Citrus Sinensis ID: 039029

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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-------280-------290-------300-------310-------32
Protein Sequence
MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSNS
Secondary Structure (PSIPRED)
cccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEEcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHccc
Coil and Loop (DISEMBL)
mksrgvqpdsytygsfvsgmckeGRLEEASRMLEQMKenglvptavTYNTLIDGYCNKGNLEMAFSFRDEMVkqgimptasTYNLLIHELLMERKMVEADDMLKEmgekgivpdsitYNILINGycrcgnakkaFSLHDEMihkgiqptmLTYTSLIFVLSKQNRMIEADQLFENFLakgmlpdiVMFNALIDGHCTNGNIERAFSLLKEmdrmkvhpdevtyntlmhgrcrqGKVEEARRLLDQMKrrgikpdhisfnptrLTYNALIQGLCKNQEGDLAEELLREMVSkgitpddntyFSLIEGIASVDKAAESSNS
Flexible Loop (DISEMBL)
mksrgvqpdsytygsfvsgmcKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDevtyntlmhgrcrqgkvEEARRLLDQMKrrgikpdhisfnptRLTYNALIQGLCKNQEGDLAEELLREMVSKgitpddntyFSLIEGIAsvdkaaessns
Low Complexity Region (SEG)
MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSNS
Disordered region (IsUnstruct)
************YGSFVSG*******************NGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKV****RLL******GIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIA***********
Disordered Region (DISOPRED)
***RGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAES***
Disordered Region (DISEMBL)
*********SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASV*********
Disordered Region (DISPRO)
****GVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDK*******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSNS
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	319	2.2.26 [Sep-21-2011]
Q9ZQF1	627	Pentatricopeptide repeat-	yes	no	0.984	0.500	0.579	1e-111
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.934	0.402	0.373	6e-60
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.959	0.409	0.361	3e-58
O04504	606	Pentatricopeptide repeat-	no	no	0.934	0.491	0.352	8e-55
Q9CAN5	614	Pentatricopeptide repeat-	no	no	0.968	0.503	0.353	1e-54
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.968	0.516	0.329	7e-54
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.937	0.483	0.339	2e-53
Q9LFC5	729	Pentatricopeptide repeat-	no	no	0.990	0.433	0.312	4e-53
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.968	0.490	0.343	4e-53
O04491	607	Putative pentatricopeptid	no	no	0.946	0.497	0.321	5e-53

>sp|Q9ZQF1|PP152_ARATH Pentatricopeptide repeat-containing protein At2g15630, mitochondrial OS=Arabidopsis thaliana GN=At2g15630 PE=3 SV=1

 Score =  400 bits (1027), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 201/347 (57%), Positives = 254/347 (73%), Gaps = 33/347 (9%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           MKS+G QPD  TY   +S MC EGR   AS +L +MKE GLVP +V+YN LI G  N G+
Sbjct: 286 MKSKGFQPDMQTYNPILSWMCNEGR---ASEVLREMKEIGLVPDSVSYNILIRGCSNNGD 342

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           LEMAF++RDEMVKQG++PT  TYN LIH L ME K+  A+ +++E+ EKGIV DS+TYNI
Sbjct: 343 LEMAFAYRDEMVKQGMVPTFYTYNTLIHGLFMENKIEAAEILIREIREKGIVLDSVTYNI 402

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LINGYC+ G+AKKAF+LHDEM+  GIQPT  TYTSLI+VL ++N+  EAD+LFE  + KG
Sbjct: 403 LINGYCQHGDAKKAFALHDEMMTDGIQPTQFTYTSLIYVLCRKNKTREADELFEKVVGKG 462

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           M PD+VM N L+DGHC  GN++RAFSLLKEMD M ++PD+VTYN LM G C +GK EEAR
Sbjct: 463 MKPDLVMMNTLMDGHCAIGNMDRAFSLLKEMDMMSINPDDVTYNCLMRGLCGEGKFEEAR 522

Query: 241 RLLDQMKRRGIKPDHIS----------------------------FNPTRLTYNALIQGL 272
            L+ +MKRRGIKPDHIS                            FNPT LTYNAL++GL
Sbjct: 523 ELMGEMKRRGIKPDHISYNTLISGYSKKGDTKHAFMVRDEMLSLGFNPTLLTYNALLKGL 582

Query: 273 CKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSNS 319
            KNQEG+LAEELLREM S+GI P+D+++ S+IE ++++D  A+ S+S
Sbjct: 583 SKNQEGELAEELLREMKSEGIVPNDSSFCSVIEAMSNLD--AKKSDS 627

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WVK7|PPR12_ARATH Pentatricopeptide repeat-containing protein At1g05670, mitochondrial OS=Arabidopsis thaliana GN=At1g05670 PE=2 SV=1

 Score =  231 bits (589), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 114/305 (37%), Positives = 181/305 (59%), Gaps = 7/305 (2%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           MK +G++P+SY YGS +  +C+  +L EA     +M   G++P  V Y TLIDG+C +G+
Sbjct: 307 MKRKGLKPNSYIYGSIIGLLCRICKLAEAEEAFSEMIRQGILPDTVVYTTLIDGFCKRGD 366

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           +  A  F  EM  + I P   TY  +I        MVEA  +  EM  KG+ PDS+T+  
Sbjct: 367 IRAASKFFYEMHSRDITPDVLTYTAIISGFCQIGDMVEAGKLFHEMFCKGLEPDSVTFTE 426

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LINGYC+ G+ K AF +H+ MI  G  P ++TYT+LI  L K+  +  A++L       G
Sbjct: 427 LINGYCKAGHMKDAFRVHNHMIQAGCSPNVVTYTTLIDGLCKEGDLDSANELLHEMWKIG 486

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           + P+I  +N++++G C +GNIE A  L+ E +   ++ D VTY TLM   C+ G++++A+
Sbjct: 487 LQPNIFTYNSIVNGLCKSGNIEEAVKLVGEFEAAGLNADTVTYTTLMDAYCKSGEMDKAQ 546

Query: 241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY 300
            +L +M  +G++       PT +T+N L+ G C +   +  E+LL  M++KGI P+  T+
Sbjct: 547 EILKEMLGKGLQ-------PTIVTFNVLMNGFCLHGMLEDGEKLLNWMLAKGIAPNATTF 599

Query: 301 FSLIE 305
            SL++
Sbjct: 600 NSLVK 604

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIX3|PP407_ARATH Pentatricopeptide repeat-containing protein At5g39710 OS=Arabidopsis thaliana GN=EMB2745 PE=2 SV=1

 Score =  225 bits (574), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 113/313 (36%), Positives = 176/313 (56%), Gaps = 7/313 (2%)

Query: 6   VQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAF 65
           V P+ +TY   + G C  G ++ A  + ++M+  G +P  VTYNTLIDGYC    ++  F
Sbjct: 201 VSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRKIDDGF 260

Query: 66  SFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGY 125
                M  +G+ P   +YN++I+ L  E +M E   +L EM  +G   D +TYN LI GY
Sbjct: 261 KLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKGY 320

Query: 126 CRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDI 185
           C+ GN  +A  +H EM+  G+ P+++TYTSLI  + K   M  A +  +    +G+ P+ 
Sbjct: 321 CKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNE 380

Query: 186 VMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQ 245
             +  L+DG    G +  A+ +L+EM+     P  VTYN L++G C  GK+E+A  +L+ 
Sbjct: 381 RTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLED 440

Query: 246 MKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIE 305
           MK +G+ PD +S       Y+ ++ G C++ + D A  + REMV KGI PD  TY SLI+
Sbjct: 441 MKEKGLSPDVVS-------YSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSLIQ 493

Query: 306 GIASVDKAAESSN 318
           G     +  E+ +
Sbjct: 494 GFCEQRRTKEACD 506

Arabidopsis thaliana (taxid: 3702)

>sp|O04504|PPR27_ARATH Pentatricopeptide repeat-containing protein At1g09820 OS=Arabidopsis thaliana GN=At1g09820 PE=2 SV=1

 Score =  214 bits (545), Expect = 8e-55,   Method: Compositional matrix adjust.
 Identities = 109/309 (35%), Positives = 177/309 (57%), Gaps = 11/309 (3%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCN--- 57
           M  R +QP+ +T+   ++ +CK G++ +A  ++E MK  G  P  V+YNTLIDGYC    
Sbjct: 214 MIRRKIQPNVFTFNVVINALCKTGKMNKARDVMEDMKVYGCSPNVVSYNTLIDGYCKLGG 273

Query: 58  KGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSIT 117
            G +  A +   EMV+  + P  +T+N+LI     +  +  +  + KEM ++ + P+ I+
Sbjct: 274 NGKMYKADAVLKEMVENDVSPNLTTFNILIDGFWKDDNLPGSMKVFKEMLDQDVKPNVIS 333

Query: 118 YNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFL 177
           YN LING C  G   +A S+ D+M+  G+QP ++TY +LI    K + + EA  +F +  
Sbjct: 334 YNSLINGLCNGGKISEAISMRDKMVSAGVQPNLITYNALINGFCKNDMLKEALDMFGSVK 393

Query: 178 AKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVE 237
            +G +P   M+N LID +C  G I+  F+L +EM+R  + PD  TYN L+ G CR G +E
Sbjct: 394 GQGAVPTTRMYNMLIDAYCKLGKIDDGFALKEEMEREGIVPDVGTYNCLIAGLCRNGNIE 453

Query: 238 EARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDD 297
            A++L DQ+  +G+        P  +T++ L++G C+  E   A  LL+EM   G+ P  
Sbjct: 454 AAKKLFDQLTSKGL--------PDLVTFHILMEGYCRKGESRKAAMLLKEMSKMGLKPRH 505

Query: 298 NTYFSLIEG 306
            TY  +++G
Sbjct: 506 LTYNIVMKG 514

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN5|PPR98_ARATH Pentatricopeptide repeat-containing protein At1g63080, mitochondrial OS=Arabidopsis thaliana GN=At1g63080 PE=2 SV=1

 Score =  213 bits (543), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 112/317 (35%), Positives = 173/317 (54%), Gaps = 8/317 (2%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           M ++G++PD +TY S +S +C  GR  +ASR+L  M E  + P  VT+N+LID +  +G 
Sbjct: 266 MDNKGIRPDVFTYSSLISCLCNYGRWSDASRLLSDMLERKINPNVVTFNSLIDAFAKEGK 325

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           L  A    DEM+++ I P   TYN LI+   M  ++ EA  +   M  K  +PD +TYN 
Sbjct: 326 LIEAEKLFDEMIQRSIDPNIVTYNSLINGFCMHDRLDEAQQIFTLMVSKDCLPDVVTYNT 385

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LING+C+         L  +M  +G+    +TYT+LI    + +    A  +F+  ++ G
Sbjct: 386 LINGFCKAKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDG 445

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           + P+I+ +N L+DG C NG +E+A  + + + + K+ PD  TYN +  G C+ GKVE+  
Sbjct: 446 VHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKVEDGW 505

Query: 241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY 300
            L   +  +G+KPD I+       YN +I G CK    + A  L  +M   G  PD  TY
Sbjct: 506 DLFCSLSLKGVKPDVIA-------YNTMISGFCKKGLKEEAYTLFIKMKEDGPLPDSGTY 558

Query: 301 FSLIEG-IASVDKAAES 316
            +LI   +   DKAA +
Sbjct: 559 NTLIRAHLRDGDKAASA 575

Arabidopsis thaliana (taxid: 3702)

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

 Score =  211 bits (536), Expect = 7e-54,   Method: Compositional matrix adjust.
 Identities = 104/316 (32%), Positives = 185/316 (58%), Gaps = 7/316 (2%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           M+ RG  PD  TY   V+G+CKEGRL+EA + L  M  +G  P  +T+N ++   C+ G 
Sbjct: 265 MRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSMCSTGR 324

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
              A     +M+++G  P+  T+N+LI+ L  +  +  A D+L++M + G  P+S++YN 
Sbjct: 325 WMDAEKLLADMLRKGFSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSYNP 384

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           L++G+C+     +A    + M+ +G  P ++TY +++  L K  ++ +A ++     +KG
Sbjct: 385 LLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQLSSKG 444

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
             P ++ +N +IDG    G   +A  LL EM    + PD +TY++L+ G  R+GKV+EA 
Sbjct: 445 CSPVLITYNTVIDGLAKAGKTGKAIKLLDEMRAKDLKPDTITYSSLVGGLSREGKVDEAI 504

Query: 241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY 300
           +   + +R GI+P+ +       T+N+++ GLCK+++ D A + L  M+++G  P++ +Y
Sbjct: 505 KFFHEFERMGIRPNAV-------TFNSIMLGLCKSRQTDRAIDFLVFMINRGCKPNETSY 557

Query: 301 FSLIEGIASVDKAAES 316
             LIEG+A    A E+
Sbjct: 558 TILIEGLAYEGMAKEA 573

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NQ83|PP247_ARATH Pentatricopeptide repeat-containing protein At3g22470, mitochondrial OS=Arabidopsis thaliana GN=At3g22470 PE=2 SV=1

 Score =  209 bits (533), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 104/306 (33%), Positives = 167/306 (54%), Gaps = 7/306 (2%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           M+ +G++ D  TY S + G+C +G+ ++ ++ML +M    ++P  VT++ LID +  +G 
Sbjct: 271 MEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGK 330

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           L  A    +EM+ +GI P   TYN LI     E  + EA+ M   M  KG  PD +TY+I
Sbjct: 331 LLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSI 390

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LIN YC+         L  E+  KG+ P  +TY +L+    +  ++  A +LF+  +++G
Sbjct: 391 LINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRG 450

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           + P +V +  L+DG C NG + +A  + ++M + ++      YN ++HG C   KV++A 
Sbjct: 451 VPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAW 510

Query: 241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY 300
            L   +  +G+KPD +       TYN +I GLCK      A+ L R+M   G TPDD TY
Sbjct: 511 SLFCSLSDKGVKPDVV-------TYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTY 563

Query: 301 FSLIEG 306
             LI  
Sbjct: 564 NILIRA 569

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFC5|PP360_ARATH Pentatricopeptide repeat-containing protein At5g01110 OS=Arabidopsis thaliana GN=At5g01110 PE=2 SV=1

 Score =  208 bits (530), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 108/346 (31%), Positives = 178/346 (51%), Gaps = 30/346 (8%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           M+SR V PD   + S +S   + G L++A      +KE GL+P  V Y  LI GYC KG 
Sbjct: 366 MRSRDVVPDLVCFSSMMSLFTRSGNLDKALMYFNSVKEAGLIPDNVIYTILIQGYCRKGM 425

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           + +A + R+EM++QG      TYN ++H L   + + EAD +  EM E+ + PDS T  I
Sbjct: 426 ISVAMNLRNEMLQQGCAMDVVTYNTILHGLCKRKMLGEADKLFNEMTERALFPDSYTLTI 485

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LI+G+C+ GN + A  L  +M  K I+  ++TY +L+    K   +  A +++ + ++K 
Sbjct: 486 LIDGHCKLGNLQNAMELFQKMKEKRIRLDVVTYNTLLDGFGKVGDIDTAKEIWADMVSKE 545

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           +LP  + ++ L++  C+ G++  AF +  EM    + P  +  N+++ G CR G   +  
Sbjct: 546 ILPTPISYSILVNALCSKGHLAEAFRVWDEMISKNIKPTVMICNSMIKGYCRSGNASDGE 605

Query: 241 RLLDQMKRRGIKPDHISFN------------------------------PTRLTYNALIQ 270
             L++M   G  PD IS+N                              P   TYN+++ 
Sbjct: 606 SFLEKMISEGFVPDCISYNTLIYGFVREENMSKAFGLVKKMEEEQGGLVPDVFTYNSILH 665

Query: 271 GLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAES 316
           G C+  +   AE +LR+M+ +G+ PD +TY  +I G  S D   E+
Sbjct: 666 GFCRQNQMKEAEVVLRKMIERGVNPDRSTYTCMINGFVSQDNLTEA 711

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN0|PPR99_ARATH Pentatricopeptide repeat-containing protein At1g63130, mitochondrial OS=Arabidopsis thaliana GN=At1g63130 PE=2 SV=1

 Score =  208 bits (529), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 109/317 (34%), Positives = 172/317 (54%), Gaps = 8/317 (2%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           M ++G++P+  TY S +  +C  GR  +ASR+L  M E  + P  VT++ LID +  +G 
Sbjct: 282 MDNKGIRPNVVTYNSLIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGK 341

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           L  A    DEM+K+ I P   TY+ LI+   M  ++ EA  M + M  K   P+ +TYN 
Sbjct: 342 LVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNT 401

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LI G+C+     +   L  EM  +G+    +TYT+LI    +      A  +F+  ++ G
Sbjct: 402 LIKGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDG 461

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           +LPDI+ ++ L+DG C NG +E A  + + + R K+ PD  TYN ++ G C+ GKVE+  
Sbjct: 462 VLPDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGW 521

Query: 241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY 300
            L   +  +G+KP+ +       TY  ++ G C+    + A+ L REM  +G  PD  TY
Sbjct: 522 DLFCSLSLKGVKPNVV-------TYTTMMSGFCRKGLKEEADALFREMKEEGPLPDSGTY 574

Query: 301 FSLIEG-IASVDKAAES 316
            +LI   +   DKAA +
Sbjct: 575 NTLIRAHLRDGDKAASA 591

Arabidopsis thaliana (taxid: 3702)

>sp|O04491|PPR26_ARATH Putative pentatricopeptide repeat-containing protein At1g09680 OS=Arabidopsis thaliana GN=At1g09680 PE=3 SV=1

 Score =  208 bits (529), Expect = 5e-53,   Method: Compositional matrix adjust.
 Identities = 106/330 (32%), Positives = 179/330 (54%), Gaps = 28/330 (8%)

Query: 5   GVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMA 64
           G   + Y +   ++  CKEG + +A ++ +++ +  L PT V++NTLI+GYC  GNL+  
Sbjct: 235 GFPLNVYVFNILMNKFCKEGNISDAQKVFDEITKRSLQPTVVSFNTLINGYCKVGNLDEG 294

Query: 65  FSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILING 124
           F  + +M K    P   TY+ LI+ L  E KM  A  +  EM ++G++P+ + +  LI+G
Sbjct: 295 FRLKHQMEKSRTRPDVFTYSALINALCKENKMDGAHGLFDEMCKRGLIPNDVIFTTLIHG 354

Query: 125 YCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPD 184
           + R G        + +M+ KG+QP ++ Y +L+    K   ++ A  + +  + +G+ PD
Sbjct: 355 HSRNGEIDLMKESYQKMLSKGLQPDIVLYNTLVNGFCKNGDLVAARNIVDGMIRRGLRPD 414

Query: 185 IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLD 244
            + +  LIDG C  G++E A  + KEMD+  +  D V ++ L+ G C++G+V +A R L 
Sbjct: 415 KITYTTLIDGFCRGGDVETALEIRKEMDQNGIELDRVGFSALVCGMCKEGRVIDAERALR 474

Query: 245 QMKRRGIKPDHISFN----------------------------PTRLTYNALIQGLCKNQ 276
           +M R GIKPD +++                             P+ +TYN L+ GLCK  
Sbjct: 475 EMLRAGIKPDDVTYTMMMDAFCKKGDAQTGFKLLKEMQSDGHVPSVVTYNVLLNGLCKLG 534

Query: 277 EGDLAEELLREMVSKGITPDDNTYFSLIEG 306
           +   A+ LL  M++ G+ PDD TY +L+EG
Sbjct: 535 QMKNADMLLDAMLNIGVVPDDITYNTLLEG 564

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	319
255556189	643	pentatricopeptide repeat-containing prot	1.0	0.496	0.703	1e-143
224123236	590	predicted protein [Populus trichocarpa]	0.974	0.527	0.699	1e-139
225447872	656	PREDICTED: pentatricopeptide repeat-cont	1.0	0.486	0.680	1e-138
296081530	634	unnamed protein product [Vitis vinifera]	1.0	0.503	0.680	1e-138
147834641	580	hypothetical protein VITISV_016343 [Viti	1.0	0.55	0.677	1e-137
449438705	628	PREDICTED: pentatricopeptide repeat-cont	1.0	0.507	0.645	1e-131
449523421	628	PREDICTED: pentatricopeptide repeat-cont	1.0	0.507	0.645	1e-131
356544498	623	PREDICTED: pentatricopeptide repeat-cont	0.974	0.499	0.651	1e-129
357473123	624	Pentatricopeptide repeat-containing prot	0.996	0.509	0.595	1e-115
15226583	627	pentatricopeptide repeat-containing prot	0.984	0.500	0.579	1e-109

>gi|255556189|ref|XP_002519129.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223541792|gb|EEF43340.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  513 bits (1322), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 244/347 (70%), Positives = 284/347 (81%), Gaps = 28/347 (8%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           MK+RGV+PDSYTYGS +SGMCK G+LEEAS +LE+MKE GL+PTAVTYNTLIDGYCNKG+
Sbjct: 297 MKNRGVEPDSYTYGSLISGMCKGGKLEEASGILEKMKEIGLLPTAVTYNTLIDGYCNKGD 356

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           L  AF +RDEMV++ I+PT STYNLLIH L +E KM EAD M+K+MG+ GIVPDSITYNI
Sbjct: 357 LVKAFGYRDEMVRRAILPTVSTYNLLIHALFLEGKMDEADGMIKDMGDSGIVPDSITYNI 416

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LINGYCRCGNAKKAF+LHDEMI KGIQPT++TYTSLI+VLSK+NRM  AD LFE  + +G
Sbjct: 417 LINGYCRCGNAKKAFNLHDEMISKGIQPTLVTYTSLIYVLSKRNRMKAADDLFEKIIREG 476

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
             PD++MFNALIDGHC NGN++RAF+LLKEMD+  + PDEVTYNTLM GRCR+GKVEEAR
Sbjct: 477 ASPDLIMFNALIDGHCANGNLDRAFALLKEMDKRNIVPDEVTYNTLMQGRCREGKVEEAR 536

Query: 241 RLLDQMKRRGIKPDHIS----------------------------FNPTRLTYNALIQGL 272
            LL +MKRRGI+PDHIS                            FNPT LTYNALIQGL
Sbjct: 537 ELLKEMKRRGIRPDHISYNTLISGYSKRGDINDAFTIRDEMLSIGFNPTLLTYNALIQGL 596

Query: 273 CKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSNS 319
           CKNQ+GDLAEELL+EMVSKGITPDD+TYFSLIEGI  VD ++E+S+S
Sbjct: 597 CKNQQGDLAEELLKEMVSKGITPDDSTYFSLIEGIGKVDDSSEASDS 643

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224123236|ref|XP_002330266.1| predicted protein [Populus trichocarpa] gi|222871301|gb|EEF08432.1| predicted protein [Populus trichocarpa]

 Score =  502 bits (1292), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 237/339 (69%), Positives = 279/339 (82%), Gaps = 28/339 (8%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           MK RGV+PDSYTYGSF+SGMCKEG+LEEAS MLE+MKE GL PTAVTYNTLIDGYCNKGN
Sbjct: 252 MKCRGVKPDSYTYGSFISGMCKEGKLEEASGMLEKMKEIGLRPTAVTYNTLIDGYCNKGN 311

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           LEMAF +RD+MV++G+MPT STYN+LIH L ++ KM EAD ++KEM EKG+VPDS+TYNI
Sbjct: 312 LEMAFDYRDKMVREGLMPTVSTYNMLIHALFLDCKMDEADGIIKEMSEKGLVPDSVTYNI 371

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LINGYCRCGN KKAF+LHDEMI KGIQPT +TYTSLI+VLSK+ RM +AD LFE  + KG
Sbjct: 372 LINGYCRCGNVKKAFTLHDEMISKGIQPTRVTYTSLIYVLSKRGRMKQADDLFEKIVRKG 431

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           + PD++MFNALIDGHC NGN++RAF++LKEMD+MKV PDEVT+NTLM GRCR+GKVE AR
Sbjct: 432 IFPDLIMFNALIDGHCANGNMDRAFAMLKEMDQMKVVPDEVTFNTLMQGRCREGKVEAAR 491

Query: 241 RLLDQMKRRGIKPDHIS----------------------------FNPTRLTYNALIQGL 272
            L+++MK RGIKPDHIS                            FNPT LTYNALIQGL
Sbjct: 492 ELIEEMKSRGIKPDHISYNTLISGYSKRGDMKDAFRVRDEMLSIGFNPTLLTYNALIQGL 551

Query: 273 CKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVD 311
           CKN+EGD AE+LL+EM+SKGITP+DNTY SLIEGI +V+
Sbjct: 552 CKNEEGDHAEQLLKEMISKGITPNDNTYLSLIEGIGNVE 590

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225447872|ref|XP_002269015.1| PREDICTED: pentatricopeptide repeat-containing protein At2g15630, mitochondrial-like [Vitis vinifera]

