 AIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEG  166 (411)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHH
Confidence            57888999999999999999999987653    1 1224567888889999999999999999988754    11 2234


Q ss_pred             HHHHHHHHHHHhcCC-----------------HHHHHHHHHHHHHc----CCCC-CHHhHHHHHHHHhhcCChhhHHHHH
Q 048616           81 AAYNAAIRNYCIAKR-----------------LRDASGLMDEMVEK----GLSP-NATTYNLFFRVFYWSNDLRSSWNLY  138 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~-----------------~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  138 (272)
                      .++..+...|...|+                 +++|.+.+++..+.    +..+ ...++..+...+...|++++|...+
T Consensus       167 ~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  246 (411)
T 4a1s_A          167 RALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHH  246 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            578888899999999                 99999999887643    1111 2346778889999999999999999


Q ss_pred             HHHHhCCCC-CC----HhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC-----CccHHHHHHHHHHHHhcCCHHHHHHHH
Q 048616          139 CRMMGTGCL-PN----TQSCMFLVKLCKRQEKVEIALQLWNDMVEKGF-----GSYILVSDVLFDLLCDMGKLVEAEKSF  208 (272)
Q Consensus       139 ~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~a~~~~  208 (272)
                      ++..+.... ++    ..++..+...+...|++++|...+++......     .....++..+...+...|++++|.+.+
T Consensus       247 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  326 (411)
T 4a1s_A          247 QERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYH  326 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            987553110 11    23778888999999999999999998775421     112467788899999999999999999


Q ss_pred             HHHHHcC----CCC-cHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          209 LEMIEKG----HKP-SQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       209 ~~~~~~~----~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ++..+..    ..+ ...++..+...+...|+.++|...+++..+..
T Consensus       327 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  373 (411)
T 4a1s_A          327 NRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLA  373 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHH
Confidence            9887541    111 12356668899999999999999999987643

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.54  E-value=9.7e-13  Score=111.95  Aligned_cols=166  Identities=12%  Similarity=-0.005  Sum_probs=140.2

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      ++..|+.+-..|.+.|++++|++.|++..+.... +..+|..+..++.+.|++++|++.|++..+.. +-+...|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            4678999999999999999999999998886433 67888999999999999999999999998864 335788899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHH
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEI  168 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (272)
                      ++.+.|++++|++.|++.++.... +...|..+..+|.+.|++++|++.|++..+.. +-+...+..+..++...|++++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHH
Confidence            999999999999999999887544 67888889999999999999999999887764 3356788888899999999988


Q ss_pred             HHHHHHHHHH
Q 048616          169 ALQLWNDMVE  178 (272)
Q Consensus       169 a~~~~~~~~~  178 (272)
                      |.+.+++..+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8888877654

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.53  E-value=1.5e-12  Score=110.75  Aligned_cols=166  Identities=12%  Similarity=0.044  Sum_probs=148.0

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFR  123 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (272)
                      +...|+.+...+.+.|++++|++.|++..+.. +-+..++..+..+|.+.|++++|++.|++.++.... +...|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            46789999999999999999999999999874 346789999999999999999999999999988644 6889999999


Q ss_pred             HHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHH
Q 048616          124 VFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVE  203 (272)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  203 (272)
                      ++.+.|++++|++.|++..+.+ +-+...+..+..++.+.|++++|++.|++..+.. +-+...+..+..++...|++++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHH
Confidence            9999999999999999998764 3467889999999999999999999999999876 4467788999999999999999


Q ss_pred             HHHHHHHHHH
Q 048616          204 AEKSFLEMIE  213 (272)
Q Consensus       204 a~~~~~~~~~  213 (272)
                      |.+.+++..+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988765

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.52  E-value=5.4e-13  Score=100.95  Aligned_cols=227  Identities=14%  Similarity=0.021  Sum_probs=155.2

Q ss_pred             HhcCCHHHHHHHHHHHhh-------CCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc------CC-CCCHHHHHHH
Q 048616           21 CKDRQVEKAYKIVEKMRD-------EDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY------GC-YPDAAAYNAA   86 (272)
Q Consensus        21 ~~~g~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l   86 (272)
                      ...|++++|+..|++..+       .+.+....++..+...+...|++++|...+++..+.      +. +....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            345676767766666544       222335677888999999999999999999998754      22 2345678899


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc-----CC--CCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC------C-CCCCHhh
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEK-----GL--SPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT------G-CLPNTQS  152 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~-----~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~  152 (272)
                      ...+...|++++|.+.+++..+.     +.  +....++..+...+...|++++|...+++..+.      + .+....+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999988765     11  123567788889999999999999999988654      1 1223567


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHc-------CCCc-cHHHHHHHHHHHHhcCCHH------HHHHHHHHHHHcCCCC
Q 048616          153 CMFLVKLCKRQEKVEIALQLWNDMVEK-------GFGS-YILVSDVLFDLLCDMGKLV------EAEKSFLEMIEKGHKP  218 (272)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~-~~~~~~~li~~~~~~g~~~------~a~~~~~~~~~~~~~p  218 (272)
                      +..+...+...|++++|...+++..+.       ...+ ....+..+.......+...      .+...++....  ..|
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~  249 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV--DSP  249 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC--CCH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC--CCH
Confidence            888889999999999999999988753       1111 2223333333333333322      22222222111  122


Q ss_pred             -cHHhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          219 -SQVSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       219 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                       ...++..+...+...|++++|..++++..+.
T Consensus       250 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          250 TVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             2345666899999999999999999987753

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.52  E-value=1e-12  Score=101.83  Aligned_cols=241  Identities=12%  Similarity=0.028  Sum_probs=181.4

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCC-CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCC-CCC----
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDE----DIS-PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGC-YPD----   79 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----   79 (272)
                      ...|..+...+...|++++|.+.+++..+.    +.. ....++..+...+...|++++|...+++..+... .++    
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  122 (338)
T 3ro2_A           43 SAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGE  122 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHH
Confidence            467888999999999999999999987542    111 2356788888999999999999999998765311 112    


Q ss_pred             HHHHHHHHHHHHhcCC--------------------HHHHHHHHHHHHHc----CCCC-CHHhHHHHHHHHhhcCChhhH
Q 048616           80 AAAYNAAIRNYCIAKR--------------------LRDASGLMDEMVEK----GLSP-NATTYNLFFRVFYWSNDLRSS  134 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a  134 (272)
                      ..++..+...+...|+                    +++|.+.+++....    +..+ ....+..+...+...|++++|
T Consensus       123 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  202 (338)
T 3ro2_A          123 ARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDA  202 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHH
Confidence            3477888899999999                    99999999887543    1111 234677788899999999999


Q ss_pred             HHHHHHHHhC----C-CCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC----C-ccHHHHHHHHHHHHhcCCHHHH
Q 048616          135 WNLYCRMMGT----G-CLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGF----G-SYILVSDVLFDLLCDMGKLVEA  204 (272)
Q Consensus       135 ~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~-~~~~~~~~li~~~~~~g~~~~a  204 (272)
                      ...+++..+.    + ......++..+...+...|++++|...+++..+...    . ....++..+...+...|++++|
T Consensus       203 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  282 (338)
T 3ro2_A          203 VIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKA  282 (338)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHH
Confidence            9999987543    1 111123778888899999999999999998765311    1 1145677888999999999999


Q ss_pred             HHHHHHHHHcC----CCC-cHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          205 EKSFLEMIEKG----HKP-SQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       205 ~~~~~~~~~~~----~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ...+++..+..    ..+ ...++..+...+...|++++|...+++..+..
T Consensus       283 ~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          283 IDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  333 (338)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence            99999886541    111 13356668999999999999999999988654

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.52  E-value=4.7e-13  Score=106.76  Aligned_cols=240  Identities=11%  Similarity=0.020  Sum_probs=181.7

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-CC----
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDE----DISP-DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCY-PD----   79 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----   79 (272)
                      ..+|..+...+...|++++|...+++....    +..| ...++..+...+...|++++|...+++..+.... ++    
T Consensus        47 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  126 (406)
T 3sf4_A           47 SAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGE  126 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccch
Confidence            467888999999999999999999987542    2122 2557788889999999999999999988753110 11    


Q ss_pred             HHHHHHHHHHHHhcCC--------------------HHHHHHHHHHHHHc----CCCC-CHHhHHHHHHHHhhcCChhhH
Q 048616           80 AAAYNAAIRNYCIAKR--------------------LRDASGLMDEMVEK----GLSP-NATTYNLFFRVFYWSNDLRSS  134 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a  134 (272)
                      ..++..+...+...|+                    +++|.+.+++..+.    +..| ...++..+...+...|++++|
T Consensus       127 ~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  206 (406)
T 3sf4_A          127 ARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDA  206 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHH
T ss_pred             HHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHH
Confidence            4478888899999999                    99999999887643    1111 234677888899999999999


Q ss_pred             HHHHHHHHhC----CCC-CCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC----CCc-cHHHHHHHHHHHHhcCCHHHH
Q 048616          135 WNLYCRMMGT----GCL-PNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG----FGS-YILVSDVLFDLLCDMGKLVEA  204 (272)
Q Consensus       135 ~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~li~~~~~~g~~~~a  204 (272)
                      ...+++..+.    +.. ....++..+...+...|++++|...+++..+..    ..+ ...++..+...+...|++++|
T Consensus       207 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  286 (406)
T 3sf4_A          207 VIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKA  286 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHH
Confidence            9999987542    111 112378888889999999999999999876531    111 145778889999999999999


Q ss_pred             HHHHHHHHHcC----CCCc-HHhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          205 EKSFLEMIEKG----HKPS-QVSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       205 ~~~~~~~~~~~----~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      .+.+++..+..    ..+. ..++..+...+...|++++|...+++..+.
T Consensus       287 ~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  336 (406)
T 3sf4_A          287 IDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  336 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999886541    1111 345667889999999999999999997654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.50  E-value=1.7e-11  Score=97.20  Aligned_cols=229  Identities=10%  Similarity=-0.067  Sum_probs=172.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCC-CC----CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcC--C---CC-CHHHHHH
Q 048616           17 IDVYCKDRQVEKAYKIVEKMRDEDI-SP----DVISYTSIIGGLGLVGQPDKARDVLKEMKEYG--C---YP-DAAAYNA   85 (272)
Q Consensus        17 i~~~~~~g~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~---~~-~~~~~~~   85 (272)
                      ...+...|++++|+..|++..+.-. .+    ...++..+...+...|+++.|...+++..+..  .   .+ ...+++.
T Consensus       108 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  187 (378)
T 3q15_A          108 GMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFV  187 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence            3456788999999999999876411 11    24578888899999999999999999887531  1   11 2457788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc----CCCC-CHHhHHHHHHHHhhcCChhhHHHHHHHHHh-----CCCCCCHhhHHH
Q 048616           86 AIRNYCIAKRLRDASGLMDEMVEK----GLSP-NATTYNLFFRVFYWSNDLRSSWNLYCRMMG-----TGCLPNTQSCMF  155 (272)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~  155 (272)
                      +...|...|++++|.+.|++..+.    +..+ ...++..+...|...|++++|...+++...     .. +....++..
T Consensus       188 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~  266 (378)
T 3q15_A          188 IAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHH
Confidence            999999999999999999988753    1111 234677788999999999999999998866     43 333677888


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcC----CCccHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCcHH-hHHHHH
Q 048616          156 LVKLCKRQEKVEIALQLWNDMVEKG----FGSYILVSDVLFDLLCDMGK---LVEAEKSFLEMIEKGHKPSQV-SFRRIK  227 (272)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~p~~~-~~~~l~  227 (272)
                      +...+.+.|++++|...+++..+..    -+.....+..+...+...++   +.+|..++++   .+..|+.. .+..+.
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la  343 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAA  343 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHH
Confidence            8999999999999999999987642    22234456666677778888   6777777665   33344433 444589


Q ss_pred             HHHHHhhhHHHHHHHHHHHHhc
Q 048616          228 ALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      ..|...|++++|...+++..+.
T Consensus       344 ~~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          344 AVFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHH
Confidence            9999999999999999987653

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.49  E-value=1.1e-12  Score=99.33  Aligned_cols=160  Identities=17%  Similarity=0.108  Sum_probs=124.9

Q ss_pred             HHhcCChhHHHHHHHHHHHc-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc------CCCC-CHHhHHH
Q 048616           55 LGLVGQPDKARDVLKEMKEY-------GCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK------GLSP-NATTYNL  120 (272)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~  120 (272)
                      ....|++++|+..+++..+.       ..+....++..+...+...|++++|+..+++..+.      +-.| ...++..
T Consensus        11 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~   90 (283)
T 3edt_B           11 SSGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNN   90 (283)
T ss_dssp             --CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            34568888888888877652       22234667889999999999999999999998865      2122 3567888


Q ss_pred             HHHHHhhcCChhhHHHHHHHHHhC------C-CCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc------C-CCccHH
Q 048616          121 FFRVFYWSNDLRSSWNLYCRMMGT------G-CLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK------G-FGSYIL  186 (272)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~  186 (272)
                      +...+...|++++|...+++....      . .+....++..+...+...|++++|...+++..+.      + .+....
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAK  170 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            999999999999999999988653      1 1234567888889999999999999999998765      1 123456


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          187 VSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       187 ~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ++..+...+...|++++|.+++++..+.
T Consensus       171 ~~~~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          171 TKNNLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            7888999999999999999999998764

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.49  E-value=3e-10  Score=92.52  Aligned_cols=219  Identities=11%  Similarity=-0.026  Sum_probs=156.9

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhC--------CCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcC---
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDE--------DISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYG---   75 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---   75 (272)
                      +..+..||.+...+...|++++|++.|++..+.        ..+....+|+.+..+|...|++++|...+++..+..   
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~  127 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKF  127 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhc
Confidence            344568999999999999999999999887541        112246789999999999999999999999886421   


Q ss_pred             ----CCCCHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH---HhhcCChhhHHHHHHHHHhCCC
Q 048616           76 ----CYPDAAAYNAAIRNYCIA--KRLRDASGLMDEMVEKGLSPNATTYNLFFRV---FYWSNDLRSSWNLYCRMMGTGC  146 (272)
Q Consensus        76 ----~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~  146 (272)
                          ......++.....++...  +++++|++.|++..+..+. +...+..+..+   +...++.++|++.+++..+.+ 
T Consensus       128 ~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-  205 (472)
T 4g1t_A          128 SSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-  205 (472)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-
T ss_pred             ccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-
Confidence                112356676666666554  4689999999999987543 45555555444   445678889999999887654 


Q ss_pred             CCCHhhHHHHHHHHHh----cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-HH
Q 048616          147 LPNTQSCMFLVKLCKR----QEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS-QV  221 (272)
Q Consensus       147 ~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~  221 (272)
                      +.+..++..+...+..    .+++++|.+.+++..... +.+...+..+...|...|++++|.+.+++..+.  .|+ ..
T Consensus       206 p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~  282 (472)
T 4g1t_A          206 PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAY  282 (472)
T ss_dssp             SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHH
T ss_pred             CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHH
Confidence            3355556555555443    467889999999988775 556677888999999999999999999999886  343 44


Q ss_pred             hHHHHHHHH
Q 048616          222 SFRRIKALM  230 (272)
Q Consensus       222 ~~~~l~~~~  230 (272)
                      .+..+...|
T Consensus       283 ~~~~lg~~y  291 (472)
T 4g1t_A          283 LHCQIGCCY  291 (472)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            454454444

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.47  E-value=2.8e-11  Score=98.68  Aligned_cols=246  Identities=14%  Similarity=0.051  Sum_probs=118.9

Q ss_pred             HHhHHHHHHHHHhc--CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHH---HHhcCChhHHHHHHHHHHHcCCCCCHHHHH
Q 048616           10 IVSYNCLIDVYCKD--RQVEKAYKIVEKMRDEDISPDVISYTSIIGG---LGLVGQPDKARDVLKEMKEYGCYPDAAAYN   84 (272)
Q Consensus        10 ~~~~~~li~~~~~~--g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (272)
                      ..++.....++...  +++++|++.|++..+..+. +...+..+..+   +...++.++|++.+++..+.. +.+..++.
T Consensus       136 ~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~  213 (472)
T 4g1t_A          136 PELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKV  213 (472)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHH
T ss_pred             HHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHH
Confidence            34555554444443  4577888888777665322 33333333333   233455555555555555432 12333333


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHH------------------
Q 048616           85 AAIRNYCI----AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMM------------------  142 (272)
Q Consensus        85 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------------------  142 (272)
                      .+...+..    .|+.++|.+.+++....... +...+..+...|...|++++|...+++..                  
T Consensus       214 ~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~  292 (472)
T 4g1t_A          214 LLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYR  292 (472)
T ss_dssp             HHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Confidence            33322222    23344455555544443322 33444444444555555555544444433                  


Q ss_pred             -----------------------------------hCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHH-
Q 048616          143 -----------------------------------GTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYIL-  186 (272)
Q Consensus       143 -----------------------------------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-  186 (272)
                                                         +.+ +.+..++..+...+...|++++|...|++..+....+... 
T Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~  371 (472)
T 4g1t_A          293 AKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQ  371 (472)
T ss_dssp             HHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHH
Confidence                                               322 2233455666777788889999999998888765443321 


Q ss_pred             -HHHHHHH-HHHhcCCHHHHHHHHHHHHHcCC-----------------------CCcHHhHHHHHHHHHHhhhHHHHHH
Q 048616          187 -VSDVLFD-LLCDMGKLVEAEKSFLEMIEKGH-----------------------KPSQVSFRRIKALMELANKQEALQN  241 (272)
Q Consensus       187 -~~~~li~-~~~~~g~~~~a~~~~~~~~~~~~-----------------------~p~~~~~~~l~~~~~~~~~~~~a~~  241 (272)
                       .+..+.. .....|+.++|...|++..+...                       +.+..+|..+..++...|+.++|.+
T Consensus       372 ~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~  451 (472)
T 4g1t_A          372 LLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADE  451 (472)
T ss_dssp             HHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC----
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence             2222222 23467888888888877665321                       2245567778888888999999999


Q ss_pred             HHHHHHhcCCCCCCCHHHH
Q 048616          242 LSNKMALFGPSMIPKREEY  260 (272)
Q Consensus       242 ~~~~~~~~~~~~~p~~~~~  260 (272)
                      .|++..+.+. ..|+..++
T Consensus       452 ~y~kALe~~~-~~p~a~~~  469 (472)
T 4g1t_A          452 DSERGLESGS-LIPSASSW  469 (472)
T ss_dssp             -------------------
T ss_pred             HHHHHHhcCC-CCCcHhhc
Confidence            9999887664 34555443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.46  E-value=6.9e-11  Score=97.96  Aligned_cols=202  Identities=8%  Similarity=0.043  Sum_probs=161.0

Q ss_pred             CHHhHHHHHHHHHh-------cCCHH-------HHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048616            9 DIVSYNCLIDVYCK-------DRQVE-------KAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY   74 (272)
Q Consensus         9 ~~~~~~~li~~~~~-------~g~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (272)
                      +...|......+.+       .|+++       +|..+|++..+.-.+-+...|..++..+.+.|++++|..+|+++.+.
T Consensus       271 ~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~  350 (530)
T 2ooe_A          271 HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI  350 (530)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc
Confidence            56677777777775       69987       99999999986322346888999999999999999999999999985


Q ss_pred             CCCCC-H-HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH-HhhcCChhhHHHHHHHHHhCCCCCCHh
Q 048616           75 GCYPD-A-AAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRV-FYWSNDLRSSWNLYCRMMGTGCLPNTQ  151 (272)
Q Consensus        75 ~~~~~-~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~  151 (272)
                        .|+ . ..|..++..+.+.|++++|.++|++..+.... +...|...... +...|++++|..+|++..+.. +-+..
T Consensus       351 --~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~  426 (530)
T 2ooe_A          351 --EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPE  426 (530)
T ss_dssp             --SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHH
T ss_pred             --cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHH
Confidence              344 3 58899999999999999999999999976322 33333322222 346899999999999987753 34578


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCC-Cc--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          152 SCMFLVKLCKRQEKVEIALQLWNDMVEKGF-GS--YILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      .+..++..+.+.|+.++|..+|+.....+. .|  ....|...+......|+.+.+..++.++.+.
T Consensus       427 ~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          427 YVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            889999999999999999999999988642 23  2457888888888999999999999998775

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.43  E-value=1.2e-10  Score=87.49  Aligned_cols=190  Identities=7%  Similarity=-0.065  Sum_probs=115.9

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC---HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCC-C-CCHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPD---VISYTSIIGGLGLVGQPDKARDVLKEMKEYGC-Y-PDAAAY   83 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~-~~~~~~   83 (272)
                      +...+-.+...+.+.|++++|+..|+++.+..+. +   ...+..+..++.+.|++++|+..|++..+... . .....+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            4555666666777777788888887777765322 2   45666677777777777777777777776531 1 123455


Q ss_pred             HHHHHHHHh--------cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHH
Q 048616           84 NAAIRNYCI--------AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMF  155 (272)
Q Consensus        84 ~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (272)
                      ..+..++..        .|++++|...|+++.+..+. +......+...              ......    ....+..
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~~--------------~~~~~~----~~~~~~~  153 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQKI--------------RELRAK----LARKQYE  153 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHHH--------------HHHHHH----HHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHHH--------------HHHHHH----HHHHHHH
Confidence            666666766        77777777777777765322 22222111100              000000    0111345


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcCCCc--cHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHcCCCCcH
Q 048616          156 LVKLCKRQEKVEIALQLWNDMVEKGFGS--YILVSDVLFDLLCDM----------GKLVEAEKSFLEMIEKGHKPSQ  220 (272)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~~~~p~~  220 (272)
                      +...+.+.|++++|...|+.+.+.....  ....+..+..+|...          |++++|...|+++.+.  .|+.
T Consensus       154 la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~  228 (261)
T 3qky_A          154 AARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--FPDS  228 (261)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--CCCC
Confidence            6677778888888888888877654221  334566666677655          7888888888888775  4444

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.43  E-value=2e-11  Score=93.26  Aligned_cols=194  Identities=9%  Similarity=0.011  Sum_probs=120.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----HHhHHHH
Q 048616           52 IGGLGLVGQPDKARDVLKEMKEY----GCYPD-AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS-PN----ATTYNLF  121 (272)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l  121 (272)
                      ...|...|++++|...|++..+.    |.+++ ..+|+.+..+|.+.|++++|+..+++..+.... .+    ..+++.+
T Consensus        44 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~l  123 (292)
T 1qqe_A           44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (292)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44566778888888888776543    22222 457777888888888888888888777643111 01    3466677


Q ss_pred             HHHHhhc-CChhhHHHHHHHHHhCC----CCCC-HhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccH------HHHH
Q 048616          122 FRVFYWS-NDLRSSWNLYCRMMGTG----CLPN-TQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYI------LVSD  189 (272)
Q Consensus       122 ~~~~~~~-~~~~~a~~~~~~~~~~~----~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~  189 (272)
                      ...|... |++++|+..|++..+..    ..+. ..++..+...+.+.|++++|...+++..+.......      ..+.
T Consensus       124 g~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  203 (292)
T 1qqe_A          124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (292)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHH
Confidence            7777775 88888888887765431    1101 245677777888888888888888887765432221      1456


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHH------hHHHHHHHHH--HhhhHHHHHHHHHHHH
Q 048616          190 VLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQV------SFRRIKALME--LANKQEALQNLSNKMA  247 (272)
Q Consensus       190 ~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~------~~~~l~~~~~--~~~~~~~a~~~~~~~~  247 (272)
                      .+..++...|++++|...|++..+.  .|+..      .+..+..++.  ..+++++|...|+++.
T Consensus       204 ~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          204 KKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence            6667777888888888888877653  33321      1223444443  2345667776666543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.43  E-value=9.8e-11  Score=92.54  Aligned_cols=237  Identities=11%  Similarity=-0.011  Sum_probs=146.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-CC----HhhHHHHHHHHHhcCChhHHHHHHHHHHHc----CCC--C-C
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDIS-PD----VISYTSIIGGLGLVGQPDKARDVLKEMKEY----GCY--P-D   79 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~   79 (272)
                      +++.+...+...|++++|.+.+++....... ++    ..++..+...+...|++++|.+.+++..+.    +..  | .
T Consensus        55 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~  134 (373)
T 1hz4_A           55 ATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMH  134 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHH
Confidence            4556666777788888888888776542100 11    123455666777788888888888777642    221  2 2


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC----CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCC--HhhH
Q 048616           80 AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSP----NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPN--TQSC  153 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~  153 (272)
                      ...+..+...+...|++++|...+++........    ...++..+...+...|++++|...+++.......++  ....
T Consensus       135 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~  214 (373)
T 1hz4_A          135 EFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWI  214 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHH
Confidence            3455667777788888888888888777543211    124566677777888888888888877654211111  1111


Q ss_pred             H----HHHHHHHhcCcHHHHHHHHHHHHHcCCCc---cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCcHH-
Q 048616          154 M----FLVKLCKRQEKVEIALQLWNDMVEKGFGS---YILVSDVLFDLLCDMGKLVEAEKSFLEMIEK----GHKPSQV-  221 (272)
Q Consensus       154 ~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~~~-  221 (272)
                      .    ..+..+...|++++|...++........+   ....+..+...+...|++++|.+.+++....    |..++.. 
T Consensus       215 ~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~  294 (373)
T 1hz4_A          215 SNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNR  294 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHH
Confidence            1    22334667888888888887766543211   1224556677778888888888888776543    2222222 


Q ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 048616          222 SFRRIKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                      .+..+..++...|+.++|...+++...
T Consensus       295 ~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          295 NLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            444466777788888888887777654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.42  E-value=2.1e-10  Score=90.70  Aligned_cols=237  Identities=10%  Similarity=-0.035  Sum_probs=168.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHh----hHHHHHHHHHhcCChhHHHHHHHHHHHcCC-CCC----HHHH
Q 048616           13 YNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVI----SYTSIIGGLGLVGQPDKARDVLKEMKEYGC-YPD----AAAY   83 (272)
Q Consensus        13 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~   83 (272)
                      +......+...|++++|...+++........+..    ++..+...+...|++++|.+.+++..+... ..+    ..++
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            3344456778899999999999987754322222    456667788889999999999998875311 112    2335


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHc----CCC--C-CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCC--C--CHhh
Q 048616           84 NAAIRNYCIAKRLRDASGLMDEMVEK----GLS--P-NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCL--P--NTQS  152 (272)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~--~~~~  152 (272)
                      ..+...+...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++.......  +  ...+
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            67778899999999999999988753    221  2 2345666778899999999999999987543211  1  2346


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc-HHHHH-----HHHHHHHhcCCHHHHHHHHHHHHHcCCCCc---HHhH
Q 048616          153 CMFLVKLCKRQEKVEIALQLWNDMVEKGFGSY-ILVSD-----VLFDLLCDMGKLVEAEKSFLEMIEKGHKPS---QVSF  223 (272)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~-----~li~~~~~~g~~~~a~~~~~~~~~~~~~p~---~~~~  223 (272)
                      +..+...+...|++++|...+++.......++ ...+.     ..+..+...|++++|..++++.......++   ...+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            77788889999999999999998875421111 11111     233457799999999999998865432211   2245


Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          224 RRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      ..+...+...|++++|...+++....
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~  282 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNEN  282 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            56788899999999999999987654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.42  E-value=2.8e-10  Score=86.15  Aligned_cols=180  Identities=8%  Similarity=0.050  Sum_probs=102.9

Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCCHHhHHHHHHHHhhcCChhhHHHHHHHHH
Q 048616           64 ARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGL-SPNATTYNLFFRVFYWSNDLRSSWNLYCRMM  142 (272)
Q Consensus        64 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (272)
                      |+..|+++.+.+ .++..++..+..++...|++++|++++.+.+..+. .-+...+..++..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            566666665543 34455555666777777777777777777665543 1245556666677777777777777777775


Q ss_pred             hCCCCC-----CHhhHHHHHHH--HHhcC--cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          143 GTGCLP-----NTQSCMFLVKL--CKRQE--KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       143 ~~~~~~-----~~~~~~~l~~~--~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      +.  .|     +..+...+..+  ....|  +.++|..+|+++.+..  |+......++.++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~--p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            54  34     24444555544  22223  6777777777765442  3212222333366677777777777775543


Q ss_pred             c-----CC---CC-cHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          214 K-----GH---KP-SQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       214 ~-----~~---~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      .     +.   .| |..+...++......|+  .+.++++++++..
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            2     00   12 33344334444444554  5667777776644

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.40  E-value=7.5e-11  Score=90.14  Aligned_cols=203  Identities=11%  Similarity=-0.029  Sum_probs=150.1

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCCCC-HhhHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCC-CH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDE----DISPD-VISYTSIIGGLGLVGQPDKARDVLKEMKEY----GCYP-DA   80 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~   80 (272)
                      ..|+.....|...|++++|.+.|++..+.    |-++. ..+|+.+..+|.+.|++++|+..+++..+.    |-.. -.
T Consensus        38 ~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a  117 (292)
T 1qqe_A           38 DLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (292)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            46888888999999999999999987653    32222 568899999999999999999999988753    2111 14


Q ss_pred             HHHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCC-C----HHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCH----
Q 048616           81 AAYNAAIRNYCIA-KRLRDASGLMDEMVEKGLSP-N----ATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNT----  150 (272)
Q Consensus        81 ~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----  150 (272)
                      .+++.+...|... |++++|+..|++..+..... +    ..++..+...+.+.|++++|...|++..+.......    
T Consensus       118 ~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  197 (292)
T 1qqe_A          118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS  197 (292)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG
T ss_pred             HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHH
Confidence            5788899999996 99999999999988652111 1    346788899999999999999999999876433222    


Q ss_pred             --hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc-c---HHHHHHHHHHHH--hcCCHHHHHHHHHHHHH
Q 048616          151 --QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGS-Y---ILVSDVLFDLLC--DMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       151 --~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~---~~~~~~li~~~~--~~g~~~~a~~~~~~~~~  213 (272)
                        ..+..+..++...|++++|...+++..+..... +   ...+..++.++.  ..+++++|.+.|+.+..
T Consensus       198 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          198 LKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence              156777788899999999999999987643211 1   113344556654  45678888888877643

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.40  E-value=7.1e-11  Score=78.74  Aligned_cols=129  Identities=15%  Similarity=0.162  Sum_probs=82.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYC   91 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (272)
                      .|..+...+...|++++|..+|+++.+.+. .+...+..+...+...|++++|...++++.+.+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            455666667777777777777777665432 245566666666777777777777777766553 234556666666667


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHh
Q 048616           92 IAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMG  143 (272)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (272)
                      ..|++++|.+.++++.+.... +...+..+...+.+.|++++|...++++..
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            777777777777766665322 455566666666666666666666666544

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.39  E-value=3.9e-10  Score=99.79  Aligned_cols=203  Identities=12%  Similarity=0.027  Sum_probs=104.1

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      ..+|..+..++.+.|++++|++.|.+.      -+...|..++.++.+.|++++|.+.+....+..  +++...+.++.+
T Consensus      1105 p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~Lafa 1176 (1630)
T 1xi4_A         1105 PAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFA 1176 (1630)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHH
Confidence            445555555666666666666665432      144555556666666666666666665554432  222222235555


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIA  169 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (272)
                      |.+.+++++.....    +   .++...|..+...|...|++++|..+|...         ..|..+..++.+.|++++|
T Consensus      1177 YAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~A 1240 (1630)
T 1xi4_A         1177 LAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAA 1240 (1630)
T ss_pred             HHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHH
Confidence            55555555322221    1   123444445555555666666666666553         2555555666666666666


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          170 LQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      .+.+++.      .+..+|..+-.+|...|++..|......     +..+...+..++..|.+.|.+++|..+++...
T Consensus      1241 IEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL 1307 (1630)
T 1xi4_A         1241 VDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAAL 1307 (1630)
T ss_pred             HHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            6555543      1223444444444444444444433322     12233445566667777777777777776543

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.38  E-value=1.3e-10  Score=77.51  Aligned_cols=125  Identities=13%  Similarity=0.108  Sum_probs=52.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCc
Q 048616           86 AIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEK  165 (272)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (272)
                      +...+...|++++|..+++++.+.+.. +...+..+...+...|++++|...++++...+ +.+...+..+...+...|+
T Consensus         7 l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~   84 (136)
T 2fo7_A            7 LGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGD   84 (136)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHhcC
Confidence            334444444444444444444433211 23333334444444444444444444443322 1223333344444444444


Q ss_pred             HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          166 VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      +++|...++.+.+.. +.+...+..+...+.+.|++++|.+.++++.+
T Consensus        85 ~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           85 YDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            444444444444332 22233344444444455555555555544443

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.37  E-value=2.1e-10  Score=97.82  Aligned_cols=174  Identities=10%  Similarity=-0.065  Sum_probs=143.6

Q ss_pred             HhcCCHHHHHHHHHHHh--------hCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 048616           21 CKDRQVEKAYKIVEKMR--------DEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI   92 (272)
Q Consensus        21 ~~~g~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (272)
                      ...|++++|++.+++..        +.. +.+...+..+..++.+.|++++|++.|++..+.. +.+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            67899999999999998        443 3366788889999999999999999999999864 3467889999999999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHH
Q 048616           93 AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQL  172 (272)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (272)
                      .|++++|++.|++..+.... +...+..+..++.+.|++++ ...|++..+.+ +-+...+..+..++.+.|++++|.+.
T Consensus       480 ~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999988544 67788899999999999999 99999998764 44677889999999999999999999


Q ss_pred             HHHHHHcCCCccHHHHHHHHHHHHhcCC
Q 048616          173 WNDMVEKGFGSYILVSDVLFDLLCDMGK  200 (272)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~li~~~~~~g~  200 (272)
                      |++..+.+ +.+...+..+..++...++
T Consensus       557 ~~~al~l~-P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTS-RHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTS-TTHHHHHHHHHHHTC----
T ss_pred             HHhhcccC-cccHHHHHHHHHHHHccCC
Confidence            99887764 3345667777777766554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.37  E-value=1.8e-10  Score=83.46  Aligned_cols=134  Identities=10%  Similarity=0.031  Sum_probs=81.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 048616           85 AAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQE  164 (272)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (272)
                      .+..++.+.|++++|+..|++..+..+. +...+..+...+...|++++|...|++..+.+ +-+..++..+..++...|
T Consensus        59 ~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           59 ELALAYKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHh
Confidence            3667777777777777777777776443 56677777777777777777777777776653 334556666666665444


Q ss_pred             c--HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHH
Q 048616          165 K--VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFR  224 (272)
Q Consensus       165 ~--~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  224 (272)
                      .  .+.+...+.....  ..|....+.....++...|++++|...|++.++.  .|+.....
T Consensus       137 ~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~  194 (208)
T 3urz_A          137 EQEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQK  194 (208)
T ss_dssp             HHHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHH
Confidence            3  3334444444331  2232223333444556677888888888887764  56654433

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.37  E-value=6.4e-11  Score=94.01  Aligned_cols=203  Identities=8%  Similarity=-0.012  Sum_probs=154.5

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCC--C----CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcC----CCC
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDED--I----SPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYG----CYP   78 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~   78 (272)
                      ...+|..+...|...|++++|...+++..+.-  .    +....++..+...|...|++++|.+.+++..+..    ..+
T Consensus       142 ~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  221 (383)
T 3ulq_A          142 KAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQ  221 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChH
Confidence            35688899999999999999999999886521  1    1124578888899999999999999999887531    111


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC-CCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC----CCCC
Q 048616           79 -DAAAYNAAIRNYCIAKRLRDASGLMDEMVEK----GL-SPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT----GCLP  148 (272)
Q Consensus        79 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~  148 (272)
                       ...++..+..+|...|++++|.+.+++..+.    +. +....++..+...+.+.|++++|...+++..+.    +.+.
T Consensus       222 ~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  301 (383)
T 3ulq_A          222 LMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVI  301 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence             1247888999999999999999999998872    22 234567888999999999999999999987543    1122


Q ss_pred             CHhhHHHHHHHHHhcCc---HHHHHHHHHHHHHcCCC-ccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          149 NTQSCMFLVKLCKRQEK---VEIALQLWNDMVEKGFG-SYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       149 ~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ....+..+...+...|+   +++|..+++..   +.. .....+..+...|...|++++|.+.+++..+.
T Consensus       302 ~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          302 YLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            23335667778888888   77777777665   222 33456778899999999999999999988653

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.37  E-value=3.9e-10  Score=84.58  Aligned_cols=186  Identities=12%  Similarity=0.019  Sum_probs=124.1

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC-HHhH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD---AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS-PN-ATTY  118 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-~~~~  118 (272)
                      +...+..+...+.+.|++++|+..|+++.+.. +.+   ...+..+..++.+.|++++|...|++..+..+. |. ...+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            55666677777888888888888888887753 123   566777778888888888888888888876331 11 3455


Q ss_pred             HHHHHHHhh--------cCChhhHHHHHHHHHhCCCCCCH-hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHH
Q 048616          119 NLFFRVFYW--------SNDLRSSWNLYCRMMGTGCLPNT-QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSD  189 (272)
Q Consensus       119 ~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  189 (272)
                      ..+..++..        .|++++|...|++..+..  |+. .....+....              .+...    ....+.
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~--------------~~~~~----~~~~~~  152 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIR--------------ELRAK----LARKQY  152 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHH--------------HHHHH----HHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHH--------------HHHHH----HHHHHH
Confidence            566667777        777888888887776642  322 2221111110              00000    011135


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCC--cHHhHHHHHHHHHHh----------hhHHHHHHHHHHHHhcC
Q 048616          190 VLFDLLCDMGKLVEAEKSFLEMIEKGHKP--SQVSFRRIKALMELA----------NKQEALQNLSNKMALFG  250 (272)
Q Consensus       190 ~li~~~~~~g~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~  250 (272)
                      .+...|.+.|++++|...|+++++.....  ....+..+..++...          |++++|...++++.+..
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence            67788999999999999999998863221  234555677778766          89999999999999876

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.34  E-value=3.9e-10  Score=85.38  Aligned_cols=183  Identities=12%  Similarity=0.080  Sum_probs=113.4

Q ss_pred             HHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616           29 AYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGC-YPDAAAYNAAIRNYCIAKRLRDASGLMDEMV  107 (272)
Q Consensus        29 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (272)
                      |+..|+++.+.+ .++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            566666666544 34555556677777777888888888877765542 1255666677777788888888888888777


Q ss_pred             HcCCCC-----CHHhHHHHHHHHhh--cC--ChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 048616          108 EKGLSP-----NATTYNLFFRVFYW--SN--DLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVE  178 (272)
Q Consensus       108 ~~~~~~-----~~~~~~~l~~~~~~--~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (272)
                      +.  .|     +..+...+..+++.  .|  ++.+|..+|+++.+.  .|+..+...++.++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            65  34     23444455545222  23  777788888887554  34433334444467777888888888776554


Q ss_pred             cC---------CCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH
Q 048616          179 KG---------FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQ  220 (272)
Q Consensus       179 ~~---------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~  220 (272)
                      ..         -+.+..+...+|......|+  +|.+++.++.+.  .|+.
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~h  286 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL--DHEH  286 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--TCCC
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--CCCC
Confidence            21         03345555444444455565  677777777765  4554

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.32  E-value=9.1e-10  Score=79.98  Aligned_cols=177  Identities=12%  Similarity=0.002  Sum_probs=105.9

Q ss_pred             HHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC----CHHHHHHHH
Q 048616           28 KAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAK----RLRDASGLM  103 (272)
Q Consensus        28 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~  103 (272)
                      +|++.|++..+.|   +...+..+...+...+++++|++.|++..+.|   ++..+..+...|.. +    ++++|.+.|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            4556666666654   55666667777777777777777777776654   45566666666665 5    677777777


Q ss_pred             HHHHHcCCCCCHHhHHHHHHHHhh----cCChhhHHHHHHHHHhCCCC-CCHhhHHHHHHHHHh----cCcHHHHHHHHH
Q 048616          104 DEMVEKGLSPNATTYNLFFRVFYW----SNDLRSSWNLYCRMMGTGCL-PNTQSCMFLVKLCKR----QEKVEIALQLWN  174 (272)
Q Consensus       104 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~  174 (272)
                      ++..+.|   +...+..+...|..    .+++++|..+|++..+.+.. .....+..+-..|..    .+++++|...|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            7776653   45555666666655    66777777777776655421 014455555556655    556666666666


Q ss_pred             HHHHcCCCccHHHHHHHHHHHHhc-C-----CHHHHHHHHHHHHHcCC
Q 048616          175 DMVEKGFGSYILVSDVLFDLLCDM-G-----KLVEAEKSFLEMIEKGH  216 (272)
Q Consensus       175 ~~~~~~~~~~~~~~~~li~~~~~~-g-----~~~~a~~~~~~~~~~~~  216 (272)
                      ...+.+  .+...+..|...|... |     ++++|..+|+...+.|.
T Consensus       154 ~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          154 GSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            665541  1222344444444432 2     56666666666665543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.32  E-value=3.6e-10  Score=89.57  Aligned_cols=200  Identities=11%  Similarity=-0.005  Sum_probs=151.7

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CC-CC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCC-
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDE----DI-SP-DVISYTSIIGGLGLVGQPDKARDVLKEMKEY----GCYP-   78 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-   78 (272)
                      ..++..+...|...|+++.|...+++..+.    +. .+ ...+++.+...+...|++++|.+.|++..+.    +..+ 
T Consensus       141 a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~  220 (378)
T 3q15_A          141 AEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRF  220 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            567888899999999999999999987652    11 11 2457788999999999999999999988753    2111 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCC----CCCC
Q 048616           79 DAAAYNAAIRNYCIAKRLRDASGLMDEMVE-----KGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTG----CLPN  149 (272)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~  149 (272)
                      ...++..+..+|...|++++|.+.+++..+     .... ...++..+...+.+.|++++|...+++..+..    .+..
T Consensus       221 ~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  299 (378)
T 3q15_A          221 IAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDL-LPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFY  299 (378)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGG-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            235778899999999999999999999886     3322 36778888999999999999999999886531    1222


Q ss_pred             HhhHHHHHHHHHhcCc---HHHHHHHHHHHHHcCCC-ccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          150 TQSCMFLVKLCKRQEK---VEIALQLWNDMVEKGFG-SYILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       150 ~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      ...+..+...+...++   +.+|..+++.   .+.. .....+..+...|...|++++|.+.|++..+
T Consensus       300 ~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          300 KELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3445556666777777   7777777765   3222 2334667788999999999999999998764

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.32  E-value=4.3e-10  Score=81.43  Aligned_cols=134  Identities=10%  Similarity=0.065  Sum_probs=99.8

Q ss_pred             HHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcC
Q 048616          120 LFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMG  199 (272)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  199 (272)
                      .+..++.+.|++++|...|++..+.. +-+...+..+..++...|++++|...|++..+.. +.+...+..+...|...|
T Consensus        59 ~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           59 ELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHh
Confidence            38889999999999999999998764 4467889999999999999999999999999876 456677888888776655


Q ss_pred             C--HHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHH
Q 048616          200 K--LVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYL  261 (272)
Q Consensus       200 ~--~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~  261 (272)
                      .  .+.+...++....  ..|....+.....++...|++++|...|++..+..    |+.....
T Consensus       137 ~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~----P~~~~~~  194 (208)
T 3urz_A          137 EQEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRF----PSTEAQK  194 (208)
T ss_dssp             HHHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTS----CCHHHHH
T ss_pred             HHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhC----CCHHHHH
Confidence            4  3445556655532  23333333445666777899999999999988654    7755443

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.30  E-value=1.6e-09  Score=95.97  Aligned_cols=193  Identities=11%  Similarity=0.089  Sum_probs=114.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 048616           16 LIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKR   95 (272)
Q Consensus        16 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (272)
                      +...+...|.+++|..+|++...     .....+.++.   ..+++++|.++.++.      -++.+|..+..++.+.|+
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~~-----~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~ 1120 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFDV-----NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGM 1120 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCC
Confidence            45566677788888888777521     1222233322   455666666666644      245666677777777777


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHH
Q 048616           96 LRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWND  175 (272)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (272)
                      +++|.+.|.+.      -|...|..++.++.+.|++++|.+.|....+..  ++....+.++.+|++.+++++...+.  
T Consensus      1121 ~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI-- 1190 (1630)
T 1xi4_A         1121 VKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI-- 1190 (1630)
T ss_pred             HHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH--
Confidence            77777776442      255666667777777777777777776655443  22222334666666666666443332  


Q ss_pred             HHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHH
Q 048616          176 MVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKM  246 (272)
Q Consensus       176 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (272)
                        +   .++...|..+...|...|++++|..+|...         ..|..+...+.+.|++++|.+.+++.
T Consensus      1191 --~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA 1247 (1630)
T 1xi4_A         1191 --N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA 1247 (1630)
T ss_pred             --h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh
Confidence              1   223344445666666666666666666663         25566666666666666666666654

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.29  E-value=3.1e-09  Score=77.17  Aligned_cols=177  Identities=13%  Similarity=0.109  Sum_probs=144.8

Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcC----ChhhHHHH
Q 048616           62 DKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSN----DLRSSWNL  137 (272)
Q Consensus        62 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~  137 (272)
                      .+|++.|++..+.|   ++..+..+...|...+++++|++.|++..+.|   +...+..+...|.. +    ++++|..+
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            35778888888875   77888899999999999999999999999875   56777778888877 6    89999999


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHh----cCcHHHHHHHHHHHHHcCCC-ccHHHHHHHHHHHHh----cCCHHHHHHHH
Q 048616          138 YCRMMGTGCLPNTQSCMFLVKLCKR----QEKVEIALQLWNDMVEKGFG-SYILVSDVLFDLLCD----MGKLVEAEKSF  208 (272)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~a~~~~  208 (272)
                      |++..+.|   +...+..+...|..    .+++++|...|+...+.+.. .+...+..|...|..    .+++++|..+|
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            99998765   55677777778876    88999999999999887632 125677778888888    88999999999


Q ss_pred             HHHHHcCCCCcHHhHHHHHHHHHHh-h-----hHHHHHHHHHHHHhcC
Q 048616          209 LEMIEKGHKPSQVSFRRIKALMELA-N-----KQEALQNLSNKMALFG  250 (272)
Q Consensus       209 ~~~~~~~~~p~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~~  250 (272)
                      ++..+.  .++...+..|...|... |     +.++|..+|++..+.|
T Consensus       153 ~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          153 KGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            999886  23445666677777764 3     8999999999999888

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.28  E-value=1.6e-08  Score=77.16  Aligned_cols=235  Identities=11%  Similarity=0.052  Sum_probs=180.8

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC--ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH----Hh
Q 048616           19 VYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVG--QPDKARDVLKEMKEYGCYPDAAAYNAAIRNY----CI   92 (272)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~   92 (272)
                      ...+....++|+++++.+...++. +...|+.--..+...+  ++++++++++.+..... -+..+|+.-...+    ..
T Consensus        42 ~~~~~e~s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nP-k~y~aW~~R~~iL~~~~~~  119 (306)
T 3dra_A           42 LMKAEEYSERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNE-KNYQIWNYRQLIIGQIMEL  119 (306)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCT-TCCHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCc-ccHHHHHHHHHHHHHHHHh
Confidence            334445567999999999987544 6778898888888888  99999999999998753 3555665544444    45


Q ss_pred             c---CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChh--hHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCc--
Q 048616           93 A---KRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLR--SSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEK--  165 (272)
Q Consensus        93 ~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--  165 (272)
                      .   +++++++++++++.+...+ +..+|+--.-.+.+.+.++  ++++.++++.+.+ +-+...|+.-...+.+.+.  
T Consensus       120 l~~~~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~  197 (306)
T 3dra_A          120 NNNDFDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLA  197 (306)
T ss_dssp             TTTCCCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGC
T ss_pred             ccccCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccc
Confidence            5   7899999999999998765 8888888888888888888  9999999998875 4477788777777777776  


Q ss_pred             ----HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHcC--CCCcHHhHHHHHHHHHHhhhHHH
Q 048616          166 ----VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVE-AEKSFLEMIEKG--HKPSQVSFRRIKALMELANKQEA  238 (272)
Q Consensus       166 ----~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~  238 (272)
                          ++++.+.++...... +-|...|+-+-..+.+.|+..+ +..+..++.+.+  -..+...+..++.++.+.|+.++
T Consensus       198 ~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~  276 (306)
T 3dra_A          198 TDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNE  276 (306)
T ss_dssp             CHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHH
T ss_pred             hhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHH
Confidence                899999999988876 6677888888888888887444 556666665432  12355667778999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCCHHHHH
Q 048616          239 LQNLSNKMALFGPSMIPKREEYL  261 (272)
Q Consensus       239 a~~~~~~~~~~~~~~~p~~~~~~  261 (272)
                      |.++++.+.+.   ..|...-|-
T Consensus       277 A~~~~~~l~~~---~Dpir~~yW  296 (306)
T 3dra_A          277 SRTVYDLLKSK---YNPIRSNFW  296 (306)
T ss_dssp             HHHHHHHHHHT---TCGGGHHHH
T ss_pred             HHHHHHHHHhc---cChHHHHHH
Confidence            99999998762   126554443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.28  E-value=2.2e-09  Score=78.66  Aligned_cols=185  Identities=10%  Similarity=0.052  Sum_probs=121.7

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HhHH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCY-P-DAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNA--TTYN  119 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  119 (272)
                      +...+..+...+.+.|++++|+..|+++.+.... | ....+..+..++.+.|++++|+..|+++.+..+....  ..+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            4455666778888999999999999999876322 1 1357778888999999999999999999887443211  2344


Q ss_pred             HHHHHHhh------------------cCChhhHHHHHHHHHhCCCCCCH-hhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 048616          120 LFFRVFYW------------------SNDLRSSWNLYCRMMGTGCLPNT-QSCMFLVKLCKRQEKVEIALQLWNDMVEKG  180 (272)
Q Consensus       120 ~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (272)
                      .+..++..                  .|++++|...|+++.+..  |+. ..........          .+...+.   
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~----------~~~~~~~---  147 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLV----------FLKDRLA---  147 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHH----------HHHHHHH---
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHH----------HHHHHHH---
Confidence            44444443                  345666666666665542  222 1111111000          0000000   


Q ss_pred             CCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH----HhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          181 FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQ----VSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       181 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                           .....+...+.+.|++++|...|+++++.  .|+.    ..+..+..++.+.|+.++|.+.++.+...+
T Consensus       148 -----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          148 -----KYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             -----HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             -----HHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                 01124566788999999999999999886  3443    356668889999999999999999988766

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.27  E-value=3.9e-09  Score=77.34  Aligned_cols=188  Identities=10%  Similarity=-0.059  Sum_probs=130.5

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-C-CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH--HHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDIS-P-DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA--AAYN   84 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~   84 (272)
                      +...+..+...+.+.|++++|+..|+++.+..+. | ....+..+..++.+.|++++|+..|+++.+.......  ..+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            4455666778899999999999999999875332 1 1356788899999999999999999999986422111  2455


Q ss_pred             HHHHHHHh------------------cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCC
Q 048616           85 AAIRNYCI------------------AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGC  146 (272)
Q Consensus        85 ~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  146 (272)
                      .+..++..                  .|+.++|...|+++++..+. +...+......          ..+...+.    
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~-~~~a~~a~~~l----------~~~~~~~~----  147 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN-SQYTTDATKRL----------VFLKDRLA----  147 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTT-CTTHHHHHHHH----------HHHHHHHH----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcC-ChhHHHHHHHH----------HHHHHHHH----
Confidence            55555554                  57899999999999987432 22222221111          01111110    


Q ss_pred             CCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048616          147 LPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSY--ILVSDVLFDLLCDMGKLVEAEKSFLEMIEKG  215 (272)
Q Consensus       147 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  215 (272)
                          .....+...+.+.|++++|...|+.+.+......  ...+..+..++.+.|+.++|.+.++.+...+
T Consensus       148 ----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          148 ----KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ----HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ----HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                1123456678889999999999999887642221  2467778889999999999999999888763

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.27  E-value=2.6e-10  Score=97.21  Aligned_cols=172  Identities=10%  Similarity=0.007  Sum_probs=142.2

Q ss_pred             HhcCChhHHHHHHHHHH--------HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh
Q 048616           56 GLVGQPDKARDVLKEMK--------EYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW  127 (272)
Q Consensus        56 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (272)
                      ...|++++|++.+++..        +. .+.+...+..+..++.+.|++++|++.|++..+.... +...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHH
Confidence            77899999999999998        43 2446678888999999999999999999999987544 77889999999999


Q ss_pred             cCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHH
Q 048616          128 SNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKS  207 (272)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  207 (272)
                      .|++++|...|++..+.. +-+...+..+..++.+.|++++ .+.|++..+.+ +.+...|..+..++.+.|++++|.+.
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999998764 3356788889999999999999 99999998876 45667888999999999999999999


Q ss_pred             HHHHHHcCCCCc-HHhHHHHHHHHHHhh
Q 048616          208 FLEMIEKGHKPS-QVSFRRIKALMELAN  234 (272)
Q Consensus       208 ~~~~~~~~~~p~-~~~~~~l~~~~~~~~  234 (272)
                      |++..+.  .|+ ...+..+..++...+
T Consensus       557 ~~~al~l--~P~~~~a~~~~~~~~~~~~  582 (681)
T 2pzi_A          557 LDEVPPT--SRHFTTARLTSAVTLLSGR  582 (681)
T ss_dssp             HHTSCTT--STTHHHHHHHHHHHTC---
T ss_pred             HHhhccc--CcccHHHHHHHHHHHHccC
Confidence            9998765  555 345555666665533

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.26  E-value=4.3e-10  Score=94.01  Aligned_cols=154  Identities=8%  Similarity=0.002  Sum_probs=108.0

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 048616           23 DRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGL  102 (272)
Q Consensus        23 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  102 (272)
                      .|++++|++.|++..+.... +...+..+...+.+.|++++|.+.+++..+.. +.+...+..+..++...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            46788888888888765432 57778888888888889999998888888764 34577888888888888999999988


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc---CcHHHHHHHHHHHHHc
Q 048616          103 MDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ---EKVEIALQLWNDMVEK  179 (272)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~  179 (272)
                      +++..+.... +...+..+..++.+.|++++|.+.+++..+.. +.+...+..+..++...   |+.++|.+.+++..+.
T Consensus        80 ~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            8888877543 57778888888888889999988888887653 34566777888888888   8888888888888776


Q ss_pred             C
Q 048616          180 G  180 (272)
Q Consensus       180 ~  180 (272)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            5

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.26  E-value=1e-10  Score=80.08  Aligned_cols=143  Identities=10%  Similarity=-0.086  Sum_probs=101.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 048616           18 DVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLR   97 (272)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (272)
                      ..+...|++++|++.+....... +-+...+..+...|.+.|++++|++.|++..+.. +-+..+|..+..++.+.|+++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchH
Confidence            34556678888888888776542 1244556677888888888888888888888764 346778888888888888888


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHH-HHHHHhCCCCCCHhhHHHHHHHHHhcC
Q 048616           98 DASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNL-YCRMMGTGCLPNTQSCMFLVKLCKRQE  164 (272)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (272)
                      +|+..|++..+..+. +..++..+...|.+.|+++++.+. +++..+.. +-+..+|......+...|
T Consensus        83 ~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           83 KAVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            888888888877543 577788888888888888766554 46666543 334556665555555555

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.26  E-value=6e-10  Score=84.89  Aligned_cols=168  Identities=10%  Similarity=0.004  Sum_probs=131.7

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHH
Q 048616           77 YPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFL  156 (272)
Q Consensus        77 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (272)
                      +.+...+..+...+.+.|++++|...|++..+..+. +...+..+...+.+.|++++|...+++....  .|+.......
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHH
Confidence            445667778888899999999999999999987544 6778888999999999999999999988665  3444333222


Q ss_pred             -HHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-cHHhHHHHHHHHHHhh
Q 048616          157 -VKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKP-SQVSFRRIKALMELAN  234 (272)
Q Consensus       157 -~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~  234 (272)
                       ...+...++.+.|...+++..... +.+...+..+...+...|++++|.+.|.++.+..... +...+..+...+...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence             233567777888888898888775 5567788889999999999999999999998874322 2456777999999999


Q ss_pred             hHHHHHHHHHHHHh
Q 048616          235 KQEALQNLSNKMAL  248 (272)
Q Consensus       235 ~~~~a~~~~~~~~~  248 (272)
                      +.+++...|++...
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            98888888877543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.25  E-value=6.2e-10  Score=84.79  Aligned_cols=168  Identities=8%  Similarity=-0.013  Sum_probs=136.2

Q ss_pred             CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHH-
Q 048616           42 SPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNL-  120 (272)
Q Consensus        42 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-  120 (272)
                      +.+...+..+...+.+.|++++|...|++..+.. +-+...+..+...+.+.|++++|...++++....  |+...... 
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHH
Confidence            3456677788888999999999999999999874 3467888999999999999999999999988763  44443332 


Q ss_pred             HHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHHhcC
Q 048616          121 FFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGS-YILVSDVLFDLLCDMG  199 (272)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g  199 (272)
                      ....+.+.++.++|...+++..... +.+...+..+...+...|++++|...+.++.+..... +...+..+...+...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            3334667788888999999887764 4567888899999999999999999999999875332 2677889999999999


Q ss_pred             CHHHHHHHHHHHHH
Q 048616          200 KLVEAEKSFLEMIE  213 (272)
Q Consensus       200 ~~~~a~~~~~~~~~  213 (272)
                      +.++|...+++...
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99999998887653

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.24  E-value=2e-10  Score=80.89  Aligned_cols=78  Identities=14%  Similarity=0.153  Sum_probs=36.7

Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616          134 SWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGS-YILVSDVLFDLLCDMGKLVEAEKSFLEMI  212 (272)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~  212 (272)
                      +...+++..+.. +-+...+..+..++...|++++|...++++.+....+ +...+..+...+...|+.++|...|++..
T Consensus        93 a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A           93 ELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            444444444331 2234444445555555555555555555554443221 12344455555555555555555555443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.23  E-value=9.8e-10  Score=91.83  Aligned_cols=155  Identities=8%  Similarity=-0.046  Sum_probs=117.5

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHH
Q 048616           58 VGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNL  137 (272)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  137 (272)
                      .|++++|++.+++..+.. +.+...+..+...+.+.|++++|.+.+++..+.... +...+..+...+...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478899999999988763 345788899999999999999999999999987543 678888999999999999999999


Q ss_pred             HHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHc
Q 048616          138 YCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDM---GKLVEAEKSFLEMIEK  214 (272)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~~~~~  214 (272)
                      +++..+.. +.+...+..+..++.+.|++++|.+.+++..+.. +.+...+..+...+...   |+.++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99987764 4457788889999999999999999999988875 44567788889999999   9999999999999887


Q ss_pred             CC
Q 048616          215 GH  216 (272)
Q Consensus       215 ~~  216 (272)
                      +.
T Consensus       158 ~p  159 (568)
T 2vsy_A          158 GV  159 (568)
T ss_dssp             TC
T ss_pred             CC
Confidence            43

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.21  E-value=4.5e-10  Score=79.05  Aligned_cols=156  Identities=7%  Similarity=-0.039  Sum_probs=63.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHhcC
Q 048616           16 LIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN-YCIAK   94 (272)
Q Consensus        16 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~   94 (272)
                      ....+.+.|++++|...|++..+..+. +...+..+...+.+.|++++|+..+++..+..  |+...+..+... +...+
T Consensus        12 ~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~   88 (176)
T 2r5s_A           12 QVSELLQQGEHAQALNVIQTLSDELQS-RGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQQA   88 (176)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCHHHHT-SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHhhc
Confidence            334444445555555555444433211 33444444444445555555555554443321  122222111111 11111


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCC-CHhhHHHHHHHHHhcCcHHHHHHHH
Q 048616           95 RLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLP-NTQSCMFLVKLCKRQEKVEIALQLW  173 (272)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  173 (272)
                      +..+|...+++..+..+. +...+..+...+...|++++|...|+++.+....+ +...+..+..++...|+.++|...|
T Consensus        89 ~~~~a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y  167 (176)
T 2r5s_A           89 AESPELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKY  167 (176)
T ss_dssp             TSCHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHH
T ss_pred             ccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHH
Confidence            222344444444443221 34444444444455555555555554444432111 1233444444444445444444444


Q ss_pred             HH
Q 048616          174 ND  175 (272)
Q Consensus       174 ~~  175 (272)
                      ++
T Consensus       168 ~~  169 (176)
T 2r5s_A          168 RR  169 (176)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.21  E-value=2.2e-09  Score=82.62  Aligned_cols=215  Identities=15%  Similarity=0.067  Sum_probs=148.2

Q ss_pred             hcCCHHHHHHHHHHHhhC------CCCCCH----hhHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCC-CHHHHHHH
Q 048616           22 KDRQVEKAYKIVEKMRDE------DISPDV----ISYTSIIGGLGLVGQPDKARDVLKEMKEY----GCYP-DAAAYNAA   86 (272)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~------~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l   86 (272)
                      ..|++++|.+++++..+.      +..++.    ..|......|...|++++|...|.+..+.    +-.+ -..+|+.+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~l   82 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQA   82 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            356778888888766542      112332    25677778888899999999999987653    2111 14578888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcC--C-CC--CHHhHHHHHHHHhhcCChhhHHHHHHHHHhC----CCCC-CHhhHHHH
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKG--L-SP--NATTYNLFFRVFYWSNDLRSSWNLYCRMMGT----GCLP-NTQSCMFL  156 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~--~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l  156 (272)
                      ...|...|++++|+..|++..+..  . .+  ...++..+...|.. |++++|+..|++....    +..+ ...++..+
T Consensus        83 g~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~l  161 (307)
T 2ifu_A           83 GMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKA  161 (307)
T ss_dssp             HHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHH
Confidence            899999999999999999876541  1 11  13567778888888 9999999999887543    1111 13577888


Q ss_pred             HHHHHhcCcHHHHHHHHHHHHHc----CCCcc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH---H---hHHH
Q 048616          157 VKLCKRQEKVEIALQLWNDMVEK----GFGSY-ILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQ---V---SFRR  225 (272)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~---~---~~~~  225 (272)
                      ...+.+.|++++|...+++..+.    +..+. ...+..+..++...|++++|...|++.. .  .|+.   .   ....
T Consensus       162 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~~  238 (307)
T 2ifu_A          162 SRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALED  238 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHHH
Confidence            89999999999999999988764    21111 2356667777888899999999999987 4  3322   1   2233


Q ss_pred             HHHHHHHhhhHHHHHH
Q 048616          226 IKALMELANKQEALQN  241 (272)
Q Consensus       226 l~~~~~~~~~~~~a~~  241 (272)
                      ++.++ ..++.+.+..
T Consensus       239 l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          239 LLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHH-HTTCHHHHHH
T ss_pred             HHHHH-HhcCHHHHHH
Confidence            45555 4566665555

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.20  E-value=1.3e-08  Score=86.08  Aligned_cols=237  Identities=8%  Similarity=0.046  Sum_probs=178.2

Q ss_pred             HhHHHHHHHHHhcC-------CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHH-HHHHHHHHcCCCCCHHH
Q 048616           11 VSYNCLIDVYCKDR-------QVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKAR-DVLKEMKEYGCYPDAAA   82 (272)
Q Consensus        11 ~~~~~li~~~~~~g-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~   82 (272)
                      ..|...+..--..+       ..+++..+|++....- +-....|......+.+.|+.++|. .+|++.... ++.+...
T Consensus       303 ~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~L  380 (679)
T 4e6h_A          303 LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVL  380 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHH
Confidence            56666666544333       1345677898888753 447888998899888999999997 999999875 4556677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCC---------CCC------------HHhHHHHHHHHhhcCChhhHHHHHHHH
Q 048616           83 YNAAIRNYCIAKRLRDASGLMDEMVEKGL---------SPN------------ATTYNLFFRVFYWSNDLRSSWNLYCRM  141 (272)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~  141 (272)
                      |-..+...-+.|++++|.++|+++.+...         .|+            ...|...+....+.++.+.|..+|.+.
T Consensus       381 wl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A  460 (679)
T 4e6h_A          381 AFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKC  460 (679)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            77888888999999999999999886410         132            236777888888899999999999999


Q ss_pred             HhCCCCCCHhhHHHHHHHHHhc-CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--
Q 048616          142 MGTGCLPNTQSCMFLVKLCKRQ-EKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKP--  218 (272)
Q Consensus       142 ~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p--  218 (272)
                      .+.-..+....|...+..-.+. ++.+.|..+|+...+. .+.+...+...++.....|+.+.|..+|+..+.....+  
T Consensus       461 ~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~  539 (679)
T 4e6h_A          461 RRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHL  539 (679)
T ss_dssp             HHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTH
T ss_pred             HHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHH
Confidence            7761122233443333322333 4589999999998876 35566777888998889999999999999998763321  


Q ss_pred             cHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          219 SQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      ....|...+..-...|+.+.+..+.+++.+.-
T Consensus       540 ~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~  571 (679)
T 4e6h_A          540 LKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF  571 (679)
T ss_dssp             HHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            34567778888889999999999999999877

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.18  E-value=2e-08  Score=81.50  Aligned_cols=188  Identities=12%  Similarity=0.047  Sum_probs=104.1

Q ss_pred             hHHHHHHHHHhcC---ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHcCCCCCHHhHH
Q 048616           47 SYTSIIGGLGLVG---QPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIA----KRLRDASGLMDEMVEKGLSPNATTYN  119 (272)
Q Consensus        47 ~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~  119 (272)
                      .+..+...|...|   +.++|++.|++..+.| .++...+..+...|...    ++.++|.+.|++.. .|   +...+.
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~  252 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWV  252 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHH
Confidence            5556666666666   6666777777666665 23444445555555443    56667777776665 32   334444


Q ss_pred             HHHHH-H--hhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC-----cHHHHHHHHHHHHHcCCCccHHHHHHH
Q 048616          120 LFFRV-F--YWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQE-----KVEIALQLWNDMVEKGFGSYILVSDVL  191 (272)
Q Consensus       120 ~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l  191 (272)
                      .+... +  ...+++++|..+|++..+.|   +...+..+...|. .|     ++++|...|+... .|   +......+
T Consensus       253 ~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~L  324 (452)
T 3e4b_A          253 SLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYL  324 (452)
T ss_dssp             HHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHH
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHH
Confidence            44444 2  34666677777777666554   3444455555554 33     6667776666655 22   33344444


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHH----hhhHHHHHHHHHHHHhcC
Q 048616          192 FDLLCD----MGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMEL----ANKQEALQNLSNKMALFG  250 (272)
Q Consensus       192 i~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  250 (272)
                      ...|..    ..++++|..+|+...+.|.   ......|...|..    ..+.++|..+|++..+.|
T Consensus       325 g~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g  388 (452)
T 3e4b_A          325 GQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQD  388 (452)
T ss_dssp             HHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCC
Confidence            444444    2366677777766666543   2233334444442    235666666666665555

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.17  E-value=1.9e-10  Score=78.79  Aligned_cols=142  Identities=8%  Similarity=-0.047  Sum_probs=74.1

Q ss_pred             HHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhh
Q 048616           54 GLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRS  133 (272)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  133 (272)
                      .+...|++++|+..+++..... +-+...+..+...|.+.|++++|++.|++.++..+. +..+|..+..+|.+.|++++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCchHH
Confidence            3444556666666666554321 112334445566666666666666666666655432 45566666666666666666


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHH-HHHHHHcCCCccHHHHHHHHHHHHhcC
Q 048616          134 SWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQL-WNDMVEKGFGSYILVSDVLFDLLCDMG  199 (272)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~li~~~~~~g  199 (272)
                      |...|++..+.+ +-+...+..+...+.+.|+++++... ++...+.. +.+..+|......+...|
T Consensus        84 A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           84 AVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            666666655542 22345555555566666655544333 34444443 233444444444444443

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.15  E-value=1.3e-08  Score=73.60  Aligned_cols=131  Identities=8%  Similarity=-0.053  Sum_probs=105.2

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      ...+..+...+...|++++|++.|++..    .|+...+..+...+.+.|++++|+..|++..+.. +.+...+..+..+
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~   80 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGML   80 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHH
Confidence            3445567778888999999999998774    4578888999999999999999999999988764 4467788889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCC---------------CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCC
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSP---------------NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTG  145 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~---------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (272)
                      +...|++++|.+.|++..+.....               ....+..+..++.+.|++++|...|++..+..
T Consensus        81 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           81 YYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            999999999999999988763321               12567778888888888888888888887663

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.14  E-value=8.4e-09  Score=83.69  Aligned_cols=226  Identities=13%  Similarity=0.053  Sum_probs=140.1

Q ss_pred             CHHhHHHHHHHHHhcC-----CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCCh---hHHHHHHHHHHHcC-----
Q 048616            9 DIVSYNCLIDVYCKDR-----QVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQP---DKARDVLKEMKEYG-----   75 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~-----   75 (272)
                      +...+..+-..+...|     ++++|...|++..+.|.. +  .+..|...|...+..   .++.+.+.+..+.|     
T Consensus        68 ~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~-~--A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~  144 (452)
T 3e4b_A           68 SPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGEG-N--TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAG  144 (452)
T ss_dssp             ---CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTCS-S--CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHH
T ss_pred             CHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCCH-H--HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHH
Confidence            4445555555444444     778888888888776533 2  344444444443321   12222222222211     


Q ss_pred             ---------------------------CCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 048616           76 ---------------------------CYPDAAAYNAAIRNYCIAK---RLRDASGLMDEMVEKGLSPNATTYNLFFRVF  125 (272)
Q Consensus        76 ---------------------------~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (272)
                                                 ...++..+..+...|...|   +.++|++.|++..+.|.. +...+..+...|
T Consensus       145 ~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y  223 (452)
T 3e4b_A          145 LAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVL  223 (452)
T ss_dssp             HHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHH
Confidence                                       1233346677777777788   888888888888877653 555555566666


Q ss_pred             hhc----CChhhHHHHHHHHHhCCCCCCHhhHHHHHHH-H--HhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhc
Q 048616          126 YWS----NDLRSSWNLYCRMMGTGCLPNTQSCMFLVKL-C--KRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDM  198 (272)
Q Consensus       126 ~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  198 (272)
                      ...    +++++|..+|++.. .|   +...+..+... +  ...+++++|...|++..+.|   +...+..+...|. .
T Consensus       224 ~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~  295 (452)
T 3e4b_A          224 GDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-E  295 (452)
T ss_dssp             TCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-H
T ss_pred             hCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-c
Confidence            554    68888888888876 32   34445555554 3  45788888888888887766   4455556666665 4


Q ss_pred             C-----CHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHH----hhhHHHHHHHHHHHHhcC
Q 048616          199 G-----KLVEAEKSFLEMIEKGHKPSQVSFRRIKALMEL----ANKQEALQNLSNKMALFG  250 (272)
Q Consensus       199 g-----~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  250 (272)
                      |     ++++|.++|++.. .   -+......+...|..    ..+.++|..+|++..+.|
T Consensus       296 G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  352 (452)
T 3e4b_A          296 GKWVPADAKAAEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG  352 (452)
T ss_dssp             CSSSCCCHHHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT
T ss_pred             CCCCCCCHHHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC
Confidence            5     8888888888776 2   244555556666665    338888888888887766

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.12  E-value=8.4e-09  Score=79.29  Aligned_cols=194  Identities=11%  Similarity=-0.009  Sum_probs=139.7

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCC-CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCC-CH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDE----DIS-PDVISYTSIIGGLGLVGQPDKARDVLKEMKEY----GCYP-DA   80 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~   80 (272)
                      ..|+.....|...|++++|.+.|.+..+.    +-. ....+|+.+...|.+.|++++|+..|++..+.    |-.. ..
T Consensus        37 ~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a  116 (307)
T 2ifu_A           37 SEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAA  116 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            47888888899999999999999987653    111 11457888899999999999999999987653    2111 24


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-----CHHhHHHHHHHHhhcCChhhHHHHHHHHHhC----CCCCC-H
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSP-----NATTYNLFFRVFYWSNDLRSSWNLYCRMMGT----GCLPN-T  150 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~  150 (272)
                      .++..+...|.. |++++|+..|++..+.....     ...++..+...+.+.|++++|+..|++....    +..+. .
T Consensus       117 ~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  195 (307)
T 2ifu_A          117 MALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCY  195 (307)
T ss_dssp             HHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHH
Confidence            577888888988 99999999999887542111     1456788889999999999999999988653    21122 2


Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc-c---HHHHHHHHHHHHhcCCHHHHHHH
Q 048616          151 QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGS-Y---ILVSDVLFDLLCDMGKLVEAEKS  207 (272)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~---~~~~~~li~~~~~~g~~~~a~~~  207 (272)
                      ..+..+..++...|++++|...|++.. ..... +   ......++.++ ..|+.+.+.++
T Consensus       196 ~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          196 KKCIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            356666777788899999999999988 43211 1   12334455555 56777666553

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.12  E-value=1e-07  Score=72.63  Aligned_cols=208  Identities=10%  Similarity=0.056  Sum_probs=138.8

Q ss_pred             HHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHH---HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616           32 IVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAA---YNAAIRNYCIAKRLRDASGLMDEMVE  108 (272)
Q Consensus        32 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~  108 (272)
                      .+.++..-...|+..+...+...+.-.-  +       .+.......+...   +...+..+...|++++|.+.+++..+
T Consensus        33 ~~s~~e~g~~~~~~~~l~~i~~~l~~~~--~-------~~~~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~  103 (293)
T 3u3w_A           33 EVSRIESGAVYPSMDILQGIAAKLQIPI--I-------HFYEVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELK  103 (293)
T ss_dssp             HHHHHHTTSCCCCHHHHHHHHHHHTCCT--H-------HHHHTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHhCcCH--H-------HHhCCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhc
Confidence            3444444344567666666665553221  1       1111111222222   33346778889999999999999887


Q ss_pred             cCC-CCCH----HhHHHHHHHHhhcCChhhHHHHHHHHHhCCCC-CC----HhhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 048616          109 KGL-SPNA----TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCL-PN----TQSCMFLVKLCKRQEKVEIALQLWNDMVE  178 (272)
Q Consensus       109 ~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (272)
                      ... .|+.    ..+..+...+...+++++|...+++....... ++    ..+++.+..+|...|++++|...+++..+
T Consensus       104 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~  183 (293)
T 3u3w_A          104 KEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILK  183 (293)
T ss_dssp             TCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            532 1221    12334666777788999999999998764222 22    23688888999999999999999999874