 Score =  496 bits (1277), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 236/347 (68%), Positives = 279/347 (80%), Gaps = 28/347 (8%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           M+ +G++PDSYTYGS +SGMCKEGRLEEAS + ++M E GLVP AVTYNTLIDGYCNKG+
Sbjct: 310 MRVKGIEPDSYTYGSLISGMCKEGRLEEASGLFDKMVEIGLVPNAVTYNTLIDGYCNKGD 369

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           LE AFS+RDEMVK+GIMP+ STYNLL+H L ME +M EADDM+KEM +KGI+PD+ITYNI
Sbjct: 370 LERAFSYRDEMVKKGIMPSVSTYNLLVHALFMEGRMGEADDMIKEMRKKGIIPDAITYNI 429

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LINGY RCGNAKKAF LH+EM+ KGI+PT +TYTSLI+VLS++NRM EAD LFE  L +G
Sbjct: 430 LINGYSRCGNAKKAFDLHNEMLSKGIEPTHVTYTSLIYVLSRRNRMKEADDLFEKILDQG 489

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           + PD++MFNA++DGHC NGN+ERAF LLKEMDR  V PDEVT+NTLM GRCR+GKVEEAR
Sbjct: 490 VSPDVIMFNAMVDGHCANGNVERAFMLLKEMDRKSVPPDEVTFNTLMQGRCREGKVEEAR 549

Query: 241 RLLDQMKRRGIKPDHIS----------------------------FNPTRLTYNALIQGL 272
            LLD+MKRRGIKPDHIS                            FNPT LTYNALI+ L
Sbjct: 550 MLLDEMKRRGIKPDHISYNTLISGYGRRGDIKDAFRVRDEMLSIGFNPTLLTYNALIKCL 609

Query: 273 CKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSNS 319
           CKNQEGDLAEELL+EMV+KGI+PDD+TY SLIEG+ +VD   E + S
Sbjct: 610 CKNQEGDLAEELLKEMVNKGISPDDSTYLSLIEGMGNVDTLVEDNAS 656

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296081530|emb|CBI20053.3| unnamed protein product [Vitis vinifera]

 Score =  496 bits (1276), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 236/347 (68%), Positives = 279/347 (80%), Gaps = 28/347 (8%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           M+ +G++PDSYTYGS +SGMCKEGRLEEAS + ++M E GLVP AVTYNTLIDGYCNKG+
Sbjct: 288 MRVKGIEPDSYTYGSLISGMCKEGRLEEASGLFDKMVEIGLVPNAVTYNTLIDGYCNKGD 347

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           LE AFS+RDEMVK+GIMP+ STYNLL+H L ME +M EADDM+KEM +KGI+PD+ITYNI
Sbjct: 348 LERAFSYRDEMVKKGIMPSVSTYNLLVHALFMEGRMGEADDMIKEMRKKGIIPDAITYNI 407

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LINGY RCGNAKKAF LH+EM+ KGI+PT +TYTSLI+VLS++NRM EAD LFE  L +G
Sbjct: 408 LINGYSRCGNAKKAFDLHNEMLSKGIEPTHVTYTSLIYVLSRRNRMKEADDLFEKILDQG 467

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           + PD++MFNA++DGHC NGN+ERAF LLKEMDR  V PDEVT+NTLM GRCR+GKVEEAR
Sbjct: 468 VSPDVIMFNAMVDGHCANGNVERAFMLLKEMDRKSVPPDEVTFNTLMQGRCREGKVEEAR 527

Query: 241 RLLDQMKRRGIKPDHIS----------------------------FNPTRLTYNALIQGL 272
            LLD+MKRRGIKPDHIS                            FNPT LTYNALI+ L
Sbjct: 528 MLLDEMKRRGIKPDHISYNTLISGYGRRGDIKDAFRVRDEMLSIGFNPTLLTYNALIKCL 587

Query: 273 CKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSNS 319
           CKNQEGDLAEELL+EMV+KGI+PDD+TY SLIEG+ +VD   E + S
Sbjct: 588 CKNQEGDLAEELLKEMVNKGISPDDSTYLSLIEGMGNVDTLVEDNAS 634

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147834641|emb|CAN60904.1| hypothetical protein VITISV_016343 [Vitis vinifera]

 Score =  493 bits (1270), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 235/347 (67%), Positives = 278/347 (80%), Gaps = 28/347 (8%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           M+ +G++PDSYTYGS +SGMCKEGRLEEAS + ++M E GLVP AVTYNTLIDGYCNKG+
Sbjct: 234 MRVKGIEPDSYTYGSLISGMCKEGRLEEASGLFDKMVEIGLVPNAVTYNTLIDGYCNKGD 293

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           LE AFS+RDEMVK+GIMP+ STYNLL+H L ME +M EADDM+KEM +KGI+PD+ITYNI
Sbjct: 294 LERAFSYRDEMVKKGIMPSVSTYNLLVHALFMEGRMGEADDMIKEMRKKGIIPDAITYNI 353

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LINGY RCGNAK+AF LH+EM+ KGI+PT +TYTSLI+VLS++NRM EAD LFE  L +G
Sbjct: 354 LINGYSRCGNAKRAFDLHNEMLSKGIEPTHVTYTSLIYVLSRRNRMKEADDLFEKILDQG 413

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           + PD++MFNA+IDGHC NGN+ERAF LLKEMDR  V PDEVT+NTLM GRCR+GKVEEAR
Sbjct: 414 VSPDVIMFNAMIDGHCANGNVERAFMLLKEMDRKSVPPDEVTFNTLMQGRCREGKVEEAR 473

Query: 241 RLLDQMKRRGIKPDHIS----------------------------FNPTRLTYNALIQGL 272
            LLD+MK RGIKPDHIS                            FNPT LTYNALI+ L
Sbjct: 474 MLLDEMKXRGIKPDHISYNTLISGYGRRGDIKDAFXVRDEMLSIGFNPTLLTYNALIKCL 533

Query: 273 CKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSNS 319
           CKNQEGDLAEELL+EMV+KGI+PDD+TY SLIEG+ +VD   E + S
Sbjct: 534 CKNQEGDLAEELLKEMVNKGISPDDSTYLSLIEGMGNVDTLVEDNAS 580

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449438705|ref|XP_004137128.1| PREDICTED: pentatricopeptide repeat-containing protein At2g15630, mitochondrial-like [Cucumis sativus]

 Score =  475 bits (1223), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 224/347 (64%), Positives = 273/347 (78%), Gaps = 28/347 (8%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           MK + ++PDS+TYGS +SGMCK+GRLEEAS++ E+M + GL P+AV YNTLIDG+CNKGN
Sbjct: 282 MKRQKIEPDSFTYGSLISGMCKQGRLEEASKIFEEMVQKGLRPSAVIYNTLIDGFCNKGN 341

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           L+MA +++DEM+K+GI PT STYN LIH L ME++  EA+ M+KE+ EKGI PD+ITYNI
Sbjct: 342 LDMASAYKDEMLKKGISPTMSTYNSLIHALFMEQRTDEAECMIKEIQEKGISPDAITYNI 401

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LINGYCRC NAKKAF LHDEM+  GI+PT  TYTSL+ VLSK+NRM EAD LF+   ++G
Sbjct: 402 LINGYCRCANAKKAFLLHDEMLASGIKPTKKTYTSLLHVLSKKNRMKEADDLFKKITSEG 461

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           +LPD++MFNALIDGHC+N N++ AF LLK+MDRMKV PDEVT+NT+M G CR+GKVEEAR
Sbjct: 462 VLPDVIMFNALIDGHCSNSNVKGAFELLKDMDRMKVPPDEVTFNTIMQGHCREGKVEEAR 521

Query: 241 RLLDQMKRRGIKPDHISFN----------------------------PTRLTYNALIQGL 272
            L D+MKRRGIKPDHISFN                            PT LTYNAL+QGL
Sbjct: 522 ELFDEMKRRGIKPDHISFNTLISGYSRRGDIKDAFRVRNEMLDTGFNPTVLTYNALVQGL 581

Query: 273 CKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSNS 319
           CKNQEGDLAEELL+EMVSKG+TPDD TYF+LIEGIA V+   E+ N+
Sbjct: 582 CKNQEGDLAEELLKEMVSKGMTPDDTTYFTLIEGIAKVNIPDENKNT 628

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449523421|ref|XP_004168722.1| PREDICTED: pentatricopeptide repeat-containing protein At2g15630, mitochondrial-like [Cucumis sativus]

 Score =  473 bits (1218), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 224/347 (64%), Positives = 272/347 (78%), Gaps = 28/347 (8%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           MK + ++PDS+TYGS +SGMCK+GRLEEAS++ E+M + GL P+AV YNTLIDG+CNKGN
Sbjct: 282 MKRQKIEPDSFTYGSLISGMCKQGRLEEASKIFEEMVQKGLRPSAVIYNTLIDGFCNKGN 341

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           L+MA +++DEM+K+GI PT STYN LIH L ME++  EA+ M+KE+ EKGI PD+ITYNI
Sbjct: 342 LDMASAYKDEMLKKGISPTMSTYNSLIHALFMEQRTDEAECMIKEIQEKGISPDAITYNI 401

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LINGYCRC NAKKAF LHDEM+  GI+PT  TYTSL+ VLSK+NRM EAD LF+   ++G
Sbjct: 402 LINGYCRCANAKKAFLLHDEMLASGIKPTKKTYTSLLHVLSKKNRMKEADDLFKKITSEG 461

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           +LPD +MFNALIDGHC+N N++ AF LLK+MDRMKV PDEVT+NT+M G CR+GKVEEAR
Sbjct: 462 VLPDAIMFNALIDGHCSNSNVKGAFELLKDMDRMKVPPDEVTFNTIMQGHCREGKVEEAR 521

Query: 241 RLLDQMKRRGIKPDHISFN----------------------------PTRLTYNALIQGL 272
            L D+MKRRGIKPDHISFN                            PT LTYNAL+QGL
Sbjct: 522 ELFDEMKRRGIKPDHISFNTLISGYSRRGDIKDAFRVRNEMLDTGFNPTVLTYNALVQGL 581

Query: 273 CKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSNS 319
           CKNQEGDLAEELL+EMVSKG+TPDD TYF+LIEGIA V+   E+ N+
Sbjct: 582 CKNQEGDLAEELLKEMVSKGMTPDDTTYFTLIEGIAKVNIPDENKNT 628

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356544498|ref|XP_003540687.1| PREDICTED: pentatricopeptide repeat-containing protein At2g15630, mitochondrial-like [Glycine max]

 Score =  466 bits (1200), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 221/339 (65%), Positives = 269/339 (79%), Gaps = 28/339 (8%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           MK +G++PD YTY SF+SG+CKEGRLEEAS ++ +M E GLVP AVTYN LIDGYCNKG+
Sbjct: 277 MKDKGLEPDCYTYNSFISGLCKEGRLEEASGLICKMLEGGLVPNAVTYNALIDGYCNKGD 336

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           L+ A+++RDEM+ +GIM +  TYNL IH L ME +M +AD+M+KEM EKG++PD++T+NI
Sbjct: 337 LDKAYAYRDEMISKGIMASLVTYNLFIHALFMEGRMGDADNMIKEMREKGMMPDAVTHNI 396

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LINGYCRCG+AK+AF L DEM+ KGIQPT++TYTSLI+VL K+NRM EAD LF     +G
Sbjct: 397 LINGYCRCGDAKRAFGLLDEMVGKGIQPTLVTYTSLIYVLGKRNRMKEADALFSKIQQEG 456

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           +LPDI++FNALIDGHC NGNI+RAF LLKEMD MKV PDE+TYNTLM G CR+GKVEEAR
Sbjct: 457 LLPDIIVFNALIDGHCANGNIDRAFQLLKEMDNMKVLPDEITYNTLMQGYCREGKVEEAR 516

Query: 241 RLLDQMKRRGIKPDHISFN----------------------------PTRLTYNALIQGL 272
           +LLD+MKRRGIKPDHIS+N                            PT LTYNALIQGL
Sbjct: 517 QLLDEMKRRGIKPDHISYNTLISGYSKRGDMKDAFRVRDEMMTTGFDPTILTYNALIQGL 576

Query: 273 CKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVD 311
           CKNQEG+ AEELL+EMVSKGITPDD+TY S+IE + +VD
Sbjct: 577 CKNQEGEHAEELLKEMVSKGITPDDSTYLSIIEAMETVD 615

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357473123|ref|XP_003606846.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355507901|gb|AES89043.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  420 bits (1080), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 206/346 (59%), Positives = 255/346 (73%), Gaps = 28/346 (8%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           MK + ++PD YTY SF+S +CKE R+EEAS +L ++ E+GLVP AVTYN LIDG CNKG+
Sbjct: 278 MKDKNLKPDCYTYNSFISRLCKERRIEEASGVLCKLLESGLVPNAVTYNALIDGCCNKGD 337

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           L+ AF++RDEM+ +GI+ +  TYNLLIH L +E+++ EA+DM+KEM EKG+ PD +TYNI
Sbjct: 338 LDKAFAYRDEMMNRGIVASVFTYNLLIHALFLEKRIEEAEDMIKEMREKGVEPDVVTYNI 397

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
            INGYCRCGNAKKA SL DEM+ K I+PT+ TYTSLI V  K+NRM EA++ F+  + +G
Sbjct: 398 QINGYCRCGNAKKALSLFDEMVEKNIRPTVETYTSLIDVFGKRNRMSEAEEKFKKSIKEG 457

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           MLPDI+MFNALIDGHC NGNI+RAF LLKEMD  KV PDEVT+NTLM G CR+ KVEEA+
Sbjct: 458 MLPDIIMFNALIDGHCVNGNIDRAFQLLKEMDNAKVVPDEVTFNTLMQGYCRERKVEEAK 517

Query: 241 RLLDQMKRRGIKPDHISFN----------------------------PTRLTYNALIQGL 272
           +LLD+MK RGIKPDHIS+N                            PT LTYNALIQG 
Sbjct: 518 KLLDEMKERGIKPDHISYNTLISGYSKRGDMKDALEVFDEMLSLGFDPTLLTYNALIQGY 577

Query: 273 CKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN 318
            K  E D AEELLREM SKGITPDD+TY  +IE + + D   E+ +
Sbjct: 578 SKIGEADHAEELLREMQSKGITPDDSTYLYVIEAMKTNDDLVENDD 623

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15226583|ref|NP_179165.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75216226|sp|Q9ZQF1.1|PP152_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At2g15630, mitochondrial; Flags: Precursor gi|4335729|gb|AAD17407.1| putative salt-inducible protein [Arabidopsis thaliana] gi|330251331|gb|AEC06425.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  400 bits (1027), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 201/347 (57%), Positives = 254/347 (73%), Gaps = 33/347 (9%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           MKS+G QPD  TY   +S MC EGR   AS +L +MKE GLVP +V+YN LI G  N G+
Sbjct: 286 MKSKGFQPDMQTYNPILSWMCNEGR---ASEVLREMKEIGLVPDSVSYNILIRGCSNNGD 342

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           LEMAF++RDEMVKQG++PT  TYN LIH L ME K+  A+ +++E+ EKGIV DS+TYNI
Sbjct: 343 LEMAFAYRDEMVKQGMVPTFYTYNTLIHGLFMENKIEAAEILIREIREKGIVLDSVTYNI 402

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
           LINGYC+ G+AKKAF+LHDEM+  GIQPT  TYTSLI+VL ++N+  EAD+LFE  + KG
Sbjct: 403 LINGYCQHGDAKKAFALHDEMMTDGIQPTQFTYTSLIYVLCRKNKTREADELFEKVVGKG 462

Query: 181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
           M PD+VM N L+DGHC  GN++RAFSLLKEMD M ++PD+VTYN LM G C +GK EEAR
Sbjct: 463 MKPDLVMMNTLMDGHCAIGNMDRAFSLLKEMDMMSINPDDVTYNCLMRGLCGEGKFEEAR 522

Query: 241 RLLDQMKRRGIKPDHIS----------------------------FNPTRLTYNALIQGL 272
            L+ +MKRRGIKPDHIS                            FNPT LTYNAL++GL
Sbjct: 523 ELMGEMKRRGIKPDHISYNTLISGYSKKGDTKHAFMVRDEMLSLGFNPTLLTYNALLKGL 582

Query: 273 CKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSNS 319
            KNQEG+LAEELLREM S+GI P+D+++ S+IE ++++D  A+ S+S
Sbjct: 583 SKNQEGELAEELLREMKSEGIVPNDSSFCSVIEAMSNLD--AKKSDS 627

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	319
TAIR|locus:2053552	627	AT2G15630 "AT2G15630" [Arabido	0.934	0.475	0.581	1.1e-89
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.952	0.406	0.363	2.3e-55
TAIR|locus:2015228	614	AT1G63080 [Arabidopsis thalian	0.968	0.503	0.353	1.9e-51
TAIR|locus:2024301	606	AT1G09820 "AT1G09820" [Arabido	0.971	0.511	0.352	2.4e-51
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.968	0.516	0.329	8.3e-51
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.931	0.479	0.342	2.8e-50
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.968	0.490	0.343	5.8e-50
TAIR|locus:2024367	607	AT1G09680 "AT1G09680" [Arabido	0.918	0.482	0.326	8.5e-49
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.959	0.405	0.341	2.1e-48
TAIR|locus:2203916	634	AT1G62590 [Arabidopsis thalian	0.968	0.487	0.334	3.7e-48

TAIR|locus:2053552 AT2G15630 "AT2G15630" [Arabidopsis thaliana (taxid:3702)]

 Score = 895 (320.1 bits), Expect = 1.1e-89, P = 1.1e-89
 Identities = 179/308 (58%), Positives = 225/308 (73%)

Query:     1 MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
             MKS+G QPD  TY   +S MC EGR   AS +L +MKE GLVP +V+YN LI G  N G+
Sbjct:   286 MKSKGFQPDMQTYNPILSWMCNEGR---ASEVLREMKEIGLVPDSVSYNILIRGCSNNGD 342

Query:    61 LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
             LEMAF++RDEMVKQG++PT  TYN LIH L ME K+  A+ +++E+ EKGIV DS+TYNI
Sbjct:   343 LEMAFAYRDEMVKQGMVPTFYTYNTLIHGLFMENKIEAAEILIREIREKGIVLDSVTYNI 402

Query:   121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
             LINGYC+ G+AKKAF+LHDEM+  GIQPT  TYTSLI+VL ++N+  EAD+LFE  + KG
Sbjct:   403 LINGYCQHGDAKKAFALHDEMMTDGIQPTQFTYTSLIYVLCRKNKTREADELFEKVVGKG 462

Query:   181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
             M PD+VM N L+DGHC  GN++RAFSLLKEMD M ++PD+VTYN LM G C +GK EEAR
Sbjct:   463 MKPDLVMMNTLMDGHCAIGNMDRAFSLLKEMDMMSINPDDVTYNCLMRGLCGEGKFEEAR 522

Query:   241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY 300
              L+ +MKRRGIKPDHIS       YN LI G  K  +   A  +  EM+S G  P   TY
Sbjct:   523 ELMGEMKRRGIKPDHIS-------YNTLISGYSKKGDTKHAFMVRDEMLSLGFNPTLLTY 575

Query:   301 FSLIEGIA 308
              +L++G++
Sbjct:   576 NALLKGLS 583

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2164910 EMB2745 "EMBRYO DEFECTIVE 2745" [Arabidopsis thaliana (taxid:3702)]

 Score = 571 (206.1 bits), Expect = 2.3e-55, P = 2.3e-55
 Identities = 113/311 (36%), Positives = 175/311 (56%)

Query:     6 VQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAF 65
             V P+ +TY   + G C  G ++ A  + ++M+  G +P  VTYNTLIDGYC    ++  F
Sbjct:   201 VSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRKIDDGF 260

Query:    66 SFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGY 125
                  M  +G+ P   +YN++I+ L  E +M E   +L EM  +G   D +TYN LI GY
Sbjct:   261 KLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKGY 320

Query:   126 CRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDI 185
             C+ GN  +A  +H EM+  G+ P+++TYTSLI  + K   M  A +  +    +G+ P+ 
Sbjct:   321 CKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNE 380

Query:   186 VMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQ 245
               +  L+DG    G +  A+ +L+EM+     P  VTYN L++G C  GK+E+A  +L+ 
Sbjct:   381 RTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLED 440

Query:   246 MKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIE 305
             MK +G+ PD +S       Y+ ++ G C++ + D A  + REMV KGI PD  TY SLI+
Sbjct:   441 MKEKGLSPDVVS-------YSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSLIQ 493

Query:   306 GIASVDKAAES 316
             G     +  E+
Sbjct:   494 GFCEQRRTKEA 504

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0009793 "embryo development ending in seed dormancy" evidence=NAS

TAIR|locus:2015228 AT1G63080 [Arabidopsis thaliana (taxid:3702)]

 Score = 534 (193.0 bits), Expect = 1.9e-51, P = 1.9e-51
 Identities = 112/317 (35%), Positives = 173/317 (54%)

Query:     1 MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
             M ++G++PD +TY S +S +C  GR  +ASR+L  M E  + P  VT+N+LID +  +G 
Sbjct:   266 MDNKGIRPDVFTYSSLISCLCNYGRWSDASRLLSDMLERKINPNVVTFNSLIDAFAKEGK 325

Query:    61 LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
             L  A    DEM+++ I P   TYN LI+   M  ++ EA  +   M  K  +PD +TYN 
Sbjct:   326 LIEAEKLFDEMIQRSIDPNIVTYNSLINGFCMHDRLDEAQQIFTLMVSKDCLPDVVTYNT 385

Query:   121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
             LING+C+         L  +M  +G+    +TYT+LI    + +    A  +F+  ++ G
Sbjct:   386 LINGFCKAKKVVDGMELFRDMSRRGLVGNTVTYTTLIHGFFQASDCDNAQMVFKQMVSDG 445

Query:   181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
             + P+I+ +N L+DG C NG +E+A  + + + + K+ PD  TYN +  G C+ GKVE+  
Sbjct:   446 VHPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQKSKMEPDIYTYNIMSEGMCKAGKVEDGW 505

Query:   241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY 300
              L   +  +G+KPD I+       YN +I G CK    + A  L  +M   G  PD  TY
Sbjct:   506 DLFCSLSLKGVKPDVIA-------YNTMISGFCKKGLKEEAYTLFIKMKEDGPLPDSGTY 558

Query:   301 FSLIEG-IASVDKAAES 316
              +LI   +   DKAA +
Sbjct:   559 NTLIRAHLRDGDKAASA 575

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2024301 AT1G09820 "AT1G09820" [Arabidopsis thaliana (taxid:3702)]

 Score = 533 (192.7 bits), Expect = 2.4e-51, P = 2.4e-51
 Identities = 113/321 (35%), Positives = 183/321 (57%)

Query:     1 MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKG- 59
             M  R +QP+ +T+   ++ +CK G++ +A  ++E MK  G  P  V+YNTLIDGYC  G 
Sbjct:   214 MIRRKIQPNVFTFNVVINALCKTGKMNKARDVMEDMKVYGCSPNVVSYNTLIDGYCKLGG 273

Query:    60 NLEM--AFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSIT 117
             N +M  A +   EMV+  + P  +T+N+LI     +  +  +  + KEM ++ + P+ I+
Sbjct:   274 NGKMYKADAVLKEMVENDVSPNLTTFNILIDGFWKDDNLPGSMKVFKEMLDQDVKPNVIS 333

Query:   118 YNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFL 177
             YN LING C  G   +A S+ D+M+  G+QP ++TY +LI    K + + EA  +F +  
Sbjct:   334 YNSLINGLCNGGKISEAISMRDKMVSAGVQPNLITYNALINGFCKNDMLKEALDMFGSVK 393

Query:   178 AKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVE 237
              +G +P   M+N LID +C  G I+  F+L +EM+R  + PD  TYN L+ G CR G +E
Sbjct:   394 GQGAVPTTRMYNMLIDAYCKLGKIDDGFALKEEMEREGIVPDVGTYNCLIAGLCRNGNIE 453

Query:   238 EARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDD 297
              A++L DQ+  +G+ PD +       T++ L++G C+  E   A  LL+EM   G+ P  
Sbjct:   454 AAKKLFDQLTSKGL-PDLV-------TFHILMEGYCRKGESRKAAMLLKEMSKMGLKPRH 505

Query:   298 NTYFSLIEGIASVDKAAESSN 318
              TY  +++G         ++N
Sbjct:   506 LTYNIVMKGYCKEGNLKAATN 526

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 528 (190.9 bits), Expect = 8.3e-51, P = 8.3e-51
 Identities = 104/316 (32%), Positives = 185/316 (58%)

Query:     1 MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
             M+ RG  PD  TY   V+G+CKEGRL+EA + L  M  +G  P  +T+N ++   C+ G 
Sbjct:   265 MRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSMCSTGR 324

Query:    61 LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
                A     +M+++G  P+  T+N+LI+ L  +  +  A D+L++M + G  P+S++YN 
Sbjct:   325 WMDAEKLLADMLRKGFSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSYNP 384

Query:   121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
             L++G+C+     +A    + M+ +G  P ++TY +++  L K  ++ +A ++     +KG
Sbjct:   385 LLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQLSSKG 444

Query:   181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
               P ++ +N +IDG    G   +A  LL EM    + PD +TY++L+ G  R+GKV+EA 
Sbjct:   445 CSPVLITYNTVIDGLAKAGKTGKAIKLLDEMRAKDLKPDTITYSSLVGGLSREGKVDEAI 504

Query:   241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY 300
             +   + +R GI+P+ +       T+N+++ GLCK+++ D A + L  M+++G  P++ +Y
Sbjct:   505 KFFHEFERMGIRPNAV-------TFNSIMLGLCKSRQTDRAIDFLVFMINRGCKPNETSY 557

Query:   301 FSLIEGIASVDKAAES 316
               LIEG+A    A E+
Sbjct:   558 TILIEGLAYEGMAKEA 573

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2077061 AT3G22470 "AT3G22470" [Arabidopsis thaliana (taxid:3702)]

 Score = 523 (189.2 bits), Expect = 2.8e-50, P = 2.8e-50
 Identities = 104/304 (34%), Positives = 167/304 (54%)

Query:     1 MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
             M+ +G++ D  TY S + G+C +G+ ++ ++ML +M    ++P  VT++ LID +  +G 
Sbjct:   271 MEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGK 330

Query:    61 LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
             L  A    +EM+ +GI P   TYN LI     E  + EA+ M   M  KG  PD +TY+I
Sbjct:   331 LLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSI 390

Query:   121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
             LIN YC+         L  E+  KG+ P  +TY +L+    +  ++  A +LF+  +++G
Sbjct:   391 LINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRG 450

Query:   181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
             + P +V +  L+DG C NG + +A  + ++M + ++      YN ++HG C   KV++A 
Sbjct:   451 VPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKVDDAW 510

Query:   241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY 300
              L   +  +G+KPD +       TYN +I GLCK      A+ L R+M   G TPDD TY
Sbjct:   511 SLFCSLSDKGVKPDVV-------TYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTY 563

Query:   301 FSLI 304
               LI
Sbjct:   564 NILI 567

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015208 AT1G63130 [Arabidopsis thaliana (taxid:3702)]

 Score = 520 (188.1 bits), Expect = 5.8e-50, P = 5.8e-50
 Identities = 109/317 (34%), Positives = 172/317 (54%)

Query:     1 MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
             M ++G++P+  TY S +  +C  GR  +ASR+L  M E  + P  VT++ LID +  +G 
Sbjct:   282 MDNKGIRPNVVTYNSLIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGK 341

Query:    61 LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
             L  A    DEM+K+ I P   TY+ LI+   M  ++ EA  M + M  K   P+ +TYN 
Sbjct:   342 LVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNT 401

Query:   121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
             LI G+C+     +   L  EM  +G+    +TYT+LI    +      A  +F+  ++ G
Sbjct:   402 LIKGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDG 461

Query:   181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
             +LPDI+ ++ L+DG C NG +E A  + + + R K+ PD  TYN ++ G C+ GKVE+  
Sbjct:   462 VLPDIMTYSILLDGLCNNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGW 521

Query:   241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY 300
              L   +  +G+KP+ +       TY  ++ G C+    + A+ L REM  +G  PD  TY
Sbjct:   522 DLFCSLSLKGVKPNVV-------TYTTMMSGFCRKGLKEEADALFREMKEEGPLPDSGTY 574

Query:   301 FSLIEG-IASVDKAAES 316
              +LI   +   DKAA +
Sbjct:   575 NTLIRAHLRDGDKAASA 591

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2024367 AT1G09680 "AT1G09680" [Arabidopsis thaliana (taxid:3702)]

 Score = 509 (184.2 bits), Expect = 8.5e-49, P = 8.5e-49
 Identities = 98/300 (32%), Positives = 166/300 (55%)

Query:    11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDE 70
             Y +   ++  CKEG + +A ++ +++ +  L PT V++NTLI+GYC  GNL+  F  + +
Sbjct:   241 YVFNILMNKFCKEGNISDAQKVFDEITKRSLQPTVVSFNTLINGYCKVGNLDEGFRLKHQ 300

Query:    71 MVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGN 130
             M K    P   TY+ LI+ L  E KM  A  +  EM ++G++P+ + +  LI+G+ R G 
Sbjct:   301 MEKSRTRPDVFTYSALINALCKENKMDGAHGLFDEMCKRGLIPNDVIFTTLIHGHSRNGE 360

Query:   131 AKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNA 190
                    + +M+ KG+QP ++ Y +L+    K   ++ A  + +  + +G+ PD + +  
Sbjct:   361 IDLMKESYQKMLSKGLQPDIVLYNTLVNGFCKNGDLVAARNIVDGMIRRGLRPDKITYTT 420

Query:   191 LIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRG 250
             LIDG C  G++E A  + KEMD+  +  D V ++ L+ G C++G+V +A R L +M R G
Sbjct:   421 LIDGFCRGGDVETALEIRKEMDQNGIELDRVGFSALVCGMCKEGRVIDAERALREMLRAG 480

Query:   251 IKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASV 310
             IKPD +       TY  ++   CK  +     +LL+EM S G  P   TY  L+ G+  +
Sbjct:   481 IKPDDV-------TYTMMMDAFCKKGDAQTGFKLLKEMQSDGHVPSVVTYNVLLNGLCKL 533

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2083976 MEE40 "maternal effect embryo arrest 40" [Arabidopsis thaliana (taxid:3702)]

 Score = 508 (183.9 bits), Expect = 2.1e-48, P = 2.1e-48
 Identities = 107/313 (34%), Positives = 165/313 (52%)

Query:     5 GVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMA 64
             G  PD YT+ + V+G+CK G ++ A  +++ M + G  P   TYN++I G C  G ++ A
Sbjct:   290 GFFPDQYTFNTLVNGLCKAGHVKHAIEIMDVMLQEGYDPDVYTYNSVISGLCKLGEVKEA 349

Query:    65 FSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILING 124
                 D+M+ +   P   TYN LI  L  E ++ EA ++ + +  KGI+PD  T+N LI G
Sbjct:   350 VEVLDQMITRDCSPNTVTYNTLISTLCKENQVEEATELARVLTSKGILPDVCTFNSLIQG 409

Query:   125 YCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPD 184
              C   N + A  L +EM  KG +P   TY  LI  L  + ++ EA  + +     G    
Sbjct:   410 LCLTRNHRVAMELFEEMRSKGCEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELSGCARS 469

Query:   185 IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLD 244
             ++ +N LIDG C       A  +  EM+   V  + VTYNTL+ G C+  +VE+A +L+D
Sbjct:   470 VITYNTLIDGFCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDAAQLMD 529

Query:   245 QMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLI 304
             QM   G KPD       + TYN+L+   C+  +   A ++++ M S G  PD  TY +LI
Sbjct:   530 QMIMEGQKPD-------KYTYNSLLTHFCRGGDIKKAADIVQAMTSNGCEPDIVTYGTLI 582

Query:   305 EGIASVDKAAESS 317
              G+    +   +S
Sbjct:   583 SGLCKAGRVEVAS 595

GO:0005739 "mitochondrion" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA;IMP

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

TAIR|locus:2203916 AT1G62590 [Arabidopsis thaliana (taxid:3702)]

 Score = 503 (182.1 bits), Expect = 3.7e-48, P = 3.7e-48
 Identities = 106/317 (33%), Positives = 172/317 (54%)

Query:     1 MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
             M+++G++P+  TY S +S +C  GR  +AS++L  M E  + P  VT+N LID +  +G 
Sbjct:   286 METKGIRPNVVTYSSLISCLCSYGRWSDASQLLSDMIEKKINPNLVTFNALIDAFVKEGK 345

Query:    61 LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
                A    D+M+K+ I P   TYN L++   M  ++ +A  M + M  K   PD +TYN 
Sbjct:   346 FVEAEKLYDDMIKRSIDPDIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPDVVTYNT 405

Query:   121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG 180
             LI G+C+    +    L  EM H+G+    +TYT+LI  L        A ++F+  ++ G
Sbjct:   406 LIKGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDG 465

Query:   181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR 240
             + PDI+ ++ L+DG C NG +E+A  +   M + ++  D   Y T++ G C+ GKV++  
Sbjct:   466 VPPDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAGKVDDGW 525

Query:   241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY 300
              L   +  +G+KP+ +       TYN +I GLC  +    A  LL++M   G  P+  TY
Sbjct:   526 DLFCSLSLKGVKPNVV-------TYNTMISGLCSKRLLQEAYALLKKMKEDGPLPNSGTY 578

Query:   301 FSLIEG-IASVDKAAES 316
              +LI   +   DKAA +
Sbjct:   579 NTLIRAHLRDGDKAASA 595

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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: gw1.130.18.1 hypothetical protein (590 aa) (Populus trichocarpa)

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	319
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-33
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-29
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-25
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-20
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-17
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-16
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-15
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-14
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-11
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-11
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-11
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-10
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-10
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-09
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-09
pfam01535	31	pfam01535, PPR, PPR repeat	1e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-07
pfam01535	31	pfam01535, PPR, PPR repeat	6e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	8e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	9e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-06
pfam01535	31	pfam01535, PPR, PPR repeat	2e-06
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	3e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-06
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	9e-06
pfam01535	31	pfam01535, PPR, PPR repeat	2e-05
pfam01535	31	pfam01535, PPR, PPR repeat	4e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	4e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	4e-05
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-04
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-04

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

 Score =  130 bits (328), Expect = 1e-33
 Identities = 84/305 (27%), Positives = 141/305 (46%), Gaps = 15/305 (4%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           ++  G++ D   Y + +S   K G+++    +  +M   G+     T+  LIDG    G 
Sbjct: 463 VQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ 522

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMG--EKGIVPDSITY 118
           +  AF     M  + + P    +N LI        +  A D+L EM      I PD IT 
Sbjct: 523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITV 582

Query: 119 NILINGYCRCGNAKKAFSLHDEMIHK-GIQPTMLTYTSLIFVLSKQNRMIEADQLFENFL 177
             L+      G   +A  ++ +MIH+  I+ T   YT  +   S++     A  ++++  
Sbjct: 583 GALMKACANAGQVDRAKEVY-QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMK 641

Query: 178 AKGMLPDIVMFNALID--GHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGK 235
            KG+ PD V F+AL+D  GH   G++++AF +L++  +  +    V+Y++LM        
Sbjct: 642 KKGVKPDEVFFSALVDVAGHA--GDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN 699

Query: 236 VEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITP 295
            ++A  L + +K        I   PT  T NALI  LC+  +   A E+L EM   G+ P
Sbjct: 700 WKKALELYEDIKS-------IKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP 752

Query: 296 DDNTY 300
           +  TY
Sbjct: 753 NTITY 757

Length = 1060

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

 Score =  116 bits (293), Expect = 6e-29
 Identities = 69/278 (24%), Positives = 129/278 (46%), Gaps = 10/278 (3%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENG--LVPTAVTYNTLIDGYCNK 58
           M+S+ V+PD   + + +S   + G ++ A  +L +MK     + P  +T   L+    N 
Sbjct: 533 MRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANA 592

Query: 59  GNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITY 118
           G ++ A      + +  I  T   Y + ++    +     A  +  +M +KG+ PD + +
Sbjct: 593 GQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFF 652

Query: 119 NILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLA 178
           + L++     G+  KAF +  +   +GI+   ++Y+SL+   S      +A +L+E+  +
Sbjct: 653 SALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKS 712

Query: 179 KGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEE 238
             + P +   NALI   C    + +A  +L EM R+ + P+ +TY+ L+    R+   + 
Sbjct: 713 IKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADV 772

Query: 239 ARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQ 276
              LL Q K  GIKP+        L     I GLC  +
Sbjct: 773 GLDLLSQAKEDGIKPN--------LVMCRCITGLCLRR 802

Length = 1060

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

 Score =  106 bits (266), Expect = 2e-25
 Identities = 81/309 (26%), Positives = 144/309 (46%), Gaps = 31/309 (10%)

Query: 20  MCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNK-GNLEMAFSFRDEMVKQGIMP 78
           + ++GR+++   +LE M++ GL+     Y+      C K   ++ AF F   +      P
Sbjct: 380 LLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----P 435

Query: 79  TASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLH 138
           T ST+N+L+      + +  A  +L+ + E G+  D   Y  LI+   + G     F + 
Sbjct: 436 TLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVF 495

Query: 139 DEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGML------PDIVMFNALI 192
            EM++ G++  + T+ +LI   ++      A Q+ + F A G++      PD V+FNALI
Sbjct: 496 HEMVNAGVEANVHTFGALIDGCAR------AGQVAKAFGAYGIMRSKNVKPDRVVFNALI 549

Query: 193 DGHCTNGNIERAFSLLKEM--DRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRG 250
                +G ++RAF +L EM  +   + PD +T   LM      G+V+ A+ +   +    
Sbjct: 550 SACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYN 609

Query: 251 IKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIAS- 309
           IK        T   Y   +    +  + D A  +  +M  KG+ PD+  +FS +  +A  
Sbjct: 610 IK-------GTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDE-VFFSALVDVAGH 661

Query: 310 ---VDKAAE 315
              +DKA E
Sbjct: 662 AGDLDKAFE 670

Length = 1060

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

 Score = 80.5 bits (200), Expect = 9e-20
 Identities = 32/57 (56%), Positives = 41/57 (71%), Gaps = 7/57 (12%)

Query: 218 PDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCK 274
           PD VTYNTL+ G C++GKVEEA +L ++MK+RGIKP+         TY+ LI GLCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVY-------TYSILIDGLCK 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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 82.2 bits (203), Expect = 2e-17
 Identities = 69/293 (23%), Positives = 124/293 (42%), Gaps = 47/293 (16%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
           ++S G +PD Y     +    K G L +A R+ ++M E  L     ++ T+I G  + GN
Sbjct: 149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLA----SWGTIIGGLVDAGN 204

Query: 61  LEMAFSFRDEMVKQG---------IMPTASTYNLLI------HELLMERKMV-------- 97
              AF+   EM + G         +M  AS            H  +++  +V        
Sbjct: 205 YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCA 264

Query: 98  ------------EADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKG 145
                       +A  +   M EK  V     +N ++ GY   G +++A  L+ EM   G
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMPEKTTV----AWNSMLAGYALHGYSEEALCLYYEMRDSG 320

Query: 146 IQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAF 205
           +     T++ +I + S+   +  A Q     +  G   DIV   AL+D +   G +E A 
Sbjct: 321 VSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDAR 380

Query: 206 SLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISF 258
           ++   M R  +    +++N L+ G    G+  +A  + ++M   G+ P+H++F
Sbjct: 381 NVFDRMPRKNL----ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTF 429

Length = 697

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

 Score = 81.1 bits (200), Expect = 7e-17
 Identities = 64/293 (21%), Positives = 115/293 (39%), Gaps = 40/293 (13%)

Query: 12  TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEM 71
           T+   +S       ++ A R+L  ++E GL      Y TLI      G ++  F    EM
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM 498

Query: 72  VKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNA 131
           V  G+     T+  LI       ++ +A      M  K + PD + +N LI+   + G  
Sbjct: 499 VNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAV 558

Query: 132 KKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNAL 191
            +AF +  EM                          +A+          + PD +   AL
Sbjct: 559 DRAFDVLAEM--------------------------KAE-------THPIDPDHITVGAL 585

Query: 192 IDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGI 251
           +      G ++RA  + + +    +      Y   ++   ++G  + A  + D MK++G+
Sbjct: 586 MKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGV 645

Query: 252 KPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLI 304
           KPD + F       +AL+       + D A E+L++   +GI     +Y SL+
Sbjct: 646 KPDEVFF-------SALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLM 691

Length = 1060

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

 Score = 72.1 bits (178), Expect = 2e-16
 Identities = 21/50 (42%), Positives = 31/50 (62%)

Query: 183 PDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCR 232
           PD+V +N LIDG+C  G +E A  L  EM +  + P+  TY+ L+ G C+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 72.1 bits (178), Expect = 2e-16
 Identities = 27/48 (56%), Positives = 32/48 (66%)

Query: 43 PTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHEL 90
          P  VTYNTLIDGYC KG +E A    +EM K+GI P   TY++LI  L
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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 71.7 bits (177), Expect = 2e-16
 Identities = 22/50 (44%), Positives = 33/50 (66%)

Query: 8  PDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCN 57
          PD  TY + + G CK+G++EEA ++  +MK+ G+ P   TY+ LIDG C 
Sbjct: 1  PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 78.0 bits (192), Expect = 7e-16
 Identities = 59/252 (23%), Positives = 97/252 (38%), Gaps = 32/252 (12%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
            + +G++  + +Y S +         ++A  + E +K   L PT  T N LI   C    
Sbjct: 675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQ 734

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERK-MVE-ADDMLKEMGEKGIVPDSITY 118
           L  A     EM + G+ P   TY++L+  +  ERK   +   D+L +  E GI P+ +  
Sbjct: 735 LPKALEVLSEMKRLGLCPNTITYSILL--VASERKDDADVGLDLLSQAKEDGIKPNLVMC 792

Query: 119 NILI-------NGYCRCGN----------------AKKAFSLHDEMIHKGIQPTMLTYTS 155
             +           C  G                    A  ++ E I  G  PTM   + 
Sbjct: 793 RCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQ 852

Query: 156 LIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIE-RAFSLLKEMDRM 214
           ++  L   +     ++L EN             + L+DG    G  + RAFSLL+E   +
Sbjct: 853 VLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGF---GEYDPRAFSLLEEAASL 909

Query: 215 KVHPDEVTYNTL 226
            V P  V++   
Sbjct: 910 GVVP-SVSFKKS 920

Length = 1060

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

 Score = 69.4 bits (171), Expect = 1e-15
 Identities = 24/50 (48%), Positives = 34/50 (68%)

Query: 113 PDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSK 162
           PD +TYN LI+GYC+ G  ++A  L +EM  +GI+P + TY+ LI  L K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 74.5 bits (183), Expect = 1e-14
 Identities = 64/283 (22%), Positives = 115/283 (40%), Gaps = 52/283 (18%)

Query: 11  YTYGSFVSGMCKEGRLEEASRMLEQMKENG------------------------------ 40
            ++G+ + G+   G   EA  +  +M E+G                              
Sbjct: 190 ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCC 249

Query: 41  LVPTAVTYNT-----LIDGYCNKGNLEMAFSFRDEMVKQGIMPTAST--YNLLIHELLME 93
           ++ T V  +T     LID Y   G++E A    D M      P  +T  +N ++    + 
Sbjct: 250 VLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM------PEKTTVAWNSMLAGYALH 303

Query: 94  RKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTY 153
               EA  +  EM + G+  D  T++I+I  + R    + A   H  +I  G    ++  
Sbjct: 304 GYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVAN 363

Query: 154 TSLIFVLSKQNRMIEADQLFENFLAKGMLP--DIVMFNALIDGHCTNGNIERAFSLLKEM 211
           T+L+ + SK  RM +A  +F+       +P  +++ +NALI G+  +G   +A  + + M
Sbjct: 364 TALVDLYSKWGRMEDARNVFD------RMPRKNLISWNALIAGYGNHGRGTKAVEMFERM 417

Query: 212 DRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKR-RGIKP 253
               V P+ VT+  ++      G  E+   +   M     IKP
Sbjct: 418 IAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKP 460

Length = 697

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

 Score = 66.4 bits (162), Expect = 4e-12
 Identities = 69/337 (20%), Positives = 132/337 (39%), Gaps = 50/337 (14%)

Query: 3   SRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLE 62
           SR    D+ ++ + +SG  K G  ++A      M+++ + P  +T  +++      G+L+
Sbjct: 347 SRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLD 406

Query: 63  MAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILI 122
           +     +   ++G++      N LI      + + +A ++   + EK    D I++  +I
Sbjct: 407 VGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSII 462

Query: 123 NGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRM--------IEADQL-- 172
            G        +A     +M+   ++P  +T  +    LS   R+        I A  L  
Sbjct: 463 AGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIA---ALSACARIGALMCGKEIHAHVLRT 518

Query: 173 ---FENFLAKGML--------------------PDIVMFNALIDGHCTNGNIERAFSLLK 209
              F+ FL   +L                     D+V +N L+ G+  +G    A  L  
Sbjct: 519 GIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFN 578

Query: 210 EMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALI 269
            M    V+PDEVT+ +L+    R G V +       M+      +  S  P    Y  ++
Sbjct: 579 RMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSME------EKYSITPNLKHYACVV 632

Query: 270 QGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEG 306
             L +  +   A   + +M    ITPD   + +L+  
Sbjct: 633 DLLGRAGKLTEAYNFINKM---PITPDPAVWGALLNA 666

Length = 857

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

 Score = 58.2 bits (142), Expect = 1e-11
 Identities = 21/47 (44%), Positives = 28/47 (59%)

Query: 260 PTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEG 306
           P  +TYN LI G CK  + + A +L  EM  +GI P+  TY  LI+G
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG 47

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 = 57.4 bits (140), Expect = 2e-11
 Identities = 18/33 (54%), Positives = 22/33 (66%)

Query: 109 KGIVPDSITYNILINGYCRCGNAKKAFSLHDEM 141
           KG+ PD +TYN LI+G CR G   +A  L DEM
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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|205109 pfam12854, PPR_1, PPR repeat

 Score = 56.6 bits (138), Expect = 4e-11
 Identities = 18/34 (52%), Positives = 20/34 (58%)

Query: 39 NGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMV 72
           GL P  VTYNTLIDG C  G ++ A    DEM 
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 55.0 bits (134), Expect = 1e-10
 Identities = 19/32 (59%), Positives = 25/32 (78%)

Query: 216 VHPDEVTYNTLMHGRCRQGKVEEARRLLDQMK 247
           + PD VTYNTL+ G CR G+V+EA  LLD+M+
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 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 = 61.0 bits (148), Expect = 2e-10
 Identities = 69/315 (21%), Positives = 140/315 (44%), Gaps = 36/315 (11%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNT-LIDGYCNKG 59
           M+  GV  D +T+   +    +   LE A +    +   G  P  +  NT L+D Y   G
Sbjct: 316 MRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF-PLDIVANTALVDLYSKWG 374

Query: 60  NLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYN 119
            +E A +  D M ++ ++    ++N LI       +  +A +M + M  +G+ P+ +T+ 
Sbjct: 375 RMEDARNVFDRMPRKNLI----SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFL 430

Query: 120 ILINGYCRCGNAKKAFSLHDEMIH-KGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLA 178
            +++     G +++ + +   M     I+P  + Y  +I +L ++  + EA  +      
Sbjct: 431 AVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPF 490

Query: 179 KGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEV-TYNTLMHGRCRQGKVE 237
           K   P + M+ AL+     + N+E      +++  M   P+++  Y  L++     G+  
Sbjct: 491 K---PTVNMWAALLTACRIHKNLELGRLAAEKLYGMG--PEKLNNYVVLLNLYNSSGRQA 545

Query: 238 EARRLLDQMKRRGI------------KPDHISFNPTRL-TYNALI-QGLCKNQEGDLAEE 283
           EA ++++ +KR+G+            K DH  F+  RL   +  I Q L         +E
Sbjct: 546 EAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKL---------DE 596

Query: 284 LLREMVSKGITPDDN 298
           L++E+   G   ++N
Sbjct: 597 LMKEISEYGYVAEEN 611

Length = 697

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

 Score = 58.3 bits (141), Expect = 2e-09
 Identities = 74/389 (19%), Positives = 138/389 (35%), Gaps = 103/389 (26%)

Query: 2   KSRGVQPDSYTYGSF------VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGY 55
           +SRG+   + +  S       +  +C  G+LE+A ++LE M+E  +      Y  L    
Sbjct: 37  RSRGLSVAASSSSSTHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLC 96

Query: 56  CNKGNLE---MAFSFRD-EMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGI 111
             K  +E      S         G+       N ++   +   ++V A  +  +M E+  
Sbjct: 97  EWKRAVEEGSRVCSRALSSHPSLGV----RLGNAMLSMFVRFGELVHAWYVFGKMPER-- 150

Query: 112 VPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTY------------------ 153
             D  ++N+L+ GY + G   +A  L+  M+  G++P + T+                  
Sbjct: 151 --DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGRE 208

Query: 154 -----------------TSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHC 196
                             +LI +  K   ++ A  +F+    +    D + +NA+I G+ 
Sbjct: 209 VHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYF 264

Query: 197 TNGNIERAFSLLKEMDRMKVHPDEVT---------------------------------- 222
            NG       L   M  + V PD +T                                  
Sbjct: 265 ENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVS 324