Q ss_pred             c-----CCCc-cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCc-HHhHHHHHHHHHHhh-hHHHHHHHHHHH
Q 048616          179 K-----GFGS-YILVSDVLFDLLCDMGKLVEAEKSFLEMIEK----GHKPS-QVSFRRIKALMELAN-KQEALQNLSNKM  246 (272)
Q Consensus       179 ~-----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~~-~~~~a~~~~~~~  246 (272)
                      .     +..+ ...++..+...|.+.|++++|.+.+++..+.    +..+. ...|..+..++...| +.++|...+++.
T Consensus       184 ~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          184 QLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHH
Confidence            2     1122 2347788999999999999999999987653    22222 456777888999999 469999988887


Q ss_pred             Hh
Q 048616          247 AL  248 (272)
Q Consensus       247 ~~  248 (272)
                      ..
T Consensus       264 l~  265 (293)
T 3u3w_A          264 SF  265 (293)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.12  E-value=3.4e-08  Score=75.32  Aligned_cols=165  Identities=8%  Similarity=-0.084  Sum_probs=124.0

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHcCC-CCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----HHhH
Q 048616           49 TSIIGGLGLVGQPDKARDVLKEMKEYGC-YPDA----AAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS-PN----ATTY  118 (272)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~  118 (272)
                      ...+..+...|++++|..++++..+... .|+.    ..+..+...+...+++++|+..|++..+.... ++    ..++
T Consensus        79 ~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 3u3w_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            3346778899999999999999987432 2221    13345667777788999999999999974322 22    2368


Q ss_pred             HHHHHHHhhcCChhhHHHHHHHHHh----C-CCCCC-HhhHHHHHHHHHhcCcHHHHHHHHHHHHHc----CCC-ccHHH
Q 048616          119 NLFFRVFYWSNDLRSSWNLYCRMMG----T-GCLPN-TQSCMFLVKLCKRQEKVEIALQLWNDMVEK----GFG-SYILV  187 (272)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~  187 (272)
                      +.+...|...|++++|...|++..+    . +..+. ..++..+...|.+.|++++|...+++..+.    +.. .-..+
T Consensus       159 ~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~  238 (293)
T 3u3w_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHH
Confidence            8899999999999999999998863    1 11222 347888999999999999999999987643    212 22567


Q ss_pred             HHHHHHHHHhcCC-HHHHHHHHHHHHH
Q 048616          188 SDVLFDLLCDMGK-LVEAEKSFLEMIE  213 (272)
Q Consensus       188 ~~~li~~~~~~g~-~~~a~~~~~~~~~  213 (272)
                      |..+..++.+.|+ +++|.+.+++...
T Consensus       239 ~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          239 YYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            8889999999995 6999999988754

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.10  E-value=2.9e-08  Score=71.78  Aligned_cols=129  Identities=10%  Similarity=-0.063  Sum_probs=105.2

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHh
Q 048616           47 SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFY  126 (272)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (272)
                      .+..+...+...|++++|+..|++..    .|+...+..+...+.+.|++++|.+.|++..+... .+...+..+..++.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHH
Confidence            34556777888999999999998773    56888999999999999999999999999988754 36778888999999


Q ss_pred             hcCChhhHHHHHHHHHhCCCC--------------C-CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 048616          127 WSNDLRSSWNLYCRMMGTGCL--------------P-NTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG  180 (272)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~--------------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (272)
                      ..|++++|...|++..+....              | ....+..+..++.+.|++++|...++...+..
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            999999999999998775311              1 12567778888889999999999998888764

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.08  E-value=1.7e-08  Score=69.85  Aligned_cols=96  Identities=14%  Similarity=0.032  Sum_probs=48.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYC   91 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (272)
                      .|..+...+...|++++|...|++..+... .+...+..+..++...|++++|...+++..+.. +.+...+..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            344444555555555555555555544321 134445555555555555555555555555442 223444555555555


Q ss_pred             hcCCHHHHHHHHHHHHHc
Q 048616           92 IAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~  109 (272)
                      ..|++++|...|++..+.
T Consensus        93 ~~~~~~~A~~~~~~a~~~  110 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKV  110 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHh
Confidence            555555555555555544

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.06  E-value=1.7e-08  Score=66.77  Aligned_cols=97  Identities=11%  Similarity=0.043  Sum_probs=60.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      ..|...-..|.+.|++++|++.|++..+..+. +...|..+..++.+.|++++|+..+++..+.. +.+...|..+..++
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            45555666666666666666666666654322 55566666666666666666666666666553 23455666666666


Q ss_pred             HhcCCHHHHHHHHHHHHHc
Q 048616           91 CIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~  109 (272)
                      ...|++++|.+.|++.++.
T Consensus        92 ~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH
Confidence            6666666666666666665

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=99.06  E-value=1.4e-09  Score=82.57  Aligned_cols=99  Identities=10%  Similarity=-0.077  Sum_probs=63.6

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      +...+..+...+.+.|++++|+..|++..+.... +...|..+..++.+.|++++|...+++..+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            4556666666677777777777777766654322 55666666666777777777777777666542 234556666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 048616           89 NYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      ++...|++++|...|++..+.
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            677777777777776666544

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.05  E-value=2.4e-08  Score=65.31  Aligned_cols=99  Identities=15%  Similarity=0.148  Sum_probs=62.9

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      ...|..+...+...|++++|.+.|+++.+.. +.+..++..+...+.+.|++++|...++++.+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            4556666666667777777777777666543 2245566666666666677777777776666543 2345566666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHcC
Q 048616           90 YCIAKRLRDASGLMDEMVEKG  110 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~  110 (272)
                      +...|++++|...++++.+..
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhC
Confidence            666667777776666666553

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.05  E-value=1.5e-08  Score=66.83  Aligned_cols=120  Identities=10%  Similarity=-0.023  Sum_probs=79.3

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      +...|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            45566667777777777777777777776643 2256666777777777777777777777777653 334666667777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCCh
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDL  131 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (272)
                      .+...|++++|...|++..+.... +...+..+..++.+.|++
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELDPD-NETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHhcC
Confidence            777777777777777777665432 455555666666555543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.05  E-value=2.2e-07  Score=70.92  Aligned_cols=207  Identities=10%  Similarity=0.075  Sum_probs=162.8

Q ss_pred             CHHhHHHHHHHHHhcC--CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHH----Hhc---CChhHHHHHHHHHHHcCCCCC
Q 048616            9 DIVSYNCLIDVYCKDR--QVEKAYKIVEKMRDEDISPDVISYTSIIGGL----GLV---GQPDKARDVLKEMKEYGCYPD   79 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~~~a~~~~~~~~~~~~~~~   79 (272)
                      +...|+.--..+...|  +++++++.++.+...+++ +..+|+.--..+    ...   +++++++++++++.+.. +.+
T Consensus        66 ~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~-pkn  143 (306)
T 3dra_A           66 HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSD-PKN  143 (306)
T ss_dssp             CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhC-CCC
Confidence            3456777777788888  999999999999987655 677777766665    555   78999999999999875 458


Q ss_pred             HHHHHHHHHHHHhcCCHH--HHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCC------hhhHHHHHHHHHhCCCCCCHh
Q 048616           80 AAAYNAAIRNYCIAKRLR--DASGLMDEMVEKGLSPNATTYNLFFRVFYWSND------LRSSWNLYCRMMGTGCLPNTQ  151 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~~~~  151 (272)
                      ..+|+.-...+.+.|.++  ++++.++++.+..+. |...|+-....+...+.      ++++++.++++.... +-|..
T Consensus       144 y~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~S  221 (306)
T 3dra_A          144 HHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQNPS  221 (306)
T ss_dssp             HHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCHH
T ss_pred             HHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-CCCcc
Confidence            888888888888889988  999999999998765 88888877777777776      888999999988775 55788


Q ss_pred             hHHHHHHHHHhcCcHH-HHHHHHHHHHHcC--CCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH
Q 048616          152 SCMFLVKLCKRQEKVE-IALQLWNDMVEKG--FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQ  220 (272)
Q Consensus       152 ~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~  220 (272)
                      .|+..-..+.+.|+.. .+..+..++.+.+  -..+...+..+...+.+.|+.++|.++++.+.+. ..|-.
T Consensus       222 aW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~-~Dpir  292 (306)
T 3dra_A          222 TWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSK-YNPIR  292 (306)
T ss_dssp             HHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCGGG
T ss_pred             HHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhc-cChHH
Confidence            8888888888877643 3555666655432  1345677888999999999999999999999863 34433

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=99.05  E-value=6.2e-09  Score=78.99  Aligned_cols=194  Identities=9%  Similarity=-0.059  Sum_probs=134.5

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFR  123 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (272)
                      +...+..+...+.+.|++++|+..|++..+.. +.+...|..+..++.+.|++++|...+++..+.... +...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            56678888899999999999999999999874 347888999999999999999999999999987543 6788889999


Q ss_pred             HHhhcCChhhHHHHHHHHHhCCCCCCH-hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHH
Q 048616          124 VFYWSNDLRSSWNLYCRMMGTGCLPNT-QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLV  202 (272)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  202 (272)
                      ++...|++++|...|++..+.+  |+. ..+...+....+..   .+ .-+..........+......+.. + ..|+.+
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~~---~~-~~~~~~~~~~~~~~~~i~~~l~~-l-~~~~~~  152 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRIA---KK-KRWNSIEERRIHQESELHSYLTR-L-IAAERE  152 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHHH---HH-HHHHHHHHTCCCCCCHHHHHHHH-H-HHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHHH---HH-HHHHHHHHHHHhhhHHHHHHHHH-H-HHHHHH
Confidence            9999999999999999886542  211 11111121111111   11 11222333333444444444433 2 368899


Q ss_pred             HHHHHHHHHHHcCCCCcHHhHH-HHHHHHHHh-hhHHHHHHHHHHHHhc
Q 048616          203 EAEKSFLEMIEKGHKPSQVSFR-RIKALMELA-NKQEALQNLSNKMALF  249 (272)
Q Consensus       203 ~a~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~-~~~~~a~~~~~~~~~~  249 (272)
                      +|.+.++...+.  .|+..... .+...+... +..+++.++|.+..+.
T Consensus       153 ~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          153 RELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999988887764  55554433 355555554 6788899999987653

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.04  E-value=5.5e-08  Score=82.21  Aligned_cols=214  Identities=8%  Similarity=-0.005  Sum_probs=160.7

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHH-HHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcC---------CCC
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAY-KIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYG---------CYP   78 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~~   78 (272)
                      +...|-..+..+...|+.++|. ++|++.... .+.+...|...+...-+.|++++|.++|+++.+..         ..|
T Consensus       342 ~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p  420 (679)
T 4e6h_A          342 APEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDP  420 (679)
T ss_dssp             CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHST
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccC
Confidence            4566777777777889999996 999999875 34467778888888999999999999999988641         013


Q ss_pred             C------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhc-CChhhHHHHHHHHHhCC
Q 048616           79 D------------AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWS-NDLRSSWNLYCRMMGTG  145 (272)
Q Consensus        79 ~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~  145 (272)
                      +            ..+|...+....+.|+.+.|.++|.+..+.-..+....|...+..-.+. ++.+.|.++|+...+. 
T Consensus       421 ~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-  499 (679)
T 4e6h_A          421 TNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-  499 (679)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-
T ss_pred             cchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-
Confidence            2            3468888888888999999999999998761112334444333333343 4589999999998776 


Q ss_pred             CCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC--ccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhH
Q 048616          146 CLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFG--SYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSF  223 (272)
Q Consensus       146 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  223 (272)
                      .+-+...+...+......|+.+.|..+|+........  -....|...+..-.+.|+.+.+.++.+++.+.  .|+....
T Consensus       500 ~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~  577 (679)
T 4e6h_A          500 FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEVNKL  577 (679)
T ss_dssp             HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTCCHH
T ss_pred             CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCcHH
Confidence            3445666778888888899999999999998876532  24578888999888999999999999999887  4444333


Q ss_pred             HHH
Q 048616          224 RRI  226 (272)
Q Consensus       224 ~~l  226 (272)
                      ..+
T Consensus       578 ~~f  580 (679)
T 4e6h_A          578 EEF  580 (679)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.03  E-value=2.2e-08  Score=66.42  Aligned_cols=118  Identities=9%  Similarity=-0.042  Sum_probs=74.9

Q ss_pred             CcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 048616            7 KPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAA   86 (272)
Q Consensus         7 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (272)
                      +.+...|..+...+.+.|++++|.+.|++..+... .+...+..+...+...|++++|...+++..+.. +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            34556667777777777777777777777766532 256666667777777777777777777776653 2355666667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW  127 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (272)
                      ..++.+.|++++|.+.|++..+.... +...+..+...+.+
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~  130 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLDSS-CKEAADGYQRCMMA  130 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCGG-GTHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHH
Confidence            77777777777777777776665322 23344444444443

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=99.03  E-value=3.1e-07  Score=70.95  Aligned_cols=241  Identities=10%  Similarity=0.038  Sum_probs=174.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC-ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVG-QPDKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      .++.+-....+.+..++|+++++.+...++. +..+|+.--..+...+ .+++++++++.+.... +-+..+|+.-...+
T Consensus        56 ~~~~~r~~~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL  133 (349)
T 3q7a_A           56 AMDYFRAIAAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLL  133 (349)
T ss_dssp             HHHHHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            3444444445556678999999999987655 7778888888888888 5999999999999875 34777888777777


Q ss_pred             Hhc-C-CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChh--------hHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 048616           91 CIA-K-RLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLR--------SSWNLYCRMMGTGCLPNTQSCMFLVKLC  160 (272)
Q Consensus        91 ~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (272)
                      .+. + ++++++++++++.+...+ +..+|+--.-.+.+.+.++        ++++.++++.+.+ +-|...|+.....+
T Consensus       134 ~~l~~~~~~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL  211 (349)
T 3q7a_A          134 DRISPQDPVSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLR  211 (349)
T ss_dssp             HHHCCSCCHHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHhcCCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            776 7 889999999999987655 7788877666666666666        8999999998875 44777888888887


Q ss_pred             HhcCc-------HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCH--------------------HHHHHHHHHHHH
Q 048616          161 KRQEK-------VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKL--------------------VEAEKSFLEMIE  213 (272)
Q Consensus       161 ~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~--------------------~~a~~~~~~~~~  213 (272)
                      .+.+.       ++++.+.+++..... +-|...|+-+-..+.+.|+.                    .+..++..++..
T Consensus       212 ~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  290 (349)
T 3q7a_A          212 VSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPS  290 (349)
T ss_dssp             TTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC
T ss_pred             HhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHh
Confidence            77775       788999998888776 56777887766666666653                    334444444433


Q ss_pred             cC----C-CCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHH
Q 048616          214 KG----H-KPSQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEY  260 (272)
Q Consensus       214 ~~----~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~  260 (272)
                      .+    . .++...+..++..|...|+.++|.++++.+.+.   ..|-..-|
T Consensus       291 ~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~---~dpir~~y  339 (349)
T 3q7a_A          291 DPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE---YDQMRAGY  339 (349)
T ss_dssp             -CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCGGGHHH
T ss_pred             cccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh---hChHHHHH
Confidence            21    1 245566667899999999999999999998643   23554444

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.02  E-value=4.3e-08  Score=67.73  Aligned_cols=12  Identities=8%  Similarity=-0.158  Sum_probs=4.7

Q ss_pred             hhhHHHHHHHHH
Q 048616          233 ANKQEALQNLSN  244 (272)
Q Consensus       233 ~~~~~~a~~~~~  244 (272)
                      .|++++|...+.
T Consensus       130 ~~~~~~A~~~~~  141 (166)
T 1a17_A          130 QKAFERAIAGDE  141 (166)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHccc
Confidence            334444443333

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.00  E-value=8.3e-08  Score=73.17  Aligned_cols=169  Identities=8%  Similarity=-0.080  Sum_probs=124.6

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC---CC--
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD-----AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS---PN--  114 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~--  114 (272)
                      ...+...+..+...|++++|.+.+++..+......     ...+..+...+...|++++|+..+++..+....   +.  
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            44566678888899999999999988876532211     123445667778889999999999988754221   12  


Q ss_pred             HHhHHHHHHHHhhcCChhhHHHHHHHHHh---C-CCCC--CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC----C-Cc
Q 048616          115 ATTYNLFFRVFYWSNDLRSSWNLYCRMMG---T-GCLP--NTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG----F-GS  183 (272)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~-~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~  183 (272)
                      ..+++.+...|...|++++|...+++..+   . ...+  ...++..+...|...|++++|...+++..+..    . ..
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            45788899999999999999999988752   2 1111  12578888899999999999999998876432    1 11


Q ss_pred             cHHHHHHHHHHHHhcCCHHHH-HHHHHHHHH
Q 048616          184 YILVSDVLFDLLCDMGKLVEA-EKSFLEMIE  213 (272)
Q Consensus       184 ~~~~~~~li~~~~~~g~~~~a-~~~~~~~~~  213 (272)
                      -..+|..+...+.+.|++++| ...+++...
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            256788889999999999999 777877654

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=99.00  E-value=2.1e-08  Score=70.36  Aligned_cols=119  Identities=12%  Similarity=0.169  Sum_probs=51.2

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH-HhhcCCh--hh
Q 048616           57 LVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRV-FYWSNDL--RS  133 (272)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~~  133 (272)
                      ..|++++|...+++..+.. +.+...+..+...+...|++++|...|++..+.... +...+..+..+ +...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCCcchHH
Confidence            3455555555555555442 234445555555555555555555555555544221 33344444444 3344444  44


Q ss_pred             HHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 048616          134 SWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVE  178 (272)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (272)
                      |...+++..+.. +.+...+..+...+...|++++|...++...+
T Consensus       100 A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          100 TRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            444444444332 11233333333444444444444444444433

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.00  E-value=5.3e-07  Score=68.70  Aligned_cols=168  Identities=8%  Similarity=-0.023  Sum_probs=124.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-----HhHHHHHHHHhhcCChhhHHHHHHHHHhCCC---CCC--
Q 048616           80 AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNA-----TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGC---LPN--  149 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--  149 (272)
                      ...+...+..+...|++++|.+.+.+..+.......     ..+..+...+...|++++|...+++......   .+.  
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            345556777889999999999999988876432111     2234455667788999999999998865321   122  


Q ss_pred             HhhHHHHHHHHHhcCcHHHHHHHHHHHHH---cC-CCc--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC----CCC-
Q 048616          150 TQSCMFLVKLCKRQEKVEIALQLWNDMVE---KG-FGS--YILVSDVLFDLLCDMGKLVEAEKSFLEMIEKG----HKP-  218 (272)
Q Consensus       150 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~-~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~p-  218 (272)
                      ..+++.+...|...|++++|...+++..+   .. -.+  ...++..+...|...|++++|.+.+++..+..    ..+ 
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            34788889999999999999999999873   21 111  22578889999999999999999999886542    111 


Q ss_pred             cHHhHHHHHHHHHHhhhHHHH-HHHHHHHH
Q 048616          219 SQVSFRRIKALMELANKQEAL-QNLSNKMA  247 (272)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~  247 (272)
                      -..+|..+...+...|+.++| ...+++..
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            145677789999999999999 77777754

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.99  E-value=4.8e-08  Score=64.53  Aligned_cols=95  Identities=9%  Similarity=-0.068  Sum_probs=44.3

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHh
Q 048616           47 SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFY  126 (272)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (272)
                      .+......+.+.|++++|++.|++..+.. +.+...|..+..++.+.|++++|+..|++.++.... +...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHHHHHHHHHHH
Confidence            34444444555555555555555544432 223444444444555555555555555544444322 3444444444444


Q ss_pred             hcCChhhHHHHHHHHHh
Q 048616          127 WSNDLRSSWNLYCRMMG  143 (272)
Q Consensus       127 ~~~~~~~a~~~~~~~~~  143 (272)
                      ..|++++|.+.|++..+
T Consensus        93 ~~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQ  109 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            44444444444444443

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.98  E-value=1.4e-08  Score=71.27  Aligned_cols=122  Identities=9%  Similarity=0.087  Sum_probs=100.7

Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHhcCCH--H
Q 048616           21 CKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN-YCIAKRL--R   97 (272)
Q Consensus        21 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~   97 (272)
                      ...|++++|...+++..+... .+...|..+...+...|++++|...|++..+.. +.+...+..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchH
Confidence            457889999999999887643 377889999999999999999999999998764 3467788888888 7789998  9


Q ss_pred             HHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCC
Q 048616           98 DASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTG  145 (272)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (272)
                      +|...+++..+.... +...+..+...+...|++++|...|++..+..
T Consensus        99 ~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           99 QTRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            999999999987543 67788889999999999999999999998763

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.97  E-value=7e-08  Score=62.99  Aligned_cols=93  Identities=15%  Similarity=0.160  Sum_probs=37.5

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHh
Q 048616           47 SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFY  126 (272)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (272)
                      .+..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...++++.+... .+..++..+...+.
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~   88 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHH
Confidence            33444444444444444444444444332 12333344444444444444444444444443321 12333333334444


Q ss_pred             hcCChhhHHHHHHHH
Q 048616          127 WSNDLRSSWNLYCRM  141 (272)
Q Consensus       127 ~~~~~~~a~~~~~~~  141 (272)
                      ..|++++|...++++
T Consensus        89 ~~~~~~~A~~~~~~~  103 (125)
T 1na0_A           89 KQGDYDEAIEYYQKA  103 (125)
T ss_dssp             HTTCHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHH
Confidence            444444444444433

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.97  E-value=1.5e-08  Score=72.56  Aligned_cols=155  Identities=13%  Similarity=0.009  Sum_probs=83.2

Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc----CCC-CCHHHHHHHHHHHHhcCC
Q 048616           21 CKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY----GCY-PDAAAYNAAIRNYCIAKR   95 (272)
Q Consensus        21 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~   95 (272)
                      ...|++++|.+.++.+... ......++..+...+...|++++|...+++..+.    +.. ....++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            3567778887755444332 2234566777777777777777777777776641    111 123456666667777777


Q ss_pred             HHHHHHHHHHHHHc----CCCC--CHHhHHHHHHHHhhcCChhhHHHHHHHHHhC----CCCC-CHhhHHHHHHHHHhcC
Q 048616           96 LRDASGLMDEMVEK----GLSP--NATTYNLFFRVFYWSNDLRSSWNLYCRMMGT----GCLP-NTQSCMFLVKLCKRQE  164 (272)
Q Consensus        96 ~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~  164 (272)
                      +++|.+.+++..+.    +-.|  ....+..+...+...|++++|...+++....    +... ...++..+...+...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            77777777665543    1011  1233455556666666666666666655321    1000 0122344444555555


Q ss_pred             cHHHHHHHHHHH
Q 048616          165 KVEIALQLWNDM  176 (272)
Q Consensus       165 ~~~~a~~~~~~~  176 (272)
                      ++++|...+++.
T Consensus       162 ~~~~A~~~~~~a  173 (203)
T 3gw4_A          162 NLLEAQQHWLRA  173 (203)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            555555555444

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.97  E-value=8e-08  Score=71.88  Aligned_cols=187  Identities=7%  Similarity=-0.141  Sum_probs=91.2

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHhhHHHH-------HHHHHhcCChhHHHHHHHHHHHcCCCCC---------------
Q 048616           22 KDRQVEKAYKIVEKMRDEDISPDVISYTSI-------IGGLGLVGQPDKARDVLKEMKEYGCYPD---------------   79 (272)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------   79 (272)
                      ..++.+.|.+.|.+..+..+. ....|..+       ...+.+.++..+++..+.+-.+  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            456677777777766665433 44555555       2333333334444433333322  1111               


Q ss_pred             -------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCC--H
Q 048616           80 -------AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPN--T  150 (272)
Q Consensus        80 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  150 (272)
                             ....-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   1122334455556666666666666555432  222233444445566666666666665333221 110  1


Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          151 QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGS--YILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ..+..+-.++...|++++|+..|++.......|  ..........++.+.|+.++|...|+++...
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            244445555566666666666666555322112  2223334444555666666666666666554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.96  E-value=1.6e-08  Score=69.09  Aligned_cols=126  Identities=10%  Similarity=-0.000  Sum_probs=91.1

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      ...+...+.+.+...+.+.++       .+.. +.+...+..+...+.+.|++++|+..|++..+.. +.+...|..+..
T Consensus         8 ~~~~~~~l~~~~~~~~~l~~a-------l~l~-p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~   78 (151)
T 3gyz_A            8 NESISTAVIDAINSGATLKDI-------NAIP-DDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAA   78 (151)
T ss_dssp             -CHHHHHHHHHHHTSCCTGGG-------CCSC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHH-------hCCC-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            334555666666555444333       3321 1245567777788888888888888888888764 346778888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (272)
                      ++...|++++|+..|++.....+. +...|..+..+|.+.|++++|...|++..+.
T Consensus        79 ~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A           79 IYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888888888888888888877543 5677778888888888888888888888765

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.96  E-value=2.4e-08  Score=71.49  Aligned_cols=157  Identities=11%  Similarity=-0.006  Sum_probs=102.9

Q ss_pred             HhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCC-CCHHhHHHHHHHHhhcCC
Q 048616           56 GLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK----GLS-PNATTYNLFFRVFYWSND  130 (272)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~  130 (272)
                      ...|++++|.+.++.+... ......++..+...+...|++++|...+++..+.    +.. .....+..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            4568888888855555432 2235667888888888899999999888887752    111 123456677778888888


Q ss_pred             hhhHHHHHHHHHhC----CCCC--CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC---CCcc--HHHHHHHHHHHHhcC
Q 048616          131 LRSSWNLYCRMMGT----GCLP--NTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG---FGSY--ILVSDVLFDLLCDMG  199 (272)
Q Consensus       131 ~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~--~~~~~~li~~~~~~g  199 (272)
                      +++|...+++....    +..|  ....+..+...+...|++++|...+++.....   ..+.  ..++..+...+...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            88888888776442    2111  23456667777888888888888887765321   0111  234566777788888


Q ss_pred             CHHHHHHHHHHHHH
Q 048616          200 KLVEAEKSFLEMIE  213 (272)
Q Consensus       200 ~~~~a~~~~~~~~~  213 (272)
                      ++++|.+.+++..+
T Consensus       162 ~~~~A~~~~~~al~  175 (203)
T 3gw4_A          162 NLLEAQQHWLRARD  175 (203)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            88888888776653

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.95  E-value=7.3e-08  Score=63.81  Aligned_cols=93  Identities=13%  Similarity=0.009  Sum_probs=39.0

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHh
Q 048616           47 SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFY  126 (272)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (272)
                      .+..+...+.+.|++++|...|++..+.. +.+...+..+...+...|++++|.+.+++..+.... +...+..+..++.
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~   95 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYTRKAAALE   95 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHHHHHHHHH
Confidence            34444444444444444444444444331 123334444444444444444444444444433221 3333334444444


Q ss_pred             hcCChhhHHHHHHHH
Q 048616          127 WSNDLRSSWNLYCRM  141 (272)
Q Consensus       127 ~~~~~~~a~~~~~~~  141 (272)
                      +.|++++|...+++.
T Consensus        96 ~~~~~~~A~~~~~~~  110 (133)
T 2lni_A           96 AMKDYTKAMDVYQKA  110 (133)
T ss_dssp             HTTCHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHH
Confidence            444444444444443

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.94  E-value=5.5e-08  Score=75.74  Aligned_cols=132  Identities=11%  Similarity=-0.042  Sum_probs=83.6

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC--------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD--------------AAAYNAAIRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      +...+..+...+.+.|++++|+..|++..+......              ...|..+..++.+.|++++|+..+++.++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            344555666666666666666666666665432111              366677777777777777777777777766


Q ss_pred             CCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHH-HHHHHHHH
Q 048616          110 GLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIA-LQLWNDMV  177 (272)
Q Consensus       110 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~  177 (272)
                      ... +...|..+..+|...|++++|...|++..+.. +.+...+..+..++.+.|+.+++ ...+..|.
T Consensus       226 ~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          226 DSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             CTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            432 56666777777777777777777777776553 33455666666677777777766 34555544

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.93  E-value=8.9e-08  Score=63.05  Aligned_cols=60  Identities=10%  Similarity=-0.039  Sum_probs=23.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616           48 YTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVE  108 (272)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  108 (272)
                      +..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+
T Consensus        15 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~   74 (131)
T 2vyi_A           15 LKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAIC   74 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHh
Confidence            3333344444444444444444443331 12333333344444444444444444444433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.93  E-value=3.2e-07  Score=68.66  Aligned_cols=197  Identities=11%  Similarity=-0.009  Sum_probs=142.6

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCCHHHHHHH-------HHHHHhcCCHHHHHHHHHHHHHcCCCCC---------------
Q 048616           57 LVGQPDKARDVLKEMKEYGCYPDAAAYNAA-------IRNYCIAKRLRDASGLMDEMVEKGLSPN---------------  114 (272)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------  114 (272)
                      ..++...|.+.|.++.+.. +-....|..+       ...+.+.++..+++..+..-...  .|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l--~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQI--SMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTC--CGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcC--ChhhhhhhhccCCccccc
Confidence            5799999999999999874 3356677766       45566666666666666555441  111               


Q ss_pred             -------HHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc--H
Q 048616          115 -------ATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSY--I  185 (272)
Q Consensus       115 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  185 (272)
                             ......+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   1233456778899999999999999887653  544455556667889999999999998554432 221  2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc--HHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHh
Q 048616          186 LVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS--QVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAE  263 (272)
Q Consensus       186 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~l  263 (272)
                      ..+..+..++.+.|++++|++.|++.......|.  .........++.+.|+.++|...|+++....    |+......|
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~----P~~~~~~aL  247 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH----PEPKVAAAL  247 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS----CCHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC----CcHHHHHHH
Confidence            4667788999999999999999999985433254  2345557888999999999999999999877    554444443

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.91  E-value=1e-07  Score=74.17  Aligned_cols=153  Identities=8%  Similarity=-0.029  Sum_probs=121.4

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--------------HHhHHHHHH
Q 048616           58 VGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPN--------------ATTYNLFFR  123 (272)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~  123 (272)
                      .+++++|+..++...+.. +-+...+..+...+.+.|++++|...|++..+......              ...|..+..
T Consensus       126 L~~~~~A~~~~~~a~~~~-p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~  204 (336)
T 1p5q_A          126 LKSFEKAKESWEMNSEEK-LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAM  204 (336)
T ss_dssp             EEEEECCCCGGGCCHHHH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHH
T ss_pred             EeecccccchhcCCHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHH
Confidence            456666666665544331 12567888899999999999999999999998754322              478888999


Q ss_pred             HHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHH
Q 048616          124 VFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVE  203 (272)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  203 (272)
                      +|.+.|++++|+..+++..+.. +.+...+..+..++...|++++|...|+...+.. +.+...+..+..++.+.|+.++
T Consensus       205 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~  282 (336)
T 1p5q_A          205 CHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLA  282 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999998764 4467888889999999999999999999998875 4466788888889999999998


Q ss_pred             H-HHHHHHHHH
Q 048616          204 A-EKSFLEMIE  213 (272)
Q Consensus       204 a-~~~~~~~~~  213 (272)
                      | ...+..|..
T Consensus       283 a~~~~~~~~~~  293 (336)
T 1p5q_A          283 REKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            8 456666654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.91  E-value=1.1e-07  Score=64.80  Aligned_cols=99  Identities=8%  Similarity=0.068  Sum_probs=72.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 048616           80 AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKL  159 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (272)
                      ...+..+...+.+.|++++|+..|++.....+. +...|..+..+|...|++++|...|++..+.. +-+...+..+..+
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~  113 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHH
Confidence            446667777777888888888888888777543 67777777778888888888888888776653 3345667777777


Q ss_pred             HHhcCcHHHHHHHHHHHHHcC
Q 048616          160 CKRQEKVEIALQLWNDMVEKG  180 (272)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~  180 (272)
                      +...|++++|...|+...+..
T Consensus       114 ~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHcCCHHHHHHHHHHHHHhC
Confidence            778888888888887777653

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.89  E-value=2.3e-08  Score=68.09  Aligned_cols=97  Identities=7%  Similarity=-0.139  Sum_probs=56.6

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRV  124 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (272)
                      ...+..+...+.+.|++++|+..|++..... +.+...|..+..++...|++++|+..|++.....+. +...+..+..+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~   98 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-EPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHH
Confidence            3445555556666666666666666665543 234555556666666666666666666666655332 44555556666


Q ss_pred             HhhcCChhhHHHHHHHHHh
Q 048616          125 FYWSNDLRSSWNLYCRMMG  143 (272)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~  143 (272)
                      +...|++++|...|++..+
T Consensus        99 ~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            6666666666666665544

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.88  E-value=2.5e-07  Score=59.64  Aligned_cols=99  Identities=10%  Similarity=0.037  Sum_probs=60.2

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      ++..|..+...+...|++++|...|++..+... .+...+..+...+...|++++|...+++..+.. +.+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            344556666666666666666666666655432 245556666666666666666666666666543 234555666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 048616           89 NYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      ++...|++++|.+.+++..+.
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHhhHHHHHHHHHHHHHc
Confidence            666666666666666666654

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.88  E-value=1.4e-07  Score=62.17  Aligned_cols=98  Identities=15%  Similarity=0.009  Sum_probs=64.8

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      ...|..+...+.+.|++++|+..|++..+.... +...|..+..++.+.|++++|+..+++..+.. +.+...+..+..+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            445666666677777777777777776665322 55666667777777777777777777776653 2345666666677


Q ss_pred             HHhcCCHHHHHHHHHHHHHc
Q 048616           90 YCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~  109 (272)
                      +...|++++|...|++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            77777777777777766654

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.87  E-value=2.2e-08  Score=68.16  Aligned_cols=93  Identities=12%  Similarity=0.002  Sum_probs=41.8

Q ss_pred             HHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhc
Q 048616          119 NLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDM  198 (272)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  198 (272)
                      ..+...+.+.|++++|...|++....+ +.+...+..+..++...|++++|...++...... +.+...+..+..++...
T Consensus        25 ~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~  102 (148)
T 2vgx_A           25 YSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLLQX  102 (148)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHc
Confidence            333444444444444444444443332 2233344444444444455555555544444433 22333444444455555


Q ss_pred             CCHHHHHHHHHHHHH
Q 048616          199 GKLVEAEKSFLEMIE  213 (272)
Q Consensus       199 g~~~~a~~~~~~~~~  213 (272)
                      |++++|.+.|+...+
T Consensus       103 g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          103 GELAEAESGLFLAQE  117 (148)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555555443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.84  E-value=9.3e-07  Score=71.04  Aligned_cols=197  Identities=13%  Similarity=0.071  Sum_probs=141.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCC----------------HhhHHHHHHHHHhcCChhHHHHHHHHHHHcC-CCCC
Q 048616           17 IDVYCKDRQVEKAYKIVEKMRDEDISPD----------------VISYTSIIGGLGLVGQPDKARDVLKEMKEYG-CYPD   79 (272)
Q Consensus        17 i~~~~~~g~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~   79 (272)
                      ...+.+.|++++|++.|..+.+......                ...+..+...|.+.|++++|.+.+.++.+.- ..++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            3457789999999999999987533211                1236788999999999999999999887531 1122


Q ss_pred             H----HHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-HHhHHHHHHHHhhcCChhhHHHHHHHHHhC----CC
Q 048616           80 A----AAYNAAIRNYCIAKRLRDASGLMDEMVEK----GLSPN-ATTYNLFFRVFYWSNDLRSSWNLYCRMMGT----GC  146 (272)
Q Consensus        80 ~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~  146 (272)
                      .    .+.+.+...+...|+.++|.+++++....    +..+. ..++..+...+...|++++|..++++....    +-
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            2    22333444455678999999999887643    22222 456778899999999999999999987432    11


Q ss_pred             CC-CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc----CCCcc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          147 LP-NTQSCMFLVKLCKRQEKVEIALQLWNDMVEK----GFGSY--ILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       147 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      .+ ...++..++..|...|++++|..+++.....    +.++.  ...+..+...+...|++++|...|.+..+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            12 2457888889999999999999999887643    11111  24566677778889999999988877654

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.83  E-value=2.8e-08  Score=71.17  Aligned_cols=97  Identities=8%  Similarity=-0.071  Sum_probs=63.2

Q ss_pred             hhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHH
Q 048616          151 QSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALM  230 (272)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  230 (272)
                      ..+..+..++...|++++|...++...+.. +.+...+..+..++...|++++|.+.|++..+... -+...+..+..++
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~  166 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP-NNLDIRNSYELCV  166 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHH
Confidence            566677777888888888888888877764 44566777788888888888888888888877622 2444555677777


Q ss_pred             HHhhhHHHHH-HHHHHHHhc
Q 048616          231 ELANKQEALQ-NLSNKMALF  249 (272)
Q Consensus       231 ~~~~~~~~a~-~~~~~~~~~  249 (272)
                      ...++.+++. ..++.+...
T Consensus       167 ~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          167 NKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHHHHHC------------
T ss_pred             HHHHHHHHHHHHHHHHHhcc
Confidence            7777766666 455555443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.83  E-value=8.5e-08  Score=64.70  Aligned_cols=96  Identities=11%  Similarity=-0.095  Sum_probs=49.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYC   91 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (272)
                      .+..+...+.+.|++++|...|++....++. +...|..+..++.+.|++++|+..|++..+.. +.+...+..+..++.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            3444444555555555555555555544322 44455555555555555555555555555543 223444455555555


Q ss_pred             hcCCHHHHHHHHHHHHHc
Q 048616           92 IAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~  109 (272)
                      ..|++++|.+.|++..+.
T Consensus        98 ~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            555555555555555443

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.82  E-value=2.2e-07  Score=61.40  Aligned_cols=98  Identities=17%  Similarity=0.081  Sum_probs=58.3

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCC--CCC----HHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGC--YPD----AAAYN   84 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~   84 (272)
                      ..+..+-..+.+.|++++|++.|++..+..+. +...|..+..+|.+.|++++|++.+++..+...  .++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            45555666666677777777777666654322 555666666666667777777766666654321  111    12455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616           85 AAIRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      .+..++...|++++|++.|++.+..
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            5556666666666666666665554

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.81  E-value=3.8e-07  Score=60.00  Aligned_cols=98  Identities=11%  Similarity=-0.066  Sum_probs=65.9

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRV  124 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (272)
                      ...|..+...+.+.|++++|+..|++..+.. +.+...|..+..++.+.|++++|+..+++..+.... +...|..+..+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHH
Confidence            3455666666777777777777777776653 335666777777777777777777777777766433 45666666777


Q ss_pred             HhhcCChhhHHHHHHHHHhC
Q 048616          125 FYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~  144 (272)
                      +...|++++|...|++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            77777777777777766543

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.80  E-value=1.9e-05  Score=60.68  Aligned_cols=238  Identities=10%  Similarity=0.004  Sum_probs=169.6

Q ss_pred             HhHHHHHHHH---HhcCCH-HHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC----------hhHHHHHHHHHHHcCC
Q 048616           11 VSYNCLIDVY---CKDRQV-EKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ----------PDKARDVLKEMKEYGC   76 (272)
Q Consensus        11 ~~~~~li~~~---~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~   76 (272)
                      ..|..+...+   .+.|.+ ++|+++++.+...++. +..+|+.--..+...+.          +++++.+++.+.... 
T Consensus        27 ~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-  104 (331)
T 3dss_A           27 KLYQSATQAVFQKRQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-  104 (331)
T ss_dssp             HHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-
Confidence            3454444433   345554 4899999999987644 66667765555444333          678999999998864 


Q ss_pred             CCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCC-hhhHHHHHHHHHhCCCCCCHhhH
Q 048616           77 YPDAAAYNAAIRNYCIAK--RLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSND-LRSSWNLYCRMMGTGCLPNTQSC  153 (272)
Q Consensus        77 ~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~  153 (272)
                      +-+..+|+.-...+.+.+  ++++++.+++.+.+..+. |..+|+--.-.+...|. ++++++.++.+.+.+ +-|...|
T Consensus       105 PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW  182 (331)
T 3dss_A          105 PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSW  182 (331)
T ss_dssp             TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHH
T ss_pred             CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHH
Confidence            447788887777777877  489999999999998765 88888887777788888 589999999998875 4477777


Q ss_pred             HHHHHHHHhc--------------CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhc-----------CCHHHHHHHH
Q 048616          154 MFLVKLCKRQ--------------EKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDM-----------GKLVEAEKSF  208 (272)
Q Consensus       154 ~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----------g~~~~a~~~~  208 (272)
                      +.....+.+.              +.++++.+.+....... +-|...|+-+-..+.+.           +.++++.+.+
T Consensus       183 ~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~  261 (331)
T 3dss_A          183 HYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESC  261 (331)
T ss_dssp             HHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHH
Confidence            7666666554              56888999999888776 55677776554444444           4578999999


Q ss_pred             HHHHHcCCCCcHHhHHHHHHHH-----HHhhhHHHHHHHHHHHHhcCCCCCCCHHHH
Q 048616          209 LEMIEKGHKPSQVSFRRIKALM-----ELANKQEALQNLSNKMALFGPSMIPKREEY  260 (272)
Q Consensus       209 ~~~~~~~~~p~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~  260 (272)
                      +++.+.  .||. .|..+..+.     ...+..+++...+.++++..    |-..-+
T Consensus       262 ~elle~--~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~D----p~r~~~  311 (331)
T 3dss_A          262 KELQEL--EPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD----PMRAAY  311 (331)
T ss_dssp             HHHHHH--CTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHC----GGGHHH
T ss_pred             HHHHhh--Cccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhC----cchhhH
Confidence            999886  5665 454322211     13466778889999998755    665443

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.80  E-value=8.4e-07  Score=57.11  Aligned_cols=98  Identities=13%  Similarity=0.016  Sum_probs=64.7

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRV  124 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (272)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+.... +...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHHH
Confidence            3455666666777777777777777776653 235666666677777777777777777777665432 45566666666


Q ss_pred             HhhcCChhhHHHHHHHHHhC
Q 048616          125 FYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~  144 (272)
                      +...|++++|...+++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhhHHHHHHHHHHHHHc
Confidence            77777777777777666654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.79  E-value=3.3e-07  Score=63.37  Aligned_cols=100  Identities=11%  Similarity=0.029  Sum_probs=71.8

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      .+...|..+...+.+.|++++|++.|++..+.... +...|..+..++.+.|++++|+..|++..+.. +.+...|..+.
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   86 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            35566777777777778888888877777765432 66677777777777777777777777777664 33566777777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc
Q 048616           88 RNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      .++...|++++|...|++..+.
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHh
Confidence            7777777777777777777765

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.79  E-value=1e-07  Score=64.35  Aligned_cols=99  Identities=8%  Similarity=-0.122  Sum_probs=74.3

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFR  123 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (272)
                      +...+..+...+.+.|++++|+..|++..... +.+...|..+..++.+.|++++|...|++.....+. +...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHH
Confidence            34455666677778888888888888887764 346677777888888888888888888888877543 5666777778


Q ss_pred             HHhhcCChhhHHHHHHHHHhC
Q 048616          124 VFYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~  144 (272)
                      ++...|++++|...|++..+.
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            888888888888888877654

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.79  E-value=3.6e-07  Score=65.31  Aligned_cols=161  Identities=8%  Similarity=-0.082  Sum_probs=96.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC---------------H
Q 048616           16 LIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD---------------A   80 (272)
Q Consensus        16 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~   80 (272)
                      ........|+++.+.+.|+.-.... ......+..+...+.+.|++++|+..|++..+......               .
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~   88 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEI   88 (198)
T ss_dssp             ------------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHH
Confidence            3334445566666666665333221 11456677777778888888888888888876421111               2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLC  160 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (272)
                      ..+..+..++...|++++|+..+++..+... .+...+..+..++...|++++|...|++..+.. +-+...+..+..++
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  166 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDK-NNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCV  166 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHH
Confidence            6777788888888888888888888887643 366777788888888888888888888876653 33556677777777


Q ss_pred             HhcCcHHHHH-HHHHHHHHc
Q 048616          161 KRQEKVEIAL-QLWNDMVEK  179 (272)
Q Consensus       161 ~~~~~~~~a~-~~~~~~~~~  179 (272)
                      ...++.+++. ..+..+...
T Consensus       167 ~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          167 NKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHHHHHC------------
T ss_pred             HHHHHHHHHHHHHHHHHhcc
Confidence            7777776666 455555443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.78  E-value=1.2e-07  Score=60.64  Aligned_cols=97  Identities=7%  Similarity=-0.084  Sum_probs=47.6

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CCHHhHHHHHHHH
Q 048616           47 SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS-PNATTYNLFFRVF  125 (272)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~  125 (272)
                      .+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.... .+...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~~   86 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADAL   86 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHHH
Confidence            34444445555555555555555554432 223444455555555555555555555555544211 0244445555555


Q ss_pred             hhc-CChhhHHHHHHHHHhC
Q 048616          126 YWS-NDLRSSWNLYCRMMGT  144 (272)
Q Consensus       126 ~~~-~~~~~a~~~~~~~~~~  144 (272)
                      ... |++++|.+.+++....
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           87 RYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             TTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHhCCHHHHHHHHHHHhhc
Confidence            555 5555555555555443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.77  E-value=9.8e-07  Score=59.45  Aligned_cols=99  Identities=13%  Similarity=-0.067  Sum_probs=68.1

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPD----VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYN   84 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (272)
                      +...+..+...+...|++++|.+.|++..+..  |+    ...+..+..++...|++++|+..+++..+.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            55667777777777777777777777777653  33    4566666777777777777777777776653 23456666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048616           85 AAIRNYCIAKRLRDASGLMDEMVEKG  110 (272)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (272)
                      .+..++...|++++|...|++..+..
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            67777777777777777777776653

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.77  E-value=1.9e-07  Score=61.48  Aligned_cols=109  Identities=17%  Similarity=0.183  Sum_probs=70.1

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCC--CCC----HHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGC--YPD----AAAY   83 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~   83 (272)
                      ...|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+...  .++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4556667777777777777777777776653 23566667777777777777777777777765421  111    5566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHH
Q 048616           84 NAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLF  121 (272)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (272)
                      ..+..++...|++++|.+.|++..+..  |+......+
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l  118 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKC  118 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHH
Confidence            666677777777777777777776653  344444333

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.77  E-value=4.6e-07  Score=60.39  Aligned_cols=98  Identities=10%  Similarity=-0.071  Sum_probs=47.6

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      +...|..+...+...|++++|...|++..+.... +...|..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            3444555555555555555555555554443221 34444555555555555555555555554432 223444444555


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 048616           89 NYCIAKRLRDASGLMDEMVE  108 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~  108 (272)
                      ++...|++++|...|++..+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            55555555555555554443

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.72  E-value=2.2e-06  Score=56.99  Aligned_cols=100  Identities=9%  Similarity=-0.089  Sum_probs=75.4

Q ss_pred             CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 048616           43 PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFF  122 (272)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (272)
                      .+...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+.... +...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHHH
Confidence            356677777888888888888888888877764 345677777888888888888888888888776543 566777777


Q ss_pred             HHHhhcCChhhHHHHHHHHHhC
Q 048616          123 RVFYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~  144 (272)
                      .++...|++++|...|++..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            8888888888888888776543

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.72  E-value=6.5e-07  Score=58.83  Aligned_cols=94  Identities=10%  Similarity=-0.004  Sum_probs=42.9

Q ss_pred             HHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC--Ccc----HHHHHHHHH
Q 048616          120 LFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGF--GSY----ILVSDVLFD  193 (272)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~li~  193 (272)
                      .+...+...|++++|...+++..... +.+...+..+...+...|++++|...+........  .++    ..++..+..
T Consensus         9 ~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la~   87 (131)
T 1elr_A            9 ELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHH
Confidence            33334444444444444444443321 22333344444444444444444444444433311  011    344555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHHc
Q 048616          194 LLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       194 ~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      .+...|++++|.+.|+...+.
T Consensus        88 ~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           88 SYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHh
Confidence            666666666666666666554

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.71  E-value=6.7e-07  Score=59.01  Aligned_cols=97  Identities=18%  Similarity=0.158  Sum_probs=55.0

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--CC----HHhHH
Q 048616           46 ISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS--PN----ATTYN  119 (272)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~  119 (272)
                      ..+..+...+.+.|++++|++.|++..+.. +.+...|..+..+|...|++++|++.+++.++....  ++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            345556666666677777777776666653 234556666666666667777776666666543211  11    12344


Q ss_pred             HHHHHHhhcCChhhHHHHHHHHHh
Q 048616          120 LFFRVFYWSNDLRSSWNLYCRMMG  143 (272)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~  143 (272)
                      .+..++...|++++|++.|++...
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh
Confidence            444555555555555555555443

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.71  E-value=1.4e-05  Score=61.75  Aligned_cols=206  Identities=10%  Similarity=0.038  Sum_probs=152.2

Q ss_pred             CHHhHHHHHHHHHhcC-CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhc-C-ChhHHHHHHHHHHHcCCCCCHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDR-QVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLV-G-QPDKARDVLKEMKEYGCYPDAAAYNA   85 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (272)
                      +..+|+.--..+...| .++++++.++.+...+++ +..+|+.-...+.+. + ++++++++++++.+.. +.+...|+.
T Consensus        87 ~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~  164 (349)
T 3q7a_A           87 HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPD-PKNYHTWAY  164 (349)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSC-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            4456777777777778 599999999999998765 888999888888776 7 8999999999999764 457778876


Q ss_pred             HHHHHHhcCCHH--------HHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCC-------hhhHHHHHHHHHhCCCCCCH
Q 048616           86 AIRNYCIAKRLR--------DASGLMDEMVEKGLSPNATTYNLFFRVFYWSND-------LRSSWNLYCRMMGTGCLPNT  150 (272)
Q Consensus        86 l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~  150 (272)
                      -...+.+.|.++        ++++.++++++..+. |...|+-....+.+.+.       ++++++.+++..... +-|.
T Consensus       165 R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~  242 (349)
T 3q7a_A          165 LHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLI-PHNV  242 (349)
T ss_dssp             HHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhC-CCCH
Confidence            666666666666        899999999998765 88889888888888776       678888888887764 4577


Q ss_pred             hhHHHHHHHHHhcCcH--------------------HHHHHHHHHHHHcC-----CCccHHHHHHHHHHHHhcCCHHHHH
Q 048616          151 QSCMFLVKLCKRQEKV--------------------EIALQLWNDMVEKG-----FGSYILVSDVLFDLLCDMGKLVEAE  205 (272)
Q Consensus       151 ~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~g~~~~a~  205 (272)
                      ..|+.+-..+.+.|..                    .....+..++...+     -.+.......+++.|...|+.++|.
T Consensus       243 SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~  322 (349)
T 3q7a_A          243 SAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAA  322 (349)
T ss_dssp             HHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHH
Confidence            7777766666655542                    23333333333221     1356678888999999999999999


Q ss_pred             HHHHHHHHcCCCCc
Q 048616          206 KSFLEMIEKGHKPS  219 (272)
Q Consensus       206 ~~~~~~~~~~~~p~  219 (272)
                      ++++.+.+. ..|-
T Consensus       323 ~~~~~l~~~-~dpi  335 (349)
T 3q7a_A          323 KVFEKLSSE-YDQM  335 (349)
T ss_dssp             HHHHHHHHT-TCGG
T ss_pred             HHHHHHHhh-hChH
Confidence            999998754 3443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.70  E-value=3.8e-06  Score=67.46  Aligned_cols=198  Identities=10%  Similarity=-0.057  Sum_probs=139.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCC----------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCC
Q 048616           51 IIGGLGLVGQPDKARDVLKEMKEYGCYPD----------------AAAYNAAIRNYCIAKRLRDASGLMDEMVEKG-LSP  113 (272)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~  113 (272)
                      -.+.+.+.|++++|++.|.++.+......                ...+..+...|...|++++|.+++.++...- ..+
T Consensus        10 ~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~   89 (434)
T 4b4t_Q           10 EARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFA   89 (434)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc
Confidence            34567789999999999999987532211                1246788999999999999999998877531 111


Q ss_pred             CH----HhHHHHHHHHhhcCChhhHHHHHHHHHh----CCCCCC-HhhHHHHHHHHHhcCcHHHHHHHHHHHHHc--C--
Q 048616          114 NA----TTYNLFFRVFYWSNDLRSSWNLYCRMMG----TGCLPN-TQSCMFLVKLCKRQEKVEIALQLWNDMVEK--G--  180 (272)
Q Consensus       114 ~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~--  180 (272)
                      +.    ...+.+-..+...|+++++..+++....    .+..+. ..++..+...+...|++++|..++.++...  +  
T Consensus        90 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~  169 (434)
T 4b4t_Q           90 KSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLD  169 (434)
T ss_dssp             HHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSS
T ss_pred             chHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcc
Confidence            22    1233333445567889999999887643    222332 457788899999999999999999987653  1  


Q ss_pred             -CCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCc--HHhHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 048616          181 -FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK----GHKPS--QVSFRRIKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       181 -~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                       -.....++..++..|...|++++|..++++....    +.+|.  ...+..+...+...+++++|...|.+..+
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          170 DKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             CSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence             1223457888999999999999999999887643    11111  12344456667777888888887776643

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.70  E-value=1.3e-06  Score=60.31  Aligned_cols=95  Identities=13%  Similarity=-0.038  Sum_probs=45.6

Q ss_pred             HHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHh
Q 048616          118 YNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCD  197 (272)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  197 (272)
                      +..+...+.+.|++++|...|++..+.. +-+...+..+..++.+.|++++|...++...+.. +.+...|..+..++..
T Consensus        14 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~   91 (164)
T 3sz7_A           14 LKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLARFD   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            3344444444444444444444444332 2233444444445555555555555555554443 2234445555555555


Q ss_pred             cCCHHHHHHHHHHHHHc
Q 048616          198 MGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       198 ~g~~~~a~~~~~~~~~~  214 (272)
                      .|++++|.+.|++..+.
T Consensus        92 ~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           92 MADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHh
Confidence            55555555555555543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.69  E-value=4.5e-07  Score=57.88  Aligned_cols=97  Identities=8%  Similarity=-0.051  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCC--CHhhHHHHHH
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLP--NTQSCMFLVK  158 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~  158 (272)
                      ..+..+...+...|++++|...|++..+.... +...+..+...+...|++++|...+++..+.. +.  +...+..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~   84 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKAD   84 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHH
Confidence            34445555566666666666666666554322 44455555555555666666666655555442 22  3444555555


Q ss_pred             HHHhc-CcHHHHHHHHHHHHHc
Q 048616          159 LCKRQ-EKVEIALQLWNDMVEK  179 (272)
Q Consensus       159 ~~~~~-~~~~~a~~~~~~~~~~  179 (272)
                      ++... |++++|.+.+......
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHhCCHHHHHHHHHHHhhc
Confidence            55555 5555555555555544

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.68  E-value=3e-07  Score=60.15  Aligned_cols=91  Identities=11%  Similarity=-0.099  Sum_probs=42.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 048616           16 LIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKR   95 (272)
Q Consensus        16 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (272)
                      +...+.+.|++++|+..|++..+..+. +...|..+..++...|++++|+..|++..+.. +.+...+..+..++...|+
T Consensus        23 ~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~  100 (121)
T 1hxi_A           23 EGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN  100 (121)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            334444455555555555554443221 44444444444555555555555555544432 1233444444444455555


Q ss_pred             HHHHHHHHHHHHH
Q 048616           96 LRDASGLMDEMVE  108 (272)
Q Consensus        96 ~~~a~~~~~~~~~  108 (272)
                      +++|+..+++..+
T Consensus       101 ~~~A~~~~~~al~  113 (121)
T 1hxi_A          101 ANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555544443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.67  E-value=2.2e-06  Score=57.71  Aligned_cols=98  Identities=10%  Similarity=-0.089  Sum_probs=69.1

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD----AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYN  119 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  119 (272)
                      +...+..+...+...|++++|.+.|++..+..  |+    ...+..+..++...|++++|...+++..+.... +...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHH
Confidence            45566777777777888888888888777653  44    566677777777777777777777777765332 456666


Q ss_pred             HHHHHHhhcCChhhHHHHHHHHHhC
Q 048616          120 LFFRVFYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~  144 (272)
                      .+..++...|++++|...|++..+.
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            6777777777777777777776654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.63  E-value=3.8e-07  Score=62.37  Aligned_cols=97  Identities=12%  Similarity=0.051  Sum_probs=52.6

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-CC----HhhHHHHHHHHHhcCChhHHHHHHHHHHHcC----CCC-CH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDIS-PD----VISYTSIIGGLGLVGQPDKARDVLKEMKEYG----CYP-DA   80 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~   80 (272)
                      .++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|.+.+++..+..    ..+ ..
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            45566666666777777777777665542100 01    1345555666666666666666666654321    000 12


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMV  107 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (272)
                      ..+..+...+...|++++|.+.+++..
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~  116 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHL  116 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            344555555566666666666665554

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.62  E-value=2.1e-06  Score=56.06  Aligned_cols=97  Identities=9%  Similarity=-0.178  Sum_probs=73.7

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHH
Q 048616          152 SCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALME  231 (272)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  231 (272)
                      .+..+...+.+.|++++|...++...+.. +.+...|..+..++...|++++|...|++..+.... +...+..+..++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            34455667778888888888888888765 446677778888888889999999998888876322 4556666888888


Q ss_pred             HhhhHHHHHHHHHHHHhcC
Q 048616          232 LANKQEALQNLSNKMALFG  250 (272)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~~  250 (272)
                      ..|++++|...+++..+..
T Consensus        97 ~~g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC--
T ss_pred             HcCCHHHHHHHHHHHHHhC
Confidence            8899999998888887644

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.60  E-value=5.3e-06  Score=54.47  Aligned_cols=94  Identities=6%  Similarity=-0.092  Sum_probs=60.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCH---hhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC---HHHHHHHH
Q 048616           14 NCLIDVYCKDRQVEKAYKIVEKMRDEDISPDV---ISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD---AAAYNAAI   87 (272)
Q Consensus        14 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~   87 (272)
                      ..+...+...|++++|.+.|++..+.... +.   ..+..+..++.+.|++++|...|++..+... .+   ...+..+.
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~la   83 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYP-THDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TSTTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCC-CCcccHHHHHHHH
Confidence            33455666777777777777777664322 22   3566666777777777777777777766531 22   45566666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc
Q 048616           88 RNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      .++...|++++|...|+++.+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            7777777777777777777665

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.59  E-value=9.8e-07  Score=60.25  Aligned_cols=130  Identities=11%  Similarity=0.019  Sum_probs=52.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----HHhHHHHHHHHhhcCChhhHHHHHHHHHhC----CCCC-CHhh
Q 048616           83 YNAAIRNYCIAKRLRDASGLMDEMVEKGLS-PN----ATTYNLFFRVFYWSNDLRSSWNLYCRMMGT----GCLP-NTQS  152 (272)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~  152 (272)
                      +..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++....    +..+ ....
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            344444444455555555554444322100 00    123334444444455555555444443221    0000 0223


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHc----CC-CccHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616          153 CMFLVKLCKRQEKVEIALQLWNDMVEK----GF-GSYILVSDVLFDLLCDMGKLVEAEKSFLEMI  212 (272)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  212 (272)
                      +..+...+...|++++|...+++..+.    +. ......+..+...+...|++++|.+.+++..
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            334444444555555555555444322    10 0112233444444555555555555555443

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.59  E-value=3e-07  Score=75.07  Aligned_cols=125  Identities=11%  Similarity=-0.014  Sum_probs=98.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYC   91 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (272)
                      .|..+...+.+.|++++|++.|++..+.... +...|..+..++.+.|++++|++.+++..+.. +.+...+..+..+|.
T Consensus         8 ~~~~lg~~~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~   85 (477)
T 1wao_1            8 ELKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   85 (477)
T ss_dssp             TSSSSSSSTTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            3444455677889999999999999886433 68889999999999999999999999999874 346788999999999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH--HhhcCChhhHHHHHH
Q 048616           92 IAKRLRDASGLMDEMVEKGLSPNATTYNLFFRV--FYWSNDLRSSWNLYC  139 (272)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  139 (272)
                      +.|++++|++.|++..+.... +...+..+..+  +.+.|++++|.+.++
T Consensus        86 ~~g~~~eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           86 ALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHTCHHHHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999999987543 34455555555  888899999999998

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.56  E-value=9.3e-05  Score=56.94  Aligned_cols=191  Identities=8%  Similarity=0.024  Sum_probs=140.0

Q ss_pred             HHhcCChh-HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 048616           55 LGLVGQPD-KARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKR----------LRDASGLMDEMVEKGLSPNATTYNLFFR  123 (272)
Q Consensus        55 ~~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (272)
                      ..+.|+++ +|+++++++...+. -+..+|+.--..+...+.          +++++.+++.+....++ +..+|+.-.-
T Consensus        39 ~~~~~e~s~eaL~~t~~~L~~nP-~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~w  116 (331)
T 3dss_A           39 KRQAGELDESVLELTSQILGANP-DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCW  116 (331)
T ss_dssp             HHHTTCCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCc-hhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            34566665 89999999998642 244555544333333333          67899999999988665 7888887777


Q ss_pred             HHhhcC--ChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCc-HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhc--
Q 048616          124 VFYWSN--DLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEK-VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDM--  198 (272)
Q Consensus       124 ~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--  198 (272)
                      .+.+.+  .+++++.+++.+.+.+ +-+...|+.-...+...|. ++++.+.+..+.+.+ +.|...|+.....+.+.  
T Consensus       117 lL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~  194 (331)
T 3dss_A          117 LLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHP  194 (331)
T ss_dssp             HHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSC
T ss_pred             HHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhh
Confidence            777777  4899999999998875 4477788877777778887 689999999999887 55667777666655554  


Q ss_pred             ------------CCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHh-----------hhHHHHHHHHHHHHhcC
Q 048616          199 ------------GKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELA-----------NKQEALQNLSNKMALFG  250 (272)
Q Consensus       199 ------------g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~  250 (272)
                                  +.++++.+.++..+.... -|...|+-+-..+.+.           +..+++.+.++++.+..
T Consensus       195 ~~~~~~~~~~~~~~~~eEle~~~~ai~~~P-~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~  268 (331)
T 3dss_A          195 QPDSGPQGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE  268 (331)
T ss_dssp             CC------CCCHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             ccccccccccchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC
Confidence                        458899999999988743 3666776544444443           56889999999999876

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.56  E-value=3.5e-06  Score=68.42  Aligned_cols=122  Identities=10%  Similarity=-0.070  Sum_probs=61.3

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC--------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 048616           47 SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPD--------------AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS  112 (272)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  112 (272)
                      .|..+...+.+.|++++|+..|++..+......              ...|..+..+|.+.|++++|+..+++.++....
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  349 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSA  349 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc
Confidence            445555555566666666666666554321111              345555555555555555555555555554322


Q ss_pred             CCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHH
Q 048616          113 PNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIAL  170 (272)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (272)
                       +...|..+..+|...|++++|...|++..+.. +-+...+..+..++.+.++.+++.
T Consensus       350 -~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          350 -NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             -cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence             44555555555555555555555555555442 223344444444554555444443

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.56  E-value=1.7e-06  Score=70.29  Aligned_cols=130  Identities=10%  Similarity=-0.011  Sum_probs=105.2

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC--------------HhhHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPD--------------VISYTSIIGGLGLVGQPDKARDVLKEMKEYG   75 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   75 (272)
                      ...|..+-..+.+.|++++|+..|++..+......              ...|..+..++.+.|++++|+..+++..+..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            45778888999999999999999999987532211              5788899999999999999999999999874


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHH-HHHHH
Q 048616           76 CYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWN-LYCRM  141 (272)
Q Consensus        76 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~  141 (272)
                       +.+...|..+..+|...|++++|...|++..+.... +...+..+..++.+.++.+++.+ .+..|
T Consensus       348 -p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  412 (457)
T 1kt0_A          348 -SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMCQKKAKEHNERDRRIYANM  412 (457)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             -CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             347888999999999999999999999999987543 55677788888888888877653 44444

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.53  E-value=9.6e-06  Score=53.17  Aligned_cols=94  Identities=11%  Similarity=-0.016  Sum_probs=60.2

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HHhHHHHH
Q 048616           49 TSIIGGLGLVGQPDKARDVLKEMKEYGCYPDA---AAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPN---ATTYNLFF  122 (272)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  122 (272)
                      ..+...+...|++++|...|+++.+... .+.   ..+..+..++.+.|++++|...|++..+.... +   ...+..+.
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la   83 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHH
Confidence            3455566677777777777777766532 122   35666667777777777777777777765432 2   44555666


Q ss_pred             HHHhhcCChhhHHHHHHHHHhC
Q 048616          123 RVFYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~  144 (272)
                      .++...|++++|...|+++...
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            6677777777777777766554

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.51  E-value=5.7e-07  Score=58.35  Aligned_cols=86  Identities=14%  Similarity=-0.030  Sum_probs=52.1

Q ss_pred             cCCHHHHHHHHHHHhhCC--CCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 048616           23 DRQVEKAYKIVEKMRDED--ISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDAS  100 (272)
Q Consensus        23 ~g~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (272)
                      .|++++|+..|++..+.+  -+-+...+..+..++...|++++|+..|++..+.. +-+...+..+..++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            466666777777766643  12234556666666777777777777777766653 234566666666677777777777


Q ss_pred             HHHHHHHHc
Q 048616          101 GLMDEMVEK  109 (272)
Q Consensus       101 ~~~~~~~~~  109 (272)
                      ..+++....
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            777666654

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.50  E-value=2.5e-06  Score=67.27  Aligned_cols=89  Identities=8%  Similarity=-0.130  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 048616           80 AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKL  159 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (272)
                      ..+|..+..+|.+.|++++|++.+++.++.... +...+..+..+|...|++++|...|++..+.. +.+...+..+..+
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~  350 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKV  350 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            445555666666666666666666666654322 45555556666666666666666666655442 2234445555555


Q ss_pred             HHhcCcHHHHH
Q 048616          160 CKRQEKVEIAL  170 (272)
Q Consensus       160 ~~~~~~~~~a~  170 (272)
                      +...++.+++.
T Consensus       351 ~~~~~~~~~a~  361 (370)
T 1ihg_A          351 KQKIKAQKDKE  361 (370)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555444

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.48  E-value=3.1e-05  Score=64.50  Aligned_cols=175  Identities=8%  Similarity=-0.080  Sum_probs=137.0

Q ss_pred             CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC----------hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 048616           24 RQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ----------PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIA   93 (272)
Q Consensus        24 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (272)
                      ...++|++.++++.+.++. +..+|+.--.++...++          ++++++.++++.+.. +-+..+|+.-...+.+.
T Consensus        43 ~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           43 ELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            4467889999999887544 67778877777777776          899999999999875 34778888888888888


Q ss_pred             C--CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcC-ChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc-------
Q 048616           94 K--RLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSN-DLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ-------  163 (272)
Q Consensus        94 ~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------  163 (272)
                      +  +++++++.++++.+.... +..+|+--...+.+.+ .++++++.++++.+.+ +-+...|+.....+.+.       
T Consensus       121 ~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          121 PEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccc
Confidence            8  779999999999998765 7888888888888888 8899999999988775 44677777777666553       


Q ss_pred             -------CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHH
Q 048616          164 -------EKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVE  203 (272)
Q Consensus       164 -------~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  203 (272)
                             +.++++.+.+....... +-+...|.-+-..+.+.++.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCccc
Confidence                   56788999998888775 5567778777777777776443

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.48  E-value=8.1e-07  Score=72.52  Aligned_cols=122  Identities=12%  Similarity=-0.011  Sum_probs=75.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCC
Q 048616           51 IIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSND  130 (272)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  130 (272)
                      +...+.+.|++++|++.+++..+.. +.+..++..+..++.+.|++++|++.+++..+.... +...+..+..+|...|+
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCC
Confidence            3445566777777777777777653 334667777777777777777777777777776433 56667777777777777


Q ss_pred             hhhHHHHHHHHHhCCCCCCHhhHHHHHHH--HHhcCcHHHHHHHHHH
Q 048616          131 LRSSWNLYCRMMGTGCLPNTQSCMFLVKL--CKRQEKVEIALQLWND  175 (272)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~  175 (272)
                      +++|.+.|++..+.. +.+...+..+..+  +.+.|++++|.+.+++
T Consensus        90 ~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           90 FRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            777777777765542 1223333333333  5566666666666654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.48  E-value=5.1e-06  Score=57.14  Aligned_cols=99  Identities=9%  Similarity=0.055  Sum_probs=62.4

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhC--------CC---------CCCHhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDE--------DI---------SPDVISYTSIIGGLGLVGQPDKARDVLKEMK   72 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--------~~---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   72 (272)
                      +..+...-..+.+.|++++|+..|.+..+.        ..         +.+...|..+..++.+.|++++|+..+++..
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            456677778888888988888888887653        00         1122455556666666666666666666666


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616           73 EYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        73 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      +.. +.+...|..+..++...|++++|...|++....
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            543 234555666666666666666666666666655

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.47  E-value=7.7e-07  Score=57.72  Aligned_cols=87  Identities=13%  Similarity=0.129  Sum_probs=64.1

Q ss_pred             hcCChhHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhH
Q 048616           57 LVGQPDKARDVLKEMKEYG--CYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSS  134 (272)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  134 (272)
                      ..|++++|+..|++..+.+  -+.+...+..+..++...|++++|+..|++..+..+. +...+..+..++.+.|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHH
Confidence            3578888888888888754  2334567778888888888888888888888877544 577777788888888888888


Q ss_pred             HHHHHHHHhC
Q 048616          135 WNLYCRMMGT  144 (272)
Q Consensus       135 ~~~~~~~~~~  144 (272)
                      ...+++....
T Consensus        81 ~~~~~~al~~   90 (117)
T 3k9i_A           81 VELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            8888877654

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.45  E-value=5.1e-06  Score=65.46  Aligned_cols=138  Identities=6%  Similarity=-0.095  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLC  160 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (272)
                      ..+..+...+.+.|++++|++.|++.++.-  +...          .....       +..... .+.+..+|..+..++
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~~~----------~~~~~-------~~~~~~-~~~~~~~~~nla~~~  283 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYV--EGSR----------AAAED-------ADGAKL-QPVALSCVLNIGACK  283 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHHH----------HHSCH-------HHHGGG-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHh--hcCc----------cccCh-------HHHHHH-HHHHHHHHHHHHHHH
Confidence            346667777888888888888888777530  0000          00011       111111 122345677777778


Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-cHHhHHHHHHHHHHhhhHHHH
Q 048616          161 KRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKP-SQVSFRRIKALMELANKQEAL  239 (272)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a  239 (272)
                      .+.|++++|...+++..+.. +.+...+..+..+|...|++++|.+.|++..+.  .| +...+..+..++...++.+++
T Consensus       284 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          284 LKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888887764 345667777888888888888888888888776  34 444555577777777777666


Q ss_pred             HH
Q 048616          240 QN  241 (272)
Q Consensus       240 ~~  241 (272)
                      .+
T Consensus       361 ~k  362 (370)
T 1ihg_A          361 EK  362 (370)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.43  E-value=0.00023  Score=58.30  Aligned_cols=205  Identities=12%  Similarity=0.037  Sum_probs=138.0

Q ss_pred             HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048616           26 VEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDE  105 (272)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  105 (272)
                      .+.+..+|+++.... +.+...|...+..+.+.|+.++|..++++....  +.+...+.    .|....+.++.   ++.
T Consensus       195 ~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~~~  264 (493)
T 2uy1_A          195 ESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---YGD  264 (493)
T ss_dssp             HHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---HHH
T ss_pred             HHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---HHH
Confidence            355778899888753 446788888888889999999999999999987  33433332    23222222222   333


Q ss_pred             HHHcC---------C---CCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHh-cCcHHHHHHH
Q 048616          106 MVEKG---------L---SPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKR-QEKVEIALQL  172 (272)
Q Consensus       106 ~~~~~---------~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~  172 (272)
                      +.+.-         .   ......|...+....+.++.+.|..+|++. ... ..+...|......-.. .++.+.|..+
T Consensus       265 l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~i  342 (493)
T 2uy1_A          265 LKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNI  342 (493)
T ss_dssp             HHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHH
T ss_pred             HHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHH
Confidence            33220         0   011245666677777788899999999998 321 2233444322222222 2369999999


Q ss_pred             HHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHh
Q 048616          173 WNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMAL  248 (272)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (272)
                      |+...+.- +.+...+...++...+.|+.+.|..+|+.+.     .....|...+..=...|+.+.+..++++...
T Consensus       343 fe~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          343 FSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99988763 3334566778888889999999999999972     2567777788777888999999998888764

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.43  E-value=1.1e-05  Score=55.52  Aligned_cols=69  Identities=10%  Similarity=-0.009  Sum_probs=52.1

Q ss_pred             HhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHH
Q 048616          150 TQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQV  221 (272)
Q Consensus       150 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  221 (272)
                      ...|..+..++.+.|++++|...++...+.+ +.+...|..+..++...|++++|...|+...+.  .|+..
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~~  131 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAAA  131 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGGH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCCH
Confidence            4567777777888888888888888877765 445667777888888888888888888888775  55544

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.40  E-value=5.2e-06  Score=67.65  Aligned_cols=127  Identities=9%  Similarity=-0.143  Sum_probs=95.5

Q ss_pred             HHhhcCChhhHHHHHHHHHhC-------CCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc-----C--CCccHHHHH
Q 048616          124 VFYWSNDLRSSWNLYCRMMGT-------GCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK-----G--FGSYILVSD  189 (272)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~  189 (272)
                      .+...|++++|+.++++..+.       ..+....+++.+..+|...|++++|+.++++....     |  .+....+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            356789999999999887432       11223467999999999999999999999887642     2  222346788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc-----CC-CCcHH-hHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          190 VLFDLLCDMGKLVEAEKSFLEMIEK-----GH-KPSQV-SFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       190 ~li~~~~~~g~~~~a~~~~~~~~~~-----~~-~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      .|...|...|++++|..++++..+.     |. .|+.. +.+.+..++...+.+++++.+|+++++..
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999987643     32 23333 33446778888899999999999998754

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.36  E-value=3e-05  Score=51.79  Aligned_cols=111  Identities=12%  Similarity=-0.017  Sum_probs=74.3

Q ss_pred             CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHH
Q 048616           24 RQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI----AKRLRDA   99 (272)
Q Consensus        24 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a   99 (272)
                      +++++|++.|++..+.|. |...    +...|...+.+++|+++|++..+.|   +...+..|...|..    .++.++|
T Consensus         9 ~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            456777777777777662 2332    5556666666777777777777764   55666667777766    6777777