Query: 223 -YNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLA 281
             N+L+      G   EA ++  +M+ +             +++ A+I G  KN   D A
Sbjct: 325 VCNSLIQMYLSLGSWGEAEKVFSRMETKDA-----------VSWTAMISGYEKNGLPDKA 373

Query: 282 EELLREMVSKGITPDDNTYFSLIEGIASV 310
            E    M    ++PD+ T  S++   A +
Sbjct: 374 LETYALMEQDNVSPDEITIASVLSACACL 402

Length = 857

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

 Score = 51.2 bits (124), Expect = 3e-09
 Identities = 17/33 (51%), Positives = 22/33 (66%)

Query: 179 KGMLPDIVMFNALIDGHCTNGNIERAFSLLKEM 211
           KG+ PD+V +N LIDG C  G ++ A  LL EM
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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|205109 pfam12854, PPR_1, PPR repeat

 Score = 51.2 bits (124), Expect = 3e-09
 Identities = 13/34 (38%), Positives = 26/34 (76%)

Query: 4  RGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMK 37
          +G++PD  TY + + G+C+ GR++EA  +L++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 = 51.3 bits (124), Expect = 4e-09
 Identities = 21/34 (61%), Positives = 26/34 (76%)

Query: 221 VTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPD 254
           VTYNTL+ G C+ G+VEEA  L  +MK RGI+PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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|144943 pfam01535, PPR, PPR repeat

 Score = 46.7 bits (112), Expect = 1e-07
 Identities = 15/31 (48%), Positives = 21/31 (67%)

Query: 116 ITYNILINGYCRCGNAKKAFSLHDEMIHKGI 146
           +TYN LI+GYC+ G  ++A  L  EM  KG+
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 46.3 bits (111), Expect = 2e-07
 Identities = 15/34 (44%), Positives = 22/34 (64%)

Query: 116 ITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPT 149
           +TYN LI+G C+ G  ++A  L  EM  +GI+P 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 44.8 bits (107), Expect = 6e-07
 Identities = 18/35 (51%), Positives = 21/35 (60%)

Query: 46 VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTA 80
          VTYNTLIDG C  G +E A     EM ++GI P  
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|144943 pfam01535, PPR, PPR repeat

 Score = 44.8 bits (107), Expect = 6e-07
 Identities = 16/31 (51%), Positives = 20/31 (64%)

Query: 46 VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGI 76
          VTYN+LI GYC  G LE A     EM ++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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 50.3 bits (120), Expect = 8e-07
 Identities = 38/157 (24%), Positives = 69/157 (43%), Gaps = 16/157 (10%)

Query: 153 YTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHC-TNGNIERAFSLLKEM 211
           Y  L+    +  R+ +   L E+   +G+L    +++A     C     ++ AF   K +
Sbjct: 377 YNRLL----RDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLI 432

Query: 212 DRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQG 271
                +P   T+N LM        ++ A R+L  ++  G+K D          Y  LI  
Sbjct: 433 R----NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCK-------LYTTLIST 481

Query: 272 LCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIA 308
             K+ + D   E+  EMV+ G+  + +T+ +LI+G A
Sbjct: 482 CAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCA 518

Length = 1060

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

 Score = 44.4 bits (106), Expect = 9e-07
 Identities = 18/34 (52%), Positives = 21/34 (61%)

Query: 264 TYNALIQGLCKNQEGDLAEELLREMVSKGITPDD 297
           TYN LI GLCK    + A EL +EM  +GI PD 
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 43.9 bits (105), Expect = 2e-06
 Identities = 19/41 (46%), Positives = 23/41 (56%), Gaps = 7/41 (17%)

Query: 249 RGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMV 289
           +G+KPD +       TYN LI GLC+    D A ELL EM 
Sbjct: 1   KGLKPDVV-------TYNTLIDGLCRAGRVDEAVELLDEME 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|144943 pfam01535, PPR, PPR repeat

 Score = 43.2 bits (103), Expect = 2e-06
 Identities = 16/31 (51%), Positives = 23/31 (74%)

Query: 221 VTYNTLMHGRCRQGKVEEARRLLDQMKRRGI 251
           VTYN+L+ G C+ GK+EEA  L  +MK +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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 42.9 bits (102), Expect = 3e-06
 Identities = 10/32 (31%), Positives = 18/32 (56%)

Query: 117 TYNILINGYCRCGNAKKAFSLHDEMIHKGIQP 148
           TYN L+    + G+   A ++ +EM   G++P
Sbjct: 3   TYNALLLALAKAGDPDLALAVLEEMKASGLKP 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 = 42.4 bits (101), Expect = 4e-06
 Identities = 15/35 (42%), Positives = 23/35 (65%)

Query: 11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTA 45
           TY + + G+CK GR+EEA  + ++MKE G+ P  
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 42.4 bits (101), Expect = 4e-06
 Identities = 16/35 (45%), Positives = 19/35 (54%)

Query: 186 VMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDE 220
           V +N LIDG C  G +E A  L KEM    + 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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 41.4 bits (98), Expect = 9e-06
 Identities = 12/34 (35%), Positives = 19/34 (55%)

Query: 220 EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKP 253
             TYN L+    + G  + A  +L++MK  G+KP
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|144943 pfam01535, PPR, PPR repeat

 Score = 40.5 bits (96), Expect = 2e-05
 Identities = 15/30 (50%), Positives = 20/30 (66%)

Query: 264 TYNALIQGLCKNQEGDLAEELLREMVSKGI 293
           TYN+LI G CK  + + A EL +EM  KG+
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 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|144943 pfam01535, PPR, PPR repeat

 Score = 39.7 bits (94), Expect = 4e-05
 Identities = 14/31 (45%), Positives = 18/31 (58%)

Query: 186 VMFNALIDGHCTNGNIERAFSLLKEMDRMKV 216
           V +N+LI G+C  G +E A  L KEM    V
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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 39.9 bits (94), Expect = 4e-05
 Identities = 15/32 (46%), Positives = 20/32 (62%)

Query: 264 TYNALIQGLCKNQEGDLAEELLREMVSKGITP 295
           TYNAL+  L K  + DLA  +L EM + G+ P
Sbjct: 3   TYNALLLALAKAGDPDLALAVLEEMKASGLKP 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 = 39.9 bits (94), Expect = 4e-05
 Identities = 10/34 (29%), Positives = 17/34 (50%)

Query: 45 AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMP 78
            TYN L+      G+ ++A +  +EM   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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 43.3 bits (102), Expect = 1e-04
 Identities = 50/262 (19%), Positives = 100/262 (38%), Gaps = 58/262 (22%)

Query: 87  IHELLMERKMVEADDMLK--EMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK 144
           I +L+   +  EA ++ +  E G    +P S TY+ L+       + +   +++  +   
Sbjct: 94  IEKLVACGRHREALELFEILEAGCPFTLPAS-TYDALVEACIALKSIRCVKAVYWHVESS 152

Query: 145 GIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERA 204
           G +P       ++ +  K   +I+A +LF+    +    ++  +  +I G    GN   A
Sbjct: 153 GFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREA 208

Query: 205 FSLLKEMDRMKVHPDEVTYNTL-------------------------------------M 227
           F+L +EM       +  T+  +                                     M
Sbjct: 209 FALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDM 268

Query: 228 HGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLRE 287
           + +C  G +E+AR + D M  +           T + +N+++ G   +   + A  L  E
Sbjct: 269 YSKC--GDIEDARCVFDGMPEK-----------TTVAWNSMLAGYALHGYSEEALCLYYE 315

Query: 288 MVSKGITPDDNTYFSLIEGIAS 309
           M   G++ D  T FS++  I S
Sbjct: 316 MRDSGVSIDQFT-FSIMIRIFS 336

Length = 697

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

 Score = 38.2 bits (90), Expect = 1e-04
 Identities = 16/31 (51%), Positives = 22/31 (70%)

Query: 11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGL 41
           TY S +SG CK G+LEEA  + ++MKE 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 = 37.8 bits (89), Expect = 2e-04
 Identities = 11/22 (50%), Positives = 16/22 (72%)

Query: 1  MKSRGVQPDSYTYGSFVSGMCK 22
          MK RG++P+ YTY   + G+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 = 37.4 bits (88), Expect = 3e-04
 Identities = 16/34 (47%), Positives = 21/34 (61%)

Query: 82  TYNLLIHELLMERKMVEADDMLKEMGEKGIVPDS 115
           TYN LI  L    ++ EA ++ KEM E+GI PD 
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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	319
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	99.94
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.94
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.93
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.9
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.89
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.84
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.82
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.82
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.81
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.81
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.79
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.79
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.79
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.78
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.78
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.77
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.76
KOG1126	638	consensus DNA-binding cell division cycle control	99.76
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.74
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.73
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.73
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.73
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.72
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.71
PRK14574	822	hmsH outer membrane protein; Provisional	99.7
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.7
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.7
PRK14574	822	hmsH outer membrane protein; Provisional	99.69
KOG1126	638	consensus DNA-binding cell division cycle control	99.67
KOG2076	895	consensus RNA polymerase III transcription factor	99.64
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.64
PRK12370	553	invasion protein regulator; Provisional	99.64
KOG2003	840	consensus TPR repeat-containing protein [General f	99.63
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.62
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.62
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.61
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.61
PRK12370	553	invasion protein regulator; Provisional	99.61
KOG1129	478	consensus TPR repeat-containing protein [General f	99.59
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.59
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.58
KOG1129	478	consensus TPR repeat-containing protein [General f	99.57
KOG2076	895	consensus RNA polymerase III transcription factor	99.56
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.56
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.56
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.51
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.49
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.49
PF13041	50	PPR_2: PPR repeat family	99.49
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.49
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.48
PRK11189	296	lipoprotein NlpI; Provisional	99.47
PF13041	50	PPR_2: PPR repeat family	99.46
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.42
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.42
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.42
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.42
PRK11189	296	lipoprotein NlpI; Provisional	99.42
KOG2003	840	consensus TPR repeat-containing protein [General f	99.4
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.4
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.37
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.32
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.32
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.31
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.31
KOG1125	579	consensus TPR repeat-containing protein [General f	99.29
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.28
KOG1125	579	consensus TPR repeat-containing protein [General f	99.19
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.19
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.18
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.18
PLN02789	320	farnesyltranstransferase	99.16
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.16
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.15
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.14
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.12
PF12854	34	PPR_1: PPR repeat	99.11
PLN02789	320	farnesyltranstransferase	99.1
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.1
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.1
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.08
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.06
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.05
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.02
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	99.01
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.01
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	99.0
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.99
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.99
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.98
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.96
PRK04841	903	transcriptional regulator MalT; Provisional	98.95
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.9
PRK15359	144	type III secretion system chaperone protein SscB;	98.88
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.87
PRK04841	903	transcriptional regulator MalT; Provisional	98.87
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.86
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.86
PRK15359	144	type III secretion system chaperone protein SscB;	98.84
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.82
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.81
PF12854	34	PPR_1: PPR repeat	98.81
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.8
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.79
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.79
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.75
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.75
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.74
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.7
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.7
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.67
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.66
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.66
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.64
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.62
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.62
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.61
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.61
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.61
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.59
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.55
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.53
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.53
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.51
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.5
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.49
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.48
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.47
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.46
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.46
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.45
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.41
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.39
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.36
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.36
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.34
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.33
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.32
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.3
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.29
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.28
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.23
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.23
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.21
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.2
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.19
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.18
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.18
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.18
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.18
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.18
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.17
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.17
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.15
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.15
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.14
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.14
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.13
KOG0553	304	consensus TPR repeat-containing protein [General f	98.12
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.12
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.11
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.09
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.08
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.05
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.01
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.98
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.98
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.95
KOG0553	304	consensus TPR repeat-containing protein [General f	97.95
PF12688	120	TPR_5: Tetratrico peptide repeat	97.95
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.94
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.91
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.88
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.87
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.85
PF12688	120	TPR_5: Tetratrico peptide repeat	97.84
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.84
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.83
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.82
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.81
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.79
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.78
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.76
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.7
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.67
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.67
PRK10803	263	tol-pal system protein YbgF; Provisional	97.63
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.62
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.59
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.59
PRK10803	263	tol-pal system protein YbgF; Provisional	97.57
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.56
PF13371	73	TPR_9: Tetratricopeptide repeat	97.5
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.47
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.43
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.41
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.41
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.4
PRK15331	165	chaperone protein SicA; Provisional	97.4
PF13371	73	TPR_9: Tetratricopeptide repeat	97.39
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.31
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.29
PRK15331	165	chaperone protein SicA; Provisional	97.26
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.23
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.16
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	97.09
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.09
smart00299	140	CLH Clathrin heavy chain repeat homology.	97.08
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.08
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.02
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.0
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.98
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.9
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.88
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.85
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.85
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.8
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.77
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.7
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.67
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.57
PF13512	142	TPR_18: Tetratricopeptide repeat	96.55
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.52
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.44
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.43
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.41
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.41
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.4
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	96.37
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.37
KOG4555	175	consensus TPR repeat-containing protein [Function	96.37
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.36
KOG1585	308	consensus Protein required for fusion of vesicles	96.33
KOG1585	308	consensus Protein required for fusion of vesicles	96.31
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.29
KOG3941	406	consensus Intermediate in Toll signal transduction	96.27
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.27
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.21
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.21
PF13428	44	TPR_14: Tetratricopeptide repeat	96.1
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.08
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.06
KOG3941	406	consensus Intermediate in Toll signal transduction	96.03
PF13428	44	TPR_14: Tetratricopeptide repeat	96.0
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.91
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.85
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.74
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.73
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.65
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.59
KOG4555	175	consensus TPR repeat-containing protein [Function	95.59
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.55
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.53
KOG4570	418	consensus Uncharacterized conserved protein [Funct	95.45
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.41
PRK11906	458	transcriptional regulator; Provisional	95.39
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	95.38
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.34
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.26
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.18
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.14
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.08
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.05
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.04
KOG4570	418	consensus Uncharacterized conserved protein [Funct	95.0
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.87
PF13512	142	TPR_18: Tetratricopeptide repeat	94.87
PF13929	292	mRNA_stabil: mRNA stabilisation	94.82
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.57
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.44
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.34
PRK11906	458	transcriptional regulator; Provisional	94.23
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.22
PF13431	34	TPR_17: Tetratricopeptide repeat	94.19
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.13
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.07
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.06
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.0
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.81
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.71
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.58
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.49
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	93.4
PF13431	34	TPR_17: Tetratricopeptide repeat	93.36
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.34
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.3
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	93.26
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	93.23
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.09
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	92.9
PRK09687	280	putative lyase; Provisional	92.82
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	92.8
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	92.52
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.4
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	92.36
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	92.34
KOG2471	696	consensus TPR repeat-containing protein [General f	92.32
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	92.12
COG4455	273	ImpE Protein of avirulence locus involved in tempe	91.84
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	91.59
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.47
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.47
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	91.38
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.33
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	91.29
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	91.26
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	91.05
KOG1586	288	consensus Protein required for fusion of vesicles	90.93
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.89
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.72
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	90.51
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.46
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	89.88
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.82
KOG4648	536	consensus Uncharacterized conserved protein, conta	89.58
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	89.43
KOG4234	271	consensus TPR repeat-containing protein [General f	89.24
PF13762	145	MNE1: Mitochondrial splicing apparatus component	88.96
KOG4234	271	consensus TPR repeat-containing protein [General f	88.89
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.68
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.29
KOG4648	536	consensus Uncharacterized conserved protein, conta	88.17
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.03
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	87.81
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	87.65
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	87.5
KOG1550	552	consensus Extracellular protein SEL-1 and related	87.0
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	86.64
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	86.53
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	85.88
KOG2908	380	consensus 26S proteasome regulatory complex, subun	85.56
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	85.51
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	85.43
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	85.34
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	85.3
COG1747	711	Uncharacterized N-terminal domain of the transcrip	85.3
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	84.41
PF13929	292	mRNA_stabil: mRNA stabilisation	84.04
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	83.74
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	83.69
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	83.06
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	82.0
COG3947	361	Response regulator containing CheY-like receiver a	81.79
KOG2659	228	consensus LisH motif-containing protein [Cytoskele	81.73
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	81.44
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	81.13
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	80.71
COG3947	361	Response regulator containing CheY-like receiver a	80.5
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	80.19

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=4.2e-56  Score=387.60  Aligned_cols=310  Identities=26%  Similarity=0.389  Sum_probs=289.5

Q ss_pred             CCCCCCCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcCh
Q 039029            1 MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTA   80 (319)
Q Consensus         1 M~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (319)
                      |++.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||.
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 039029           81 STYNLLIHELLMERKMVEADDMLKEMGE--KGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIF  158 (319)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (319)
                      .+|+.++.+|++.|++++|.++|++|..  .++.||..+|+.++.+|++.|++++|.++|++|.+.|++|+..+|+.++.
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            9999999999999999999999999976  57889999999999999999999999999999999999999999999999


Q ss_pred             HHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHH
Q 039029          159 VLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEE  238 (319)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  238 (319)
                      +|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.|+..+|+.++.+|++.|++++
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             HHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          239 ARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       239 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      |.++|++|.+.|+.|+.       .+|+.++.+|++.|++++|.++|++|...|+.||..||..++.+|.+.|+.++|.
T Consensus       703 A~~lf~eM~~~g~~Pdv-------vtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~  774 (1060)
T PLN03218        703 ALELYEDIKSIKLRPTV-------STMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGL  774 (1060)
T ss_pred             HHHHHHHHHHcCCCCCH-------HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999988876654       8999999999999999999999999999999999999999999999999999885

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.2e-54  Score=374.56  Aligned_cols=304  Identities=22%  Similarity=0.366  Sum_probs=296.9

Q ss_pred             CCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHH
Q 039029            8 PDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLI   87 (319)
Q Consensus         8 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (319)
                      ||..+|+.++.+|++.|+++.|.++|+.|.+.|+.||..+|+.++.+|++.|+++.|.++|++|.+.|+.||..+|+.+|
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI  514 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI  514 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHH--cCCCccHHHHHHHHHHHhhhcc
Q 039029           88 HELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIH--KGIQPTMLTYTSLIFVLSKQNR  165 (319)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~  165 (319)
                      .+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|..  .++.||..+|+.++.+|++.|+
T Consensus       515 ~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~  594 (1060)
T PLN03218        515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ  594 (1060)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCC
Confidence            99999999999999999999999999999999999999999999999999999986  5789999999999999999999


Q ss_pred             HHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHH
Q 039029          166 MIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQ  245 (319)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  245 (319)
                      +++|.++|+.|.+.++.|+..+|+.++.+|++.|++++|..+|++|.+.|+.||..+|+.++.+|++.|++++|.+++++
T Consensus       595 ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~e  674 (1060)
T PLN03218        595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD  674 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          246 MKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       246 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      |.+.|+.|+.       .+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|.+.|++++|..
T Consensus       675 M~k~G~~pd~-------~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAle  740 (1060)
T PLN03218        675 ARKQGIKLGT-------VSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALE  740 (1060)
T ss_pred             HHHcCCCCCH-------HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            9999987666       89999999999999999999999999999999999999999999999999999863

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

Probab=100.00  E-value=6.4e-50  Score=345.51  Aligned_cols=298  Identities=24%  Similarity=0.379  Sum_probs=246.5

Q ss_pred             CCCCCCCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC---
Q 039029            1 MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM---   77 (319)
Q Consensus         1 M~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---   77 (319)
                      |++.|+.||..+|+.++..|++.|++++|.++|++|.+    ||..+|+.++.+|++.|++++|.++|++|.+.|..   
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            34567777777777777777777777777777776653    56667777777777777777777777777655544   


Q ss_pred             --------------------------------cChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHH
Q 039029           78 --------------------------------PTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGY  125 (319)
Q Consensus        78 --------------------------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (319)
                                                      |+..+++.++.+|++.|++++|.++|++|.+    +|..+|+.++.+|
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                                            4555667778888888888888888888864    4888899999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHH
Q 039029          126 CRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAF  205 (319)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  205 (319)
                      ++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.+++..+.+.|+.||..+++.|+.+|++.|++++|.
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            99999999999999998888899999999999999999999999999999999998889999999999999999999999


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHH
Q 039029          206 SLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELL  285 (319)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  285 (319)
                      ++|++|.+    ||..+|+.|+.+|++.|+.++|.++|++|.+.|+.|+.       .||+.++.+|.+.|++++|.++|
T Consensus       381 ~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~-------~T~~~ll~a~~~~g~~~~a~~~f  449 (697)
T PLN03081        381 NVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNH-------VTFLAVLSACRYSGLSEQGWEIF  449 (697)
T ss_pred             HHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCH-------HHHHHHHHHHhcCCcHHHHHHHH
Confidence            99988863    68889999999999999999999999999988877665       78999999999999999999999


Q ss_pred             HHHHh-CCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          286 REMVS-KGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       286 ~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      +.|.+ .|+.|+..+|..++.+|.+.|+.++|.
T Consensus       450 ~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~  482 (697)
T PLN03081        450 QSMSENHRIKPRAMHYACMIELLGREGLLDEAY  482 (697)
T ss_pred             HHHHHhcCCCCCccchHhHHHHHHhcCCHHHHH
Confidence            99976 588999999999999999999999885

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

Probab=100.00  E-value=4.3e-49  Score=340.38  Aligned_cols=293  Identities=23%  Similarity=0.348  Sum_probs=270.3

Q ss_pred             CCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCC-----------------------------------CHHhHHHH
Q 039029            7 QPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVP-----------------------------------TAVTYNTL   51 (319)
Q Consensus         7 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-----------------------------------~~~~~~~l   51 (319)
                      .||..+|+++|.+|++.|++++|+++|++|.+.|+.|                                   +..+++.+
T Consensus       186 ~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~L  265 (697)
T PLN03081        186 ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCAL  265 (697)
T ss_pred             CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHH
Confidence            4788888888888888888888888888887665555                                   45566788


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCCh
Q 039029           52 IDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNA  131 (319)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (319)
                      +.+|++.|++++|.++|++|.    .+|..+|+.++.+|.+.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++
T Consensus       266 i~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~  341 (697)
T PLN03081        266 IDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALL  341 (697)
T ss_pred             HHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccch
Confidence            889999999999999999986    4589999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHH
Q 039029          132 KKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEM  211 (319)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (319)
                      ++|.+++..|.+.|++|+..+++.++.+|++.|++++|.++|++|.+    ||..+|+.++.+|++.|+.++|.++|++|
T Consensus       342 ~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M  417 (697)
T PLN03081        342 EHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERM  417 (697)
T ss_pred             HHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999864    68999999999999999999999999999


Q ss_pred             HhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHH-cCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          212 DRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKR-RGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       212 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      .+.|+.||..||+.++.+|.+.|..++|.++|+.|.+ .|+.|+.       .+|+.++.+|.+.|++++|.+++++|  
T Consensus       418 ~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~-------~~y~~li~~l~r~G~~~eA~~~~~~~--  488 (697)
T PLN03081        418 IAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRA-------MHYACMIELLGREGLLDEAYAMIRRA--  488 (697)
T ss_pred             HHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCc-------cchHhHHHHHHhcCCHHHHHHHHHHC--
Confidence            9999999999999999999999999999999999986 4776665       79999999999999999999999876  


Q ss_pred             CCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          291 KGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       291 ~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                       ++.|+..+|..++.+|...|+.+.|.
T Consensus       489 -~~~p~~~~~~~Ll~a~~~~g~~~~a~  514 (697)
T PLN03081        489 -PFKPTVNMWAALLTACRIHKNLELGR  514 (697)
T ss_pred             -CCCCCHHHHHHHHHHHHHcCCcHHHH
Confidence             57899999999999999999999875

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.2e-47  Score=338.64  Aligned_cols=300  Identities=22%  Similarity=0.335  Sum_probs=199.8

Q ss_pred             CCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHH
Q 039029            7 QPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLL   86 (319)
Q Consensus         7 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (319)
                      .||..+||++|.+|++.|++++|+++|.+|...|+.||..+|+.++.+|.+.|+.+.+.+++..+.+.|+.||..+|+.+
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            35566666666666666666666666666766677777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccH
Q 039029           87 IHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRM  166 (319)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (319)
                      +.+|.+.|++++|.++|++|..    ||..+|+.++.+|.+.|++++|+++|++|.+.|+.||..+|+.++.+|++.|++
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 IQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDL  405 (857)
T ss_pred             HHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchH
Confidence            7777777777777777777653    466677777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC------------------------------CC
Q 039029          167 IEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM------------------------------KV  216 (319)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------------------------------~~  216 (319)
                      +.+.++++.+.+.|..|+..+++.|+.+|++.|++++|.++|++|.+.                              ++
T Consensus       406 ~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~  485 (857)
T PLN03077        406 DVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTL  485 (857)
T ss_pred             HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCC
Confidence            777777777777777777777777777777777777777777666431                              11