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHhh----cCChhhHHHHHHHHHhCC
Q 048616          100 SGLMDEMVEKGLSPNATTYNLFFRVFYW----SNDLRSSWNLYCRMMGTG  145 (272)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  145 (272)
                      .+.|++..+.|   +...+..|...|..    .+++++|..+|++..+.|
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            77777777664   45556666666666    667777777777766655

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.35  E-value=3.8e-06  Score=65.41  Aligned_cols=96  Identities=5%  Similarity=-0.087  Sum_probs=35.4

Q ss_pred             hHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHH-H
Q 048616          117 TYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDL-L  195 (272)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~  195 (272)
                      .|..+..+|.+.|++++|+..+++..+.. +.+...+..+..++...|++++|...|+...+.. +.+...+..+... .
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~  309 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAE  309 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH
Confidence            44555556666666666666666655442 2344555556666666666666666666655432 1122333333333 2


Q ss_pred             HhcCCHHHHHHHHHHHHHc
Q 048616          196 CDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       196 ~~~g~~~~a~~~~~~~~~~  214 (272)
                      ...+..+++.+.|..|...
T Consensus       310 ~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          310 QEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             -------------------
T ss_pred             HHHHHHHHHHHHHHHhhCC
Confidence            2344555566666665543

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.34  E-value=1.8e-05  Score=53.75  Aligned_cols=99  Identities=11%  Similarity=0.002  Sum_probs=58.1

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-C-----CH-----hhHHHHHHHHHhcCChhHHHHHHHHHHHc----
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDIS-P-----DV-----ISYTSIIGGLGLVGQPDKARDVLKEMKEY----   74 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~-----~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----   74 (272)
                      ...+...-..+.+.|++++|+..|++..+..+. |     +.     ..|..+..++.+.|++++|+..+++..+.    
T Consensus        11 a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            344556666777888888888888887764322 0     11     25666666666666666666666666553    


Q ss_pred             -CCCC-CHHHH----HHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616           75 -GCYP-DAAAY----NAAIRNYCIAKRLRDASGLMDEMVE  108 (272)
Q Consensus        75 -~~~~-~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~  108 (272)
                       .+.| +...|    .....++...|++++|+..|++.++
T Consensus        91 ~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           91 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence             0123 23344    5555566666666666666655543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.34  E-value=6.2e-06  Score=67.19  Aligned_cols=124  Identities=10%  Similarity=0.008  Sum_probs=67.9

Q ss_pred             HHhcCChhHHHHHHHHHHHc-----C--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CCC-C-CHHhHHH
Q 048616           55 LGLVGQPDKARDVLKEMKEY-----G--CYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK-----GLS-P-NATTYNL  120 (272)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~-~~~~~~~  120 (272)
                      +...|++++|+.++++..+.     |  .+....+++.|...|...|++++|+.++++.++.     |.. | ...+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            34567777777777666532     1  1112346667777777777777777777665532     211 1 1234566


Q ss_pred             HHHHHhhcCChhhHHHHHHHHHh-----CC--CCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 048616          121 FFRVFYWSNDLRSSWNLYCRMMG-----TG--CLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVE  178 (272)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~-----~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (272)
                      |...|...|++++|..++++..+     .|  .+....+...+-.++...+.+++|+.++..+++
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666777666666665432     11  111223334444455555666666666665543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.32  E-value=2.8e-06  Score=66.09  Aligned_cols=148  Identities=8%  Similarity=-0.012  Sum_probs=82.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLC  160 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (272)
                      ..+..+...+.+.|++++|...|++.....  |+...       +...++..++...+.          ...|..+..++
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHH
Confidence            446666777778888888888888877652  33221       222333333332221          13678888899


Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHH-hHHHHHHH-HHHhhhHHH
Q 048616          161 KRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQV-SFRRIKAL-MELANKQEA  238 (272)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~-~~~~~~~~~  238 (272)
                      .+.|++++|...++...+.. +.+...|..+..+|...|++++|...|++..+.  .|+.. .+..+... ....+..++
T Consensus       241 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~~~  317 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALYQK  317 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999998875 456778889999999999999999999998764  45433 33444444 344566778


Q ss_pred             HHHHHHHHHhcC
Q 048616          239 LQNLSNKMALFG  250 (272)
Q Consensus       239 a~~~~~~~~~~~  250 (272)
                      +..+|++|....
T Consensus       318 a~~~~~~~l~~~  329 (338)
T 2if4_A          318 QKEMYKGIFKGK  329 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHHhhCCC
Confidence            888999887655

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.29  E-value=2.5e-05  Score=53.02  Aligned_cols=96  Identities=8%  Similarity=-0.068  Sum_probs=61.7

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC------CH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHHc-----
Q 048616           46 ISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYP------DA-----AAYNAAIRNYCIAKRLRDASGLMDEMVEK-----  109 (272)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----  109 (272)
                      ..+......+.+.|++++|+..|++..+.....      +.     ..|..+..++.+.|++++|+..+++.++.     
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~   91 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG   91 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccc
Confidence            345556667778888888888888887653220      12     26777777777777777777777777664     


Q ss_pred             --CCCCCHHhH----HHHHHHHhhcCChhhHHHHHHHHH
Q 048616          110 --GLSPNATTY----NLFFRVFYWSNDLRSSWNLYCRMM  142 (272)
Q Consensus       110 --~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~  142 (272)
                        .+. +...|    .....++...|++++|+..|++..
T Consensus        92 e~~pd-~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           92 ELNQD-EGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             CTTST-HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCCCc-hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence              321 33445    555566666666666666666553

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.25  E-value=0.00029  Score=57.69  Aligned_cols=189  Identities=13%  Similarity=0.033  Sum_probs=126.9

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcC------------
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYG------------   75 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------------   75 (272)
                      .+...|-..+..+.+.|+++.|..+|++....  +.+...|.    .|+...+.++.   ++.+.+.-            
T Consensus       211 ~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~  281 (493)
T 2uy1_A          211 YAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVF  281 (493)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---HHHHHHHTC----------C
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---HHHHHHHHHhhccchhhhhc
Confidence            34667777788888899999999999999987  33433332    23332222222   33333221            


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh-cCChhhHHHHHHHHHhCCCCCCHhhHH
Q 048616           76 CYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW-SNDLRSSWNLYCRMMGTGCLPNTQSCM  154 (272)
Q Consensus        76 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~  154 (272)
                      ......+|...+....+.++.+.|..+|++. .. ...+...|......-.. .++.+.|..+|+...+.- +-+...+.
T Consensus       282 ~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~  358 (493)
T 2uy1_A          282 SKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKE  358 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHH
Confidence            0112345777777777888999999999999 32 22344445432222222 346999999999987642 22344455


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          155 FLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      ..+....+.|+.+.|..+|+.+.     .....|...+..=...|+.+.+.+++++..+
T Consensus       359 ~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          359 EFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            66777778899999999999872     2567888888877888999999999988864

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.23  E-value=0.00021  Score=59.61  Aligned_cols=171  Identities=9%  Similarity=0.025  Sum_probs=121.5

Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcC
Q 048616           60 QPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKR----------LRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSN  129 (272)
Q Consensus        60 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  129 (272)
                      ..++|++.++++.+.+ +-+..+|+.--.++...|+          ++++++.++++.+...+ +..+|+.-.-.+.+.+
T Consensus        44 ~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcc
Confidence            3467788999888864 2355667666666666666          88899999998887665 7788887777788888


Q ss_pred             --ChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC-cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhc--------
Q 048616          130 --DLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQE-KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDM--------  198 (272)
Q Consensus       130 --~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--------  198 (272)
                        +++++++.++++.+.+ +-+...|+.-..++.+.| .++++.+.++++.+.+ +.+...|+.....+.+.        
T Consensus       122 ~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          122 EPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhcccccccc
Confidence              6688999999888775 346777777777777778 7888888888887765 44666776666655552        


Q ss_pred             ------CCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhh
Q 048616          199 ------GKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANK  235 (272)
Q Consensus       199 ------g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  235 (272)
                            +.++++.+++++.+.... -|...|.-....+.+.+.
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~~~P-~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHCS-SCSHHHHHHHHHHSCCCC
T ss_pred             cccccHHHHHHHHHHHHHHHhhCC-CCccHHHHHHHHHhcCCC
Confidence                  456788888888877532 255556655555544443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.21  E-value=1.7e-06  Score=55.23  Aligned_cols=65  Identities=11%  Similarity=0.083  Sum_probs=33.6

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY   74 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (272)
                      +...|..+...+...|++++|++.|++..+... .+...+..+..++.+.|++++|++.+++..+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQP-QNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            344455555555555555555555555554322 14444555555555555555555555555543

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.18  E-value=0.00011  Score=48.96  Aligned_cols=110  Identities=12%  Similarity=0.082  Sum_probs=55.8

Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhh----cCChhhHH
Q 048616           60 QPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYW----SNDLRSSW  135 (272)
Q Consensus        60 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  135 (272)
                      ++++|++.|++..+.| .++..    +...|...+..++|.+.|++..+.|   +...+..+-..|..    .+++++|.
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            4556666666666555 22222    4444555555555666666655543   44445555555554    45555555


Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHHHh----cCcHHHHHHHHHHHHHcC
Q 048616          136 NLYCRMMGTGCLPNTQSCMFLVKLCKR----QEKVEIALQLWNDMVEKG  180 (272)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  180 (272)
                      .+|++..+.|   +...+..+-..|..    .+++++|...|+...+.|
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            5555555443   23334444444444    445555555555544443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.15  E-value=7.4e-05  Score=47.90  Aligned_cols=80  Identities=16%  Similarity=0.106  Sum_probs=50.6

Q ss_pred             hHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616          133 SSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMI  212 (272)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  212 (272)
                      ++...|++..+.. +.+...+..+...+...|++++|...++...+.. +.+...|..+..++...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555666655543 3345566666666677777777777777766654 3345566666777777777777777777665


Q ss_pred             Hc
Q 048616          213 EK  214 (272)
Q Consensus       213 ~~  214 (272)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            53

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.11  E-value=6.9e-05  Score=45.52  Aligned_cols=62  Identities=15%  Similarity=0.117  Sum_probs=30.0

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616           47 SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      .+..+...+...|++++|+..+++..+.. +.+...+..+..++.+.|++++|.+.+++..+.
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            34444444445555555555555544432 223444444555555555555555555555444

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.11  E-value=7.9e-05  Score=45.24  Aligned_cols=80  Identities=15%  Similarity=0.091  Sum_probs=44.7

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      ...|..+...+...|++++|+..|++..+... .+...+..+..++.+.|++++|...+++..+.. +.+...+..+..+
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~   86 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            44555556666666666666666666655432 245555666666666666666666666666542 2234444444444


Q ss_pred             HH
Q 048616           90 YC   91 (272)
Q Consensus        90 ~~   91 (272)
                      +.
T Consensus        87 ~~   88 (91)
T 1na3_A           87 KQ   88 (91)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.11  E-value=3.2e-05  Score=49.04  Aligned_cols=93  Identities=5%  Similarity=-0.131  Sum_probs=61.9

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC------HHh
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPN------ATT  117 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~  117 (272)
                      +...+..+...+.+.|++++|++.|++..+.. +.+...+..+..++.+.|++++|++.+++..+.... +      ...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTST-AEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSS-TTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ccHHHHHHHH
Confidence            45566777777888888888888888887763 345677777788888888888888888887765322 2      334


Q ss_pred             HHHHHHHHhhcCChhhHHHHH
Q 048616          118 YNLFFRVFYWSNDLRSSWNLY  138 (272)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~  138 (272)
                      +..+..++...|+++.+...+
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~~  101 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVEV  101 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSSS
T ss_pred             HHHHHHHHHHHHhHhhhHhHH
Confidence            444455555555555544433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.10  E-value=5.5e-05  Score=48.51  Aligned_cols=80  Identities=10%  Similarity=-0.024  Sum_probs=54.8

Q ss_pred             HHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616           28 KAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMV  107 (272)
Q Consensus        28 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (272)
                      .|++.|++..+... .+...+..+...+...|++++|+..|++..+.. +.+...|..+..++...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQGT-DNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTTC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45666666666543 256667777777777777777777777777653 2345667777777777777777777777766


Q ss_pred             Hc
Q 048616          108 EK  109 (272)
Q Consensus       108 ~~  109 (272)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.05  E-value=3.2e-05  Score=52.40  Aligned_cols=97  Identities=16%  Similarity=0.038  Sum_probs=65.4

Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCCh----------hHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           21 CKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQP----------DKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        21 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      .+.+.+++|.+.++...+..+. +...|..+..++...+++          ++|+..|++..+.. +.+...|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            3556778888888888776543 777777777777777664          47777777777764 23566777777777


Q ss_pred             HhcC-----------CHHHHHHHHHHHHHcCCCCCHHhHHHH
Q 048616           91 CIAK-----------RLRDASGLMDEMVEKGLSPNATTYNLF  121 (272)
Q Consensus        91 ~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (272)
                      ...|           ++++|++.|++.++.  .|+...|...
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~a  130 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKS  130 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            7654           677777777777765  3444444333

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.94  E-value=0.00013  Score=49.43  Aligned_cols=86  Identities=3%  Similarity=-0.111  Sum_probs=44.5

Q ss_pred             hcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcH----------HHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 048616          127 WSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKV----------EIALQLWNDMVEKGFGSYILVSDVLFDLLC  196 (272)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  196 (272)
                      +.+.+++|.+.+++..+.. +.+...|..+-.++...+++          ++|+..|++..+.+ +.+...|..+..+|.
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHH
Confidence            3445566666666655543 33455555555555555443          35555555555544 223344555555555


Q ss_pred             hcC-----------CHHHHHHHHHHHHHc
Q 048616          197 DMG-----------KLVEAEKSFLEMIEK  214 (272)
Q Consensus       197 ~~g-----------~~~~a~~~~~~~~~~  214 (272)
                      ..|           ++++|.+.|++.++.
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            443           455555555555543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.83  E-value=0.00015  Score=45.29  Aligned_cols=62  Identities=13%  Similarity=0.043  Sum_probs=29.9

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMV  107 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (272)
                      ...+..+...+.+.|++++|+..|++..+.. +.+...|..+..+|...|++++|.+.|++..
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444444455555555555555555554432 1233444445555555555555555555444

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.79  E-value=0.00025  Score=44.17  Aligned_cols=64  Identities=16%  Similarity=0.158  Sum_probs=45.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHh
Q 048616           79 DAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMG  143 (272)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (272)
                      +...+..+...+...|++++|+..|++..+.... +...|..+..+|...|++++|...|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4566777777777777777777777777776443 455677777777777777777777776543

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.72  E-value=0.002  Score=50.01  Aligned_cols=141  Identities=11%  Similarity=0.033  Sum_probs=86.4

Q ss_pred             CCCHhhHHHHHHHHHh--cC---ChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHh---cC--CHHHHH---HHHHHHH
Q 048616           42 SPDVISYTSIIGGLGL--VG---QPDKARDVLKEMKEYGCYPD-AAAYNAAIRNYCI---AK--RLRDAS---GLMDEMV  107 (272)
Q Consensus        42 ~~~~~~~~~l~~~~~~--~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~---~~--~~~~a~---~~~~~~~  107 (272)
                      +.+...|...+++...  .+   +..+|..+|++..+..  |+ ...|..+.-+|..   .+  ......   ..++...
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD--P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS--PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            4567777777765432  22   3467888888888763  43 3444433333321   11  111111   1122111


Q ss_pred             H-cCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHH
Q 048616          108 E-KGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYIL  186 (272)
Q Consensus       108 ~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  186 (272)
                      . ...+.+..+|..+...+...|++++|...+++....+  |+...|..+-..+.-.|++++|.+.+.+....+  |...
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~--P~~~  344 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLR--PGAN  344 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CSHH
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCcC
Confidence            1 1124467777777777777789999999998887774  677777777788888899999999888887764  4444


Q ss_pred             HH
Q 048616          187 VS  188 (272)
Q Consensus       187 ~~  188 (272)
                      +|
T Consensus       345 t~  346 (372)
T 3ly7_A          345 TL  346 (372)
T ss_dssp             HH
T ss_pred             hH
Confidence            44

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.71  E-value=0.003  Score=49.04  Aligned_cols=49  Identities=16%  Similarity=-0.024  Sum_probs=27.2

Q ss_pred             CCCCHHHHHHHHHHHH--hcC---CHHHHHHHHHHHHHcCCCCCHHhHHHHHHHH
Q 048616           76 CYPDAAAYNAAIRNYC--IAK---RLRDASGLMDEMVEKGLSPNATTYNLFFRVF  125 (272)
Q Consensus        76 ~~~~~~~~~~l~~~~~--~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (272)
                      .+.+...|...+.+..  ..+   +..+|..+|++.++..+. ....|..+..+|
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~-~a~A~A~la~a~  243 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPE-FTYARAEKALVD  243 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            3456667766665543  222   357788888888877332 234444433333

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.64  E-value=0.00042  Score=55.64  Aligned_cols=88  Identities=8%  Similarity=-0.088  Sum_probs=47.7

Q ss_pred             HHHhcCChhHHHHHHHHHHHcC---CCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CCC-C-CHHhHH
Q 048616           54 GLGLVGQPDKARDVLKEMKEYG---CYP----DAAAYNAAIRNYCIAKRLRDASGLMDEMVEK-----GLS-P-NATTYN  119 (272)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~-~~~~~~  119 (272)
                      .+.+.|++++|+.++++..+..   +.|    ...+++.+...|...|++++|+.++++.++.     |.. | ...+++
T Consensus       296 ~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~  375 (429)
T 3qwp_A          296 ELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVM  375 (429)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHH
T ss_pred             HHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHH
Confidence            3445566666666666665321   111    2345566666666666666666666655432     211 1 123455


Q ss_pred             HHHHHHhhcCChhhHHHHHHHH
Q 048616          120 LFFRVFYWSNDLRSSWNLYCRM  141 (272)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~  141 (272)
                      .|...|...|++++|+.++++.
T Consensus       376 nLa~~~~~~g~~~eA~~~~~~A  397 (429)
T 3qwp_A          376 KVGKLQLHQGMFPQAMKNLRLA  397 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHH
Confidence            6666666666666666666654

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.61  E-value=0.0003  Score=56.47  Aligned_cols=62  Identities=8%  Similarity=-0.086  Sum_probs=28.5

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHc-----C-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616           46 ISYTSIIGGLGLVGQPDKARDVLKEMKEY-----G-CYP-DAAAYNAAIRNYCIAKRLRDASGLMDEMV  107 (272)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (272)
                      .+++.+..+|...|++++|..++++..+.     | -.| ...+++.|...|...|++++|+.++++..
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            34445555555555555555555544321     1 011 12344455555555555555555554443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.47  E-value=0.00031  Score=43.43  Aligned_cols=55  Identities=15%  Similarity=0.132  Sum_probs=26.5

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCCHh-hHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 048616           19 VYCKDRQVEKAYKIVEKMRDEDISPDVI-SYTSIIGGLGLVGQPDKARDVLKEMKEY   74 (272)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (272)
                      .+.+.|++++|++.|++..+.... +.. .+..+..++...|++++|.+.|++..+.
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            344455555555555555443211 333 4444455555555555555555555443

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.46  E-value=0.0008  Score=53.98  Aligned_cols=61  Identities=11%  Similarity=-0.054  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CC-CCcH-HhHHHHHHHHHHhhhHHHHHHHHHHH
Q 048616          186 LVSDVLFDLLCDMGKLVEAEKSFLEMIEK-----GH-KPSQ-VSFRRIKALMELANKQEALQNLSNKM  246 (272)
Q Consensus       186 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~-~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (272)
                      .+++.+..+|...|++++|..++++.++.     |. .|+. .+++.|...|...|++++|..++++.
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            34445555555555555555555544321     11 1222 22334555555555555555555543

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.46  E-value=0.001  Score=53.41  Aligned_cols=90  Identities=10%  Similarity=-0.042  Sum_probs=46.7

Q ss_pred             HHHhhcCChhhHHHHHHHHHhCC---CCC----CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc-----C--CCccHHHH
Q 048616          123 RVFYWSNDLRSSWNLYCRMMGTG---CLP----NTQSCMFLVKLCKRQEKVEIALQLWNDMVEK-----G--FGSYILVS  188 (272)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~  188 (272)
                      ..+.+.|++++|+.++++..+..   +.|    ...+++.+..+|...|++++|+.++.+....     |  .+....++
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            33445566666666666554320   111    1245556666666666666666666554421     1  11122345


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH
Q 048616          189 DVLFDLLCDMGKLVEAEKSFLEMI  212 (272)
Q Consensus       189 ~~li~~~~~~g~~~~a~~~~~~~~  212 (272)
                      +.|...|...|++++|..++++..
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH
Confidence            556666666666666666665543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.45  E-value=0.001  Score=40.99  Aligned_cols=57  Identities=18%  Similarity=0.130  Sum_probs=39.7

Q ss_pred             HHHHHhcCcHHHHHHHHHHHHHcCCCccHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          157 VKLCKRQEKVEIALQLWNDMVEKGFGSYIL-VSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ...+.+.|++++|...++...+.. +.+.. .+..+..++...|++++|.+.|++..+.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            345566777777777777777654 33445 6666777777777888888877777765

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.37  E-value=0.0062  Score=52.96  Aligned_cols=155  Identities=12%  Similarity=0.079  Sum_probs=101.7

Q ss_pred             HHHHhcCCHHHHHH-HHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 048616           18 DVYCKDRQVEKAYK-IVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRL   96 (272)
Q Consensus        18 ~~~~~~g~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (272)
                      ......+++++|.+ ++..+     + +......++..+.+.|.++.|+++.++-..            -.......|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i-----~-~~~~~~~~~~~l~~~~~~~~a~~~~~~~~~------------~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNV-----E-GKDSLTKIARFLEGQEYYEEALNISPDQDQ------------KFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGC-----C-CHHHHHHHHHHHHHTTCHHHHHHHCCCHHH------------HHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhcC-----C-chHHHHHHHHHHHhCCChHHheecCCCcch------------heehhhhcCCH
Confidence            34456789999877 54221     1 122337788888889999998876632211            13345678999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHH
Q 048616           97 RDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDM  176 (272)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (272)
                      +.|.++.+.+      .+...|..+...+.+.++++.|.+.|.++..         |..+...+...|+.+...++-+..
T Consensus       669 ~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a  733 (814)
T 3mkq_A          669 TLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDA  733 (814)
T ss_dssp             HHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHH
Confidence            9999886543      3778899999999999999999999998743         334445555566666666655555


Q ss_pred             HHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 048616          177 VEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEM  211 (272)
Q Consensus       177 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  211 (272)
                      ...| .     ++.-..+|.+.|++++|.+++.++
T Consensus       734 ~~~~-~-----~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          734 ETTG-K-----FNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHTT-C-----HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHcC-c-----hHHHHHHHHHcCCHHHHHHHHHHc
Confidence            5443 1     123334455667777777766554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.26  E-value=0.017  Score=50.27  Aligned_cols=104  Identities=15%  Similarity=0.027  Sum_probs=72.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 048616           13 YNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI   92 (272)
Q Consensus        13 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (272)
                      ...++..+.+.|..+.|.++.+         +.   ..-.......|+++.|.++.+.+      .+...|..+...+.+
T Consensus       632 ~~~~~~~l~~~~~~~~a~~~~~---------~~---~~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~  693 (814)
T 3mkq_A          632 LTKIARFLEGQEYYEEALNISP---------DQ---DQKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQ  693 (814)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHCC---------CH---HHHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCChHHheecCC---------Cc---chheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHH
Confidence            3667777888888888876652         11   11234456789999999886443      477899999999999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHh
Q 048616           93 AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMG  143 (272)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (272)
                      .++++.|++.|.++.+         |..+...+...++.+...++-+....
T Consensus       694 ~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~  735 (814)
T 3mkq_A          694 RFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAET  735 (814)
T ss_dssp             TTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999999998753         34455555556666655554444433

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.19  E-value=0.014  Score=39.15  Aligned_cols=86  Identities=10%  Similarity=0.015  Sum_probs=57.1

Q ss_pred             hhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC---cHHHHHHHHHHHHHcCCCc--cHHHHHHHHHHHHhcCCHHHHHH
Q 048616          132 RSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQE---KVEIALQLWNDMVEKGFGS--YILVSDVLFDLLCDMGKLVEAEK  206 (272)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~  206 (272)
                      ..+.+.|.+....+ .++..+...+..++++.+   +++++..+++++.+.+ .|  ....+-.+.-++.+.|++++|.+
T Consensus        15 ~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~   92 (152)
T 1pc2_A           15 LKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALK   92 (152)
T ss_dssp             HHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHH
Confidence            44555555555554 356777777777777777   6668888888877765 23  23333445556788888888888


Q ss_pred             HHHHHHHcCCCCcHH
Q 048616          207 SFLEMIEKGHKPSQV  221 (272)
Q Consensus       207 ~~~~~~~~~~~p~~~  221 (272)
                      +++.+++.  .|+..
T Consensus        93 y~~~lL~i--eP~n~  105 (152)
T 1pc2_A           93 YVRGLLQT--EPQNN  105 (152)
T ss_dssp             HHHHHHHH--CTTCH
T ss_pred             HHHHHHhc--CCCCH
Confidence            88888875  66543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.19  E-value=0.01  Score=36.22  Aligned_cols=66  Identities=6%  Similarity=-0.066  Sum_probs=39.0

Q ss_pred             CCHhhHHHHHHHHHhcCc---HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          148 PNTQSCMFLVKLCKRQEK---VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      .+...+..+..++...++   .++|..++++..+.+ +.+......+...+.+.|++++|...|+.+.+.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344555555555543333   466666666666654 334455555666666667777777777766655

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.17  E-value=0.01  Score=37.03  Aligned_cols=66  Identities=6%  Similarity=-0.150  Sum_probs=35.3

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcC------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYG------CYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      +..-+..+...+.+.++++.|...|+...+.-      -.+....+..+..++.+.|+++.|...+++..+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            33344455555555566666655555554321      1123445555666666666666666666666554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.15  E-value=0.012  Score=35.93  Aligned_cols=65  Identities=11%  Similarity=0.072  Sum_probs=31.1

Q ss_pred             CHHhHHHHHHHHhhcCC---hhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 048616          114 NATTYNLFFRVFYWSND---LRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK  179 (272)
Q Consensus       114 ~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (272)
                      +...+..+..++...++   .++|..++++..+.+ +-+......+...+.+.|++++|...|+.+.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34444444444433322   355555555554442 223444444445555555555555555555544

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.07  E-value=0.012  Score=39.40  Aligned_cols=83  Identities=11%  Similarity=-0.062  Sum_probs=58.9

Q ss_pred             CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC---ChhHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHhcCCHHHH
Q 048616           25 QVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVG---QPDKARDVLKEMKEYGCYP--DAAAYNAAIRNYCIAKRLRDA   99 (272)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a   99 (272)
                      ....+.+-|.+..+.+. ++..+...+..++++++   +.++++.+++++.+.. .|  ....+..+.-++.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            34556666666666554 57777777777888877   5668888888888764 23  344555566677888888888


Q ss_pred             HHHHHHHHHc
Q 048616          100 SGLMDEMVEK  109 (272)
Q Consensus       100 ~~~~~~~~~~  109 (272)
                      .+.++.+++.
T Consensus        91 ~~y~~~lL~i  100 (152)
T 1pc2_A           91 LKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            8888888876

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.05  E-value=0.037  Score=38.11  Aligned_cols=26  Identities=8%  Similarity=0.029  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048616           80 AAAYNAAIRNYCIAKRLRDASGLMDE  105 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~  105 (272)
                      ...|..|.....+.|+++-|++.|.+
T Consensus        34 ~~~Wk~Lg~~AL~~gn~~lAe~cy~~   59 (177)
T 3mkq_B           34 SITWERLIQEALAQGNASLAEMIYQT   59 (177)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            34444444444444444444444443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.88  E-value=0.054  Score=37.27  Aligned_cols=130  Identities=12%  Similarity=0.198  Sum_probs=93.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 048616           17 IDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRL   96 (272)
Q Consensus        17 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (272)
                      .......|+++.|.++.+.+      -+...|..|.....+.|+++-|.+.|.+...         +..+.-.|...|+.
T Consensus        12 F~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~   76 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDV   76 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCH
T ss_pred             HHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCH
Confidence            45567899999999998876      2688999999999999999999999998864         33455567778888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHH
Q 048616           97 RDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDM  176 (272)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (272)
                      ++..++-+.....|-      ++.....+...|+++++.++|.+.   |..|..      .......|..+.|.++...+
T Consensus        77 e~L~kla~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~~---~r~~eA------~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           77 NKLSKMQNIAQTRED------FGSMLLNTFYNNSTKERSSIFAEG---GSLPLA------YAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHT---TCHHHH------HHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHHC---CChHHH------HHHHHHcCcHHHHHHHHHHh
Confidence            877766665555432      566666777889999999988653   222211      11122356677777777665

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.81  E-value=0.059  Score=40.36  Aligned_cols=91  Identities=12%  Similarity=0.113  Sum_probs=65.7

Q ss_pred             hHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhc-CChh
Q 048616           62 DKARDVLKEMKEYGCYPD---AAAYNAAIRNYCIA-----KRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWS-NDLR  132 (272)
Q Consensus        62 ~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~  132 (272)
                      ..|...+++..+..  |+   ...|..+...|.+.     |+.++|.+.|++.++.+..-+..++......+++. ++.+
T Consensus       180 ~~A~a~lerAleLD--P~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          180 HAAVMMLERACDLW--PSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHHC--TTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHHhC--CCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            46667777777653  44   55788888888884     88999999999888875432466666777777774 8888


Q ss_pred             hHHHHHHHHHhCCCC--CCHhhHH
Q 048616          133 SSWNLYCRMMGTGCL--PNTQSCM  154 (272)
Q Consensus       133 ~a~~~~~~~~~~~~~--~~~~~~~  154 (272)
                      ++.+.+++.......  |+....+
T Consensus       258 ~a~~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          258 GFDEALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             HHHHHHHHHHHCCGGGCSSCHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCChhHHH
Confidence            888888888877555  5544333

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.77  E-value=0.052  Score=35.43  Aligned_cols=139  Identities=15%  Similarity=0.095  Sum_probs=78.3

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHH
Q 048616           57 LVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWN  136 (272)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  136 (272)
                      -.|..++..++..+....   .+..-+|.++--....-+=+-..++++.+-..   .|.          ...++......
T Consensus        19 ldG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrVi~   82 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVVE   82 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHHH
T ss_pred             HhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHHHH
Confidence            345556666666555543   23444444444444444444444444443321   121          12233333333


Q ss_pred             HHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 048616          137 LYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGH  216 (272)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  216 (272)
                      .+-.+     ..+...+...+..+..+|+.++-.+++..+.... +|++...-.+..+|.+.|+..+|.+++.+..+.|+
T Consensus        83 C~~~~-----n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~-~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           83 CGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHh-----cchHHHHHHHHHHHHHhccHhHHHHHHHHHhccC-CCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            33222     2244456667777778888888888887764432 56666667777888888888888888888888776


Q ss_pred             C
Q 048616          217 K  217 (272)
Q Consensus       217 ~  217 (272)
                      +
T Consensus       157 k  157 (172)
T 1wy6_A          157 K  157 (172)
T ss_dssp             H
T ss_pred             H
Confidence            5

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.72  E-value=0.062  Score=35.74  Aligned_cols=102  Identities=17%  Similarity=0.136  Sum_probs=53.9

Q ss_pred             CHHhHHHHHHHHHhcCCH------HHHHHHHHHHhhCCCCCCHh-hHHHHHHH------HHhcCChhHHHHHHHHHHHcC
Q 048616            9 DIVSYNCLIDVYCKDRQV------EKAYKIVEKMRDEDISPDVI-SYTSIIGG------LGLVGQPDKARDVLKEMKEYG   75 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~------~~a~~~~~~~~~~~~~~~~~-~~~~l~~~------~~~~~~~~~a~~~~~~~~~~~   75 (272)
                      |..+|=..+...-+.|+.      ++..++|++.... ++|+.. .|..-+..      +...+|.++|.++|+.+.+..
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            556666666666666766      6666666666553 444321 11111111      112356666666666665442


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 048616           76 CYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS  112 (272)
Q Consensus        76 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  112 (272)
                       +-=...|......-.+.|+++.|.+++.+.+..+.+
T Consensus        91 -KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           91 -KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             -TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             -HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence             222445555555555666666666666666665544

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.53  E-value=0.088  Score=35.05  Aligned_cols=100  Identities=15%  Similarity=0.055  Sum_probs=48.3

Q ss_pred             CHhhHHHHHHHHHhcCCh------hHHHHHHHHHHHcCCCCCHH-HHHHHHHH------HHhcCCHHHHHHHHHHHHHcC
Q 048616           44 DVISYTSIIGGLGLVGQP------DKARDVLKEMKEYGCYPDAA-AYNAAIRN------YCIAKRLRDASGLMDEMVEKG  110 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~l~~~------~~~~~~~~~a~~~~~~~~~~~  110 (272)
                      |..+|-..+...-+.|+.      ++..++|++.... ++|+.. .|...+..      +...++.++|.++|+.+...+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            555566666666555666      6666677766654 344321 11111111      122355555555555554432


Q ss_pred             CCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCC
Q 048616          111 LSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTG  145 (272)
Q Consensus       111 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (272)
                      -.- ...|......-.+.|+..+|.+++.+....+
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence            222 4444444444455555555555555555544

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.42  E-value=0.033  Score=47.71  Aligned_cols=128  Identities=15%  Similarity=0.084  Sum_probs=81.5

Q ss_pred             HHHHHHHHhcCC-HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC-hhHHHHHHHHHHHc------CCCC-CH----
Q 048616           14 NCLIDVYCKDRQ-VEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ-PDKARDVLKEMKEY------GCYP-DA----   80 (272)
Q Consensus        14 ~~li~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~------~~~~-~~----   80 (272)
                      ..++..+...|+ ++.|.++|+++.+.....+......++..+...++ --+|.+++.+..+.      ...+ +.    
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            445555555666 68899999999886432222222233333333332 22455555554321      1111 11    


Q ss_pred             ------HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHH
Q 048616           81 ------AAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMM  142 (272)
Q Consensus        81 ------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (272)
                            .....-...+...|+++.|+++-++.....+. +-.+|..|..+|...|+++.|+-.+..+.
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPs-eF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELALD-SFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCch-hhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                  12222234567789999999999999987432 67899999999999999999999998873

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.26  E-value=0.081  Score=39.64  Aligned_cols=91  Identities=11%  Similarity=0.041  Sum_probs=69.9

Q ss_pred             hhHHHHHHHHHhCCCCCC---HhhHHHHHHHHHhc-----CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhc-CCHH
Q 048616          132 RSSWNLYCRMMGTGCLPN---TQSCMFLVKLCKRQ-----EKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDM-GKLV  202 (272)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~  202 (272)
                      ..|...+++..+.  .|+   -..|..+...|.+.     |+.++|.+.|++..+.+..-+..++....+.+++. |+.+
T Consensus       180 ~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          180 HAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            5566777777665  344   45788888888884     99999999999999886433466777788888884 9999


Q ss_pred             HHHHHHHHHHHcCCC--CcHHhHH
Q 048616          203 EAEKSFLEMIEKGHK--PSQVSFR  224 (272)
Q Consensus       203 ~a~~~~~~~~~~~~~--p~~~~~~  224 (272)
                      ++.+.+++.+.....  |+....+
T Consensus       258 ~a~~~L~kAL~a~p~~~P~~~lan  281 (301)
T 3u64_A          258 GFDEALDRALAIDPESVPHNKLLV  281 (301)
T ss_dssp             HHHHHHHHHHHCCGGGCSSCHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCChhHHH
Confidence            999999999988665  6654444

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=96.16  E-value=0.28  Score=38.72  Aligned_cols=130  Identities=14%  Similarity=0.061  Sum_probs=68.9

Q ss_pred             CcCHHhHHHHHHHHH---hcCCHHHHHHHHHHHhhC--CCCCCHhhHHHHHHHHHhcCChhHH-HHHHHHHHHcCCCCCH
Q 048616            7 KPDIVSYNCLIDVYC---KDRQVEKAYKIVEKMRDE--DISPDVISYTSIIGGLGLVGQPDKA-RDVLKEMKEYGCYPDA   80 (272)
Q Consensus         7 ~p~~~~~~~li~~~~---~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~~~~~~~~~   80 (272)
                      .-|...|..++....   ..|+.+.|.+.+.+....  |.......          ...|-.. ..-+++..       .
T Consensus       109 ~~D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~----------~~~w~~~~r~~l~~~~-------~  171 (388)
T 2ff4_A          109 TCDLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLR----------DFQFVEPFATALVEDK-------V  171 (388)
T ss_dssp             GBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGT----------TSTTHHHHHHHHHHHH-------H
T ss_pred             cchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCC----------chhHHHHHHHHHHHHH-------H
Confidence            346666666665433   357888888888887653  32211100          0111111 11111111       1


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHh-----CCCCCCHhhHH
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMG-----TGCLPNTQSCM  154 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  154 (272)
                      .+...++..+...|+.++|...+..+....+ .+...|..++.++.+.|+..+|++.|+++.+     .|+.|+..+-.
T Consensus       172 ~a~~~~~~~~l~~g~~~~a~~~l~~~~~~~P-~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          172 LAHTAKAEAEIACGRASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            1233455556666777777666666665533 2556666677777777777777766665522     36666665543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.11  E-value=0.12  Score=32.11  Aligned_cols=61  Identities=15%  Similarity=-0.011  Sum_probs=29.9

Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHcC------CCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          154 MFLVKLCKRQEKVEIALQLWNDMVEKG------FGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ..+...+.+.++++.|...++...+..      -.+...++..+..++.+.|+++.|...+++..+.
T Consensus         9 ~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            334444444444444444444433220      1223445555556666666666666666665543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.01  E-value=0.16  Score=32.80  Aligned_cols=66  Identities=11%  Similarity=-0.031  Sum_probs=32.8

Q ss_pred             CCHhhHHHHHHHHHhcCcHHH---HHHHHHHHHHcCCCc--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          148 PNTQSCMFLVKLCKRQEKVEI---ALQLWNDMVEKGFGS--YILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ++..+-..+..++.+..+...   ++.++.++.+.+ .|  .....-.+.-++.+.|++++|.++++.+++.
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  103 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            444444445555555554433   555555555443 12  1122223344555666666666666666654

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.66  E-value=0.24  Score=32.37  Aligned_cols=150  Identities=13%  Similarity=0.040  Sum_probs=106.3

Q ss_pred             HhHHHHHHH--HHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616           11 VSYNCLIDV--YCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus        11 ~~~~~li~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      .+...||.+  ..-.|.+++..++..+..+..   +..-+|-+|--....-+-+-..++++.+-+.   -|.        
T Consensus         6 el~kkLmeAK~~ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi--------   71 (172)
T 1wy6_A            6 EIIRKLMDAKKFLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL--------   71 (172)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG--------
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhh---cCc--------
Confidence            344556654  445799999999999888753   5556777777777666666666665555332   232        


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHH
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEI  168 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (272)
                        ..+|++......+-.+-     .++..++..+..+...|..++..+++..+... -+|+......+..+|.+.|+..+
T Consensus        72 --s~C~NlKrVi~C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~  143 (172)
T 1wy6_A           72 --DKCQNLKSVVECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERD  143 (172)
T ss_dssp             --GGCSCTHHHHHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHH
T ss_pred             --HhhhcHHHHHHHHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhh
Confidence              23466655555554332     25666788888999999999999999886443 37788888889999999999999


Q ss_pred             HHHHHHHHHHcCCC
Q 048616          169 ALQLWNDMVEKGFG  182 (272)
Q Consensus       169 a~~~~~~~~~~~~~  182 (272)
                      +.+++.+.-+.|++
T Consensus       144 a~eLl~~AC~kG~k  157 (172)
T 1wy6_A          144 ATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhH
Confidence            99999999888854

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.56  E-value=1.1  Score=40.87  Aligned_cols=130  Identities=6%  Similarity=-0.046  Sum_probs=60.7

Q ss_pred             hHHHHHHHHhhcCChhhHHHHHHHHHhCCCC--CC--HhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHH
Q 048616          117 TYNLFFRVFYWSNDLRSSWNLYCRMMGTGCL--PN--TQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLF  192 (272)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  192 (272)
                      -|..++..+.+.+.++.+.++-+...+....  ++  ...|..+.+.+...|++++|...+-.+.....+  ......++
T Consensus       901 YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~cLr~LV  978 (1139)
T 4fhn_B          901 YYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSCLLDFV  978 (1139)
T ss_dssp             HHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHHHHHHH
Confidence            3455555566666666655555444332111  11  113555566666666666666666555444322  23444455


Q ss_pred             HHHHhcCCH------------HHHHHHHHHHHHc--CCCCcHHhHHHHHHHHHHhhhHHH-HHHHHHHHHh
Q 048616          193 DLLCDMGKL------------VEAEKSFLEMIEK--GHKPSQVSFRRIKALMELANKQEA-LQNLSNKMAL  248 (272)
Q Consensus       193 ~~~~~~g~~------------~~a~~~~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~  248 (272)
                      ..++..|..            +++.+++..-.+.  .+.....-|..|-..+...|++.+ |.-+|+.+.+
T Consensus       979 ~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~R 1049 (1139)
T 4fhn_B          979 NQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLSR 1049 (1139)
T ss_dssp             HHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHHH
Confidence            544544433            3333333322111  011111234556666666666554 4445665543

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.51  E-value=0.1  Score=41.22  Aligned_cols=74  Identities=18%  Similarity=0.160  Sum_probs=60.6

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCCCHHhHHHH
Q 048616           47 SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVE-----KGLSPNATTYNLF  121 (272)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  121 (272)
                      +...++..+...|+.+++...+..+.... +.+...+..+|.++.+.|+..+|++.|+++.+     .|+.|+..+-...
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            45667888889999999999999988763 55788999999999999999999999988753     4999988765433

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.42  E-value=0.29  Score=31.57  Aligned_cols=91  Identities=9%  Similarity=-0.115  Sum_probs=65.6

Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHH---HHHHHHHHHHcCCCC-cHHhHH-HHHHHHHH
Q 048616          158 KLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVE---AEKSFLEMIEKGHKP-SQVSFR-RIKALMEL  232 (272)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~---a~~~~~~~~~~~~~p-~~~~~~-~l~~~~~~  232 (272)
                      ..-.....+..+.+-|......|. ++..+--.+..++++..+...   +..++++..+.+ .| ...-+. .+.-++.+
T Consensus         9 ~~~~~~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yk   86 (126)
T 1nzn_A            9 NELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYR   86 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHH
T ss_pred             hccCCHHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHH
Confidence            333344556666777776666563 666666678888999887776   888888887753 23 333333 47889999


Q ss_pred             hhhHHHHHHHHHHHHhcC
Q 048616          233 ANKQEALQNLSNKMALFG  250 (272)
Q Consensus       233 ~~~~~~a~~~~~~~~~~~  250 (272)
                      .|++++|.++++.+.+..
T Consensus        87 lg~Y~~A~~~~~~lL~~e  104 (126)
T 1nzn_A           87 LKEYEKALKYVRGLLQTE  104 (126)
T ss_dssp             TTCHHHHHHHHHHHHHHC
T ss_pred             hhhHHHHHHHHHHHHHhC
Confidence            999999999999999866

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.96  E-value=0.42  Score=41.14  Aligned_cols=53  Identities=17%  Similarity=-0.032  Sum_probs=34.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCC-cHHhHHHHHHHHHHhhhHHHHHHHHHHH
Q 048616          192 FDLLCDMGKLVEAEKSFLEMIEKGHKP-SQVSFRRIKALMELANKQEALQNLSNKM  246 (272)
Q Consensus       192 i~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (272)
                      .+.+...|+++-|+++.++....  .| +-.+|..|..+|...|+++.|.-.++.+
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            34455667777777777776664  33 3556667777777777777777666654

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.89  E-value=1.2  Score=35.87  Aligned_cols=189  Identities=11%  Similarity=0.107  Sum_probs=114.1

Q ss_pred             cCCHHHHHHHHHHHhh-----CCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc-CCCCCHHHHHHHHHH----HHh
Q 048616           23 DRQVEKAYKIVEKMRD-----EDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEY-GCYPDAAAYNAAIRN----YCI   92 (272)
Q Consensus        23 ~g~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~----~~~   92 (272)
                      .|+++.|++.+-.+.+     .+..-+......++..|...++++...+.+.-+... |..+  .....+++.    ...
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk--~ai~~~V~~~~~~l~~  106 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLK--LSIQYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSH--HHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhH--HHHHHHHHHHHHHHhc
Confidence            3678888887766654     223335666788889999999999988887766643 3222  222233332    222


Q ss_pred             cCCHHHHH--HHHHHHHH--cC-CCC---CHHhHHHHHHHHhhcCChhhHHHHHHHHHh--CCCCCC---HhhHHHHHHH
Q 048616           93 AKRLRDAS--GLMDEMVE--KG-LSP---NATTYNLFFRVFYWSNDLRSSWNLYCRMMG--TGCLPN---TQSCMFLVKL  159 (272)
Q Consensus        93 ~~~~~~a~--~~~~~~~~--~~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~---~~~~~~l~~~  159 (272)
                      ....+...  .+.+.+..  .| +..   .......|...+...|++.+|.+++..+..  .+....   ...+..-++.
T Consensus       107 ~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl  186 (445)
T 4b4t_P          107 SKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMEL  186 (445)
T ss_dssp             HCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            33322211  11111110  01 111   112335677888899999999999988743  222211   2456677788


Q ss_pred             HHhcCcHHHHHHHHHHHHHc----CCCcc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          160 CKRQEKVEIALQLWNDMVEK----GFGSY--ILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      |...+++..|..++..+...    ...|+  ...+...+..+...+++.+|.+.|.+..+
T Consensus       187 ~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          187 SILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            88999999999988886532    22222  23556677777788888888887776643

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=93.77  E-value=0.67  Score=28.42  Aligned_cols=48  Identities=13%  Similarity=0.106  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 048616           26 VEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKE   73 (272)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   73 (272)
                      .=+..+-++.+...++.|++.+....+++|.+.+++..|.++|+-++.
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            334555555555556666666666666666666666666666665554

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=93.24  E-value=0.84  Score=27.99  Aligned_cols=46  Identities=11%  Similarity=0.216  Sum_probs=24.3

Q ss_pred             hHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 048616          133 SSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVE  178 (272)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (272)
                      ++.+-++.+...++.|+..+..+.+++|-+.+++..|.++++-++.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444444444455555555555555555555555555555555543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=92.52  E-value=1.6  Score=29.64  Aligned_cols=69  Identities=7%  Similarity=-0.119  Sum_probs=37.3

Q ss_pred             CCCCcCHH--hHHHHHHHHHhcCCHHHHHHHHHHHhhCC-CCCC-------HhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 048616            4 MGVKPDIV--SYNCLIDVYCKDRQVEKAYKIVEKMRDED-ISPD-------VISYTSIIGGLGLVGQPDKARDVLKEMK   72 (272)
Q Consensus         4 ~g~~p~~~--~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~   72 (272)
                      .|+.|.-.  .+-.-+..+...|.++.|+-+.+.+.... ..|+       ..++..+.+++...+++..|...|++..
T Consensus        12 ~~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qAL   90 (167)
T 3ffl_A           12 SGLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMAL   90 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            35555433  33344566677778888777777654321 1222       1244556667777788888888777754

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=92.50  E-value=0.39  Score=35.45  Aligned_cols=56  Identities=18%  Similarity=0.310  Sum_probs=44.3

Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          158 KLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ....+.|+++++++....-.+.. +.|...-..+++.+|-.|++++|.+=++...+.
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            34567888888888887777765 667777778888899999999998888888765

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=92.43  E-value=1.4  Score=28.61  Aligned_cols=77  Identities=13%  Similarity=0.180  Sum_probs=50.9

Q ss_pred             hHHHHHHHHHhcCC--hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHH
Q 048616           47 SYTSIIGGLGLVGQ--PDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRV  124 (272)
Q Consensus        47 ~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (272)
                      -|..--..|...-+  .=+..+-++.+....+.|++......+.+|-+.+|+..|.++|+-+..+- .+....|..+++-
T Consensus        53 eFdaRy~~~F~~~~iD~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lqE  131 (152)
T 2y69_E           53 EFDARWVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQE  131 (152)
T ss_dssp             HHHHHHHHHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHH
T ss_pred             HHHHHHHHHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHHH
Confidence            34443444443333  33556666777777788888888888888888888888888888777552 2344557666654

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.17  E-value=2.8  Score=33.54  Aligned_cols=99  Identities=12%  Similarity=0.048  Sum_probs=69.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHh---CCCCCCHhh--H
Q 048616           81 AAYNAAIRNYCIAKRLRDASGLMDEMVEKG--LSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMG---TGCLPNTQS--C  153 (272)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~--~  153 (272)
                      .+...+...|.+.|+++.|.+.+.++.+..  ...-...+-..++.+...+++..+...+.+...   .+-.|+...  .
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            366788899999999999999999998752  233356677888999999999999999988743   332333221  1


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHc
Q 048616          154 MFLVKLCKRQEKVEIALQLWNDMVEK  179 (272)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (272)
                      ..-...+...+++..|-..|-+....
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhcc
Confidence            11122234678888888888776543

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=91.90  E-value=1.7  Score=28.28  Aligned_cols=42  Identities=12%  Similarity=0.243  Sum_probs=20.0

Q ss_pred             HHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 048616          136 NLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMV  177 (272)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (272)
                      +-++.+...++.|+..+..+.+++|-+.+++..|.++++-++
T Consensus        74 rglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK  115 (152)
T 2y69_E           74 KGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK  115 (152)
T ss_dssp             HHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            333333444444555555555555555555555555554444

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.28  E-value=3.8  Score=32.81  Aligned_cols=61  Identities=8%  Similarity=-0.005  Sum_probs=30.0

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616           47 SYTSIIGGLGLVGQPDKARDVLKEMKEY--GCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMV  107 (272)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (272)
                      +...+...|.+.|++++|.+.+.++...  +...-...+-.++..+...+++..+...+.+..
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3444555555555555555555555532  111223344445555555555555555555443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=90.82  E-value=9.6  Score=34.89  Aligned_cols=189  Identities=10%  Similarity=-0.051  Sum_probs=120.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHH--------------------
Q 048616           14 NCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKE--------------------   73 (272)
Q Consensus        14 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------------------   73 (272)
                      ..++..+.+.+.++-+.++......     +...--.+..++...|++++|.+.|++...                    
T Consensus       816 ~~l~~~l~~~~~~~~~~~l~~~~~~-----~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          816 TELVEKLFLFKQYNACMQLIGWLNS-----DPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHHSCTTHHHHHHHHSCC-----CHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhccC-----CcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccc
Confidence            3466777788888888776655433     333334567788889999999999976410                    


Q ss_pred             cC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH----HhHHHHHHHHhhcCChhhHHHHHHHHHhCCCC
Q 048616           74 YG--CYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNA----TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCL  147 (272)
Q Consensus        74 ~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  147 (272)
                      ..  ...-..-|..++..+-+.+.++.+.++-...++....-+.    ..|..+...+...+++++|...+-.+.....+
T Consensus       891 ~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r  970 (1139)
T 4fhn_B          891 KYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK  970 (1139)
T ss_dssp             TTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC
T ss_pred             cccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH
Confidence            00  1123456778888999999999999888777654322122    25778889999999999999999887665433


Q ss_pred             CCHhhHHHHHHHHHhcCcH------------HHHHHHHHHHHH-c-CCCccHHHHHHHHHHHHhcCCHHHHHHHHH
Q 048616          148 PNTQSCMFLVKLCKRQEKV------------EIALQLWNDMVE-K-GFGSYILVSDVLFDLLCDMGKLVEAEKSFL  209 (272)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~------------~~a~~~~~~~~~-~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  209 (272)
                        ......++...+..|..            ++..+++....+ . .+...+.-|..|-..+..+|++..|..++-
T Consensus       971 --~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmY 1044 (1139)
T 4fhn_B          971 --KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIY 1044 (1139)
T ss_dssp             --HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHH
T ss_pred             --HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHH
Confidence              44566666666655544            444444433221 1 112222345666666777788776655543

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=90.74  E-value=2.3  Score=27.61  Aligned_cols=66  Identities=5%  Similarity=-0.059  Sum_probs=27.4

Q ss_pred             CCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHh
Q 048616           78 PDAAAYNAAIRNYCIAKR---LRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMG  143 (272)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (272)
                      |+..+--.+..++++..+   ..+++.+++++.+.+..-....+.-+.-++.+.|++++|.+..+.+.+
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            344443334444444332   223444444444433111122233344445555555555555555444

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.23  E-value=6.2  Score=31.75  Aligned_cols=238  Identities=9%  Similarity=0.039  Sum_probs=136.6

Q ss_pred             CCCcCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCCCHhhHHHHHHHH----HhcCChhHHH--HHHHHHH---Hc
Q 048616            5 GVKPDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDE-DISPDVISYTSIIGGL----GLVGQPDKAR--DVLKEMK---EY   74 (272)
Q Consensus         5 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~----~~~~~~~~a~--~~~~~~~---~~   74 (272)
                      ...-+......++..|...|+++...+.+..+.+. |..+.  ....+++.+    ......+...  .+.+.+.   +.
T Consensus        51 d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~--ai~~~V~~~~~~l~~~~~~d~~~~~~~i~~l~~vte~  128 (445)
T 4b4t_P           51 DLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKL--SIQYMIQKVMEYLKSSKSLDLNTRISVIETIRVVTEN  128 (445)
T ss_dssp             STTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHH--HHHHHHHHHHHHHHHHCTTHHHHHHHHHHCCSSSSSC
T ss_pred             chhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHH--HHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHhcc
Confidence            34456777888999999999999998888776553 33222  223344332    2333333211  1111111   11


Q ss_pred             CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCC---HHhHHHHHHHHhhcCChhhHHHHHHHHHh---
Q 048616           75 GCYP---DAAAYNAAIRNYCIAKRLRDASGLMDEMVEK--GLSPN---ATTYNLFFRVFYWSNDLRSSWNLYCRMMG---  143 (272)
Q Consensus        75 ~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---  143 (272)
                      .+-.   .......|...+...|++.+|.+++.++...  |....   ...+...++.|...+++.+|..++.+...   
T Consensus       129 kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~  208 (445)
T 4b4t_P          129 KIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTF  208 (445)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhc
Confidence            1111   2234467888899999999999999998743  22211   24566777889999999999999988632   


Q ss_pred             -CCCCCC--HhhHHHHHHHHHhcCcHHHHHHHHHHHHHc-CCCccHH-----HHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          144 -TGCLPN--TQSCMFLVKLCKRQEKVEIALQLWNDMVEK-GFGSYIL-----VSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       144 -~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~-----~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                       ....|+  ...+...+..+...+++.+|.+.|.++... ....+..     .+..++... -.+....-..++......
T Consensus       209 ~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~i-La~~~~~~~~ll~~~~~~  287 (445)
T 4b4t_P          209 KNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFLV-LSPYGNLQNDLIHKIQND  287 (445)
T ss_dssp             HSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHH-HSSCSSTTHHHHHSHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHH-hCCCCchHHHHHHHHhhc
Confidence             222232  245677777888899999998888777543 1111221     122222222 222222222333333222


Q ss_pred             CCCCcHHhHHHHHHHHHHh--hhHHHHHHHHHH
Q 048616          215 GHKPSQVSFRRIKALMELA--NKQEALQNLSNK  245 (272)
Q Consensus       215 ~~~p~~~~~~~l~~~~~~~--~~~~~a~~~~~~  245 (272)
                      ..-++...|..++.+|...  .+++.+.+.|+.
T Consensus       288 ~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~  320 (445)
T 4b4t_P          288 NNLKKLESQESLVKLFTTNELMRWPIVQKTYEP  320 (445)
T ss_dssp             SSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCS
T ss_pred             ccccccHHHHHHHHHHHhchHhhhHHHHHHHHH
Confidence            2235667777788887654  235555555544

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=90.14  E-value=3.6  Score=28.90  Aligned_cols=74  Identities=15%  Similarity=0.130  Sum_probs=46.4

Q ss_pred             CCCHhhHHHHHHHHHh--cCcHHHHHHHHHHHHHcCCCcc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcH
Q 048616          147 LPNTQSCMFLVKLCKR--QEKVEIALQLWNDMVEKGFGSY-ILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQ  220 (272)
Q Consensus       147 ~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~  220 (272)
                      .-|..-....+.....  .++..+...+|..|..+|+... ...|......+...|++.+|.++|+.-++.+-.|-.
T Consensus        74 kND~RYLklWl~Ya~~~~~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~~  150 (202)
T 3esl_A           74 RNDPRFLKIWIWYINLFLSNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPYN  150 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHH
T ss_pred             cCCHHHHHHHHHHHHhhcccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccHH
Confidence            3344444433333322  4446677777777777765433 345667777777788888888888887777766643

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=90.05  E-value=2.1  Score=26.12  Aligned_cols=77  Identities=8%  Similarity=-0.033  Sum_probs=36.1

Q ss_pred             ChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHH
Q 048616          130 DLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFL  209 (272)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  209 (272)
                      ..++|..+-+.+...+.  ...+-.+-+..+...|++++|..+.+..    ..||...|-++-.  .+.|.-+++...+.
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~rL~   92 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGN----PWPALEPWFALCE--WHLGLGAALDRRLA   92 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTC----CCGGGHHHHHHHH--HHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHHHH
Confidence            34555555555544432  2222222233445566666665544332    2455554444432  25555555555555


Q ss_pred             HHHHc
Q 048616          210 EMIEK  214 (272)
Q Consensus       210 ~~~~~  214 (272)
                      ++..+
T Consensus        93 ~la~s   97 (115)
T 2uwj_G           93 GLGGS   97 (115)
T ss_dssp             HHHTC
T ss_pred             HHHhC
Confidence            55444

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=89.80  E-value=2.3  Score=26.06  Aligned_cols=49  Identities=14%  Similarity=-0.014  Sum_probs=21.3

Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 048616          159 LCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE  213 (272)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  213 (272)
                      .+...|++++|..+.+..    ..||...|-++-.  .+.|.-+++...+.++..
T Consensus        49 SLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~rL~~la~   97 (116)
T 2p58_C           49 SLMNRGDYASALQQGNKL----AYPDLEPWLALCE--YRLGLGSALESRLNRLAR   97 (116)
T ss_dssp             HHHHTTCHHHHHHHHTTS----CCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTT
T ss_pred             HHHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            344555555554444322    1444444433332  244544444444444433

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=89.67  E-value=0.00015  Score=57.99  Aligned_cols=82  Identities=13%  Similarity=0.137  Sum_probs=49.1

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      .+|..|..+..+.+++.+|++-|   .+.   -|+..|..++....+.|.+++-++.+...++..  .++..=+.|+-+|
T Consensus        55 ~VWs~LgkAqL~~~~v~eAIdsy---IkA---~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ay  126 (624)
T 3lvg_A           55 AVWSQLAKAQLQKGMVKEAIDSY---IKA---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFAL  126 (624)
T ss_dssp             CCSSSHHHHTTTSSSCTTTTTSS---CCC---SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHH
T ss_pred             cHHHHHHHHHHccCchHHHHHHH---HhC---CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHH
Confidence            45666666666666666665544   221   145556777777777777777777766655442  2334445667777


Q ss_pred             HhcCCHHHHH
Q 048616           91 CIAKRLRDAS  100 (272)
Q Consensus        91 ~~~~~~~~a~  100 (272)
                      ++.+++.+.+
T Consensus       127 Ak~~rL~elE  136 (624)
T 3lvg_A          127 AKTNRLAELE  136 (624)
T ss_dssp             HTSCSSSTTT
T ss_pred             HhhCcHHHHH
Confidence            7776655433

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=89.21  E-value=1.8  Score=31.87  Aligned_cols=208  Identities=13%  Similarity=0.065  Sum_probs=95.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHh---hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHH--HHHHHHH
Q 048616           15 CLIDVYCKDRQVEKAYKIVEKMRDEDISPDVI---SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAA--YNAAIRN   89 (272)
Q Consensus        15 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~   89 (272)
                      +.+...++.|+.+.+..+++    .|..++..   .-.+.+...+..|+.+    +++.+.+.|..++...  -...+..
T Consensus         7 ~~L~~A~~~g~~~~v~~Ll~----~g~~~~~~~~~~g~t~L~~A~~~g~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~   78 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQLLE----GGANVNFQEEEGGWTPLHNAVQMSRED----IVELLLRHGADPVLRKKNGATPFLL   78 (285)
T ss_dssp             HHHHHHHHTTCHHHHHHHHH----TTCCTTCCCTTTCCCHHHHHHHTTCHH----HHHHHHHTTCCTTCCCTTCCCHHHH
T ss_pred             hHHHHHHHcCCHHHHHHHHH----cCCCcccccCCCCCcHHHHHHHcCCHH----HHHHHHHcCCCCcccCCCCCCHHHH
Confidence            45556677888876665554    34333221   1123444555667654    4444455565443211  1122333


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCH---HhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHh-------------hH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNA---TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQ-------------SC  153 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------------~~  153 (272)
                      .+..|+.+    +++.+.+.|..++.   ..++ .+...+..|+.+-+    +.+.+.|..++..             -.
T Consensus        79 A~~~~~~~----~v~~Ll~~g~~~~~~~~~g~t-~L~~A~~~~~~~~~----~~Ll~~g~~~~~~~~~~~~~~~~~~~g~  149 (285)
T 1wdy_A           79 AAIAGSVK----LLKLFLSKGADVNECDFYGFT-AFMEAAVYGKVKAL----KFLYKRGANVNLRRKTKEDQERLRKGGA  149 (285)
T ss_dssp             HHHHTCHH----HHHHHHHTTCCTTCBCTTCCB-HHHHHHHTTCHHHH----HHHHHTTCCTTCCCCCCHHHHHTTCCCC
T ss_pred             HHHcCCHH----HHHHHHHcCCCCCccCcccCC-HHHHHHHhCCHHHH----HHHHHhCCCcccccccHHHHHhhccCCC
Confidence            44556654    44445555554432   1122 23344455665433    3334444333321             11


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHH--HHHH
Q 048616          154 MFLVKLCKRQEKVEIALQLWNDMVEKGFGSY---ILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFR--RIKA  228 (272)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~--~l~~  228 (272)
                       ..+...+..|+.+-+..+++.   .|..++   ..-.+.+ ...+..++.....++++.+.+.|..++.....  +.+.
T Consensus       150 -t~L~~A~~~~~~~~v~~Ll~~---~~~~~~~~~~~g~t~l-~~a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~  224 (285)
T 1wdy_A          150 -TALMDAAEKGHVEVLKILLDE---MGADVNACDNMGRNAL-IHALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLI  224 (285)
T ss_dssp             -CHHHHHHHHTCHHHHHHHHHT---SCCCTTCCCTTSCCHH-HHHHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHH
T ss_pred             -cHHHHHHHcCCHHHHHHHHHh---cCCCCCccCCCCCCHH-HHHHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHH
Confidence             233344456776655544432   132222   1111222 23345555555566666777777665543221  2334


Q ss_pred             HHHHhhhHHHHHHHHH
Q 048616          229 LMELANKQEALQNLSN  244 (272)
Q Consensus       229 ~~~~~~~~~~a~~~~~  244 (272)
                      .....|..+-+..+++
T Consensus       225 ~A~~~~~~~~v~~Ll~  240 (285)
T 1wdy_A          225 LAVEKKHLGLVQRLLE  240 (285)
T ss_dssp             HHHHTTCHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHh
Confidence            4445566554444443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=88.89  E-value=2.7  Score=25.69  Aligned_cols=88  Identities=15%  Similarity=-0.024  Sum_probs=62.5

Q ss_pred             CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHH
Q 048616          164 EKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLS  243 (272)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  243 (272)
                      -..++|..+-+.+...+.  ....--+=+..+.+.|++++|..+.+..    ..||...|.++  +-.+.|..+++...+
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~AL--ce~rlGl~s~le~rL   91 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGN----PWPALEPWFAL--CEWHLGLGAALDRRL   91 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTC----CCGGGHHHHHH--HHHHTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHH--HHHhcccHHHHHHHH
Confidence            367888888888877763  3333333445678999999999887665    48999888766  445678888888888


Q ss_pred             HHHHhcCCCCCCCHHHHHH
Q 048616          244 NKMALFGPSMIPKREEYLA  262 (272)
Q Consensus       244 ~~~~~~~~~~~p~~~~~~~  262 (272)
                      .++...|   .|....|..
T Consensus        92 ~~la~sg---~p~~q~Fa~  107 (115)
T 2uwj_G           92 AGLGGSS---DPALADFAA  107 (115)
T ss_dssp             HHHHTCS---SHHHHHHHH
T ss_pred             HHHHhCC---CHHHHHHHH
Confidence            7777655   466655543

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=88.64  E-value=7.7  Score=30.63  Aligned_cols=164  Identities=9%  Similarity=0.025  Sum_probs=89.0

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCC---CCHhhHHHHHHHHHhcC-ChhHHHHHHHHHHHcCCCCCHHHH--
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDE-DIS---PDVISYTSIIGGLGLVG-QPDKARDVLKEMKEYGCYPDAAAY--   83 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~---~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~--   83 (272)
                      .....|...|.+.|+.++..+++.....- +.-   -.......++..+.... ..+.-.++..+..+..- -+..+|  
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~r~flr   98 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK-QEKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH-HTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence            34556777788888888888888766431 001   12334566677666543 33444444444443210 111222  


Q ss_pred             ----HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-----HHhHHHHHHHHhhcCChhhHHHHHHHHHhC--CCCCCHhh
Q 048616           84 ----NAAIRNYCIAKRLRDASGLMDEMVEKGLSPN-----ATTYNLFFRVFYWSNDLRSSWNLYCRMMGT--GCLPNTQS  152 (272)
Q Consensus        84 ----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~  152 (272)
                          ..++..|...|++.+|.+++.++.+.=-..|     ...+..-+..|...+++.++...+......  .+.+++.+
T Consensus        99 ~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i  178 (394)
T 3txn_A           99 QSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKV  178 (394)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHH
Confidence                2567777888888888888777775411111     123444556677777888877777766332  12122222


Q ss_pred             HHHHHH-----HHH-hcCcHHHHHHHHHHH
Q 048616          153 CMFLVK-----LCK-RQEKVEIALQLWNDM  176 (272)
Q Consensus       153 ~~~l~~-----~~~-~~~~~~~a~~~~~~~  176 (272)
                      . ..+.     .+. ..+++..|...|-+.
T Consensus       179 ~-a~i~~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          179 Q-GALDLQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             H-HHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             H-HHHHHHhhHHHHHhccCHHHHHHHHHHH
Confidence            1 1111     233 567777777766553

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=88.54  E-value=2.9  Score=25.61  Aligned_cols=88  Identities=16%  Similarity=0.042  Sum_probs=62.1

Q ss_pred             CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHH
Q 048616          164 EKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLS  243 (272)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  243 (272)
                      -..++|..+-+.+...+.  ....--+=+..+.+.|++++|..+.+..    ..||...|.++.  -.+.|..+++...+
T Consensus        21 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALc--e~rlGl~s~le~rL   92 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKL----AYPDLEPWLALC--EYRLGLGSALESRL   92 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTS----CCGGGHHHHHHH--HHHHTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHH--HHhcccHHHHHHHH
Confidence            367888888888877763  3333233445678999999999988765    489998887763  45677788888878


Q ss_pred             HHHHhcCCCCCCCHHHHHH
Q 048616          244 NKMALFGPSMIPKREEYLA  262 (272)
Q Consensus       244 ~~~~~~~~~~~p~~~~~~~  262 (272)
                      .++...|   .|....|..
T Consensus        93 ~~la~sg---~p~~q~Fa~  108 (116)
T 2p58_C           93 NRLARSQ---DPRIQTFVN  108 (116)
T ss_dssp             HHHTTCC---CHHHHHHHH
T ss_pred             HHHHhCC---CHHHHHHHH
Confidence            7776555   466655543

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=87.25  E-value=4.2  Score=29.01  Aligned_cols=26  Identities=4%  Similarity=0.138  Sum_probs=15.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCC
Q 048616           17 IDVYCKDRQVEKAYKIVEKMRDEDIS   42 (272)
Q Consensus        17 i~~~~~~g~~~~a~~~~~~~~~~~~~   42 (272)
                      +...++.|+.+.+..+++.+.+.+..
T Consensus        13 L~~A~~~g~~~~v~~Ll~~~~~~~~~   38 (241)
T 1k1a_A           13 LHIAVVQGNLPAVHRLVNLFQQGGRE   38 (241)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            34445667777776666655554443

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=86.01  E-value=5.3  Score=25.95  Aligned_cols=79  Identities=9%  Similarity=-0.003  Sum_probs=49.5

Q ss_pred             CCCCHhhHHHHHHHHHhcC---cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHh
Q 048616          146 CLPNTQSCMFLVKLCKRQE---KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVS  222 (272)
Q Consensus       146 ~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  222 (272)
                      -.|+..+--.+..++.+..   +..+++.++.++.+.+..-.....--+.-++.+.|++++|.++.+.+.+.  .|+..-
T Consensus        36 ~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~--eP~N~Q  113 (134)
T 3o48_A           36 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNNKQ  113 (134)
T ss_dssp             GGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CTTCHH
T ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh--CCCCHH
Confidence            3556666555666666655   34567778877776653223344445566777888888888888888775  565544


Q ss_pred             HHHH
Q 048616          223 FRRI  226 (272)
Q Consensus       223 ~~~l  226 (272)
                      ...|
T Consensus       114 A~~L  117 (134)
T 3o48_A          114 VGAL  117 (134)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4333

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=85.80  E-value=5.7  Score=26.16  Aligned_cols=76  Identities=9%  Similarity=0.001  Sum_probs=50.0

Q ss_pred             CCCHhhHHHHHHHHHhcC---cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhH
Q 048616          147 LPNTQSCMFLVKLCKRQE---KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSF  223 (272)
Q Consensus       147 ~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~  223 (272)
                      .|+..+--.+..++.++.   +..+++.+++++.+.+..-.....-.+.-++.+.|++++|.++.+.+++.  .|+..-.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~--eP~n~QA  113 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNNKQV  113 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT--CCCCHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CCCcHHH
Confidence            466666666666676665   44567778888777543223333344566788889999999988888875  6655433


Q ss_pred             H
Q 048616          224 R  224 (272)
Q Consensus       224 ~  224 (272)
                      .
T Consensus       114 ~  114 (144)
T 1y8m_A          114 G  114 (144)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=85.21  E-value=6.2  Score=26.01  Aligned_cols=21  Identities=5%  Similarity=-0.089  Sum_probs=9.1

Q ss_pred             HHHhhcCChhhHHHHHHHHHh
Q 048616          123 RVFYWSNDLRSSWNLYCRMMG  143 (272)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~  143 (272)
                      -++.+.|++++|.+..+.+.+
T Consensus        85 vg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           85 IGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHh
Confidence            344444444444444444433

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=85.16  E-value=6.9  Score=26.54  Aligned_cols=122  Identities=9%  Similarity=0.036  Sum_probs=67.5

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcC-CCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCC
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYG-CYPDA-------AAYNAAIRNYCIAKRLRDASGLMDEMVEK--GLSPN  114 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~  114 (272)
                      ..++..-++.+...+.++.|+-+.+.+.... ..|+.       .++..+..++...+++..|...|++.++.  .+.-+
T Consensus        20 ~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~   99 (167)
T 3ffl_A           20 HMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKT   99 (167)
T ss_dssp             -CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC---
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcC
Confidence            3445556777888888998888877765321 12331       35566778888899999999999887543  11111


Q ss_pred             HHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 048616          115 ATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK  179 (272)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (272)
                      ..+...+ ..   ......         .....++...---+..++.+.+++++|+.+++.+...
T Consensus       100 ~s~~~~~-~~---~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          100 SKVRPST-GN---SASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             ------------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             CCccccc-cc---cCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            1111111 00   000000         0111223344444667778888888888888776544

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=84.97  E-value=13  Score=29.41  Aligned_cols=58  Identities=10%  Similarity=-0.074  Sum_probs=31.0

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616           50 SIIGGLGLVGQPDKARDVLKEMKEYGCYPD-----AAAYNAAIRNYCIAKRLRDASGLMDEMV  107 (272)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (272)
                      .++..|...|++.+|..++.++.+.=-..|     ..++-.-+..|...+++.++...+....
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~  166 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSAR  166 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            355566666666666666666654211111     1234444455666666666666665554

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=84.40  E-value=0.014  Score=47.06  Aligned_cols=87  Identities=16%  Similarity=0.121  Sum_probs=55.6

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      |+..|..+|....+.|.+++-.+.+...++.. + ++..=+.|+-+|++.++..+-.+++.       .|+..-...+..
T Consensus        82 Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~-k-e~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~iq~VGD  152 (624)
T 3lvg_A           82 DPSSYMEVVQAANTSGNWEELVKYLQMARKKA-R-ESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGD  152 (624)
T ss_dssp             CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC-C-STTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-c-ccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHHH
Confidence            56678889999999999999999886666542 2 44455678999999888765433321       233333344444


Q ss_pred             HHHhcCCHHHHHHHHH
Q 048616           89 NYCIAKRLRDASGLMD  104 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~  104 (272)
                      -|...|.++.|.-+|.
T Consensus       153 rcf~e~lYeAAKilys  168 (624)
T 3lvg_A          153 RCYDEKMYDAAKLLYN  168 (624)
T ss_dssp             HHHHSCCSTTSSTTGG
T ss_pred             HHHHccCHHHHHHHHH
Confidence            4555555555444443

>4a1g_A Mitotic checkpoint serine/threonine-protein kinas; cell cycle, transferase, spindle assembly checkpoint, mitosi repeat, KNL1, KMN network; 2.60A {Homo sapiens} PDB: 2lah_A

Probab=82.93  E-value=8.3  Score=25.72  Aligned_cols=51  Identities=18%  Similarity=0.198  Sum_probs=30.7

Q ss_pred             HHHHHHHHHHcCCCcc-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc
Q 048616          169 ALQLWNDMVEKGFGSY-ILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS  219 (272)
Q Consensus       169 a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~  219 (272)
                      ...+|..|..+|+-.. ...|......+...|++.+|.++|+.-++.+-.|-
T Consensus        84 p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P~  135 (152)
T 4a1g_A           84 LHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQAEPR  135 (152)
T ss_dssp             HHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            5566666666654322 34455566666666777777777766666655553

>2d2s_A Exocyst complex component EXO84; tethering complex, EXO84P, endocytosis/exocytosis complex; 2.85A {Saccharomyces cerevisiae} SCOP: a.118.17.2

Probab=81.67  E-value=13  Score=26.97  Aligned_cols=88  Identities=11%  Similarity=0.058  Sum_probs=43.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhC--CCCC----CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           16 LIDVYCKDRQVEKAYKIVEKMRDE--DISP----DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        16 li~~~~~~g~~~~a~~~~~~~~~~--~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      -++.+....++++|.+++++..+.  +.++    ........+..-.....-.-+..+.+++..   .++.......+..
T Consensus        24 eLDv~IA~r~feeAv~lle~~~~~l~~~~~~~~~~~~~~~~~l~~ki~eR~~~L~~~L~~~l~~---~~~~~~~r~~v~~  100 (235)
T 2d2s_A           24 EIDIELARLRFESAVETLLDIESQLEDLSERISDEELMLLNLISLKIEQRREAISSKLSQSILS---SNEIVHLKSGTEN  100 (235)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTC-------CHHHHHHHHHHHHHHHHHHHHHHHHHHT---CSSHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHhCcccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh---cCCHHHHHHHHHH
Confidence            355666777777777777765431  1221    111222223333333333333344444422   3445555555666


Q ss_pred             HHhcCCHHHHHHHHHHH
Q 048616           90 YCIAKRLRDASGLMDEM  106 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~  106 (272)
                      +.+.|+-++|.++|-+.
T Consensus       101 L~rLg~~~~A~~lfL~~  117 (235)
T 2d2s_A          101 MIKLGLPEQALDLFLQN  117 (235)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHCCChhHHHHHHHHH
Confidence            66677777776666444

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=81.40  E-value=16  Score=28.04  Aligned_cols=112  Identities=11%  Similarity=0.046  Sum_probs=61.3

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH----HHHHHHcCCCCCHHhHHHHH
Q 048616           47 SYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGL----MDEMVEKGLSPNATTYNLFF  122 (272)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~l~  122 (272)
                      +|.++..=|.+.+++++|++++..-.               ..+.+.|+...|-++    ++-+.+.++++|......++
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~GA---------------~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~  101 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILASVS---------------QTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLL  101 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHH---------------HHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            45555566666777777776654332               224444555444433    35555667778887777777


Q ss_pred             HHHhhcCChh-hHHHHHHHH----HhCC--CCCCHhhHHHHHHHHHhcCcHHHHHHHH
Q 048616          123 RVFYWSNDLR-SSWNLYCRM----MGTG--CLPNTQSCMFLVKLCKRQEKVEIALQLW  173 (272)
Q Consensus       123 ~~~~~~~~~~-~a~~~~~~~----~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~  173 (272)
                      ..+.....-+ .-.++++++    .+.|  ..-|......+...|.+.+++.+|+..|
T Consensus       102 ~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~  159 (336)
T 3lpz_A          102 GCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHL  159 (336)
T ss_dssp             HHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            7776654321 112222222    1111  2234455556666777777777776665

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=80.83  E-value=11  Score=26.71  Aligned_cols=180  Identities=11%  Similarity=-0.011  Sum_probs=88.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCCHHH--HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHh--HHHHHHHHh
Q 048616           51 IIGGLGLVGQPDKARDVLKEMKEYGCYPDAAA--YNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATT--YNLFFRVFY  126 (272)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~  126 (272)
                      .+...++.|+.+.+..+++.+.+.|..++...  -...+...+..|+.+    +++.+.+.|..++...  -...+...+
T Consensus        12 ~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~----~v~~Ll~~g~~~~~~~~~g~t~l~~A~   87 (241)
T 1k1a_A           12 PLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPS----VVRLLVTAGASPMALDRHGQTAAHLAC   87 (241)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHH----HHHHHHHTTCCTTCCCTTSCCHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCcccccCCCHHHHHHHcCCHH----HHHHHHHcCCCccccCCCCCCHHHHHH
Confidence            34455677898888888887777665544321  112344455667754    4455555665443221  112344455


Q ss_pred             hcCChhhHHHHHHHHHhCCCCC---CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHH---HHHHHHHHHHhcCC
Q 048616          127 WSNDLRSSWNLYCRMMGTGCLP---NTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYIL---VSDVLFDLLCDMGK  200 (272)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~li~~~~~~g~  200 (272)
                      ..|+.+-+..+++.....+..+   +..-.+. +...+..|+.+-+..++    +.|..++..   .-...+...+..|+
T Consensus        88 ~~~~~~~~~~Ll~~~~~~~~~~~~~~~~g~t~-L~~A~~~~~~~~~~~Ll----~~g~~~~~~~~~~g~t~L~~A~~~~~  162 (241)
T 1k1a_A           88 EHRSPTCLRALLDSAAPGTLDLEARNYDGLTA-LHVAVNTECQETVQLLL----ERGADIDAVDIKSGRSPLIHAVENNS  162 (241)
T ss_dssp             HTTCHHHHHHHHHHSCTTSCCTTCCCTTSCCH-HHHHHHHTCHHHHHHHH----HTTCCTTCCCTTTCCCHHHHHHHTTC
T ss_pred             HcCCHHHHHHHHHcCCCccccccccCcCCCcH-HHHHHHcCCHHHHHHHH----HcCCCcccccccCCCcHHHHHHHcCC
Confidence            6777766666655433111111   2222222 33344566665544444    444333221   11223444556777


Q ss_pred             HHHHHHHHHHHHHcCCCCcHHhHH--HHHHHHHHhhhHHHHHHHH
Q 048616          201 LVEAEKSFLEMIEKGHKPSQVSFR--RIKALMELANKQEALQNLS  243 (272)
Q Consensus       201 ~~~a~~~~~~~~~~~~~p~~~~~~--~l~~~~~~~~~~~~a~~~~  243 (272)
                      .+-+.    .+.+.|..++.....  +.+......|..+-+..++
T Consensus       163 ~~~v~----~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll  203 (241)
T 1k1a_A          163 LSMVQ----LLLQHGANVNAQMYSGSSALHSASGRGLLPLVRTLV  203 (241)
T ss_dssp             HHHHH----HHHHTTCCTTCBCTTSCBHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHH----HHHHcCCCCCCcCCCCCCHHHHHHHcCCHHHHHHHH
Confidence            66444    444556665443221  2333444556655444333

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=80.24  E-value=16  Score=27.11  Aligned_cols=118  Identities=7%  Similarity=-0.002  Sum_probs=79.1

Q ss_pred             HHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC--CccHHHHHHHHHHHHhcC
Q 048616          122 FRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGF--GSYILVSDVLFDLLCDMG  199 (272)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g  199 (272)
                      +....+.|++++++.....-++.. +.|...-..++..+|-.|+++.|.+-++...+...  .+...+|..+|.+     
T Consensus         4 ~~~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~a-----   77 (273)
T 1zbp_A            4 WKNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA-----   77 (273)
T ss_dssp             HHHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH-----
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHH-----
Confidence            345678899999999998887774 66788888899999999999999999988877642  2233345555543     


Q ss_pred             CHHHHHHHHHHHHHcCCCC----cHHhHH-HHHHHHH--HhhhHHHHHHHHHHHHhcC
Q 048616          200 KLVEAEKSFLEMIEKGHKP----SQVSFR-RIKALME--LANKQEALQNLSNKMALFG  250 (272)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~p----~~~~~~-~l~~~~~--~~~~~~~a~~~~~~~~~~~  250 (272)
                           +..=.+....+-.|    ....|. .++.+..  ..|+.++|.++-.+..+..
T Consensus        78 -----E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~a  130 (273)
T 1zbp_A           78 -----AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  130 (273)
T ss_dssp             -----HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             -----HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcC
Confidence                 22222222222222    112244 3666554  4689999999988887654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	272
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	7e-04

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (87), Expect = 7e-04
 Identities = 39/227 (17%), Positives = 71/227 (31%), Gaps = 7/227 (3%)

Query: 9   DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVL 68
             V+++ L  V+    ++  A    EK    D +  + +Y ++   L      D+A    
Sbjct: 168 FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAY 226

Query: 69  KEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPN-ATTYNLFFRVFYW 127
                          N A   Y     +  A       +E  L P+    Y         
Sbjct: 227 LRALSLSPNHAVVHGNLAC-VYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKE 283

Query: 128 SNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILV 187
              +  + +         C  +  S   L  + + Q  +E A++L+   +E  F  +   
Sbjct: 284 KGSVAEAED-CYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAA 341

Query: 188 SDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELAN 234
              L  +L   GKL EA   + E I      +         L E+ +
Sbjct: 342 HSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD 388

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	272
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.79
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.77
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.75
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.62
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.55
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.53
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.43
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.41
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.38
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.36
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.18
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.18
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.18
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.06
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.04
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.03
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.99
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.95
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.94
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.9
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.84
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.84
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.81
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.77
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.68
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.66
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.61
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.59
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.56
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.49
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.48
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.45
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.43
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.32
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.31
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.29
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.29
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.25
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.25
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.19
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.18
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.12
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.11
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.11
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.08
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.03
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.88
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.82
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.73
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.69
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.67
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.67
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.63
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.36
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.36
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.9
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.7
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.21
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.47
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.76
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.69
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.54

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=7.6e-16  Score=119.97  Aligned_cols=236  Identities=11%  Similarity=0.049  Sum_probs=137.3

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-----------
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCY-----------   77 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----------   77 (272)
                      +...+..+...|.+.|++++|+..|++..+..+. +..+|..+..++.+.|++++|+..+....+....           
T Consensus        32 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  110 (388)
T d1w3ba_          32 NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAA  110 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhcccccccccccccccccccccccccccccc
Confidence            4667777888888888888888888888775433 5677777888888888888887777665432210           


Q ss_pred             --------------------------------------------------------CCHHHHHHHHHHHHhcCCHHHHHH
Q 048616           78 --------------------------------------------------------PDAAAYNAAIRNYCIAKRLRDASG  101 (272)
Q Consensus        78 --------------------------------------------------------~~~~~~~~l~~~~~~~~~~~~a~~  101 (272)
                                                                              .+...+..+...+...|++++|..
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  190 (388)
T d1w3ba_         111 LVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIH  190 (388)
T ss_dssp             HHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHHHHHH
Confidence                                                                    011222333333444444455554


Q ss_pred             HHHHHHHcCCC---------------------------------CCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCC
Q 048616          102 LMDEMVEKGLS---------------------------------PNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLP  148 (272)
Q Consensus       102 ~~~~~~~~~~~---------------------------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  148 (272)
                      .+++..+..+.                                 .+...+..+...+.+.|++++|...|++..+.. +-
T Consensus       191 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~  269 (388)
T d1w3ba_         191 HFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PH  269 (388)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SS
T ss_pred             HHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CC
Confidence            44444433221                                 133444444455555555555555555554432 22


Q ss_pred             CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-HHhHHHHH
Q 048616          149 NTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS-QVSFRRIK  227 (272)
Q Consensus       149 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~  227 (272)
                      +..++..+..++...|++++|.+.++...... +.+...+..+...+...|++++|.+.|++..+.  .|+ ..++..+.
T Consensus       270 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la  346 (388)
T d1w3ba_         270 FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLA  346 (388)
T ss_dssp             CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            34455555555566666666666665555443 344455556666666666666666666666553  333 34455566


Q ss_pred             HHHHHhhhHHHHHHHHHHHHhc
Q 048616          228 ALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                      .++...|++++|...|++..+.
T Consensus       347 ~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         347 SVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh
Confidence            6667777777777777766543

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=1.1e-15  Score=119.06  Aligned_cols=220  Identities=15%  Similarity=0.089  Sum_probs=188.5

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      +...+..+...+...|++++|...+++..+..+. +...+..+...+...|++++|...+++....+ +.+...+..+..
T Consensus       168 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  245 (388)
T d1w3ba_         168 FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLAC  245 (388)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHhhcccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHH
Confidence            4567788888999999999999999998876433 67788999999999999999999999998875 456778888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHH
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEI  168 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (272)
                      .+.+.|++++|...|++..+..+. +..++..+...+...|++++|.+.++...... +.+...+..+...+.+.|++++
T Consensus       246 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  323 (388)
T d1w3ba_         246 VYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEE  323 (388)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHH
Confidence            999999999999999999987543 67888999999999999999999999987763 5677888889999999999999


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-HHhHHHHHHHHHHhhh
Q 048616          169 ALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS-QVSFRRIKALMELANK  235 (272)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~  235 (272)
                      |...+++..+.. +.+..++..+..++.+.|++++|.+.|++.++.  .|+ ...|..+..++.+.||
T Consensus       324 A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         324 AVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            999999988765 445677888999999999999999999999875  554 5567778888776654

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=2.7e-15  Score=114.54  Aligned_cols=231  Identities=10%  Similarity=-0.035  Sum_probs=184.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 048616           15 CLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAK   94 (272)
Q Consensus        15 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (272)
                      .....+.+.|++++|+..|+++.+..+. +..+|..+..++...|++++|...|++..+.. +-+...+..+...|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            3455678999999999999999987544 78899999999999999999999999999864 346788889999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCC--------------CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCC-CCCCHhhHHHHHHH
Q 048616           95 RLRDASGLMDEMVEKGLSP--------------NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTG-CLPNTQSCMFLVKL  159 (272)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~  159 (272)
                      ++++|.+.+++........              +.......+..+...+.+.++.+.+.+..... ..++..++..+...
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~  181 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVL  181 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHH
Confidence            9999999999988753210              00011112233445567788888888776542 23456678888889


Q ss_pred             HHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-cHHhHHHHHHHHHHhhhHHH
Q 048616          160 CKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKP-SQVSFRRIKALMELANKQEA  238 (272)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~  238 (272)
                      +...|++++|...++...... +.+...|..+...+...|++++|.+.|++.++.  .| +...+..+..+|...|++++
T Consensus       182 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~  258 (323)
T d1fcha_         182 FNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHRE  258 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCCCHHH
Confidence            999999999999999988775 445678888999999999999999999999886  34 45567779999999999999


Q ss_pred             HHHHHHHHHhcC
Q 048616          239 LQNLSNKMALFG  250 (272)
Q Consensus       239 a~~~~~~~~~~~  250 (272)
                      |...|++.++..
T Consensus       259 A~~~~~~al~l~  270 (323)
T d1fcha_         259 AVEHFLEALNMQ  270 (323)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC
Confidence            999999988743

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=4e-13  Score=102.28  Aligned_cols=203  Identities=12%  Similarity=0.052  Sum_probs=162.8

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC----------
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYP----------   78 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----------   78 (272)
                      ++..|..+..++...|++++|...|++..+..+. +...|..+...+...|++++|.+.+++........          
T Consensus        52 ~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  130 (323)
T d1fcha_          52 HMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEG  130 (323)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC-----
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccccccccccchhhHHHhccchHHHHHhhhhh
Confidence            5778999999999999999999999999886533 67888999999999999999999999988653110          


Q ss_pred             ----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhH
Q 048616           79 ----DAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGL-SPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSC  153 (272)
Q Consensus        79 ----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (272)
                          +.......+..+...+.+.+|.+.+.+..+... .++...+..+...+...|++++|...+++..... +-+..++
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~  209 (323)
T d1fcha_         131 AGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLW  209 (323)
T ss_dssp             ----------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             hhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccch
Confidence                001111222334455678889999988876543 2356778888899999999999999999987664 3457788


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          154 MFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      ..+..++...|++++|.+.++...+.. +-+...+..+..+|.+.|++++|.+.|++.++.
T Consensus       210 ~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         210 NKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            889999999999999999999998875 445677888999999999999999999998764

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.55  E-value=7.9e-12  Score=94.49  Aligned_cols=222  Identities=8%  Similarity=0.015  Sum_probs=171.7

Q ss_pred             HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh--------------cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 048616           26 VEKAYKIVEKMRDEDISPDVISYTSIIGGLGL--------------VGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYC   91 (272)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (272)
                      .+++..+|+++...- +.+...|..-+..+.+              .+..++|..+|++..+...+.+...|...+....
T Consensus        32 ~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            466788888887752 3366666665554322              2345788899999887655556778888899999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHH-HHhcCcHHHHH
Q 048616           92 IAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKL-CKRQEKVEIAL  170 (272)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  170 (272)
                      +.|+++.|..+|+++.+.........|...+..+.+.++++.|.++|+++.+... .+...|...... +...|+.+.|.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhccCHHHHH
Confidence            9999999999999999875443456788999999999999999999999987643 333444433332 34468999999


Q ss_pred             HHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCc--HHhHHHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          171 QLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKG-HKPS--QVSFRRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      .+|+.+.+.. +.+...|...++.+.+.|+++.|..+|++..... ..|+  ...|...+..-...|+.+.+..+++++.
T Consensus       190 ~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~  268 (308)
T d2onda1         190 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999998874 5567889999999999999999999999998764 3443  3467888888889999999999999987


Q ss_pred             hcC
Q 048616          248 LFG  250 (272)
Q Consensus       248 ~~~  250 (272)
                      +.-
T Consensus       269 ~~~  271 (308)
T d2onda1         269 TAF  271 (308)
T ss_dssp             HHT
T ss_pred             HHC
Confidence            754

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.53  E-value=1.9e-11  Score=92.55  Aligned_cols=233  Identities=9%  Similarity=0.011  Sum_probs=179.7

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC-ChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVG-QPDKARDVLKEMKEYGCYPDAAAYNAAIR   88 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (272)
                      ...|+.+-..+.+.+.+++|+++++++.+.++. +...|+....++...| ++++|+..+++..+.. +-+..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            457777777888999999999999999997544 7778898888888876 5899999999998875 347889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCc---
Q 048616           89 NYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEK---  165 (272)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  165 (272)
                      .+.+.|++++|++.++++.+..+. +...|..+...+...|++++|++.++++.+.+ +-+...|+.+...+.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccch
Confidence            999999999999999999998654 78899999999999999999999999998875 3466677776666655443   


Q ss_pred             ---HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-HHhHHHHHHHHHHh--------
Q 048616          166 ---VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS-QVSFRRIKALMELA--------  233 (272)
Q Consensus       166 ---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~--------  233 (272)
                         +++|...+....+.. +.+...|..+...+. ....+++.+.++...+....++ ...+..++..+...        
T Consensus       199 ~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~  276 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  276 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             hhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHH
Confidence               678999998888775 456677766655544 4456788888888876544332 33444466665433        


Q ss_pred             -hhHHHHHHHHHHHHh
Q 048616          234 -NKQEALQNLSNKMAL  248 (272)
Q Consensus       234 -~~~~~a~~~~~~~~~  248 (272)
                       ...+++..++..+.+
T Consensus       277 ~~~~~ka~~l~~~l~~  292 (315)
T d2h6fa1         277 EDILNKALELCEILAK  292 (315)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence             335666666665543

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.43  E-value=1.1e-10  Score=87.97  Aligned_cols=188  Identities=9%  Similarity=0.074  Sum_probs=151.7

Q ss_pred             CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 048616           25 QVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMD  104 (272)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  104 (272)
                      ..++|..+|++..+...+.+...|...+....+.|+++.|..+|+++.+........+|...+....+.|+.+.|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            45788999999887655556778888899999999999999999999876433345578999999999999999999999


Q ss_pred             HHHHcCCCCCHHhHHHHHHH-HhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC-CC
Q 048616          105 EMVEKGLSPNATTYNLFFRV-FYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKG-FG  182 (272)
Q Consensus       105 ~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~  182 (272)
                      +..+.+.. +...|...... +...|+.+.|..+|+.+... .+.+...+...+....+.|+++.|..+|++..+.. ..
T Consensus       159 ~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         159 KAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            99987544 44444443332 44568999999999999876 35567889999999999999999999999988764 23


Q ss_pred             cc--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616          183 SY--ILVSDVLFDLLCDMGKLVEAEKSFLEMIEK  214 (272)
Q Consensus       183 ~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  214 (272)
                      |.  ...|...+..-...|+.+.+.++++++.+.
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            33  457888888888999999999999988764

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.41  E-value=4.8e-11  Score=87.59  Aligned_cols=217  Identities=6%  Similarity=-0.089  Sum_probs=116.1

Q ss_pred             HHHHHHHHHHHhhCCCC-C--CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 048616           26 VEKAYKIVEKMRDEDIS-P--DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGL  102 (272)
Q Consensus        26 ~~~a~~~~~~~~~~~~~-~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  102 (272)
                      .+.++.-+++....... +  ...+|..+..+|.+.|++++|++.|++..+.. +-++.+|..+..++.+.|++++|++.
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            44555555555543211 1  22355566667777777777777777777653 33566677777777777777777777


Q ss_pred             HHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 048616          103 MDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFG  182 (272)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  182 (272)
                      |++..+..+. +..++..+..++...|++++|.+.|+...+.. +.+......+...+.+.+..+....+..........
T Consensus        94 ~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  171 (259)
T d1xnfa_          94 FDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKE  171 (259)
T ss_dssp             HHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCC
T ss_pred             hhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchh
Confidence            7777766433 45566666677777777777777777766543 223333333333444455544444444444433211


Q ss_pred             ccHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHcCCCCc-HHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          183 SYILVSDVLFDLLCDM----GKLVEAEKSFLEMIEKGHKPS-QVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       183 ~~~~~~~~li~~~~~~----g~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      +  ..+ .++..+...    +..+.+...+......  .|+ ..+|..+...+...|++++|...|++.....
T Consensus       172 ~--~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         172 Q--WGW-NIVEFYLGNISEQTLMERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             S--THH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             h--hhh-hHHHHHHHHHHHHHHHHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            1  111 122222221    1222333322222221  122 2344556677777777777777777766544

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.38  E-value=4.3e-11  Score=87.83  Aligned_cols=203  Identities=9%  Similarity=-0.107  Sum_probs=142.3

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      +.+|..+-..|.+.|++++|++.|++..+..+. +..+|..+..++.+.|++++|+..|++..+.. +-+..++..+..+
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~  114 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIA  114 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHH
Confidence            457777888999999999999999999987544 78899999999999999999999999999874 3356788889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhc----Cc
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQ----EK  165 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~  165 (272)
                      +...|++++|.+.|+...+..+. +......+...+.+.+..+....+........  ++...+. ++..+...    +.
T Consensus       115 ~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~~~~~~~  190 (259)
T d1xnfa_         115 LYYGGRDKLAQDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--KEQWGWN-IVEFYLGNISEQTL  190 (259)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--CCSTHHH-HHHHHTTSSCHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--hhhhhhh-HHHHHHHHHHHHHH
Confidence            99999999999999999987543 44444444455566666555655555554432  2222222 22222222    22


Q ss_pred             HHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHH
Q 048616          166 VEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQV  221 (272)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  221 (272)
                      .+.+...+....... +....+|..+...+...|++++|.+.|+..+..  .|+..
T Consensus       191 ~~~~~~~~~~~~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~  243 (259)
T d1xnfa_         191 MERLKADATDNTSLA-EHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHNF  243 (259)
T ss_dssp             HHHHHHHCCSHHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTTC
T ss_pred             HHHHHHHHHHhhhcC-cccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCH
Confidence            223322222222111 112346667888999999999999999999875  55543

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.36  E-value=2.8e-10  Score=86.04  Aligned_cols=200  Identities=11%  Similarity=0.096  Sum_probs=160.1

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 048616           45 VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAK-RLRDASGLMDEMVEKGLSPNATTYNLFFR  123 (272)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (272)
                      ...++.+...+.+.+.+++|+++++++.+.. +-+...|+....++...| ++++|+..++...+..+. +..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhH
Confidence            3456677778888999999999999999975 346778888888888876 589999999999988665 7889999999


Q ss_pred             HHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCC---
Q 048616          124 VFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGK---  200 (272)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---  200 (272)
                      .+.+.|++++|+..++++.+.. +-+...|..+...+.+.|++++|.+.++...+.+ +.+...|+.+...+.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccch
Confidence            9999999999999999998874 4578899999999999999999999999999886 4456677776666666555   


Q ss_pred             ---HHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          201 ---LVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       201 ---~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                         +++|.+.+...++... .+...|..+...+...+ .+++.+.++...+..
T Consensus       199 ~~~~~~ai~~~~~al~~~P-~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~  249 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQDRG-LSKYPNLLNQLLDLQ  249 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHT
T ss_pred             hhhhHHhHHHHHHHHHhCC-CchHHHHHHHHHHHhcC-hHHHHHHHHHHHHhC
Confidence               6789999998887632 25666666655555444 456667777776655

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.18  E-value=3.3e-08  Score=75.06  Aligned_cols=235  Identities=10%  Similarity=0.007  Sum_probs=130.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----HhhHHHHHHHHHhcCChhHHHHHHHHHHHcC----CCC-CHHHH
Q 048616           13 YNCLIDVYCKDRQVEKAYKIVEKMRDEDISPD----VISYTSIIGGLGLVGQPDKARDVLKEMKEYG----CYP-DAAAY   83 (272)
Q Consensus        13 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~   83 (272)
                      .......+...|++++|++++++..+.....+    ...+..+...+...|++++|...+++..+..    ..+ ....+
T Consensus        15 ~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          15 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            33344567788999999999998877532211    2356677788889999999999998876531    111 12345


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC---HHhHHHHHHHHhhcCChhhHHHHHHHHHhC----CCCCCHhh
Q 048616           84 NAAIRNYCIAKRLRDASGLMDEMVEK----GLSPN---ATTYNLFFRVFYWSNDLRSSWNLYCRMMGT----GCLPNTQS  152 (272)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~  152 (272)
                      ..+...+...|++..+...+.+....    +....   ...+..+...+...|+++.+...+......    +.......
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            56667788888888888888776532    11111   124445566777888888888887766432    11122233


Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHc----CCCc--cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc---HHhH
Q 048616          153 CMFLVKLCKRQEKVEIALQLWNDMVEK----GFGS--YILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPS---QVSF  223 (272)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~---~~~~  223 (272)
                      +......+...++...+...+......    +..+  ....+......+...|++++|...+....+.....+   ...+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            334444445555555555555443321    1000  112233344444555555555555554433221111   1122


Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHH
Q 048616          224 RRIKALMELANKQEALQNLSNKMA  247 (272)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~  247 (272)
                      ..+..++...|++++|...+++..
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al  278 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELN  278 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Confidence            234445555555555555555443

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.18  E-value=1.5e-08  Score=77.03  Aligned_cols=240  Identities=11%  Similarity=0.002  Sum_probs=171.6

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHhhCC----CC-CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCCC-
Q 048616           10 IVSYNCLIDVYCKDRQVEKAYKIVEKMRDED----IS-PDVISYTSIIGGLGLVGQPDKARDVLKEMKEY----GCYPD-   79 (272)
Q Consensus        10 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-   79 (272)
                      ...+..+...|...|++++|...|++..+..    .. .....+..+...+...|++..+...+.+....    +.... 
T Consensus        51 ~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~  130 (366)
T d1hz4a_          51 IVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLP  130 (366)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTST
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhh
Confidence            3467778889999999999999999886521    11 12345566777888999999999999877532    11111 


Q ss_pred             --HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC----CCHHhHHHHHHHHhhcCChhhHHHHHHHHHh----CCCCCC
Q 048616           80 --AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS----PNATTYNLFFRVFYWSNDLRSSWNLYCRMMG----TGCLPN  149 (272)
Q Consensus        80 --~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~  149 (272)
                        ...+..+...+...|+++.+...+.........    .....+......+...+++..+...+.+...    .+..+.
T Consensus       131 ~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~  210 (366)
T d1hz4a_         131 MHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSD  210 (366)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHH
T ss_pred             HHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCc
Confidence              235566778889999999999999988765322    2334556666778888999998888876533    111111


Q ss_pred             --HhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC---ccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCCcH
Q 048616          150 --TQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFG---SYILVSDVLFDLLCDMGKLVEAEKSFLEMIE----KGHKPSQ  220 (272)
Q Consensus       150 --~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~p~~  220 (272)
                        ...+......+...|+++.|...+.........   .....+..+..++...|++++|...++....    .+..|+.
T Consensus       211 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  290 (366)
T d1hz4a_         211 WISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDL  290 (366)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             hHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHH
Confidence              234555667788999999999999887654322   2234556678889999999999999998763    2444443


Q ss_pred             -HhHHHHHHHHHHhhhHHHHHHHHHHHHhc
Q 048616          221 -VSFRRIKALMELANKQEALQNLSNKMALF  249 (272)
Q Consensus       221 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (272)
                       ..+..+..++...|++++|.+.+++..+.
T Consensus       291 ~~~~~~la~~~~~~g~~~~A~~~l~~Al~l  320 (366)
T d1hz4a_         291 NRNLLLLNQLYWQAGRKSDAQRVLLDALKL  320 (366)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence             34556888999999999999999987553

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.18  E-value=1.5e-09  Score=82.70  Aligned_cols=240  Identities=7%  Similarity=0.013  Sum_probs=158.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHH----------HhcCChhHHHHHHHHHHHcCCCCCHHHH
Q 048616           14 NCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGL----------GLVGQPDKARDVLKEMKEYGCYPDAAAY   83 (272)
Q Consensus        14 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----------~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (272)
                      ..++......+..++|++++++..+.++. +...|+..-..+          ...|.+++|+.++++..+.. +.+...|
T Consensus        33 ~~~~~~~~~~~~~~~al~~~~~~l~~~P~-~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~  110 (334)
T d1dcea1          33 QAVFQKRQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTW  110 (334)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHH
Confidence            33444443444568999999999876433 444554433222          23345788999999988764 3467777


Q ss_pred             HHHHHHHHhcC--CHHHHHHHHHHHHHcCCCCCHHhHH-HHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHH
Q 048616           84 NAAIRNYCIAK--RLRDASGLMDEMVEKGLSPNATTYN-LFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLC  160 (272)
Q Consensus        84 ~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (272)
                      ..+..++...+  ++++|...+.+..+.... +...+. .....+...+.+++|+..++...+.+ +-+...|..+..++
T Consensus       111 ~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~  188 (334)
T d1dcea1         111 HHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLL  188 (334)
T ss_dssp             HHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHH
T ss_pred             HHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHH
Confidence            77777777665  478999999999887543 455554 44467777899999999999887775 34667777777777


Q ss_pred             HhcCcHHHHH------------------------------HHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 048616          161 KRQEKVEIAL------------------------------QLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLE  210 (272)
Q Consensus       161 ~~~~~~~~a~------------------------------~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  210 (272)
                      .+.|++++|.                              ..+....... +++...+..+...+...|+.++|...+.+
T Consensus       189 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  267 (334)
T d1dcea1         189 PQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQE  267 (334)
T ss_dssp             HHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            7766654321                              1122222121 12222333455566677888999998888


Q ss_pred             HHHcCCCC-cHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCCCHHHHHHhh
Q 048616          211 MIEKGHKP-SQVSFRRIKALMELANKQEALQNLSNKMALFGPSMIPKREEYLAEM  264 (272)
Q Consensus       211 ~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~p~~~~~~~ll  264 (272)
                      ..+.  .| +...+..+...+...|+.++|.+.+++..+..    |+...|..-+
T Consensus       268 ~~~~--~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld----P~~~~y~~~L  316 (334)
T d1dcea1         268 LEPE--NKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD----PMRAAYLDDL  316 (334)
T ss_dssp             HCTT--CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC----GGGHHHHHHH
T ss_pred             HHhh--CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC----cccHHHHHHH
Confidence            7654  34 34455668889999999999999999998865    8766665443

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.06  E-value=2.1e-08  Score=76.12  Aligned_cols=208  Identities=10%  Similarity=0.042  Sum_probs=148.3

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC--ChhHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHhcCCHHH
Q 048616           22 KDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVG--QPDKARDVLKEMKEYGCYPDAAAYN-AAIRNYCIAKRLRD   98 (272)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~   98 (272)
                      ..|++++|+..++...+.+++ +...|..+..++...+  ++++|...++++.+.. +++...+. .....+...+..++
T Consensus        85 ~~~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHH
Confidence            345588999999999887544 7778888877777765  4789999999998874 34455544 45567778899999


Q ss_pred             HHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHH------------------------------HHHHHHhCCCCC
Q 048616           99 ASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWN------------------------------LYCRMMGTGCLP  148 (272)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~------------------------------~~~~~~~~~~~~  148 (272)
                      |+..++..+..++. +...|+.+...+.+.|++++|..                              .+....... ++
T Consensus       163 Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~  240 (334)
T d1dcea1         163 ELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR-AE  240 (334)
T ss_dssp             HHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSC-CC
T ss_pred             HHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHHhC-cc
Confidence            99999999888654 77888888888888777655421                              112221111 22


Q ss_pred             CHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHh-HHHHH
Q 048616          149 NTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVS-FRRIK  227 (272)
Q Consensus       149 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~-~~~l~  227 (272)
                      +...+..+...+...++.++|...+.+..+.+ +.+...+..+..++.+.|+.++|.+.++...+.  .|+... |..+.
T Consensus       241 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~  317 (334)
T d1dcea1         241 PLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLR  317 (334)
T ss_dssp             CSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHH
Confidence            23334445556667789999999998887665 445677888899999999999999999999886  675444 44465


Q ss_pred             HHHHHhhhH
Q 048616          228 ALMELANKQ  236 (272)
Q Consensus       228 ~~~~~~~~~  236 (272)
                      ..+......
T Consensus       318 ~~~~~e~~~  326 (334)
T d1dcea1         318 SKFLLENSV  326 (334)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHhHhhHH
Confidence            555544433

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.04  E-value=4.9e-08  Score=67.83  Aligned_cols=128  Identities=9%  Similarity=-0.043  Sum_probs=88.9

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 048616           11 VSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNY   90 (272)
Q Consensus        11 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (272)
                      ..|+. -..+...|+++.|++.|+++    .+|+..+|..+..++...|++++|++.|++..+.. +.+...|..+..++
T Consensus         7 ~l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~   80 (192)
T d1hh8a_           7 SLWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   80 (192)
T ss_dssp             HHHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHH
Confidence            34554 44566788899998888764    24567788888888888899999999998888875 34677888888888


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCC---------------HHhHHHHHHHHhhcCChhhHHHHHHHHHhC
Q 048616           91 CIAKRLRDASGLMDEMVEKGLSPN---------------ATTYNLFFRVFYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (272)
                      .+.|++++|++.|++.........               ..++..+..++.+.|++++|.+.+....+.
T Consensus        81 ~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          81 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HhhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            888999888888888765321100               123334455566666666666666655544

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.03  E-value=3.5e-08  Score=73.38  Aligned_cols=60  Identities=15%  Similarity=0.037  Sum_probs=26.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDE----DISP-DVISYTSIIGGLGLVGQPDKARDVLKEM   71 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~   71 (272)
                      .|....+.|...|++++|.+.|.+..+.    +-++ ...+|..+..+|.+.|++++|.+.+++.
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a  103 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENA  103 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHh
Confidence            3444444444555555555555444321    1010 1233444444555555555555555443

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.99  E-value=7.2e-08  Score=66.95  Aligned_cols=124  Identities=10%  Similarity=-0.072  Sum_probs=90.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCCh
Q 048616           52 IGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDL  131 (272)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (272)
                      ...+...|+++.|++.|+++    .+|++.+|..+..+|...|++++|++.|++.++.... +...|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccH
Confidence            44567788999999888764    3567788888999999999999999999999887654 677888888899999999


Q ss_pred             hhHHHHHHHHHhCCCC--------------CC-HhhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 048616          132 RSSWNLYCRMMGTGCL--------------PN-TQSCMFLVKLCKRQEKVEIALQLWNDMVEKG  180 (272)
Q Consensus       132 ~~a~~~~~~~~~~~~~--------------~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (272)
                      ++|.+.|++.......              ++ ..++..+..++.+.|++++|.+.+....+..
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            9999988887543110              00 1234445555666666666666666655543

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.95  E-value=4.5e-08  Score=72.77  Aligned_cols=201  Identities=8%  Similarity=-0.004  Sum_probs=135.9

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-----CCHH
Q 048616           47 SYTSIIGGLGLVGQPDKARDVLKEMKEY----GCYP-DAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLS-----PNAT  116 (272)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~  116 (272)
                      .|......|...+++++|.+.|.+..+.    +-++ -..+|..+..+|.+.|++++|.+.+++..+....     ....
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            3555677888999999999999988753    2122 2357889999999999999999999987643111     1134


Q ss_pred             hHHHHHHHHhh-cCChhhHHHHHHHHHh----CCCCCC-HhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCcc-----H
Q 048616          117 TYNLFFRVFYW-SNDLRSSWNLYCRMMG----TGCLPN-TQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSY-----I  185 (272)
Q Consensus       117 ~~~~l~~~~~~-~~~~~~a~~~~~~~~~----~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~  185 (272)
                      ++..+...|.. .|++++|.+.+++..+    .+.++. ..++..+...+...|++++|...++++........     .
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~  198 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhH
Confidence            45566666644 6999999999988743    222221 34677888999999999999999999876532211     1


Q ss_pred             -HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CcH---HhHHHHHHHHHHh--hhHHHHHHHHHHHH
Q 048616          186 -LVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHK-PSQ---VSFRRIKALMELA--NKQEALQNLSNKMA  247 (272)
Q Consensus       186 -~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-p~~---~~~~~l~~~~~~~--~~~~~a~~~~~~~~  247 (272)
                       ..+...+..+...|+++.|.+.+++..+.... ++.   .....++.++...  +.++++...|+++.
T Consensus       199 ~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         199 KDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence             22334555677889999999999998765321 121   2233456665542  34677777776543