Q ss_pred             C-----------------------------------------------------------------CChhhHHHHHHHHH
Q 039029          217 H-----------------------------------------------------------------PDEVTYNTLMHGRC  231 (319)
Q Consensus       217 ~-----------------------------------------------------------------~~~~~~~~l~~~~~  231 (319)
                      .                                                                 ||..+|+.++.+|+
T Consensus       486 ~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~  565 (857)
T PLN03077        486 KPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYV  565 (857)
T ss_pred             CCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHH
Confidence            2                                                                 23334445555555


Q ss_pred             cCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHH-hCCCCCChHHHHHHHHHhhhc
Q 039029          232 RQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMV-SKGITPDDNTYFSLIEGIASV  310 (319)
Q Consensus       232 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~  310 (319)
                      +.|+.++|.++|++|.+.|+.|+.       .||+.++.+|.+.|.+++|.++|+.|. ..|+.|+..+|..++.+|.+.
T Consensus       566 ~~G~~~~A~~lf~~M~~~g~~Pd~-------~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~  638 (857)
T PLN03077        566 AHGKGSMAVELFNRMVESGVNPDE-------VTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRA  638 (857)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCCc-------ccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhC
Confidence            555555555555555555554444       455556666666666666666666665 345556666666666666666


Q ss_pred             chhhhhc
Q 039029          311 DKAAESS  317 (319)
Q Consensus       311 g~~~~A~  317 (319)
                      |+.++|.
T Consensus       639 G~~~eA~  645 (857)
T PLN03077        639 GKLTEAY  645 (857)
T ss_pred             CCHHHHH
Confidence            6555553

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=9.1e-47  Score=333.15  Aligned_cols=296  Identities=20%  Similarity=0.278  Sum_probs=275.1

Q ss_pred             CCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHH
Q 039029            7 QPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLL   86 (319)
Q Consensus         7 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (319)
                      +||+.+|+.+|.+|++.|++++|+++|++|...|+.||..+|+.++.+|...+++..+.+++..+.+.|+.|+..+++.+
T Consensus       149 ~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~L  228 (857)
T PLN03077        149 ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNAL  228 (857)
T ss_pred             CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHH
Confidence            58899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccH
Q 039029           87 IHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRM  166 (319)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (319)
                      +.+|++.|+++.|.++|++|.+    ||..+|+.++.+|++.|++++|+++|++|...|+.||..+|+.++.+|.+.|+.
T Consensus       229 i~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~  304 (857)
T PLN03077        229 ITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE  304 (857)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCCh
Confidence            9999999999999999999864    588999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHH
Q 039029          167 IEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQM  246 (319)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  246 (319)
                      +.+.+++..+.+.|..||..+|+.++.+|++.|++++|.++|++|.    .||..+|+.++.+|.+.|++++|.++|++|
T Consensus       305 ~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M  380 (857)
T PLN03077        305 RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALM  380 (857)
T ss_pred             HHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999986    478899999999999999999999999999


Q ss_pred             HHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          247 KRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      .+.|+.|+.       .+|+.++.+|.+.|+++.|.++++.|.+.|+.|+..+++.++.+|.+.|++++|.
T Consensus       381 ~~~g~~Pd~-------~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~  444 (857)
T PLN03077        381 EQDNVSPDE-------ITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKAL  444 (857)
T ss_pred             HHhCCCCCc-------eeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHH
Confidence            999988777       6888888888888888888888888888888888888888888888888888875

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.94  E-value=9.3e-23  Score=166.39  Aligned_cols=288  Identities=16%  Similarity=0.122  Sum_probs=230.4

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC---hhhHHHHHHHHHH
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT---ASTYNLLIHELLM   92 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~   92 (319)
                      ....+...|++++|+..|+++.+.+. .+..++..+...+...|++++|..+++.+...+..++   ...+..+...+..
T Consensus        41 ~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~  119 (389)
T PRK11788         41 KGLNFLLNEQPDKAIDLFIEMLKVDP-ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLK  119 (389)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            34456778999999999999998743 3667888999999999999999999999887532221   2467788899999


Q ss_pred             cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc----HHHHHHHHHHHhhhccHHH
Q 039029           93 ERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPT----MLTYTSLIFVLSKQNRMIE  168 (319)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~  168 (319)
                      .|++++|..+|+++.+... .+..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..+...+.+.|++++
T Consensus       120 ~g~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  198 (389)
T PRK11788        120 AGLLDRAEELFLQLVDEGD-FAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDA  198 (389)
T ss_pred             CCCHHHHHHHHHHHHcCCc-chHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHH
Confidence            9999999999999987643 4678899999999999999999999999987643222    1245567777889999999


Q ss_pred             HHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 039029          169 ADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  248 (319)
                      |...++++.+... .+...+..+...+.+.|++++|..+++++.+.+......++..++.+|...|++++|...++++.+
T Consensus       199 A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~  277 (389)
T PRK11788        199 ARALLKKALAADP-QCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALE  277 (389)
T ss_pred             HHHHHHHHHhHCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999987643 246678888899999999999999999998754222245678889999999999999999999988


Q ss_pred             cCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhh---cchhhhhc
Q 039029          249 RGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIAS---VDKAAESS  317 (319)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~  317 (319)
                      ..  |+.       ..+..++..+.+.|++++|..+++++.+.  .|+..++..++..+..   .|+.++|.
T Consensus       278 ~~--p~~-------~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~  338 (389)
T PRK11788        278 EY--PGA-------DLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESL  338 (389)
T ss_pred             hC--CCc-------hHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHH
Confidence            53  333       45688899999999999999999998875  6888888888776553   34555553

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.94  E-value=8e-23  Score=166.77  Aligned_cols=277  Identities=15%  Similarity=0.098  Sum_probs=230.5

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCC---HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPT---AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNL   85 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (319)
                      +..++..+...+.+.|++++|..+++.+...+..++   ..++..+...+...|++++|..+|+++.+.. +.+..++..
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            455788899999999999999999999987532221   2567888999999999999999999998763 446788999


Q ss_pred             HHHHHHHcCchhHHHHHHHHHhhCCCCCC----hHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 039029           86 LIHELLMERKMVEADDMLKEMGEKGIVPD----SITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLS  161 (319)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (319)
                      ++..+...|++++|.+.++.+.+.+..+.    ...+..+...+...|++++|...++++.+.. +.+...+..+...+.
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            99999999999999999999988654432    2245667788899999999999999998864 445678888889999


Q ss_pred             hhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHH
Q 039029          162 KQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARR  241 (319)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  241 (319)
                      +.|++++|.++++++...+......++..++.+|...|++++|...++++.+.  .|+...+..++..+.+.|++++|..
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            99999999999999987644333567888999999999999999999999876  4666677889999999999999999


Q ss_pred             HHHHHHHcCCCCCCcccCcchhhHHHHHHHHHh---cCchhHHHHHHHHHHhCCCCCChH
Q 039029          242 LLDQMKRRGIKPDHISFNPTRLTYNALIQGLCK---NQEGDLAEELLREMVSKGITPDDN  298 (319)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~  298 (319)
                      +++++.+.  .|+       ...+..++..+..   .|+.+++..++++|.+.++.|++.
T Consensus       304 ~l~~~l~~--~P~-------~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        304 LLREQLRR--HPS-------LRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HHHHHHHh--CcC-------HHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            99999875  344       3678777777664   568999999999999887777665

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

Probab=99.93  E-value=2.7e-22  Score=180.79  Aligned_cols=292  Identities=16%  Similarity=0.142  Sum_probs=176.5

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      ..+|..+...+.+.|++++|+..|+.+.+.. +.+...+..+..++...|++++|...++++.+.. +.+...+..++..
T Consensus       601 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  678 (899)
T TIGR02917       601 PEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQL  678 (899)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3444444455555555555555555444432 1233344444445555555555555555544432 2234444455555


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      +...|++++|.++++.+.+..+ .+...+..+...+...|++++|...++++...+  |+..++..+..++.+.|++++|
T Consensus       679 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A  755 (899)
T TIGR02917       679 LLAAKRTESAKKIAKSLQKQHP-KAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEA  755 (899)
T ss_pred             HHHcCCHHHHHHHHHHHHhhCc-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHH
Confidence            5555555555555555544432 244455555555566666666666666655542  3334555555666666666666


Q ss_pred             HHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          170 DQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      .+.++.+.+... .+...+..+...|...|++++|...|+++.+.. +.+...+..+...+...|+ ++|..+++++.+.
T Consensus       756 ~~~~~~~l~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~  832 (899)
T TIGR02917       756 VKTLEAWLKTHP-NDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKL  832 (899)
T ss_pred             HHHHHHHHHhCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhh
Confidence            666666655432 255666666666666777777777777766654 3455666666777777777 6677777776653


Q ss_pred             CCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          250 GIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                        .|+.      ...+..+...+...|++++|.+.++++++.+ +.+..++..+..++.+.|++++|+.
T Consensus       833 --~~~~------~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  892 (899)
T TIGR02917       833 --APNI------PAILDTLGWLLVEKGEADRALPLLRKAVNIA-PEAAAIRYHLALALLATGRKAEARK  892 (899)
T ss_pred             --CCCC------cHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHHHcCCHHHHHH
Confidence              2332      2567788888999999999999999999875 3388899999999999999999864

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=99.92  E-value=2.3e-21  Score=174.88  Aligned_cols=294  Identities=15%  Similarity=0.094  Sum_probs=146.9

Q ss_pred             CCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHH
Q 039029            7 QPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLL   86 (319)
Q Consensus         7 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (319)
                      +++..++..+...+...|++++|.+.|+++.+... .+...+..+...+...|++++|.+.++.+...+ +.+..++..+
T Consensus       462 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l  539 (899)
T TIGR02917       462 PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEP-DFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILAL  539 (899)
T ss_pred             CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHH
Confidence            34455666666666666666666666666655432 234455556666666666666666666665543 2244555555


Q ss_pred             HHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccH
Q 039029           87 IHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRM  166 (319)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (319)
                      ...+.+.|+.++|..+++++.+.++. +...+..++..+...|++++|..+++.+.... +.+..++..+..++...|++
T Consensus       540 ~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  617 (899)
T TIGR02917       540 AGLYLRTGNEEEAVAWLEKAAELNPQ-EIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDL  617 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCcc-chhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCH
Confidence            55555556666666655555544322 34444455555555555555555555554432 33445555555555555555


Q ss_pred             HHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHH
Q 039029          167 IEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQM  246 (319)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  246 (319)
                      ++|...++.+.+... .+...+..+..++...|++++|...++++.+.. +.+..++..++..+...|++++|..+++.+
T Consensus       618 ~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  695 (899)
T TIGR02917       618 NKAVSSFKKLLALQP-DSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSL  695 (899)
T ss_pred             HHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            555555555554422 134444455555555555555555555554432 223344444444444444444444444444


Q ss_pred             HHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhh
Q 039029          247 KRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAES  316 (319)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  316 (319)
                      .+..  |+      +...+..+...+...|++++|.+.++++...  .|+..++..+...+.+.|++++|
T Consensus       696 ~~~~--~~------~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A  755 (899)
T TIGR02917       696 QKQH--PK------AALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEA  755 (899)
T ss_pred             HhhC--cC------ChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHH
Confidence            4332  11      1123334444444444444444444444432  22223333344444444444433

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=99.90  E-value=1.8e-19  Score=154.37  Aligned_cols=293  Identities=10%  Similarity=0.035  Sum_probs=226.6

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      ...+..++.++...|++++|+..++++....+. +...+..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus        76 ~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~-~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~  153 (656)
T PRK15174         76 RDLLRRWVISPLASSQPDAVLQVVNKLLAVNVC-QPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRT  153 (656)
T ss_pred             hhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            445666677777889999999999998886433 56778888888899999999999999988764 3356778888888


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      +...|++++|...++.+....+. +...+..+ ..+...|++++|...++.+......++......+..++...|++++|
T Consensus       154 l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA  231 (656)
T PRK15174        154 LVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEA  231 (656)
T ss_pred             HHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHH
Confidence            99999999999999888766443 33344333 34778899999999999887764333444555566778889999999


Q ss_pred             HHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHH----HHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHH
Q 039029          170 DQLFENFLAKGMLPDIVMFNALIDGHCTNGNIER----AFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQ  245 (319)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  245 (319)
                      ...++++...... +...+..+...+...|++++    |...++++.+.. +.+...+..+...+...|++++|...+++
T Consensus       232 ~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~  309 (656)
T PRK15174        232 IQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQ  309 (656)
T ss_pred             HHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999998877533 57778888889999999885    788999888764 34567888889999999999999999999


Q ss_pred             HHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHH-HHHHHHHhhhcchhhhhcC
Q 039029          246 MKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNT-YFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       246 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~  318 (319)
                      +.+.  .|+.      ...+..+..++.+.|++++|...++++...  .|+... +..+..++...|+.++|..
T Consensus       310 al~l--~P~~------~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~  373 (656)
T PRK15174        310 SLAT--HPDL------PYVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAES  373 (656)
T ss_pred             HHHh--CCCC------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHH
Confidence            8874  3443      256777888999999999999999998875  455433 3445667888999998864

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.89  E-value=5.2e-19  Score=151.55  Aligned_cols=290  Identities=11%  Similarity=0.056  Sum_probs=238.0

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc
Q 039029           14 GSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLME   93 (319)
Q Consensus        14 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (319)
                      ..++..+.+.|++++|+.+++........ +...+..++.+....|+++.|...++++.... +.+...+..+...+...
T Consensus        46 ~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~  123 (656)
T PRK15174         46 ILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKS  123 (656)
T ss_pred             HHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHc
Confidence            34677888999999999999999887544 45566677778888999999999999999875 33667888889999999


Q ss_pred             CchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHH
Q 039029           94 RKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLF  173 (319)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  173 (319)
                      |++++|...+++..+..+. +...+..+...+...|++++|...++.+.... +.+...+..+ ..+...|++++|...+
T Consensus       124 g~~~~Ai~~l~~Al~l~P~-~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~-P~~~~a~~~~-~~l~~~g~~~eA~~~~  200 (656)
T PRK15174        124 KQYATVADLAEQAWLAFSG-NSQIFALHLRTLVLMDKELQAISLARTQAQEV-PPRGDMIATC-LSFLNKSRLPEDHDLA  200 (656)
T ss_pred             CCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-CCCHHHHHHH-HHHHHcCCHHHHHHHH
Confidence            9999999999999987443 67788899999999999999999999887764 3334444343 3478899999999999


Q ss_pred             HHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHH----HHHHHHHHHHc
Q 039029          174 ENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEE----ARRLLDQMKRR  249 (319)
Q Consensus       174 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~----a~~~~~~~~~~  249 (319)
                      +.+......++...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++    |...|+++.+.
T Consensus       201 ~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l  279 (656)
T PRK15174        201 RALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF  279 (656)
T ss_pred             HHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh
Confidence            998877544455555666788899999999999999998865 4456778889999999999986    89999999884


Q ss_pred             CCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          250 GIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                        .|+.      ...+..+...+...|++++|...+++..... +.+...+..+...+.+.|++++|+.
T Consensus       280 --~P~~------~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~  339 (656)
T PRK15174        280 --NSDN------VRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASD  339 (656)
T ss_pred             --CCCC------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence              4543      3788999999999999999999999999863 3345677778889999999999863

>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=99.88  E-value=2.4e-18  Score=147.74  Aligned_cols=305  Identities=14%  Similarity=0.017  Sum_probs=215.8

Q ss_pred             CCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHH----------------
Q 039029            6 VQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRD----------------   69 (319)
Q Consensus         6 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~----------------   69 (319)
                      +.|+...|..+..+|.+.|++++|++.++...+.+. .+..+|..+..++...|++++|+..|.                
T Consensus       156 ~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p-~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~  234 (615)
T TIGR00990       156 CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDP-DYSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQA  234 (615)
T ss_pred             cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHHH
Confidence            456667777788888888888888888888777542 245566677777777777776654332                


Q ss_pred             --------------------------------------------------------------------------------
Q 039029           70 --------------------------------------------------------------------------------   69 (319)
Q Consensus        70 --------------------------------------------------------------------------------   69 (319)
                                                                                                      
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--CCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039029           70 ----EMVKQG--IMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIH  143 (319)
Q Consensus        70 ----~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (319)
                          .....+  .+.....+..+..++...|++++|...+++..+..+. ....|..+...+...|++++|...+++..+
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  0112233445555566677888888888887765432 456777778888888888888888888877


Q ss_pred             cCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhH
Q 039029          144 KGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTY  223 (319)
Q Consensus       144 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  223 (319)
                      .. +.+..++..+...+...|++++|...|++.++.... +...+..+...+.+.|++++|...+++..+.. +.+...+
T Consensus       394 ~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~  470 (615)
T TIGR00990       394 LN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD-FIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVY  470 (615)
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHH
Confidence            64 456778888888888889999999999888876433 56677778888888999999999999887653 3456788


Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcch-hhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHH
Q 039029          224 NTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTR-LTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFS  302 (319)
Q Consensus       224 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  302 (319)
                      +.+...+...|++++|.+.|++..+..  |+......+. ..++.....+...|++++|..++++.+... +.+...+..
T Consensus       471 ~~lg~~~~~~g~~~~A~~~~~~Al~l~--p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~  547 (615)
T TIGR00990       471 NYYGELLLDQNKFDEAIEKFDTAIELE--KETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PECDIAVAT  547 (615)
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHhcC--CccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHHHH
Confidence            888999999999999999999988753  3221111111 122223333445799999999999988753 234456888


Q ss_pred             HHHHhhhcchhhhhcC
Q 039029          303 LIEGIASVDKAAESSN  318 (319)
Q Consensus       303 l~~~~~~~g~~~~A~~  318 (319)
                      +...+.+.|++++|+.
T Consensus       548 la~~~~~~g~~~eAi~  563 (615)
T TIGR00990       548 MAQLLLQQGDVDEALK  563 (615)
T ss_pred             HHHHHHHccCHHHHHH
Confidence            9999999999999864

>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=99.87  E-value=1.1e-17  Score=143.67  Aligned_cols=292  Identities=10%  Similarity=-0.005  Sum_probs=227.3

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHH
Q 039029           13 YGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLM   92 (319)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (319)
                      +......+.+.|++++|+..|++....  .|+...|..+..+|...|++++|++.++..++.. +.+...+..+..++..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            446677889999999999999998875  4677889999999999999999999999999875 3366788889999999


Q ss_pred             cCchhHHHHHHHHHhhCCCC-----------------------------CChHHHHHH----------------------
Q 039029           93 ERKMVEADDMLKEMGEKGIV-----------------------------PDSITYNIL----------------------  121 (319)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~-----------------------------~~~~~~~~l----------------------  121 (319)
                      .|++++|...|......+..                             ++...+..+                      
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNEL  286 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccc
Confidence            99999998765443221100                             000000000                      


Q ss_pred             --------HHHH------HhcCChHHHHHHHHHHHHcC-C-CccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccH
Q 039029          122 --------INGY------CRCGNAKKAFSLHDEMIHKG-I-QPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDI  185 (319)
Q Consensus       122 --------~~~~------~~~~~~~~a~~~~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  185 (319)
                              +...      ...+++++|.+.|++....+ . +.....+..+...+...|++++|...+++.+..... ..
T Consensus       287 ~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-~~  365 (615)
T TIGR00990       287 DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR-VT  365 (615)
T ss_pred             ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cH
Confidence                    0000      11257889999999988764 2 334567788888888999999999999999886432 46


Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhH
Q 039029          186 VMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTY  265 (319)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (319)
                      ..|..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...|++.++.  .|+.      ...+
T Consensus       366 ~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~------~~~~  436 (615)
T TIGR00990       366 QSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDF------IFSH  436 (615)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccC------HHHH
Confidence            678888889999999999999999988764 445778888999999999999999999999885  3433      3677


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          266 NALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       266 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      ..+...+.+.|++++|+..+++.+.. .+.+...+..+...+...|++++|+.
T Consensus       437 ~~la~~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~  488 (615)
T TIGR00990       437 IQLGVTQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIE  488 (615)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHH
Confidence            88889999999999999999999875 23457788889999999999999863

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

Probab=99.84  E-value=9.7e-19  Score=139.74  Aligned_cols=257  Identities=16%  Similarity=0.086  Sum_probs=175.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYC  126 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (319)
                      .|+.+...+..+|+...|+..|++..+.++ --...|..|...|...+.++.|...|.+.....+. ....+..+...|.
T Consensus       220 awsnLg~~f~~~Gei~~aiq~y~eAvkldP-~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn-~A~a~gNla~iYy  297 (966)
T KOG4626|consen  220 AWSNLGCVFNAQGEIWLAIQHYEEAVKLDP-NFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPN-HAVAHGNLACIYY  297 (966)
T ss_pred             eehhcchHHhhcchHHHHHHHHHHhhcCCC-cchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCc-chhhccceEEEEe
Confidence            355555555556666666666666665431 12345666666666666777777666666655332 4556666666677


Q ss_pred             hcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHH
Q 039029          127 RCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFS  206 (319)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  206 (319)
                      ..|..+.|+..|++..+.. +.-...|+.+..++-..|++.+|...+.+.+..... .....+.|...|...|.++.|..
T Consensus       298 eqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~-hadam~NLgni~~E~~~~e~A~~  375 (966)
T KOG4626|consen  298 EQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-HADAMNNLGNIYREQGKIEEATR  375 (966)
T ss_pred             ccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhccchHHHH
Confidence            7777777777777777653 334567788888888888888888888877776433 45667777788888888888888


Q ss_pred             HHHHHHhCCCCCC-hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHH
Q 039029          207 LLKEMDRMKVHPD-EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELL  285 (319)
Q Consensus       207 ~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  285 (319)
                      +|....+.  .|. ...++.|...|.++|++++|...++++++  +.|+..      .+|+.+...|-..|+.+.|+..+
T Consensus       376 ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fA------da~~NmGnt~ke~g~v~~A~q~y  445 (966)
T KOG4626|consen  376 LYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFA------DALSNMGNTYKEMGDVSAAIQCY  445 (966)
T ss_pred             HHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHH------HHHHhcchHHHHhhhHHHHHHHH
Confidence            88777664  333 44667788888888888888888888776  555543      57777778888888888888888


Q ss_pred             HHHHhCCCCCC-hHHHHHHHHHhhhcchhhhhcCC
Q 039029          286 REMVSKGITPD-DNTYFSLIEGIASVDKAAESSNS  319 (319)
Q Consensus       286 ~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~s  319 (319)
                      .+.+..  .|. ...++.|...+..+|...+|+.|
T Consensus       446 ~rAI~~--nPt~AeAhsNLasi~kDsGni~~AI~s  478 (966)
T KOG4626|consen  446 TRAIQI--NPTFAEAHSNLASIYKDSGNIPEAIQS  478 (966)
T ss_pred             HHHHhc--CcHHHHHHhhHHHHhhccCCcHHHHHH
Confidence            777763  454 45667777777888888877754

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

Probab=99.82  E-value=6.8e-18  Score=135.00  Aligned_cols=291  Identities=17%  Similarity=0.099  Sum_probs=205.1

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhh-------
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTAST-------   82 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------   82 (319)
                      ..+|..+...+...|++++|+.+++.+.+...+ ....|..+..++...|+.+.|.+.|.+.++.+  |+...       
T Consensus       116 ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~-fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgn  192 (966)
T KOG4626|consen  116 AEAYSNLANILKERGQLQDALALYRAAIELKPK-FIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGN  192 (966)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHhcCch-hhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhH
Confidence            567888999999999999999999999986433 67788889999999999888888888877653  33222       


Q ss_pred             ----------------------------HHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHH
Q 039029           83 ----------------------------YNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKA  134 (319)
Q Consensus        83 ----------------------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  134 (319)
                                                  |..|.-.+-..|+...|++.|++.....+. -...|-.|...|...+.+++|
T Consensus       193 Llka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~ke~~~~d~A  271 (966)
T KOG4626|consen  193 LLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYKEARIFDRA  271 (966)
T ss_pred             HHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHHHHhcchHH
Confidence                                        222222233344455555555555443221 234555566666666666666


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC
Q 039029          135 FSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (319)
                      ...|.+..... +.....+..+...|..+|.++-|+..+++.++..+. -...|+.|..++-..|++.+|.+.+.+....
T Consensus       272 vs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l  349 (966)
T KOG4626|consen  272 VSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRL  349 (966)
T ss_pred             HHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHh
Confidence            66666655542 333455666666666777777777777777765322 2567888888888888888888888887775


Q ss_pred             CCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCC
Q 039029          215 KVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGIT  294 (319)
Q Consensus       215 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  294 (319)
                      . +.-....+.|...|...|.+++|..+|....+  +.|.-.      ..++.|...|-++|++++|+..+++.+.  +.
T Consensus       350 ~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~a------aa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~  418 (966)
T KOG4626|consen  350 C-PNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFA------AAHNNLASIYKQQGNLDDAIMCYKEALR--IK  418 (966)
T ss_pred             C-CccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhh------hhhhhHHHHHHhcccHHHHHHHHHHHHh--cC
Confidence            3 23356677888888888888888888888776  344432      5788888889999999999999998886  56


Q ss_pred             CC-hHHHHHHHHHhhhcchhhhhc
Q 039029          295 PD-DNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       295 ~~-~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      |+ ...++.+...|...|+.++|+
T Consensus       419 P~fAda~~NmGnt~ke~g~v~~A~  442 (966)
T KOG4626|consen  419 PTFADALSNMGNTYKEMGDVSAAI  442 (966)
T ss_pred             chHHHHHHhcchHHHHhhhHHHHH
Confidence            76 457888888888888888876

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.82  E-value=3.2e-16  Score=143.31  Aligned_cols=167  Identities=12%  Similarity=0.040  Sum_probs=84.7

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCC-CHHhH------------HHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVP-TAVTY------------NTLIDGYCNKGNLEMAFSFRDEMVKQGI   76 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~   76 (319)
                      ...+..+...+.+.|++++|+..|++..+..... ....|            ......+.+.|++++|+..|+++++.. 
T Consensus       303 ~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-  381 (1157)
T PRK11447        303 SEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-  381 (1157)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-
Confidence            4445555555666666666666666555433211 11111            111233445555666666666555543 


Q ss_pred             CcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHH-----------------------------------
Q 039029           77 MPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNIL-----------------------------------  121 (319)
Q Consensus        77 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-----------------------------------  121 (319)
                      +.+...+..+..++...|++++|++.|++..+..+. +...+..+                                   
T Consensus       382 P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~  460 (1157)
T PRK11447        382 NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQ  460 (1157)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhh
Confidence            223444555556666666666666666666544322 22222111                                   


Q ss_pred             -------HHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC
Q 039029          122 -------INGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK  179 (319)
Q Consensus       122 -------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (319)
                             ...+...|++++|++.+++..+.. +.+...+..+...|.+.|++++|...++++.+.
T Consensus       461 ~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~  524 (1157)
T PRK11447        461 NDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQ  524 (1157)
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence                   222334566666666666665543 334455555666666666666666666665543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.81  E-value=5.7e-16  Score=141.63  Aligned_cols=289  Identities=12%  Similarity=0.044  Sum_probs=208.3

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHH-----------
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNL-----------   85 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----------   85 (319)
                      ...+.+.|++++|+..|+++.+... .+...+..+..++...|++++|++.|+++++.... +...+..           
T Consensus       358 g~~~~~~g~~~eA~~~~~~Al~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~~~~~~  435 (1157)
T PRK11447        358 GDAALKANNLAQAERLYQQARQVDN-TDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYRQQSPE  435 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCHH
Confidence            4466788999999999999888643 35667778888999999999999999998876322 2222222           


Q ss_pred             -------------------------------HHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHH
Q 039029           86 -------------------------------LIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKA  134 (319)
Q Consensus        86 -------------------------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  134 (319)
                                                     +...+...|++++|.+.|++..+..+. +...+..+...|.+.|++++|
T Consensus       436 ~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A  514 (1157)
T PRK11447        436 KALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQA  514 (1157)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHH
Confidence                                           223345678999999999999887554 677888899999999999999


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC-----------------------------------
Q 039029          135 FSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK-----------------------------------  179 (319)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------------------------------  179 (319)
                      ...++++.+.. +.+...+..+...+...++.++|...++.+...                                   
T Consensus       515 ~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~  593 (1157)
T PRK11447        515 DALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAE  593 (1157)
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHH
Confidence            99999988753 334444433333444455555554444432111                                   


Q ss_pred             ----CCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCC
Q 039029          180 ----GMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDH  255 (319)
Q Consensus       180 ----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  255 (319)
                          ..+.+...+..+...+.+.|++++|...|+++.+.. +.+...+..++..+...|++++|.+.++.+.+.  .|+.
T Consensus       594 ~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~  670 (1157)
T PRK11447        594 ALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDS  670 (1157)
T ss_pred             HHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCC
Confidence                123345566778888889999999999999988764 446778888899999999999999999987763  3333


Q ss_pred             cccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCC--CC---ChHHHHHHHHHhhhcchhhhhcC
Q 039029          256 ISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGI--TP---DDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       256 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~---~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                            ...+..+..++...|++++|.++++++....-  +|   +...+..+...+...|++++|+.
T Consensus       671 ------~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~  732 (1157)
T PRK11447        671 ------LNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALE  732 (1157)
T ss_pred             ------hHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHH
Confidence                  25667788888899999999999999887521  22   22455566777888898888863

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

Probab=99.81  E-value=8.7e-19  Score=136.00  Aligned_cols=262  Identities=18%  Similarity=0.145  Sum_probs=107.9

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHhCC-CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc
Q 039029           15 SFVSGMCKEGRLEEASRMLEQMKENG-LVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLME   93 (319)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (319)
                      .+...+.+.|++++|++++....... .+.+...|..+...+...++++.|...++++...+.. +...+..++.. ...
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            45788888999999999996654443 3446666777777888889999999999999877533 56667777776 688


Q ss_pred             CchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCccHHHHHHHHHHHhhhccHHHHHHH
Q 039029           94 RKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKG-IQPTMLTYTSLIFVLSKQNRMIEADQL  172 (319)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (319)
                      +++++|.+++....+..  ++...+..++..+...++++++..+++.+.... .+.+...|..+...+.+.|+.++|.+.
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            99999999888776543  466677788888999999999999999877542 345677888888889999999999999


Q ss_pred             HHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCC
Q 039029          173 FENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIK  252 (319)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  252 (319)
                      +++..+..+. |......++..+...|+.+++.+++....+.. +.|+..+..+..+|...|+.++|..+|++..+..  
T Consensus       169 ~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~--  244 (280)
T PF13429_consen  169 YRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN--  244 (280)
T ss_dssp             HHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS--
T ss_pred             HHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc--
Confidence            9999887433 57778888888999999999888888877653 4566778888999999999999999999988743  


Q ss_pred             CCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          253 PDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       253 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      |+      |+.....+..++...|+.++|.++.+++..
T Consensus       245 p~------d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  245 PD------DPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             TT-------HHHHHHHHHHHT-----------------
T ss_pred             cc------cccccccccccccccccccccccccccccc
Confidence            33      336778888999999999999988877654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.79  E-value=2.4e-15  Score=122.05  Aligned_cols=278  Identities=15%  Similarity=0.154  Sum_probs=212.4

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHH--HHHHHHHHcCchhHH
Q 039029           22 KEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYN--LLIHELLMERKMVEA   99 (319)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a   99 (319)
                      -.|++++|.+......+....| ...+........+.|+++.|...+.++.+.  .|+.....  .....+...|+++.|
T Consensus        96 ~eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             hCCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            3599999998888766642221 223434455558899999999999999876  44543332  346788899999999


Q ss_pred             HHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHH-------HHHHHHHHHhhhccHHHHHHH
Q 039029          100 DDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTML-------TYTSLIFVLSKQNRMIEADQL  172 (319)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~  172 (319)
                      ...++++.+..+. +......+...|.+.|++++|.+++..+.+.+..++..       +|..++.......+.+...++
T Consensus       173 l~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        173 RHGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            9999999988755 78889999999999999999999999999876442221       233333333444555666677


Q ss_pred             HHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCC
Q 039029          173 FENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIK  252 (319)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  252 (319)
                      ++.+.+. .+.++.....+...+...|+.++|..++++..+.  +|+....  ++.+....++.+++.+..+...+.  .
T Consensus       252 w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~--~  324 (398)
T PRK10747        252 WKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQ--H  324 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhh--C
Confidence            7766543 2347788889999999999999999999998874  4555322  334445669999999999998875  3


Q ss_pred             CCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          253 PDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       253 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      |++      ...+..+.+.|.+.|++++|.+.|+.+.+.  .|+..++..+...+.+.|+.++|..
T Consensus       325 P~~------~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~  382 (398)
T PRK10747        325 GDT------PLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAA  382 (398)
T ss_pred             CCC------HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            444      266788999999999999999999999985  7999999999999999999998853

>TIGR00540 hemY_coli hemY protein

Probab=99.79  E-value=2.6e-15  Score=122.51  Aligned_cols=286  Identities=14%  Similarity=0.077  Sum_probs=208.4

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHH
Q 039029           21 CKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEAD  100 (319)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (319)
                      ...|+++.|.+.+....+.... ....+-....+....|+++.|.+.+.+..+....+...........+...|+++.|.
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~-~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAE-PVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            4679999999999888775422 233445556788889999999999999887632222233444578888999999999


Q ss_pred             HHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHH-HHHHHH---hhhccHHHHHHHHHHH
Q 039029          101 DMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYT-SLIFVL---SKQNRMIEADQLFENF  176 (319)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~~~~a~~~~~~~  176 (319)
                      ..++.+.+..+. +...+..+...+...|++++|.+.+..+.+.+.. +...+. .-..++   ...+..+.+.+.+..+
T Consensus       174 ~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       174 HGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            999999998755 7788899999999999999999999999998644 333332 111221   2233333333344444


Q ss_pred             hhCCC---CccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhh---HHHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          177 LAKGM---LPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVT---YNTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       177 ~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      .....   +.+...+..+...+...|+.++|.+++++..+..  |+...   ...........++.+.+.+.+++..+. 
T Consensus       252 ~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~-  328 (409)
T TIGR00540       252 WKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN-  328 (409)
T ss_pred             HHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh-
Confidence            44322   1377888889999999999999999999998853  44332   122222234457888999999888874 


Q ss_pred             CCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          251 IKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                       .|+.    |+.....++.+.+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.
T Consensus       329 -~p~~----~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~  390 (409)
T TIGR00540       329 -VDDK----PKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAA  390 (409)
T ss_pred             -CCCC----hhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHH
Confidence             4444    2224567889999999999999999996555445799999999999999999999885

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.

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.79  E-value=2.5e-15  Score=115.39  Aligned_cols=305  Identities=19%  Similarity=0.220  Sum_probs=224.4

Q ss_pred             CCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHH
Q 039029            6 VQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNL   85 (319)
Q Consensus         6 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (319)
                      .+.+..++.++|.++++-...++|.+++++......+.+..+||.+|.+-.-.    ...+++.+|....+.||..|+|.
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pnl~TfNa  278 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNA  278 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHH
Confidence            35567899999999999999999999999999888888999999998765433    33788999999999999999999


Q ss_pred             HHHHHHHcCchhH----HHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHH-HHHHHHHHHHc----CC----CccHHH
Q 039029           86 LIHELLMERKMVE----ADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKK-AFSLHDEMIHK----GI----QPTMLT  152 (319)
Q Consensus        86 l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~----~~----~~~~~~  152 (319)
                      ++.+..+.|+++.    |.+++.+|++.|+.|...+|..++..+.+-++..+ +..++.++...    .+    +.+...
T Consensus       279 lL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~F  358 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKF  358 (625)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHH
Confidence            9999999998765    45778889999999999999999999999888754 44455554432    22    334567


Q ss_pred             HHHHHHHHhhhccHHHHHHHHHHHhhC----CCCcc---HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHH
Q 039029          153 YTSLIFVLSKQNRMIEADQLFENFLAK----GMLPD---IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNT  225 (319)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  225 (319)
                      |...+..|.+..+.+-|.++..-+...    .+.|+   ..-|..+....++....+.....|+.|.-.-+-|+..+...
T Consensus       359 F~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~  438 (625)
T KOG4422|consen  359 FQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIH  438 (625)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHH
Confidence            788888899999988888887655432    12222   23455677777788888888888888877767788888888


Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHHcCC-------------------CCCCcc----------------------------c
Q 039029          226 LMHGRCRQGKVEEARRLLDQMKRRGI-------------------KPDHIS----------------------------F  258 (319)
Q Consensus       226 l~~~~~~~g~~~~a~~~~~~~~~~~~-------------------~~~~~~----------------------------~  258 (319)
                      ++++....|.++-..++|..++..|.                   .|+...                            .
T Consensus       439 ~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~  518 (625)
T KOG4422|consen  439 LLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQ  518 (625)
T ss_pred             HHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhc
Confidence            88888888888887777777665442                   222110                            1


Q ss_pred             CcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCC----CCChHHHHHHHHHhhhcchhh
Q 039029          259 NPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGI----TPDDNTYFSLIEGIASVDKAA  314 (319)
Q Consensus       259 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~  314 (319)
                      .-+....+.++-.+.+.|+.++|.+++.-+.+.+-    .|.......++.+-.+.....
T Consensus       519 ~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~sps  578 (625)
T KOG4422|consen  519 DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPS  578 (625)
T ss_pred             cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHH
Confidence            11234456666778889999999999988865432    233333334555444444433

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.78  E-value=9.8e-15  Score=128.04  Aligned_cols=301  Identities=11%  Similarity=0.031  Sum_probs=213.2

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      ...+..+...+.+.|++++|.++|++..+.. +.+...+..+..++...|++++|+..++++.+.. +.+.. +..+..+
T Consensus        49 a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~  125 (765)
T PRK10049         49 ARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYV  125 (765)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHH
Confidence            3457888899999999999999999988763 3356677788888999999999999999998874 33555 8888888


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHH------------------------------
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHD------------------------------  139 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~------------------------------  139 (319)
                      +...|+.++|+..++++.+..+. +...+..+..++...+..++|++.++                              
T Consensus       126 l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~  204 (765)
T PRK10049        126 YKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRS  204 (765)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccC
Confidence            99999999999999999987554 55566666666666666554444333                              


Q ss_pred             ----------------HHHHc-CCCccHH-HHH----HHHHHHhhhccHHHHHHHHHHHhhCCCC-ccHHHHHHHHHHHh
Q 039029          140 ----------------EMIHK-GIQPTML-TYT----SLIFVLSKQNRMIEADQLFENFLAKGML-PDIVMFNALIDGHC  196 (319)
Q Consensus       140 ----------------~~~~~-~~~~~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~  196 (319)
                                      .+.+. ...|+.. .+.    ..+.++...|++++|+..|+.+.+.+.+ |+. ....+...|.
T Consensus       205 ~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl  283 (765)
T PRK10049        205 EKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYL  283 (765)
T ss_pred             hhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHH
Confidence                            33322 1112211 111    1123445778999999999999887532 332 2222577899


Q ss_pred             cCCcHHHHHHHHHHHHhCCCCC---ChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCc------ccCcc---hhh
Q 039029          197 TNGNIERAFSLLKEMDRMKVHP---DEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHI------SFNPT---RLT  264 (319)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~------~~~~~---~~~  264 (319)
                      ..|++++|...|+++.+.....   .......+..++...|++++|..+++.+.+..  |...      ...|+   ...
T Consensus       284 ~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~--P~~~~~~~~~~~~p~~~~~~a  361 (765)
T PRK10049        284 KLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNS--PPFLRLYGSPTSIPNDDWLQG  361 (765)
T ss_pred             hcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcC--CceEeecCCCCCCCCchHHHH
Confidence            9999999999999987643111   12345667778899999999999999998753  2110      11222   234


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          265 YNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       265 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      +..+...+...|++++|+++++++... .+-+...+..+...+...|++++|+.
T Consensus       362 ~~~~a~~l~~~g~~~eA~~~l~~al~~-~P~n~~l~~~lA~l~~~~g~~~~A~~  414 (765)
T PRK10049        362 QSLLSQVAKYSNDLPQAEMRARELAYN-APGNQGLRIDYASVLQARGWPRAAEN  414 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCHHHHHH
Confidence            556777888888999999888888775 24456677778888888888888763

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

Probab=99.78  E-value=5.8e-18  Score=131.43  Aligned_cols=255  Identities=16%  Similarity=0.144  Sum_probs=113.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcC-CCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhc
Q 039029           50 TLIDGYCNKGNLEMAFSFRDEMVKQG-IMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRC  128 (319)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  128 (319)
                      .+...+.+.|++++|+++++...... .+.+...|..+...+...++++.|...++++...+.. ++..+..++.. ...
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            55788889999999999997655543 2335556666777778899999999999999987654 66777777777 789


Q ss_pred             CChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC-CCccHHHHHHHHHHHhcCCcHHHHHHH
Q 039029          129 GNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG-MLPDIVMFNALIDGHCTNGNIERAFSL  207 (319)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~  207 (319)
                      +++++|.+++....+.  .+++..+..++..+...++++.+..+++.+.... .+.+...|..+...+.+.|+.++|.+.
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999887765  3566778888889999999999999999977543 345778888999999999999999999


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHH
Q 039029          208 LKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLRE  287 (319)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  287 (319)
                      +++..+.. +.|......++..+...|+.+++.++++...+..  |+      +...+..+..+|...|+.++|...+++
T Consensus       169 ~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~--~~------~~~~~~~la~~~~~lg~~~~Al~~~~~  239 (280)
T PF13429_consen  169 YRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA--PD------DPDLWDALAAAYLQLGRYEEALEYLEK  239 (280)
T ss_dssp             HHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HT------SCCHCHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--cC------HHHHHHHHHHHhccccccccccccccc
Confidence            99998864 3357788899999999999999999999887764  22      225778999999999999999999999


Q ss_pred             HHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          288 MVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       288 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      ..... +.|+.....+..++...|+.++|..
T Consensus       240 ~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~  269 (280)
T PF13429_consen  240 ALKLN-PDDPLWLLAYADALEQAGRKDEALR  269 (280)
T ss_dssp             HHHHS-TT-HHHHHHHHHHHT----------
T ss_pred             ccccc-ccccccccccccccccccccccccc
Confidence            98852 4478888999999999999999864

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.77  E-value=9.9e-15  Score=128.85  Aligned_cols=264  Identities=11%  Similarity=0.014  Sum_probs=175.4

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      +...|..+..++.. +++.+|+..+.+.....  |+......+...+...|++++|...++++...  +|+...+..+..
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            44556666666665 67777888777666543  44433333444445778888888888776554  334444556666


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIE  168 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (319)
                      .+.+.|+.++|...+++..+..+. +...+..+.......|++++|...+++..+.  .|+...+..+..++.+.|++++
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            777788888888888877766422 3333333334444558888888888887765  3456777777778888888888


Q ss_pred             HHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 039029          169 ADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  248 (319)
                      |...+++.....+. +...+..+...+...|++++|...+++..+.. +-+...+..+..++...|++++|...++++.+
T Consensus       628 A~~~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        628 AVSDLRAALELEPN-NSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVID  705 (987)
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            88888887776433 56677777777778888888888888777653 33556777777888888888888888888776


Q ss_pred             cCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          249 RGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      .  .|+..      .+.........+..+++.|.+-+++...
T Consensus       706 l--~P~~a------~i~~~~g~~~~~~~~~~~a~~~~~r~~~  739 (987)
T PRK09782        706 D--IDNQA------LITPLTPEQNQQRFNFRRLHEEVGRRWT  739 (987)
T ss_pred             c--CCCCc------hhhhhhhHHHHHHHHHHHHHHHHHHHhh
Confidence            4  34432      3344455555666667777776666554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.76  E-value=2.6e-14  Score=125.46  Aligned_cols=297  Identities=11%  Similarity=-0.009  Sum_probs=214.9

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      +...+..++..+...|++++|+..++++.+.. +.+.. +..+..++...|+.++|+..++++.+..+. +...+..+..
T Consensus        82 ~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~  158 (765)
T PRK10049         82 NDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQ  158 (765)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            45567788888999999999999999998874 33556 888889999999999999999999987532 4555555666


Q ss_pred             HHHHcCchhHHHH----------------------------------------------HHHHHhhC-CCCCChH-HH--
Q 039029           89 ELLMERKMVEADD----------------------------------------------MLKEMGEK-GIVPDSI-TY--  118 (319)
Q Consensus        89 ~~~~~~~~~~a~~----------------------------------------------~~~~~~~~-~~~~~~~-~~--  118 (319)
                      ++...+..+.|+.                                              .++.+.+. ...|+.. .+  
T Consensus       159 ~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~  238 (765)
T PRK10049        159 ALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQR  238 (765)
T ss_pred             HHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHH
Confidence            6655555554443                                              33333322 1112111 11  


Q ss_pred             --HHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCc---cHHHHHHHHH
Q 039029          119 --NILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLP---DIVMFNALID  193 (319)
Q Consensus       119 --~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~  193 (319)
                        ...+..+...|++++|+..|+.+.+.+.+........+..+|...|++++|...|+++.......   .......+..
T Consensus       239 a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~  318 (765)
T PRK10049        239 ARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFY  318 (765)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHH
Confidence              11133456779999999999999887532112233335778999999999999999987653221   1345666777


Q ss_pred             HHhcCCcHHHHHHHHHHHHhCCC-----------CCC---hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccC
Q 039029          194 GHCTNGNIERAFSLLKEMDRMKV-----------HPD---EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFN  259 (319)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  259 (319)
                      ++...|++++|..+++.+.+...           .|+   ...+..+...+...|++++|+++++++...  .|+.    
T Consensus       319 a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~--~P~n----  392 (765)
T PRK10049        319 SLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN--APGN----  392 (765)
T ss_pred             HHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCC----
Confidence            88999999999999999876531           122   124456778888999999999999999875  3443    


Q ss_pred             cchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCC-hHHHHHHHHHhhhcchhhhhcC
Q 039029          260 PTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPD-DNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       260 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                        ...+..+...+...|++++|++.+++.+..  .|+ ...+......+.+.|++++|+.
T Consensus       393 --~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~~~A~~  448 (765)
T PRK10049        393 --QGLRIDYASVLQARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEWRQMDV  448 (765)
T ss_pred             --HHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCHHHHHH
Confidence              368889999999999999999999999985  464 5666677778889999998863

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

Probab=99.76  E-value=1.1e-15  Score=123.32  Aligned_cols=277  Identities=12%  Similarity=0.039  Sum_probs=215.5

Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CcChhhHHHHHHHHHHcCchhHHHH
Q 039029           24 GRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGI--MPTASTYNLLIHELLMERKMVEADD  101 (319)
Q Consensus        24 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~  101 (319)
                      -+..+|+..|..+..+ +.-+..+...+..+|...+++++|.++|+.+.+...  .-+..+|...+..+   ++.-+.--
T Consensus       333 y~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHL---q~~v~Ls~  408 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHL---QDEVALSY  408 (638)
T ss_pred             HHHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHH---HhhHHHHH
Confidence            4678999999996665 333557788899999999999999999999988631  12556777766544   22222222


Q ss_pred             HHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCC
Q 039029          102 MLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGM  181 (319)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (319)
                      +-+.+.+.. +..+.+|.++..+|.-.++++.|++.|++..+.+ +-...+|+.+..-+.....+|.|...|+..+....
T Consensus       409 Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~  486 (638)
T KOG1126|consen  409 LAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDP  486 (638)
T ss_pred             HHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc
Confidence            333444443 3378899999999999999999999999999874 33788999999999999999999999998887633


Q ss_pred             CccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcc
Q 039029          182 LPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPT  261 (319)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  261 (319)
                      . +...|--+...|.+.++++.|+-.|+++.+.+ +-+......+...+.+.|+.++|+.+++++...+  |..      
T Consensus       487 r-hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld--~kn------  556 (638)
T KOG1126|consen  487 R-HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD--PKN------  556 (638)
T ss_pred             h-hhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC--CCC------
Confidence            2 34556667888999999999999999998876 4467777888899999999999999999998753  332      


Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          262 RLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      +..--.-+..+...+++++|+..++++.+. ++-+...|..+.+.|.+.|+.+.|.
T Consensus       557 ~l~~~~~~~il~~~~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al  611 (638)
T KOG1126|consen  557 PLCKYHRASILFSLGRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLAL  611 (638)
T ss_pred             chhHHHHHHHHHhhcchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHH
Confidence            133345566777889999999999999985 3446677888889999999988875

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.74  E-value=5.2e-14  Score=114.31  Aligned_cols=261  Identities=14%  Similarity=0.081  Sum_probs=202.9

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhH--HHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHH
Q 039029           13 YGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTY--NTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHEL   90 (319)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (319)
                      |-.......+.|+++.|.+.+.++.+..  |+....  ......+...|+++.|...++.+.+.. +-+......+...|
T Consensus       121 ~llaA~aA~~~g~~~~A~~~l~~A~~~~--~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~  197 (398)
T PRK10747        121 YLLAAEAAQQRGDEARANQHLERAAELA--DNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAY  197 (398)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            3333555589999999999999998753  444322  244678899999999999999999886 34678888999999


Q ss_pred             HHcCchhHHHHHHHHHhhCCCCCCh-------HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh
Q 039029           91 LMERKMVEADDMLKEMGEKGIVPDS-------ITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ  163 (319)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (319)
                      .+.|++++|.+++..+.+....++.       .+|..++.......+.+...++++.+... .+.++.....+...+...
T Consensus       198 ~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~  276 (398)
T PRK10747        198 IRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIEC  276 (398)
T ss_pred             HHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHC
Confidence            9999999999999999987655322       13333444444455566667777766544 356788899999999999