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=3.7e-08  Score=62.56  Aligned_cols=91  Identities=11%  Similarity=0.052  Sum_probs=49.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 048616           17 IDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRL   96 (272)
Q Consensus        17 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (272)
                      -+.+.+.|++++|+..|++..+..+. +...|..+..++...|++++|+..+++..+.+ +.+...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            34455555566666666555554322 44555555555555555555555555555543 23455555555555555555


Q ss_pred             HHHHHHHHHHHHc
Q 048616           97 RDASGLMDEMVEK  109 (272)
Q Consensus        97 ~~a~~~~~~~~~~  109 (272)
                      ++|+..|++..+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            5555555555544

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.90  E-value=9.1e-08  Score=64.30  Aligned_cols=91  Identities=15%  Similarity=0.044  Sum_probs=48.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 048616           17 IDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRL   96 (272)
Q Consensus        17 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (272)
                      -+.|.+.|++++|+..|++..+.++. +...|..+..++...|++++|.+.|++..+.. +-+..+|..+..++...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            34455555555555555555554322 44555555555555555555555555555543 22344555555555555555


Q ss_pred             HHHHHHHHHHHHc
Q 048616           97 RDASGLMDEMVEK  109 (272)
Q Consensus        97 ~~a~~~~~~~~~~  109 (272)
                      ++|...+++....
T Consensus        95 ~eA~~~~~~a~~~  107 (159)
T d1a17a_          95 RAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            5555555555554

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.84  E-value=4.4e-08  Score=68.50  Aligned_cols=99  Identities=11%  Similarity=-0.045  Sum_probs=53.4

Q ss_pred             cCHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616            8 PDIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus         8 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      |++..+...-+.|.+.|++++|+..|++..+..+. +...|..+..+|.+.|++++|+..|++..+.. +-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            45555555555555566666666666555544322 45555555555555555555555555555432 12344555555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 048616           88 RNYCIAKRLRDASGLMDEMVE  108 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~  108 (272)
                      .+|.+.|++++|+..|++..+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            555555555555555555443

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.84  E-value=2.1e-07  Score=58.95  Aligned_cols=89  Identities=13%  Similarity=0.039  Sum_probs=41.8

Q ss_pred             HHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChh
Q 048616           53 GGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLR  132 (272)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  132 (272)
                      ..+.+.|++++|+..|++..+.. +.+...|..+..++...|++++|+..+.+..+.++. +...|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHccCHH
Confidence            34444455555555555544432 223444444444455555555555555544444322 4444444444445555555


Q ss_pred             hHHHHHHHHHh
Q 048616          133 SSWNLYCRMMG  143 (272)
Q Consensus       133 ~a~~~~~~~~~  143 (272)
                      +|+..|++..+
T Consensus        89 ~A~~~~~~a~~   99 (117)
T d1elwa_          89 EAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            55555544443

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.81  E-value=2.9e-07  Score=61.77  Aligned_cols=86  Identities=16%  Similarity=0.076  Sum_probs=32.9

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHH
Q 048616           90 YCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIA  169 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (272)
                      |.+.|++++|+..|++.++..+. +...|..+..+|...|++++|...|++..+.+ +-+...|..+..++...|++++|
T Consensus        20 ~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~eA   97 (159)
T d1a17a_          20 YFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAA   97 (159)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHHHH
Confidence            33444444444444444433221 33333333334444444444444444333322 12223333333334444444444


Q ss_pred             HHHHHHHH
Q 048616          170 LQLWNDMV  177 (272)
Q Consensus       170 ~~~~~~~~  177 (272)
                      ...+++..
T Consensus        98 ~~~~~~a~  105 (159)
T d1a17a_          98 LRDYETVV  105 (159)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44443333

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.77  E-value=1.8e-07  Score=65.26  Aligned_cols=99  Identities=9%  Similarity=-0.086  Sum_probs=84.5

Q ss_pred             CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHH
Q 048616           43 PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFF  122 (272)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (272)
                      |+...+......+.+.|++++|+..|++..+.. +.++..|..+..+|.+.|++++|+..|++.++..+. +..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHHHH
Confidence            677788888899999999999999999988774 457788889999999999999999999999876443 577888899


Q ss_pred             HHHhhcCChhhHHHHHHHHHh
Q 048616          123 RVFYWSNDLRSSWNLYCRMMG  143 (272)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~  143 (272)
                      .+|...|++++|+..|++..+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999988765

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.68  E-value=1.9e-07  Score=58.58  Aligned_cols=89  Identities=3%  Similarity=-0.178  Sum_probs=47.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCC
Q 048616           51 IIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSND  130 (272)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  130 (272)
                      +...+.+.|++++|+..|++..+.. +-+...|..+..++.+.|++++|+..|++..+..+. +...|..+...|...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHCCC
Confidence            3444455555555555555555543 124555555555555555555555555555554332 44555555555555555


Q ss_pred             hhhHHHHHHHH
Q 048616          131 LRSSWNLYCRM  141 (272)
Q Consensus       131 ~~~a~~~~~~~  141 (272)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555543

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.66  E-value=2e-07  Score=59.40  Aligned_cols=96  Identities=9%  Similarity=-0.039  Sum_probs=69.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC---hhHHHHHHHHHHHcCCCCC-HHHHHHHHHH
Q 048616           14 NCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQ---PDKARDVLKEMKEYGCYPD-AAAYNAAIRN   89 (272)
Q Consensus        14 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~   89 (272)
                      ..+++.+...+++++|.+.|++....++. +..++..+..++.+.++   +++|+.+++++.+.+..|+ ..++..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            45677777888888888888888876533 67777777777776544   4468888888776543333 2366777888


Q ss_pred             HHhcCCHHHHHHHHHHHHHcC
Q 048616           90 YCIAKRLRDASGLMDEMVEKG  110 (272)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~  110 (272)
                      |.+.|++++|++.|++.++..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhHHHHHHHHHHHHhC
Confidence            888888888888888888764

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.61  E-value=3.1e-07  Score=58.47  Aligned_cols=100  Identities=11%  Similarity=0.013  Sum_probs=61.2

Q ss_pred             HHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcC---cHHHHHHHHHHHHHcCCCccH-HHHHHHHHHH
Q 048616          120 LFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQE---KVEIALQLWNDMVEKGFGSYI-LVSDVLFDLL  195 (272)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~  195 (272)
                      .++..+...+++++|.+.|++....+ +.+..++..+..++.+.+   ++++|+.+++++...+..|+. .++..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            45666666777777777777766654 445566666666665533   344577777766655433332 3455566667


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcHHh
Q 048616          196 CDMGKLVEAEKSFLEMIEKGHKPSQVS  222 (272)
Q Consensus       196 ~~~g~~~~a~~~~~~~~~~~~~p~~~~  222 (272)
                      .+.|++++|.+.|+++++.  .|+..-
T Consensus        83 ~~~g~~~~A~~~~~~aL~~--~P~~~~  107 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT--EPQNNQ  107 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHHhhhHHHHHHHHHHHHh--CcCCHH
Confidence            7777777777777777664  455443

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.59  E-value=1.7e-06  Score=54.05  Aligned_cols=91  Identities=7%  Similarity=-0.212  Sum_probs=71.4

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhh
Q 048616          155 FLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELAN  234 (272)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  234 (272)
                      .....+.+.|++++|...+++..... +-+...|..+..++.+.|++++|...|++.++... .+...+..+...+...|
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhccccccccccc-ccccchHHHHHHHHHCC
Confidence            34556778888888988888888775 44677888888888888999999999988887632 25666777888888889


Q ss_pred             hHHHHHHHHHHHH
Q 048616          235 KQEALQNLSNKMA  247 (272)
Q Consensus       235 ~~~~a~~~~~~~~  247 (272)
                      +.++|.+.+++.+
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999988888753

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.56  E-value=4.5e-05  Score=55.18  Aligned_cols=225  Identities=11%  Similarity=0.029  Sum_probs=156.6

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCCHHHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGL----VGQPDKARDVLKEMKEYGCYPDAAAYN   84 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (272)
                      |+..+..|-..+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...|...++...+.+   ++....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            45567777778888999999999999998876   55666667777765    668899999999988875   344445


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHh----hcCChhhHHHHHHHHHhCCCCCCHhhHHHH
Q 048616           85 AAIRNYCI----AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFY----WSNDLRSSWNLYCRMMGTGCLPNTQSCMFL  156 (272)
Q Consensus        85 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (272)
                      .+...+..    ..+.+.|...++...+.|..   .....+...+.    .......+...+......   .+...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhh
Confidence            55554443    56788899999998887642   22233333333    244556677777666554   355666667


Q ss_pred             HHHHHh----cCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCcHHhHHHHHH
Q 048616          157 VKLCKR----QEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCD----MGKLVEAEKSFLEMIEKGHKPSQVSFRRIKA  228 (272)
Q Consensus       157 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  228 (272)
                      ...+..    ..+...+...+....+.|   +......+...+..    ..++++|..+|....+.|   +...+..|..
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~  222 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  222 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             hhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHH
Confidence            777764    457778888888877765   33344445444544    568999999999998876   3445555666


Q ss_pred             HHHH----hhhHHHHHHHHHHHHhcCC
Q 048616          229 LMEL----ANKQEALQNLSNKMALFGP  251 (272)
Q Consensus       229 ~~~~----~~~~~~a~~~~~~~~~~~~  251 (272)
                      .|..    .++.++|.++|++....|.
T Consensus       223 ~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         223 MQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            6664    3478899999999988883

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.49  E-value=5.4e-06  Score=56.00  Aligned_cols=111  Identities=10%  Similarity=-0.037  Sum_probs=64.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYC   91 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (272)
                      .+...-+.+.+.|++++|+..|.+..+.......              ....-......+       -..+|+.+..+|.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~--------------~~~~~~~~~~~~-------~~~~~~nla~~y~   73 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESS--------------FSNEEAQKAQAL-------RLASHLNLAMCHL   73 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCC--------------CCSHHHHHHHHH-------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccc--------------cchHHHhhhchh-------HHHHHHHHHHHHH
Confidence            3444455677788888888888776653110000              000000000000       1124555666677


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC
Q 048616           92 IAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (272)
                      +.|++++|+..++..+...+. +..++..+..+|...|++++|...|+...+.
T Consensus        74 k~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          74 KLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhhhcccccchhhhhhhcccc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            777777777777777766433 5666667777777777777777777777654

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.48  E-value=7.2e-06  Score=55.35  Aligned_cols=83  Identities=5%  Similarity=-0.110  Sum_probs=65.7

Q ss_pred             HhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 048616          116 TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLL  195 (272)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  195 (272)
                      .+|+.+..+|.+.|++++|+..++.....+ +.+..++..+..++...|++++|...|+...+.+ +.+......+-...
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~  140 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQ  140 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            356778889999999999999999998874 4478889999999999999999999999998875 33555555554444


Q ss_pred             HhcCC
Q 048616          196 CDMGK  200 (272)
Q Consensus       196 ~~~g~  200 (272)
                      .+.+.
T Consensus       141 ~~~~~  145 (170)
T d1p5qa1         141 QRIRR  145 (170)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44333

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.45  E-value=4.5e-06  Score=53.46  Aligned_cols=96  Identities=19%  Similarity=0.199  Sum_probs=56.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-CC-----HHHHHHH
Q 048616           13 YNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCY-PD-----AAAYNAA   86 (272)
Q Consensus        13 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-----~~~~~~l   86 (272)
                      +..+-+.+.+.|++++|++.|++..+.++. +...+..+..+|.+.|++++|++.++++.+.... +.     ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            334555666667777777777666665432 5666666666677777777777776666542100 00     1245555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      ...+...+++++|++.|.+....
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            55566666666666666665544

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.43  E-value=1.2e-05  Score=53.24  Aligned_cols=108  Identities=11%  Similarity=0.004  Sum_probs=61.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC----CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDIS----PDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAI   87 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (272)
                      .+..-.+.+.+.|++++|+..|.+..+.-..    ++....                    .....    ....+|..+.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~--------------------~~~~~----~~~~~~~Nla   74 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILL--------------------DKKKN----IEISCNLNLA   74 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHH--------------------HHHHH----HHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHH--------------------Hhhhh----HHHHHHhhHH
Confidence            4445556777888888888888877653110    011000                    00000    0123455566


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC
Q 048616           88 RNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (272)
                      .+|.+.|++++|++.+++.++..+. +..+|..+..++...|++++|...|++..+.
T Consensus        75 ~~~~~l~~~~~Al~~~~~al~~~p~-~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          75 TCYNKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcccchhhhhhhccccccch-hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            6666666666666666666655432 5566666666666666666666666666554

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.32  E-value=1.1e-05  Score=54.38  Aligned_cols=79  Identities=9%  Similarity=-0.130  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHH
Q 048616           80 AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKL  159 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (272)
                      ...+..+..++.+.|++++|+..+++.++..+. +..+|..+..++.+.|++++|...|++..+.. +.+......+..+
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~-~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~  154 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKV  154 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhh-hhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            445566666777777777777777777765433 56667777777777777777777777776653 2244444444444


Q ss_pred             H
Q 048616          160 C  160 (272)
Q Consensus       160 ~  160 (272)
                      .
T Consensus       155 ~  155 (169)
T d1ihga1         155 K  155 (169)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.31  E-value=6.6e-06  Score=52.67  Aligned_cols=54  Identities=17%  Similarity=0.068  Sum_probs=22.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHH
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRM  141 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  141 (272)
                      ...+.+.|++++|+..|.+.++.++. +...+..+..+|.+.|++++|...++++
T Consensus        11 G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a   64 (128)
T d1elra_          11 GNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKA   64 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHH
Confidence            33344444444444444444443221 3333444444444444444444444443

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.29  E-value=1.7e-05  Score=53.39  Aligned_cols=84  Identities=8%  Similarity=-0.065  Sum_probs=59.7

Q ss_pred             CHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 048616          114 NATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFD  193 (272)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  193 (272)
                      ....|..+..++.+.|++++|+..+++..+.. +.+...|..+..++.+.|++++|...|+...+.. +.+......+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34456667778888888888888888887764 4466778888888888888888888888888765 335555555555


Q ss_pred             HHHhcC
Q 048616          194 LLCDMG  199 (272)
Q Consensus       194 ~~~~~g  199 (272)
                      +..+..
T Consensus       154 ~~~~l~  159 (169)
T d1ihga1         154 VKQKIK  159 (169)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444433

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.29  E-value=4.1e-05  Score=50.51  Aligned_cols=75  Identities=7%  Similarity=-0.080  Sum_probs=62.4

Q ss_pred             HhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHH
Q 048616          116 TTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLF  192 (272)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  192 (272)
                      .+|+.+..+|.+.|++++|++.+++..+.+ +.+..+|..+..++...|++++|...|....+.+ +.+..+...+-
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~-P~n~~~~~~l~  142 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYE  142 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            467788899999999999999999998774 5578899999999999999999999999999875 33444444443

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.25  E-value=4.2e-05  Score=51.29  Aligned_cols=62  Identities=11%  Similarity=0.038  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhC
Q 048616           82 AYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGT  144 (272)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (272)
                      +|+.+..+|.+.|++++|+..+++.+...+. +...|..+..++...|++++|...|++....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3445555666666666666666666665432 5556666666666666666666666666554

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.25  E-value=3.7e-05  Score=52.13  Aligned_cols=130  Identities=12%  Similarity=0.066  Sum_probs=77.3

Q ss_pred             CHHhHHHHH---HHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 048616            9 DIVSYNCLI---DVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNA   85 (272)
Q Consensus         9 ~~~~~~~li---~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (272)
                      |...|..+.   ......|++++|.+.|.+....-  +...        +......+-+...-..+...    ....+..
T Consensus         7 D~~~f~~~~~~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~--------l~~~~~~~w~~~~r~~l~~~----~~~a~~~   72 (179)
T d2ff4a2           7 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREW--RGPV--------LDDLRDFQFVEPFATALVED----KVLAHTA   72 (179)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CSST--------TGGGTTSTTHHHHHHHHHHH----HHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cccc--------cccCcchHHHHHHHHHHHHH----HHHHHHH
Confidence            444444444   46778899999999999988741  1110        00001111111111222211    2345566


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHH-----hCCCCCCHhhH
Q 048616           86 AIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMM-----GTGCLPNTQSC  153 (272)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~  153 (272)
                      +...+.+.|++++|+..++++....+. +...|..++.++.+.|+..+|++.|+++.     +.|+.|+..+-
T Consensus        73 la~~~~~~g~~~~Al~~~~~al~~~P~-~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          73 KAEAEIACGRASAVIAELEALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHCCCchHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            677777777777777777777776543 66777777777777777777777777652     34677776543

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.19  E-value=0.00011  Score=49.23  Aligned_cols=143  Identities=12%  Similarity=-0.024  Sum_probs=88.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCCh-hhHHHHHHHHHhCCCCCCHhhHHHHHH
Q 048616           80 AAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDL-RSSWNLYCRMMGTGCLPNTQSCMFLVK  158 (272)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (272)
                      ...+......+.+.|++++|...|++.+..-  +.             .-.. .........+       ...+|..+..
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~--~~-------------~~~~~~~~~~~~~~~-------~~~~~~Nla~   72 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWL--EM-------------EYGLSEKESKASESF-------LLAAFLNLAM   72 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TT-------------CCSCCHHHHHHHHHH-------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--HH-------------hhccchhhhhhcchh-------HHHHHHhHHH
Confidence            3455666677777788888887777655420  00             0000 0000001111       1235666778


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHH-hHHHHHHHHHHhhhH-
Q 048616          159 LCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQV-SFRRIKALMELANKQ-  236 (272)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~-  236 (272)
                      +|.+.|++++|+..++...+.+ +.+...|..+..++...|++++|...|.++.+.  .|+.. ....+.......+.. 
T Consensus        73 ~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l~~~~~~~~~~~  149 (168)
T d1kt1a1          73 CYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQIFMCQKKAKEHN  149 (168)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHhHH
Confidence            8889999999999999998876 567788888899999999999999999999876  45444 333344443333322 


Q ss_pred             HHHHHHHHHHH
Q 048616          237 EALQNLSNKMA  247 (272)
Q Consensus       237 ~~a~~~~~~~~  247 (272)
                      +...+++..|-
T Consensus       150 e~~kk~~~~~f  160 (168)
T d1kt1a1         150 ERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            23344444443

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.18  E-value=0.00015  Score=49.00  Aligned_cols=121  Identities=7%  Similarity=-0.055  Sum_probs=76.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcH
Q 048616           87 IRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKV  166 (272)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (272)
                      .......|++++|.+.|.+.+...  +....        .......-+...-..+..    .....+..+..++.+.|++
T Consensus        18 g~~~~~~g~~e~A~~~~~~AL~l~--rG~~l--------~~~~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~g~~   83 (179)
T d2ff4a2          18 GVHAAAAGRFEQASRHLSAALREW--RGPVL--------DDLRDFQFVEPFATALVE----DKVLAHTAKAEAEIACGRA   83 (179)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTC--CSSTT--------GGGTTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhC--ccccc--------ccCcchHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCCc
Confidence            345667788888888888777641  11100        000000111111111111    1234566777888888888


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCCcHHh
Q 048616          167 EIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIE-----KGHKPSQVS  222 (272)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~p~~~~  222 (272)
                      ++|...++.+.... +.+...|..++.++.+.|+.++|.+.|+++.+     .|+.|+..+
T Consensus        84 ~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          84 SAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             hHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            88888888888776 56778888888888888888888888887643     578887655

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.12  E-value=1.9e-05  Score=51.64  Aligned_cols=43  Identities=12%  Similarity=0.220  Sum_probs=26.2

Q ss_pred             CHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Q 048616          200 KLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSNKMALFG  250 (272)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (272)
                      .+++|.+.|+...+.  .|+...|..-+..+      .++.+++.+..+.|
T Consensus       101 ~~~~A~~~~~kal~l--~P~~~~~~~~L~~~------~ka~~~~~e~~k~~  143 (145)
T d1zu2a1         101 NFDLATQFFQQAVDE--QPDNTHYLKSLEMT------AKAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHHHHHHHHHHHH--CTTCHHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             hHHHhhhhhhccccc--CCCHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence            357788888888775  67766665433333      34455555555554

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.11  E-value=2.3e-05  Score=51.25  Aligned_cols=73  Identities=14%  Similarity=-0.061  Sum_probs=47.0

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhc----------CChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 048616           20 YCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLV----------GQPDKARDVLKEMKEYGCYPDAAAYNAAIRN   89 (272)
Q Consensus        20 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (272)
                      |-+.+.+++|+..|+...+..+. +..++..+..++...          +.+++|+..|++..+.. +.+..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P~-~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCCc-chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            44566788888888888876533 677777777776644          33456677777766653 2345666666666


Q ss_pred             HHhcC
Q 048616           90 YCIAK   94 (272)
Q Consensus        90 ~~~~~   94 (272)
                      |...|
T Consensus        85 y~~~g   89 (145)
T d1zu2a1          85 YTSFA   89 (145)
T ss_dssp             HHHHH
T ss_pred             HHHcc
Confidence            65543

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=98.11  E-value=6.1e-06  Score=59.82  Aligned_cols=50  Identities=14%  Similarity=0.199  Sum_probs=22.8

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHh
Q 048616           93 AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMG  143 (272)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (272)
                      .|++++|+..+++.++..+. +...+..+...++..|++++|...++...+
T Consensus         9 ~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~   58 (264)
T d1zbpa1           9 EGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIK   58 (264)
T ss_dssp             TTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34444444444444444322 344444444444444444444444444433

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=98.08  E-value=7.1e-06  Score=59.48  Aligned_cols=53  Identities=21%  Similarity=0.185  Sum_probs=32.7

Q ss_pred             HhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616           56 GLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      .+.|++++|+..+++..+.. +.+...+..+...++..|++++|.+.++...+.
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            34566666666666666553 335566666666666666666666666666655

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.03  E-value=0.0012  Score=49.20  Aligned_cols=49  Identities=12%  Similarity=0.154  Sum_probs=19.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHH
Q 048616           12 SYNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLK   69 (272)
Q Consensus        12 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   69 (272)
                      --..+.+.|.+.|.++.|..+|..+..         |..++..+.+.++++.|.+++.
T Consensus        16 d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~   64 (336)
T d1b89a_          16 HIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGAR   64 (336)
T ss_dssp             -------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHH
Confidence            334445555566666666666654321         3445555555555555555544

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.88  E-value=0.00029  Score=46.38  Aligned_cols=98  Identities=13%  Similarity=0.060  Sum_probs=55.2

Q ss_pred             HHhHHHH--HHHHHhcCCHHHHHHHHHHHhhCCCC-CC----------HhhHHHHHHHHHhcCChhHHHHHHHHHHHc--
Q 048616           10 IVSYNCL--IDVYCKDRQVEKAYKIVEKMRDEDIS-PD----------VISYTSIIGGLGLVGQPDKARDVLKEMKEY--   74 (272)
Q Consensus        10 ~~~~~~l--i~~~~~~g~~~~a~~~~~~~~~~~~~-~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--   74 (272)
                      ..+|..+  ...+.+.|++++|+..|++..+.... |+          ...|+.+..+|.+.|++++|...+++..+.  
T Consensus         7 a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~   86 (156)
T d2hr2a1           7 VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   86 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccc
Confidence            3455555  44555667788888888777652111 11          245666666667777777776666665532  


Q ss_pred             ---CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616           75 ---GCYPD-----AAAYNAAIRNYCIAKRLRDASGLMDEMV  107 (272)
Q Consensus        75 ---~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (272)
                         ...++     ...++.+..+|...|++++|+..|++..
T Consensus        87 ~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          87 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence               11111     1234555566666666666666666554

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.82  E-value=0.0001  Score=58.56  Aligned_cols=110  Identities=8%  Similarity=-0.107  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHH
Q 048616           82 AYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCK  161 (272)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (272)
                      .+..+...+.+.|+.++|...+.......   ....+..+...+...+++++|...|++..+.. +-+...|+.+...+.
T Consensus       122 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~  197 (497)
T d1ya0a1         122 KSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILAS  197 (497)
T ss_dssp             ---------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHH
T ss_pred             HHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            34444444444555555554444433221   11233444455555555555555555554442 223345555555555


Q ss_pred             hcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHH
Q 048616          162 RQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLC  196 (272)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  196 (272)
                      ..|+..+|...|.+..... +|...++..|...+.
T Consensus       198 ~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         198 SKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALS  231 (497)
T ss_dssp             HTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHH
Confidence            5555555555555554443 334444444444443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.73  E-value=0.0042  Score=46.12  Aligned_cols=209  Identities=9%  Similarity=-0.008  Sum_probs=122.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 048616           13 YNCLIDVYCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI   92 (272)
Q Consensus        13 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (272)
                      |..++..+.+.++++.|.+++.+..      +..+|..+...+.+......+     ++.......++.....++..|-.
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~  111 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQD  111 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHH
Confidence            4457777777788887777765431      566888888888877665443     22233344566667788999999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCH--------hhHHHHHHHHHhcC
Q 048616           93 AKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNT--------QSCMFLVKLCKRQE  164 (272)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~~~~~l~~~~~~~~  164 (272)
                      .|.+++...+++...... .++...++.++..|++.+ .++..+.++.... ...+..        ..|.-++-.|.+.|
T Consensus       112 ~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~-~y~~~k~~~~c~~~~l~~elv~Ly~~~~  188 (336)
T d1b89a_         112 RGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWS-RVNIPKVLRAAEQAHLWAELVFLYDKYE  188 (336)
T ss_dssp             TTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHST-TSCHHHHHHHHHTTTCHHHHHHHHHHTT
T ss_pred             cCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHHHHHHHHhccc-cCCHHHHHHHHHHcCChHHHHHHHHhcC
Confidence            999999999999876442 346777888888888764 4555555544321 111111        11333444444445


Q ss_pred             cHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHHhhhHHHHHHHHH
Q 048616          165 KVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMELANKQEALQNLSN  244 (272)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  244 (272)
                      .++.|..+.-   .+  .++..-....++.+.+..+.+...++.....+.  .|+  ..+.++......-+..++.+.++
T Consensus       189 ~~~~A~~~~i---~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p~--~i~~lL~~v~~~~d~~r~V~~~~  259 (336)
T d1b89a_         189 EYDNAIITMM---NH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KPL--LLNDLLMVLSPRLDHTRAVNYFS  259 (336)
T ss_dssp             CHHHHHHHHH---HS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CGG--GHHHHHHHHGGGCCHHHHHHHHH
T ss_pred             CHHHHHHHHH---Hc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CHH--HHHHHHHHhccCCCHHHHHHHHH
Confidence            5444443331   11  222222345666777778877777776666553  343  23444444444445544444443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.69  E-value=0.00022  Score=56.55  Aligned_cols=114  Identities=11%  Similarity=-0.014  Sum_probs=68.5

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFR  123 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (272)
                      +...+..+...+.+.|+.++|...+++..+..   ...++..+...+...|++++|...|++..+..+. +...|+.+..
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~  194 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAI  194 (497)
T ss_dssp             ------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHH
Confidence            45556666777777788888877776665431   2346677888888899999999999998887543 5678888988


Q ss_pred             HHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHh
Q 048616          124 VFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKR  162 (272)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (272)
                      .+...|+..+|...|.+..... +|...++..+...+.+
T Consensus       195 ~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         195 LASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHH
Confidence            9999999999999998887764 5666777777766654

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.67  E-value=0.0011  Score=43.54  Aligned_cols=56  Identities=16%  Similarity=0.103  Sum_probs=32.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCC-C----------CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048616           52 IGGLGLVGQPDKARDVLKEMKEYGCY-P----------DAAAYNAAIRNYCIAKRLRDASGLMDEMV  107 (272)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~-~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  107 (272)
                      ...+.+.|++++|+..|++..+.... |          ....|+.+..+|...|++++|.+.+++.+
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al   82 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhh
Confidence            33445567777777777776642110 1          12455566666666666666666666554

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.67  E-value=0.0042  Score=44.35  Aligned_cols=192  Identities=10%  Similarity=0.052  Sum_probs=132.3

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHhHH
Q 048616           44 DVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI----AKRLRDASGLMDEMVEKGLSPNATTYN  119 (272)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  119 (272)
                      |+..+..|...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...|...+......+   +.....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            35567777888888999999999999999876   56667777777776    668999999999888775   334444


Q ss_pred             HHHHHHhh----cCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHH----hcCcHHHHHHHHHHHHHcCCCccHHHHHHH
Q 048616          120 LFFRVFYW----SNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCK----RQEKVEIALQLWNDMVEKGFGSYILVSDVL  191 (272)
Q Consensus       120 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  191 (272)
                      .+...+..    ..+.+.|...++.....|...   ....+...+.    .......+...+......+   +...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~---a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAE---GCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHH---HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhhh---HHHhhcccccCCCcccchhHHHHHHhhhhhccc---ccchhhhh
Confidence            44444433    567788999999888776322   2222222222    3446777777777766543   34555666


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHHHcCCCCcHHhHHHHHHHHHH----hhhHHHHHHHHHHHHhcC
Q 048616          192 FDLLCD----MGKLVEAEKSFLEMIEKGHKPSQVSFRRIKALMEL----ANKQEALQNLSNKMALFG  250 (272)
Q Consensus       192 i~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  250 (272)
                      ...+..    ..+...+..+++...+.|   +......+...+..    .++.+.|..+|++..+.|
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g  212 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE  212 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT
T ss_pred             hhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc
Confidence            666664    567778888888887754   44555556555655    467889999999988776

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.63  E-value=0.00064  Score=40.43  Aligned_cols=65  Identities=8%  Similarity=-0.151  Sum_probs=37.2

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHcC-----CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048616           46 ISYTSIIGGLGLVGQPDKARDVLKEMKEYG-----CYPD-AAAYNAAIRNYCIAKRLRDASGLMDEMVEKG  110 (272)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (272)
                      ..+-.+...+.+.|++++|+..|++..+..     ..++ ..++..+..++.+.|++++|+..+++.++..
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            334455566666666666666666655321     1111 3456666666666666666666666666653

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=97.36  E-value=0.0057  Score=38.62  Aligned_cols=110  Identities=13%  Similarity=0.064  Sum_probs=58.4

Q ss_pred             CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHH
Q 048616           25 QVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCI----AKRLRDAS  100 (272)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  100 (272)
                      ++++|+++|++..+.|.   ...+..+..  ....+.++|++++++..+.|   ++..+..|...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~---~~a~~~l~~--~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE---MFGCLSLVS--NSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC---TTHHHHHHT--CTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCC---hhhhhhhcc--ccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            56677777777766652   222222322  23446667777777766655   34444445554443    34566666


Q ss_pred             HHHHHHHHcCCCCCHHhHHHHHHHHhh----cCChhhHHHHHHHHHhCC
Q 048616          101 GLMDEMVEKGLSPNATTYNLFFRVFYW----SNDLRSSWNLYCRMMGTG  145 (272)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  145 (272)
                      ++|++..+.|   ++.....|-..|..    ..+..+|.++|++..+.|
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            6666666654   23333334444433    345556666666555544

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.36  E-value=0.0011  Score=39.43  Aligned_cols=77  Identities=16%  Similarity=-0.028  Sum_probs=58.0

Q ss_pred             CHHhHHHHHHHHHhcCCHHHHHHHHHHHhhCC-----CCCC-HhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHH
Q 048616            9 DIVSYNCLIDVYCKDRQVEKAYKIVEKMRDED-----ISPD-VISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAA   82 (272)
Q Consensus         9 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   82 (272)
                      ++..+-.+-..+.+.|++++|+..|++..+..     ..++ ..++..+..++.+.|++++|++.++++.+.. +-+..+
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~-P~~~~a   82 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD-PEHQRA   82 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC-cCCHHH
Confidence            34445567788899999999999999886531     1122 4678889999999999999999999999874 223555


Q ss_pred             HHHH
Q 048616           83 YNAA   86 (272)
Q Consensus        83 ~~~l   86 (272)
                      ++.+
T Consensus        83 ~~Nl   86 (95)
T d1tjca_          83 NGNL   86 (95)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.90  E-value=0.017  Score=35.55  Aligned_cols=139  Identities=15%  Similarity=0.102  Sum_probs=77.9

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHH
Q 048616           57 LVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWN  136 (272)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  136 (272)
                      -.|..++..+++.+....   .+..-||.++--....-+=+-..++++.+-..   .|..          ..++......
T Consensus        14 ldG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDls----------~C~Nlk~vv~   77 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDLD----------KCQNLKSVVE   77 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCGG----------GCSCTHHHHH
T ss_pred             HhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCch----------hhhcHHHHHH
Confidence            345556666666655543   24444554554444444444444444444322   1111          1122222222


Q ss_pred             HHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 048616          137 LYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGH  216 (272)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  216 (272)
                      .+-.+     ..+...+...+.....+|+-+.-.++++.+.+.+ .+++...-.+..+|.+.|...++-+++.+..+.|+
T Consensus        78 C~~~~-----n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          78 CGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            22111     1233455666777778888888888888876654 66666667777888888888888888888888776


Q ss_pred             C
Q 048616          217 K  217 (272)
Q Consensus       217 ~  217 (272)
                      +
T Consensus       152 K  152 (161)
T d1wy6a1         152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            5

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.70  E-value=0.028  Score=35.24  Aligned_cols=46  Identities=9%  Similarity=-0.072  Sum_probs=21.6

Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 048616           60 QPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDASGLMDEMVEKG  110 (272)
Q Consensus        60 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (272)
                      |+++|+++|++..+.|..   ..+..|.  .....+.++|.+.+++..+.|
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g   53 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELN   53 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhccc
Confidence            456666666666655421   1222222  122344555555555555443

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.21  E-value=0.056  Score=33.19  Aligned_cols=141  Identities=13%  Similarity=0.040  Sum_probs=100.9

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 048616           20 YCKDRQVEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKEYGCYPDAAAYNAAIRNYCIAKRLRDA   99 (272)
Q Consensus        20 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   99 (272)
                      +.-.|.+++..+++.+...+.   +..-||-+|--....-+-+-..++++.+-+.   -|          ...++++...
T Consensus        12 ~ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FD----------ls~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FD----------LDKCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SC----------GGGCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhh---cC----------chhhhcHHHH
Confidence            455789999999999887752   5556777777777777777666666665432   22          1234455444


Q ss_pred             HHHHHHHHHcCCCCCHHhHHHHHHHHhhcCChhhHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 048616          100 SGLMDEMVEKGLSPNATTYNLFFRVFYWSNDLRSSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVEK  179 (272)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (272)
                      ...+-.+-     .++..++..+..+...|.-+...++++.+.+.+ .|+......+..+|.+.|...++.+++.+.-+.
T Consensus        76 v~C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~  149 (161)
T d1wy6a1          76 VECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKK  149 (161)
T ss_dssp             HHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH
Confidence            44443321     145567778888999999999999999876654 778888888999999999999999999998888


Q ss_pred             CCC
Q 048616          180 GFG  182 (272)
Q Consensus       180 ~~~  182 (272)
                      |++
T Consensus       150 G~K  152 (161)
T d1wy6a1         150 GEK  152 (161)
T ss_dssp             TCH
T ss_pred             hHH
Confidence            754

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.47  E-value=0.26  Score=30.11  Aligned_cols=75  Identities=9%  Similarity=0.011  Sum_probs=44.6

Q ss_pred             CCHhhHHHHHHHHHhc---CcHHHHHHHHHHHHHcCCCccHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcHHhHH
Q 048616          148 PNTQSCMFLVKLCKRQ---EKVEIALQLWNDMVEKGFGSYILVSDVLFDLLCDMGKLVEAEKSFLEMIEKGHKPSQVSFR  224 (272)
Q Consensus       148 ~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  224 (272)
                      ++..|--....++.++   ++.++++.+++++.+.+..-....+-.+.-+|.+.|++++|.+.++.+++.  .|+..-..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i--eP~n~qA~  110 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNNKQVG  110 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc--CCCcHHHH
Confidence            4444444455555544   355677778877776542112234445556677888888888888888775  55544333

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.76  E-value=0.38  Score=29.36  Aligned_cols=66  Identities=11%  Similarity=0.002  Sum_probs=39.4

Q ss_pred             CCHhhHHHHHHHHHhcC---ChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 048616           43 PDVISYTSIIGGLGLVG---QPDKARDVLKEMKEYGCYPD-AAAYNAAIRNYCIAKRLRDASGLMDEMVEK  109 (272)
Q Consensus        43 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (272)
                      |+..+--...-++.++.   +.++++.+++++.+.+ +.+ ...+..|.-+|.+.|++++|.+.++.+++.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            44445444555555443   3456777777776543 222 234455666677777777777777777766

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=93.69  E-value=0.31  Score=28.17  Aligned_cols=48  Identities=13%  Similarity=0.106  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 048616           26 VEKAYKIVEKMRDEDISPDVISYTSIIGGLGLVGQPDKARDVLKEMKE   73 (272)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   73 (272)
                      .=++.+-++.+...+..|++.+..+.+++|.+.+++..|.++|+-.+.
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~   69 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   69 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            334555555555556666666666666666666666666666666554

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=92.54  E-value=0.5  Score=27.31  Aligned_cols=46  Identities=11%  Similarity=0.216  Sum_probs=24.9

Q ss_pred             hHHHHHHHHHhCCCCCCHhhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 048616          133 SSWNLYCRMMGTGCLPNTQSCMFLVKLCKRQEKVEIALQLWNDMVE  178 (272)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (272)
                      ++.+-+..+...+..|+..+..+.+++|-+.+++..|.++++-++.
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~   69 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   69 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444444444455555555555555555555555555555555543