Q ss_pred             ccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHH
Q 039029          164 NRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLL  243 (319)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  243 (319)
                      |+.++|.+++++..+.  +|+....  ++.+....++.+++.+..+...+.. +-|...+..+...|.+.+++++|.+.|
T Consensus       277 g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~l  351 (398)
T PRK10747        277 DDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAF  351 (398)
T ss_pred             CCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999998885  4455322  2333445699999999999988764 445667888999999999999999999


Q ss_pred             HHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          244 DQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      +.+.+.  .|+       ...+..+...+.+.|+.++|.+++++....
T Consensus       352 e~al~~--~P~-------~~~~~~La~~~~~~g~~~~A~~~~~~~l~~  390 (398)
T PRK10747        352 RAALKQ--RPD-------AYDYAWLADALDRLHKPEEAAAMRRDGLML  390 (398)
T ss_pred             HHHHhc--CCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            999985  344       478889999999999999999999987653

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

Probab=99.73  E-value=1.6e-13  Score=104.58  Aligned_cols=279  Identities=16%  Similarity=0.190  Sum_probs=221.7

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHH
Q 039029           22 KEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADD  101 (319)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (319)
                      -.|+|.+|+++...-.+.+.. ....|..-..+.-+.|+.+.+-.++.+..+....++....-...+.....|+.+.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            359999999999998887655 3446777778888999999999999999887445667777778888999999999999


Q ss_pred             HHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH-------HHHHHHHHHHhhhccHHHHHHHHH
Q 039029          102 MLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTM-------LTYTSLIFVLSKQNRMIEADQLFE  174 (319)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~  174 (319)
                      -+.++.+.++. ++........+|.+.|++..+..++.++.+.+.-.+.       .++..++.-....+..+.-...|+
T Consensus       175 ~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~  253 (400)
T COG3071         175 NVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWK  253 (400)
T ss_pred             HHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            99999988765 7888899999999999999999999999998765444       356666666666666666666666


Q ss_pred             HHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCC
Q 039029          175 NFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPD  254 (319)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  254 (319)
                      ..... ..-++..-..++.-+.++|+.++|.++..+..+.+..|+    -...-.+.+-++.+.-.+..++-.+.  .|+
T Consensus       254 ~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~--h~~  326 (400)
T COG3071         254 NQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQ--HPE  326 (400)
T ss_pred             hccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHh--CCC
Confidence            65544 233567777888889999999999999999888765554    22233456778888878777776654  233


Q ss_pred             CcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          255 HISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       255 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      .      +..+.+|...|.+.+.|.+|.+.|+..++.  .|+..+|..+..++.+.|+.++|.
T Consensus       327 ~------p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~  381 (400)
T COG3071         327 D------PLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAE  381 (400)
T ss_pred             C------hhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHH
Confidence            2      157889999999999999999999987764  799999999999999999998874

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

Probab=99.73  E-value=7.2e-14  Score=103.59  Aligned_cols=273  Identities=14%  Similarity=0.122  Sum_probs=208.8

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc---ChhhHHHHHHHHHHcCchhH
Q 039029           22 KEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMP---TASTYNLLIHELLMERKMVE   98 (319)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~   98 (319)
                      -..+.++|.++|-+|.+.. +.+..+.-++.+.|.+.|..++|+.+.+.+.++.-.+   .......|.+-|...|-++.
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 LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            3567899999999999853 2355667789999999999999999999998762111   12234556677888999999


Q ss_pred             HHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH----HHHHHHHHHHhhhccHHHHHHHHH
Q 039029           99 ADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTM----LTYTSLIFVLSKQNRMIEADQLFE  174 (319)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~  174 (319)
                      |+.+|..+.+.+.. -......|+..|....+|++|+++-+++...+-.+..    ..|.-+...+....+.+.|..++.
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            99999999986433 5667888999999999999999999999887543332    345666666677889999999999


Q ss_pred             HHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCC
Q 039029          175 NFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPD  254 (319)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  254 (319)
                      +....+.. .+..--.+.+.+...|++++|.+.++.+.+.+..--..+...|..+|...|+.++...++.++.+....+ 
T Consensus       205 kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~-  282 (389)
T COG2956         205 KALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGA-  282 (389)
T ss_pred             HHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCc-
Confidence            99887544 4455556778889999999999999999987655556778889999999999999999999998864333 


Q ss_pred             CcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhh
Q 039029          255 HISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIA  308 (319)
Q Consensus       255 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  308 (319)
                              ..-..+.+.-....-.+.|...+.+-+.+  .|+...+..++..-.
T Consensus       283 --------~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l  326 (389)
T COG2956         283 --------DAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHL  326 (389)
T ss_pred             --------cHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhh
Confidence                    23344444444445556666666555554  699999888887643

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

Probab=99.73  E-value=2.4e-14  Score=110.98  Aligned_cols=285  Identities=14%  Similarity=0.045  Sum_probs=215.0

Q ss_pred             HHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--cChhhHHHHHHHHHHcCc
Q 039029           18 SGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM--PTASTYNLLIHELLMERK   95 (319)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~   95 (319)
                      .++....+.+++++-.+.....|.+.+...-+....+.....+++.|+.+|+++.+..+-  -|..+|..++-.-  ..+
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~--~~~  312 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVK--NDK  312 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHH--hhh
Confidence            344455577778888888888887767766666677777788999999999999887321  2455666554332  221


Q ss_pred             hhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHH
Q 039029           96 MVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFEN  175 (319)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (319)
                      -  .+.++.+-...-.+--+.|...+.+-|+-.++.++|...|+...+.+ +.....|+.+.+-|....+...|.+-++.
T Consensus       313 s--kLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRr  389 (559)
T KOG1155|consen  313 S--KLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRR  389 (559)
T ss_pred             H--HHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHH
Confidence            1  11122211111112245577788888899999999999999999876 45678899999999999999999999999


Q ss_pred             HhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCC
Q 039029          176 FLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDH  255 (319)
Q Consensus       176 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  255 (319)
                      +++.++. |...|-.|..+|.-.+.+.-|+-.|++..... +-|...|.+|...|.+.++.++|.+.|++....|-.   
T Consensus       390 Avdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt---  464 (559)
T KOG1155|consen  390 AVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT---  464 (559)
T ss_pred             HHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc---
Confidence            9988654 88999999999999999999999999998875 567889999999999999999999999999886532   


Q ss_pred             cccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC----C-CCC-ChHHHHHHHHHhhhcchhhhhc
Q 039029          256 ISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK----G-ITP-DDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       256 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~-~~~-~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                           +...+..+...|-+.++.++|...+.+-++.    | +.| ....-.-|..-+.+.+++++|+
T Consensus       465 -----e~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As  527 (559)
T KOG1155|consen  465 -----EGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEAS  527 (559)
T ss_pred             -----chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHH
Confidence                 2267889999999999999999888877653    3 233 2223333566678899999886

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.72  E-value=1.1e-13  Score=122.47  Aligned_cols=253  Identities=12%  Similarity=-0.000  Sum_probs=196.9

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILIN  123 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (319)
                      +...|..+..++.. +++++|...+.+....  .|+......+...+...|++++|...|+++...  +|+...+..+..
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-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            66778888888776 8999999988888776  355544444555567899999999999998665  344555677788


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHH
Q 039029          124 GYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIER  203 (319)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (319)
                      ++.+.|++++|...+++..+.+ +.....+..+.......|++++|...+++..+..  |+...+..+..++.+.|++++
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 TAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPA  627 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHH
Confidence            8999999999999999998874 3344444444445556699999999999999864  567889999999999999999


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHH
Q 039029          204 AFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEE  283 (319)
Q Consensus       204 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  283 (319)
                      |...+++..... +.+...+..+..++...|++++|...++++.+.  .|+..      ..+..+..++...|++++|..
T Consensus       628 A~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l--~P~~~------~a~~nLA~al~~lGd~~eA~~  698 (987)
T PRK09782        628 AVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKG--LPDDP------ALIRQLAYVNQRLDDMAATQH  698 (987)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCH------HHHHHHHHHHHHCCCHHHHHH
Confidence            999999998875 445677888889999999999999999999884  45442      788999999999999999999


Q ss_pred             HHHHHHhCCCCCCh-HHHHHHHHHhhhcchhhh
Q 039029          284 LLREMVSKGITPDD-NTYFSLIEGIASVDKAAE  315 (319)
Q Consensus       284 ~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~  315 (319)
                      .+++..+.  .|+. .+.........+..+++.
T Consensus       699 ~l~~Al~l--~P~~a~i~~~~g~~~~~~~~~~~  729 (987)
T PRK09782        699 YARLVIDD--IDNQALITPLTPEQNQQRFNFRR  729 (987)
T ss_pred             HHHHHHhc--CCCCchhhhhhhHHHHHHHHHHH
Confidence            99999875  4543 333333333444444443

>TIGR00540 hemY_coli hemY protein

Probab=99.71  E-value=1.9e-13  Score=111.57  Aligned_cols=274  Identities=11%  Similarity=0.018  Sum_probs=197.4

Q ss_pred             CCCccc-HHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHH
Q 039029            7 QPDSYT-YGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNL   85 (319)
Q Consensus         7 ~p~~~~-~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (319)
                      .|+... +-....+..+.|+++.|.+.+.+..+....+...........+...|+++.|...++.+.+.. |-+..+...
T Consensus       114 ~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~l  192 (409)
T TIGR00540       114 AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKL  192 (409)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            454433 344467788899999999999998775433333344446888899999999999999999986 336678889


Q ss_pred             HHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHH-HHHHHH---HhcCChHHHHHHHHHHHHcC---CCccHHHHHHHHH
Q 039029           86 LIHELLMERKMVEADDMLKEMGEKGIVPDSITYN-ILINGY---CRCGNAKKAFSLHDEMIHKG---IQPTMLTYTSLIF  158 (319)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~  158 (319)
                      +...+...|+++++.+.+..+.+.++. +...+. .-..++   ...+..++..+.+..+.+..   .+.+...+..+..
T Consensus       193 l~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~  271 (409)
T TIGR00540       193 AEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAE  271 (409)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHH
Confidence            999999999999999999999988654 333332 111221   33333333344555555442   1247888999999


Q ss_pred             HHhhhccHHHHHHHHHHHhhCCCCccHHHH-HHHHHHHhcCCcHHHHHHHHHHHHhCCCCCCh--hhHHHHHHHHHcCCc
Q 039029          159 VLSKQNRMIEADQLFENFLAKGMLPDIVMF-NALIDGHCTNGNIERAFSLLKEMDRMKVHPDE--VTYNTLMHGRCRQGK  235 (319)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~  235 (319)
                      .+...|+.++|.+++++..+.........+ ..........++.+.+.+.++...+.. +-|.  .....+...+.+.|+
T Consensus       272 ~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~-p~~~~~~ll~sLg~l~~~~~~  350 (409)
T TIGR00540       272 HLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV-DDKPKCCINRALGQLLMKHGE  350 (409)
T ss_pred             HHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHHHccc
Confidence            999999999999999999987433221111 111222234578888999998877653 3334  566788999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          236 VEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      +++|.+.|+........|+.       ..+..+...+.+.|+.++|.++|++...
T Consensus       351 ~~~A~~~le~a~a~~~~p~~-------~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       351 FIEAADAFKNVAACKEQLDA-------NDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHHHHHHhHHhhcCCCH-------HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999999964444344544       6788999999999999999999998654

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.

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.70  E-value=6.7e-13  Score=115.21  Aligned_cols=296  Identities=12%  Similarity=0.041  Sum_probs=185.0

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      ...+...|++++|+++|+++.+..+. ++..+..++..+...++.++|++.++++...  .|+...+..++..+...++.
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            44677778888888888888877544 4666677778888888888888888888776  34544454444444445556


Q ss_pred             hHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHH--------------------------------------
Q 039029           97 VEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLH--------------------------------------  138 (319)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~--------------------------------------  138 (319)
                      .+|++.++++.+..+. +...+..+..++.+.|-...|+++.                                      
T Consensus       186 ~~AL~~~ekll~~~P~-n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~  264 (822)
T PRK14574        186 YDALQASSEAVRLAPT-SEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERF  264 (822)
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            5688888888776433 5555555555555554333332222                                      


Q ss_pred             ----------HHHHHc--CCCccHHH----HHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHH
Q 039029          139 ----------DEMIHK--GIQPTMLT----YTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIE  202 (319)
Q Consensus       139 ----------~~~~~~--~~~~~~~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (319)
                                +.+...  ..|+....    ..-.+-++...+++.++++.++.+...+.+....+-..+..+|...++++
T Consensus       265 ~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~  344 (822)
T PRK14574        265 DIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPE  344 (822)
T ss_pred             HHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcH
Confidence                      222221  01111111    11223456677888888888888887765544556777888888888888


Q ss_pred             HHHHHHHHHHhCC-----CCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCC------CCCcccCcchhh-HHHHHH
Q 039029          203 RAFSLLKEMDRMK-----VHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIK------PDHISFNPTRLT-YNALIQ  270 (319)
Q Consensus       203 ~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~------~~~~~~~~~~~~-~~~l~~  270 (319)
                      +|..++..+....     .+++......|.-++...+++++|..+++++.+....      ......+|+-.. +..++.
T Consensus       345 kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~  424 (822)
T PRK14574        345 KAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQ  424 (822)
T ss_pred             HHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHH
Confidence            8888888875532     1223333567788888888888888888888763110      011122333333 344555


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          271 GLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       271 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      .+...|+..+|.+.++++... -+-|......+...+...|.+++|.
T Consensus       425 ~~~~~gdl~~Ae~~le~l~~~-aP~n~~l~~~~A~v~~~Rg~p~~A~  470 (822)
T PRK14574        425 SLVALNDLPTAQKKLEDLSST-APANQNLRIALASIYLARDLPRKAE  470 (822)
T ss_pred             HHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCHHHHH
Confidence            667777777777777777654 2346666666666777777776664

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

Probab=99.70  E-value=1.4e-13  Score=106.83  Aligned_cols=292  Identities=13%  Similarity=0.054  Sum_probs=224.7

Q ss_pred             CCCCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCC--CCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChh
Q 039029            4 RGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLV--PTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTAS   81 (319)
Q Consensus         4 ~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   81 (319)
                      .|++-+...-+....+.-.+.++++|+.+|+++.+..+-  -|..+|+.++-.-....+.    .++.+-.-.--+--+.
T Consensus       256 ~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skL----s~LA~~v~~idKyR~E  331 (559)
T KOG1155|consen  256 VGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKL----SYLAQNVSNIDKYRPE  331 (559)
T ss_pred             ccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHH----HHHHHHHHHhccCCcc
Confidence            355555555555556666788999999999999987421  2566787776443222221    1221111110123456


Q ss_pred             hHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 039029           82 TYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLS  161 (319)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (319)
                      |...+...|+-.++.++|...|+...+.++. ....|+.+..-|....+...|.+.|+..++-. |.|-..|-.+.++|.
T Consensus       332 TCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYe  409 (559)
T KOG1155|consen  332 TCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYE  409 (559)
T ss_pred             ceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHH
Confidence            7788888899999999999999999988765 77889999999999999999999999999875 668899999999999


Q ss_pred             hhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHH
Q 039029          162 KQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARR  241 (319)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  241 (319)
                      -.+.+.-|+-.|++.....+. |...|.+|..+|.+.++.++|+..|.+....+ ..+...+..+...|-+.++.++|..
T Consensus       410 im~Mh~YaLyYfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~  487 (559)
T KOG1155|consen  410 IMKMHFYALYYFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQ  487 (559)
T ss_pred             HhcchHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHH
Confidence            999999999999999887544 89999999999999999999999999998876 4466789999999999999999999


Q ss_pred             HHHHHHHcC----CCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhc
Q 039029          242 LLDQMKRRG----IKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASV  310 (319)
Q Consensus       242 ~~~~~~~~~----~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  310 (319)
                      .|.+.++.-    ...+.     +..+..-|...+.+.+++++|..........  .+...--..|++.+.+.
T Consensus       488 ~yek~v~~~~~eg~~~~~-----t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~--~~e~eeak~LlReir~~  553 (559)
T KOG1155|consen  488 YYEKYVEVSELEGEIDDE-----TIKARLFLAEYFKKMKDFDEASYYATLVLKG--ETECEEAKALLREIRKI  553 (559)
T ss_pred             HHHHHHHHHHhhcccchH-----HHHHHHHHHHHHHhhcchHHHHHHHHHHhcC--CchHHHHHHHHHHHHHh
Confidence            998877632    11111     2234444777889999999999887776653  56666667777766554

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.70  E-value=1.5e-13  Score=105.81  Aligned_cols=298  Identities=15%  Similarity=0.196  Sum_probs=207.3

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh--cCChHHH-HHHHHHHHHc------------
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCN--KGNLEMA-FSFRDEMVKQ------------   74 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a-~~~~~~~~~~------------   74 (319)
                      +.+=|.|+.. ...|...++.-+|+.|.+.|.+.+...-..+++.-+-  ..+.--+ ++.|-.|.+.            
T Consensus       116 V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~  194 (625)
T KOG4422|consen  116 VETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGA  194 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccccc
Confidence            4455666665 4568899999999999999988888776666654332  2221111 1222222221            


Q ss_pred             -------CCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 039029           75 -------GIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQ  147 (319)
Q Consensus        75 -------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  147 (319)
                             -.+-+..++..+|.+.++--..+.|.+++++......+.+..+||.++.+-.-..    ..++..+|.+..+.
T Consensus       195 vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~  270 (625)
T KOG4422|consen  195 VADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMT  270 (625)
T ss_pred             HHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcC
Confidence                   1345778999999999999999999999999998888889999999987654332    37889999999999


Q ss_pred             ccHHHHHHHHHHHhhhccHHH----HHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHH-HHHHHHHHHh----CCCC-
Q 039029          148 PTMLTYTSLIFVLSKQNRMIE----ADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIER-AFSLLKEMDR----MKVH-  217 (319)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~----~~~~-  217 (319)
                      ||..|+|+++++..+.|+++.    |.+++.+|.+.|+.|+..+|..++..+.+-++..+ +..++.++..    ...+ 
T Consensus       271 Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp  350 (625)
T KOG4422|consen  271 PNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKP  350 (625)
T ss_pred             CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccC
Confidence            999999999999999998765    56677888899999999999999999998888754 4444444432    2222 


Q ss_pred             ---CChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcc-cCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCC
Q 039029          218 ---PDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHIS-FNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGI  293 (319)
Q Consensus       218 ---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  293 (319)
                         .|...|...+..|.+..+.+-|.++-.-+.... ...... ......-|..+....++....+.-...|+.|+-.-+
T Consensus       351 ~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~-N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y  429 (625)
T KOG4422|consen  351 ITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGD-NWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAY  429 (625)
T ss_pred             CCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC-chhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccee
Confidence               234556777888888888888888766654321 111100 001113345556666666666677777777766656


Q ss_pred             CCChHHHHHHHHHhhhcchh
Q 039029          294 TPDDNTYFSLIEGIASVDKA  313 (319)
Q Consensus       294 ~~~~~~~~~l~~~~~~~g~~  313 (319)
                      -|+..+...++++..-.+.+
T Consensus       430 ~p~~~~m~~~lrA~~v~~~~  449 (625)
T KOG4422|consen  430 FPHSQTMIHLLRALDVANRL  449 (625)
T ss_pred             cCCchhHHHHHHHHhhcCcc
Confidence            66777777777766555544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.69  E-value=1e-12  Score=114.05  Aligned_cols=288  Identities=11%  Similarity=0.083  Sum_probs=200.8

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCc
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERK   95 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (319)
                      -+-...+.|+++.|++.|++..+....-...++ .++..+...|+.++|+..+++.... .+........+...+...|+
T Consensus        40 ~aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gd  117 (822)
T PRK14574         40 SLIIRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKR  117 (822)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCC
Confidence            344556889999999999999886533112344 8888888899999999999998821 12223333334567888899


Q ss_pred             hhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHH
Q 039029           96 MVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFEN  175 (319)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (319)
                      +++|+++|+++.+..+. ++..+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|++.+++
T Consensus       118 yd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ek  194 (822)
T PRK14574        118 WDQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSE  194 (822)
T ss_pred             HHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHH
Confidence            99999999999988665 6777778888999999999999999998876  45555554444444445666669999999


Q ss_pred             HhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHH----------------------------------------------
Q 039029          176 FLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLK----------------------------------------------  209 (319)
Q Consensus       176 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~----------------------------------------------  209 (319)
                      +.+..+. +...+..+..+..+.|-...|.++..                                              
T Consensus       195 ll~~~P~-n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~  273 (822)
T PRK14574        195 AVRLAPT-SEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALAD  273 (822)
T ss_pred             HHHhCCC-CHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHH
Confidence            9887533 45555555555555554443333332                                              


Q ss_pred             --HHHhC-CCCCCh-hhH----HHHHHHHHcCCcHHHHHHHHHHHHHcCCC-CCCcccCcchhhHHHHHHHHHhcCchhH
Q 039029          210 --EMDRM-KVHPDE-VTY----NTLMHGRCRQGKVEEARRLLDQMKRRGIK-PDHISFNPTRLTYNALIQGLCKNQEGDL  280 (319)
Q Consensus       210 --~~~~~-~~~~~~-~~~----~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~  280 (319)
                        .+... +..|.. ..|    .-.+-++...|++.++.+.|+.+...+.+ |+        .+-..+..+|...+++++
T Consensus       274 ~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~--------y~~~a~adayl~~~~P~k  345 (822)
T PRK14574        274 YQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPD--------YARRWAASAYIDRRLPEK  345 (822)
T ss_pred             HHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCH--------HHHHHHHHHHHhcCCcHH
Confidence              22110 111221 111    23455667888999999999999877643 32        466789999999999999


Q ss_pred             HHHHHHHHHhCC-----CCCChHHHHHHHHHhhhcchhhhhc
Q 039029          281 AEELLREMVSKG-----ITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       281 A~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      |..+++.+....     .+++......|.-++...|++++|.
T Consensus       346 A~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~  387 (822)
T PRK14574        346 AAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAY  387 (822)
T ss_pred             HHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHH
Confidence            999999997642     1234444578899999999999985

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

Probab=99.67  E-value=1.1e-13  Score=111.99  Aligned_cols=265  Identities=13%  Similarity=0.091  Sum_probs=211.2

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhCCC--CCCHHhHHHHHHHHHhcCChHHHHHH-HHHHHHcCCCcChhhHHHHH
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGL--VPTAVTYNTLIDGYCNKGNLEMAFSF-RDEMVKQGIMPTASTYNLLI   87 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~   87 (319)
                      .+...+..+|...+++++|..+|+.+.+...  .-+..+|...+--+-+    +-++.. -+.+.... +-.+.+|..+.
T Consensus       354 wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~Laq~Li~~~-~~sPesWca~G  428 (638)
T KOG1126|consen  354 WVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYLAQDLIDTD-PNSPESWCALG  428 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHHHHHHHhhC-CCCcHHHHHhc
Confidence            4556788999999999999999999988531  2256678777754422    222222 23334332 44778999999


Q ss_pred             HHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHH
Q 039029           88 HELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMI  167 (319)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (319)
                      .+|.-.++.+.|++.|++..+..+. ...+|+.+..-+....+++.|...|+...... +-+-..|..+...|.+.++++
T Consensus       429 NcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-~rhYnAwYGlG~vy~Kqek~e  506 (638)
T KOG1126|consen  429 NCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVD-PRHYNAWYGLGTVYLKQEKLE  506 (638)
T ss_pred             chhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-chhhHHHHhhhhheeccchhh
Confidence            9999999999999999999987543 78899999999999999999999999987643 223456667788899999999


Q ss_pred             HHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHH
Q 039029          168 EADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMK  247 (319)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  247 (319)
                      .|+-.|+++.+.++. +.+....+...+.+.|+.++|+.+++++...+ +.|+..--.-+..+...+++++|+..++++.
T Consensus       507 ~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~~~~~~~il~~~~~~~eal~~LEeLk  584 (638)
T KOG1126|consen  507 FAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLCKYHRASILFSLGRYVEALQELEELK  584 (638)
T ss_pred             HHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchhHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            999999999987654 66777778888999999999999999998765 3455555556777888999999999999998


Q ss_pred             HcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCC
Q 039029          248 RRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKG  292 (319)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  292 (319)
                      +  +.|+..      ..|..+...|.+.|+.+.|+.-|--+.+.+
T Consensus       585 ~--~vP~es------~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  585 E--LVPQES------SVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             H--hCcchH------HHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            8  455543      688899999999999999999998888753

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

Probab=99.64  E-value=6.1e-12  Score=105.37  Aligned_cols=297  Identities=15%  Similarity=0.113  Sum_probs=213.4

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      ....-.....+...|++++|.+++.++++... .....|..|...|-..|+.+++...+-.+-..+ +-|...|..+...
T Consensus       139 l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp-~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladl  216 (895)
T KOG2076|consen  139 LRQLLGEANNLFARGDLEEAEEILMEVIKQDP-RNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADL  216 (895)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCc-cchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHH
Confidence            33333444455556999999999999998754 377789999999999999999998876665554 3466889999999


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHH----HHHHHHHHHhhhcc
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTML----TYTSLIFVLSKQNR  165 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~  165 (319)
                      ..+.|.+..|.-.|.+.++..++ +...+-.-...|.+.|+...|...|.++.+...+.+..    .....++.+...++
T Consensus       217 s~~~~~i~qA~~cy~rAI~~~p~-n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~  295 (895)
T KOG2076|consen  217 SEQLGNINQARYCYSRAIQANPS-NWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNE  295 (895)
T ss_pred             HHhcccHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhH
Confidence            99999999999999999988654 66666666788999999999999999998874222222    22333555666777


Q ss_pred             HHHHHHHHHHHhhC-CCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHh-------------------------------
Q 039029          166 MIEADQLFENFLAK-GMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDR-------------------------------  213 (319)
Q Consensus       166 ~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------------------------------  213 (319)
                      .+.|.+.++..... +-..+...++.++..+.+...++.+.........                               
T Consensus       296 ~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s  375 (895)
T KOG2076|consen  296 RERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELS  375 (895)
T ss_pred             HHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCC
Confidence            78888888877663 1222445566666667666666666665555433                               


Q ss_pred             ------------------------------CC--CCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcc
Q 039029          214 ------------------------------MK--VHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPT  261 (319)
Q Consensus       214 ------------------------------~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  261 (319)
                                                    ..  +.-+...|.-+..++...|++.+|+.+|..+.......       +
T Consensus       376 ~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~-------~  448 (895)
T KOG2076|consen  376 YDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQ-------N  448 (895)
T ss_pred             ccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCcccc-------c
Confidence                                          11  11123345667778888888888888888887653222       2


Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          262 RLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      ...|-.+.++|...|.++.|.+.++..+... +-+...-..|...+.+.|+.|+|.
T Consensus       449 ~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~Ekal  503 (895)
T KOG2076|consen  449 AFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKAL  503 (895)
T ss_pred             hhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHH
Confidence            3678888888888899999999988888752 234555666777788888888774

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

Probab=99.64  E-value=6.6e-12  Score=95.99  Aligned_cols=270  Identities=15%  Similarity=0.100  Sum_probs=217.2

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHH
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHEL   90 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (319)
                      ..|..-+.+.-+.|+.+.+-..+.+..+....++....-...+.....|+++.|..-++++.+.+ +.+........++|
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            44556667888999999999999999987556677788888899999999999999999999886 44778889999999


Q ss_pred             HHcCchhHHHHHHHHHhhCCCCCCh-------HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh
Q 039029           91 LMERKMVEADDMLKEMGEKGIVPDS-------ITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ  163 (319)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (319)
                      .+.|++.....++..+.+.+.-.+.       .+|..++.-....+..+.-...++..... .+.++..-..++.-+.+.
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            9999999999999999998866443       46777777777777777766677776655 455677788888889999


Q ss_pred             ccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHH
Q 039029          164 NRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLL  243 (319)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  243 (319)
                      |+.++|.++..+..+.+..|.   .. ..-.+.+-++...-.+..+...+.. +.++..+.+|...|.+.+.|.+|...|
T Consensus       277 ~~~~~A~~~i~~~Lk~~~D~~---L~-~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~l  351 (400)
T COG3071         277 GDHDEAQEIIEDALKRQWDPR---LC-RLIPRLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEAL  351 (400)
T ss_pred             CChHHHHHHHHHHHHhccChh---HH-HHHhhcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHH
Confidence            999999999999999877665   22 2223466778777777777765432 345578899999999999999999999


Q ss_pred             HHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCC
Q 039029          244 DQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPD  296 (319)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  296 (319)
                      +..++.+         |+..+|+.+..++.+.|+..+|.++.++....-.+|+
T Consensus       352 eaAl~~~---------~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         352 EAALKLR---------PSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             HHHHhcC---------CChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            9887743         4448999999999999999999999998876534444

>PRK12370 invasion protein regulator; Provisional

Probab=99.64  E-value=9.7e-13  Score=111.50  Aligned_cols=216  Identities=13%  Similarity=0.105  Sum_probs=126.6

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh---------cCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCc
Q 039029           25 RLEEASRMLEQMKENGLVPTAVTYNTLIDGYCN---------KGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERK   95 (319)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (319)
                      ++++|+.+|++..+..+. +...|..+..++..         .+++++|...+++.++.+ +-+...+..+...+...|+
T Consensus       276 ~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        276 SLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccC
Confidence            356777777777665322 34445444443332         233667777777777664 2255666666666677777


Q ss_pred             hhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHH
Q 039029           96 MVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFEN  175 (319)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (319)
                      +++|...+++..+..+. +...+..+...+...|++++|...+++..+.+ +.+...+..++..+...|++++|...+++
T Consensus       354 ~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~-P~~~~~~~~~~~~~~~~g~~eeA~~~~~~  431 (553)
T PRK12370        354 YIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLD-PTRAAAGITKLWITYYHTGIDDAIRLGDE  431 (553)
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHhccCHHHHHHHHHH
Confidence            77777777777766533 55566666777777777777777777776653 22222333333345556777777777776


Q ss_pred             HhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 039029          176 FLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPD-EVTYNTLMHGRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       176 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  248 (319)
                      +.....+-+...+..+..++...|+.++|...+.++...  .|+ ....+.+...|...|  +.|...++.+.+
T Consensus       432 ~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        432 LRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            665432223444555666666777777777777666443  222 233444445555555  356665555544

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

Probab=99.63  E-value=8.2e-13  Score=102.81  Aligned_cols=282  Identities=13%  Similarity=0.080  Sum_probs=204.1

Q ss_pred             HHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh--cCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCc
Q 039029           18 SGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCN--KGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERK   95 (319)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (319)
                      ..+.++|+++.|++++.-+.+..-+.....-+.+-..+.-  -.++..|.++-+..+... .-+......-.......|+
T Consensus       427 ~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  427 GELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCc
Confidence            3577899999999999888775433222222332222222  346777777776665432 1122222222233445789


Q ss_pred             hhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHH
Q 039029           96 MVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFEN  175 (319)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (319)
                      +++|.+.|++............|| +.-.+-..|+.++|++.|-++... +..+..+...+...|....+..+|++++.+
T Consensus       506 ~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q  583 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQ  583 (840)
T ss_pred             HHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHH
Confidence            999999999998764332233333 334567789999999999887664 345778888889999999999999999988


Q ss_pred             HhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCC
Q 039029          176 FLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDH  255 (319)
Q Consensus       176 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  255 (319)
                      .... ++.|+...+.|...|-+.|+-.+|.+.+-+--+. .+.+..+..+|...|....-++++..+|++..-  +    
T Consensus       584 ~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--i----  655 (840)
T KOG2003|consen  584 ANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--I----  655 (840)
T ss_pred             hccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--c----
Confidence            7665 4557899999999999999999999887665443 466788999999999999999999999998754  2    


Q ss_pred             cccCcchhhHHHHHHH-HHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhh
Q 039029          256 ISFNPTRLTYNALIQG-LCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAA  314 (319)
Q Consensus       256 ~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  314 (319)
                         .|+..-|..++.. +.+.|++.+|.+++++.... ++-|...+..|++-+...|..+
T Consensus       656 ---qp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl~d  711 (840)
T KOG2003|consen  656 ---QPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGLKD  711 (840)
T ss_pred             ---CccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccchh
Confidence               3555889877665 45789999999999998764 6778888888888887777543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.62  E-value=2.2e-12  Score=97.72  Aligned_cols=202  Identities=15%  Similarity=0.101  Sum_probs=163.7

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHH
Q 039029           43 PTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILI  122 (319)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (319)
                      .....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.... +...+..+.
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            345678888889999999999999999988764 335677788888899999999999999998877543 667788888


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCC-CccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcH
Q 039029          123 NGYCRCGNAKKAFSLHDEMIHKGI-QPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNI  201 (319)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (319)
                      ..+...|++++|.+.+++...... +.....+..+..++...|++++|...+.+....... +...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCH
Confidence            899999999999999999887522 223456777788889999999999999998876433 566788888899999999


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 039029          202 ERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  248 (319)
                      ++|...+++..+. .+.+...+..+...+...|+.++|..+.+.+..
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            9999999998776 244566677778888889999999998887765

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=99.62  E-value=2e-12  Score=97.97  Aligned_cols=200  Identities=14%  Similarity=0.046  Sum_probs=167.9

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      ...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            4567788899999999999999999998764 3357788889999999999999999999998875 3356778888899


Q ss_pred             HHHcCchhHHHHHHHHHhhCCC-CCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGI-VPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIE  168 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (319)
                      +...|++++|.+.+++..+... ......+..+...+...|++++|...+++..... +.+...+..+...+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999987532 2245567778889999999999999999998874 4456788889999999999999


Q ss_pred             HHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHh
Q 039029          169 ADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDR  213 (319)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (319)
                      |...+++.... .+.+...+..+...+...|+.++|..+.+.+..
T Consensus       188 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            99999998877 344667777788888899999999998887765

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.

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

Probab=99.61  E-value=6e-12  Score=100.31  Aligned_cols=290  Identities=15%  Similarity=0.064  Sum_probs=230.4

Q ss_pred             CCCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHH
Q 039029            5 GVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYN   84 (319)
Q Consensus         5 g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (319)
                      |+.-++.......+-+-..+++.+..++++.+.+. .++....+..-|.++...|+..+-..+=.++.+.- |....+|-
T Consensus       239 ~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~  316 (611)
T KOG1173|consen  239 GLAENLDLLAEKADRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWF  316 (611)
T ss_pred             hhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchh
Confidence            44556666667777888899999999999999886 34566677777889999999988888888888764 55778899


Q ss_pred             HHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhc
Q 039029           85 LLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQN  164 (319)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (319)
                      .+.-.|...|...+|.+.|.+....... =...|-.+..+|.-.|+.++|...|....+. ++-...-+--+.--|.+.+
T Consensus       317 aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~  394 (611)
T KOG1173|consen  317 AVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTN  394 (611)
T ss_pred             hHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhc
Confidence            9888888899999999999998765433 4568899999999999999999999988775 2222223334445688899


Q ss_pred             cHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC----C--CCCChhhHHHHHHHHHcCCcHHH
Q 039029          165 RMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM----K--VHPDEVTYNTLMHGRCRQGKVEE  238 (319)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~--~~~~~~~~~~l~~~~~~~g~~~~  238 (319)
                      +...|.++|.+.....+ .|+...+.+.-.....+.+.+|..+|+.....    +  ......+++.|..+|.+.+.+++
T Consensus       395 n~kLAe~Ff~~A~ai~P-~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~e  473 (611)
T KOG1173|consen  395 NLKLAEKFFKQALAIAP-SDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEE  473 (611)
T ss_pred             cHHHHHHHHHHHHhcCC-CcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHH
Confidence            99999999999888743 37788888877777889999999999987521    1  11244568899999999999999


Q ss_pred             HHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhh
Q 039029          239 ARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIAS  309 (319)
Q Consensus       239 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  309 (319)
                      |+..+++.+...  |.      +..++.++.-.|...|+++.|.+.|.+.+.  +.|+..+-..++..+..
T Consensus       474 AI~~~q~aL~l~--~k------~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  474 AIDYYQKALLLS--PK------DASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAIE  534 (611)
T ss_pred             HHHHHHHHHHcC--CC------chhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHHH
Confidence            999999998853  33      347899999999999999999999999886  57888777777775543

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

Probab=99.61  E-value=8.7e-12  Score=92.79  Aligned_cols=266  Identities=16%  Similarity=0.138  Sum_probs=206.4

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCH------HhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTA------VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTY   83 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (319)
                      ..+.-+|.+.|.+.|..++|+++.+.+.++   ||.      .....+.+-|...|-++.|+++|..+.+.+ ..-....
T Consensus        69 ~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~-efa~~Al  144 (389)
T COG2956          69 FEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGAL  144 (389)
T ss_pred             hHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcch-hhhHHHH
Confidence            344557888999999999999999999886   332      345567788899999999999999998864 2355677


Q ss_pred             HHHHHHHHHcCchhHHHHHHHHHhhCCCCCC----hHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 039029           84 NLLIHELLMERKMVEADDMLKEMGEKGIVPD----SITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFV  159 (319)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (319)
                      ..|+..|-...+|++|+++-+++.+.+..+.    ...|.-+...+....+.+.|..++.+..+.+ +..+..--.+.+.
T Consensus       145 qqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v  223 (389)
T COG2956         145 QQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQAD-KKCVRASIILGRV  223 (389)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC-ccceehhhhhhHH
Confidence            8899999999999999999999988765543    2345666777777889999999999998875 4455666677788


Q ss_pred             HhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHH
Q 039029          160 LSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEA  239 (319)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  239 (319)
                      ....|++..|.+.++.+.+.+..--+.+...|..+|...|+.++....+.++.+..  +....-..+...-......+.|
T Consensus       224 ~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~g~~~~l~l~~lie~~~G~~~A  301 (389)
T COG2956         224 ELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--TGADAELMLADLIELQEGIDAA  301 (389)
T ss_pred             HHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--CCccHHHHHHHHHHHhhChHHH
Confidence            99999999999999999998766567888999999999999999999999988764  4444445555555556667777


Q ss_pred             HHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhc---CchhHHHHHHHHHHhC
Q 039029          240 RRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKN---QEGDLAEELLREMVSK  291 (319)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~  291 (319)
                      ...+.+-+...         |+...+..++..-...   |...+-...+++|+..
T Consensus       302 q~~l~~Ql~r~---------Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         302 QAYLTRQLRRK---------PTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             HHHHHHHHhhC---------CcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            77766655532         5667888888866543   4456666777777654

>PRK12370 invasion protein regulator; Provisional

Probab=99.61  E-value=3.7e-12  Score=108.01  Aligned_cols=234  Identities=15%  Similarity=0.069  Sum_probs=173.5

Q ss_pred             CHHhHHHHHHHHHh-----cCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHH---------cCchhHHHHHHHHHhhC
Q 039029           44 TAVTYNTLIDGYCN-----KGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLM---------ERKMVEADDMLKEMGEK  109 (319)
Q Consensus        44 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~  109 (319)
                      +...|...+.+...     .+++++|..+|++.++..+. +...|..+..++..         .+++++|...+++..+.
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            45555566655322     23467899999999987422 45566666555442         24478999999999988


Q ss_pred             CCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHH
Q 039029          110 GIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFN  189 (319)
Q Consensus       110 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  189 (319)
                      .+. +...+..+...+...|++++|...+++..+.+ +.+...+..+..++...|++++|...++++.+..+. +...+.
T Consensus       334 dP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~  410 (553)
T PRK12370        334 DHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGI  410 (553)
T ss_pred             CCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHH
Confidence            655 78888889899999999999999999999885 556778888999999999999999999999987544 233333


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHH
Q 039029          190 ALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALI  269 (319)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  269 (319)
                      .++..+...|++++|...++++.+...+-+...+..+..++...|++++|...+.++...  .|+.      ....+.+.
T Consensus       411 ~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~------~~~~~~l~  482 (553)
T PRK12370        411 TKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITG------LIAVNLLY  482 (553)
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchh------HHHHHHHH
Confidence            444456678999999999999876532224455677888889999999999999887653  2322      14556666


Q ss_pred             HHHHhcCchhHHHHHHHHHHhC
Q 039029          270 QGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       270 ~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      ..|...|+  +|...++.+.+.
T Consensus       483 ~~~~~~g~--~a~~~l~~ll~~  502 (553)
T PRK12370        483 AEYCQNSE--RALPTIREFLES  502 (553)
T ss_pred             HHHhccHH--HHHHHHHHHHHH
Confidence            67777774  788877777663

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

Probab=99.59  E-value=4.2e-13  Score=99.96  Aligned_cols=233  Identities=14%  Similarity=0.018  Sum_probs=200.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhc
Q 039029           49 NTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRC  128 (319)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  128 (319)
                      +.+..+|.+.|.+.+|.+.++..++.  .|-+.||..|...|.+..++..|+.++.+-.+. ++-++....-+.+.+-..
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            67889999999999999999998887  567789999999999999999999999998876 333665566788899999


Q ss_pred             CChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHH
Q 039029          129 GNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLL  208 (319)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (319)
                      ++.++|.++|+...+.. +.+......+...|.-.++++-|+.++++++..|.. ++..|+.+.-+|...++++-++..|
T Consensus       304 ~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHH
Confidence            99999999999998874 567778888888888999999999999999999987 8899999999999999999999999


Q ss_pred             HHHHhCCCCCC--hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHH
Q 039029          209 KEMDRMKVHPD--EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLR  286 (319)
Q Consensus       209 ~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  286 (319)
                      ++....-..|+  ..+|-.+.......|++..|.+.|+-.+..+.  +      ....++.|.-.-.+.|+.+.|..+++
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~--~------h~ealnNLavL~~r~G~i~~Arsll~  453 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDA--Q------HGEALNNLAVLAARSGDILGARSLLN  453 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCc--c------hHHHHHhHHHHHhhcCchHHHHHHHH
Confidence            98876544444  45788888888999999999999999887642  2      23789999988999999999999999


Q ss_pred             HHHhCCCCCC
Q 039029          287 EMVSKGITPD  296 (319)
Q Consensus       287 ~~~~~~~~~~  296 (319)
                      ...+.  .|+
T Consensus       454 ~A~s~--~P~  461 (478)
T KOG1129|consen  454 AAKSV--MPD  461 (478)
T ss_pred             Hhhhh--Ccc
Confidence            88764  454

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

Probab=99.59  E-value=5e-12  Score=106.73  Aligned_cols=297  Identities=15%  Similarity=0.043  Sum_probs=195.6

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHH----hCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc---CCCcC--
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMK----ENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ---GIMPT--   79 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~--   79 (319)
                      |+..|-.+...+-.. +...++..|..+.    ..+..+.+...|.+...+...|+++.|...|......   ...++  
T Consensus       413 d~~a~l~laql~e~~-d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~  491 (1018)
T KOG2002|consen  413 DSEAWLELAQLLEQT-DPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEG  491 (1018)
T ss_pred             cHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCcccc
Confidence            455565555555544 3434466666544    3444567778888888888888888888888887654   11222  


Q ss_pred             ----hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHH
Q 039029           80 ----ASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTS  155 (319)
Q Consensus        80 ----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (319)
                          ..+-..+.+++-..++.+.|.+.|..+....+. -+..|-.++......++..+|...+......+ ..++..++.
T Consensus       492 ~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~-YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl  569 (1018)
T KOG2002|consen  492 KSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPG-YIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSL  569 (1018)
T ss_pred             ccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCch-hHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHH
Confidence                223344566666777888888888888876432 44555555544445577778888888777653 445666666


Q ss_pred             HHHHHhhhccHHHHHHHHHHHhhC-CCCccHHHHHHHHHHHhc------------CCcHHHHHHHHHHHHhCCCCCChhh
Q 039029          156 LIFVLSKQNRMIEADQLFENFLAK-GMLPDIVMFNALIDGHCT------------NGNIERAFSLLKEMDRMKVHPDEVT  222 (319)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~  222 (319)
                      +...+.+...+..|.+-|....+. ...+|+.+.-+|.+.|.+            .+..++|+.+|.++.+.. +.|...
T Consensus       570 ~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yA  648 (1018)
T KOG2002|consen  570 LGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYA  648 (1018)
T ss_pred             HHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhh
Confidence            666777777777777766555443 122455555556655442            234567777777777654 446666


Q ss_pred             HHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC-CCCCChHHHH
Q 039029          223 YNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK-GITPDDNTYF  301 (319)
Q Consensus       223 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~  301 (319)
                      -+-+.-.++..|++.+|..+|.++.+....        ...+|-.+..+|..+|+|..|+++|+...+. .-..+.....
T Consensus       649 ANGIgiVLA~kg~~~~A~dIFsqVrEa~~~--------~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~  720 (1018)
T KOG2002|consen  649 ANGIGIVLAEKGRFSEARDIFSQVREATSD--------FEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLH  720 (1018)
T ss_pred             ccchhhhhhhccCchHHHHHHHHHHHHHhh--------CCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHH
Confidence            677777778888888888888888776431        1146777888888888888888888776654 3344667777


Q ss_pred             HHHHHhhhcchhhhhc
Q 039029          302 SLIEGIASVDKAAESS  317 (319)
Q Consensus       302 ~l~~~~~~~g~~~~A~  317 (319)
                      .|.+++.+.|++.+|.
T Consensus       721 ~Lara~y~~~~~~eak  736 (1018)
T KOG2002|consen  721 YLARAWYEAGKLQEAK  736 (1018)
T ss_pred             HHHHHHHHhhhHHHHH
Confidence            7888888888877764

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

Probab=99.58  E-value=4.4e-13  Score=111.86  Aligned_cols=86  Identities=21%  Similarity=0.370  Sum_probs=71.4

Q ss_pred             CCCCCCCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcCh
Q 039029            1 MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTA   80 (319)
Q Consensus         1 M~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (319)
                      |+..|+.|+..||.++|..|+..|+.+.|- +|.-|.-...+.+...++.++.+....++.+.+.           .|..
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            456789999999999999999999998887 8888887777778888888888888888777665           5677


Q ss_pred             hhHHHHHHHHHHcCchhH
Q 039029           81 STYNLLIHELLMERKMVE   98 (319)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~   98 (319)
                      .+|..|..+|...||...
T Consensus        84 Dtyt~Ll~ayr~hGDli~  101 (1088)
T KOG4318|consen   84 DTYTNLLKAYRIHGDLIL  101 (1088)
T ss_pred             hHHHHHHHHHHhccchHH
Confidence            889999999988888665

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

Probab=99.57  E-value=1.2e-12  Score=97.59  Aligned_cols=225  Identities=12%  Similarity=0.056  Sum_probs=193.0

Q ss_pred             hHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 039029           82 TYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLS  161 (319)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (319)
                      --+.+..+|.+.|.+.+|.+.++...+.  .|-+.||..|-++|.+..++..|+.++.+-.+. +|.++.....+.+.+.
T Consensus       225 Wk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  225 WKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHH
Confidence            3467889999999999999999998876  457788999999999999999999999998876 4666667778888999


Q ss_pred             hhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHH
Q 039029          162 KQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARR  241 (319)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  241 (319)
                      ..++.+++.++++...+.... +++....+...|...++++-|...++++...|+. ++..|+.+.-.|.-.++++-++.
T Consensus       302 am~~~~~a~~lYk~vlk~~~~-nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~  379 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLHPI-NVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLP  379 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcCCc-cceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHH
Confidence            999999999999999887543 6777777778888999999999999999999964 78899999999999999999999


Q ss_pred             HHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          242 LLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      .|.++......|+..     ...|-.+.......||+..|.+.|+-.+..+ .-....++.|.-.-.+.|+.++|.
T Consensus       380 sf~RAlstat~~~~a-----aDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Ar  449 (478)
T KOG1129|consen  380 SFQRALSTATQPGQA-----ADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGAR  449 (478)
T ss_pred             HHHHHHhhccCcchh-----hhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHH
Confidence            999998876555542     2678889888899999999999999988763 345678888888888999999875

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

Probab=99.56  E-value=4.3e-11  Score=100.49  Aligned_cols=297  Identities=13%  Similarity=0.095  Sum_probs=178.8

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      +...|.+|...|-+.|+.+++...+-.+...+. .|...|..+.....+.|.++.|.-.|.+.++.. +++...+-.-+.
T Consensus       172 ~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p-~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~  249 (895)
T KOG2076|consen  172 NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNP-KDYELWKRLADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSS  249 (895)
T ss_pred             chhhHHHHHHHHHHcccHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHH
Confidence            344455555555555555555555444333322 244455555555555555555555555555543 223333333344


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCC----------------------------------------CChHHHHHHHHHHHhc
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIV----------------------------------------PDSITYNILINGYCRC  128 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~----------------------------------------~~~~~~~~l~~~~~~~  128 (319)
                      .|-+.|+...|.+.|.++.+..++                                        .+...++.++..+.+.
T Consensus       250 L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~  329 (895)
T KOG2076|consen  250 LYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKN  329 (895)
T ss_pred             HHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHh
Confidence            444455555555444444443221                                        1333445555555555


Q ss_pred             CChHHHHHHHHHHHHcC---------------------------CCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC-
Q 039029          129 GNAKKAFSLHDEMIHKG---------------------------IQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG-  180 (319)
Q Consensus       129 ~~~~~a~~~~~~~~~~~---------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-  180 (319)
                      ..++.+......+....                           ..++..+ ..+.-++.+.+..+....+........ 
T Consensus       330 ~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~icL~~L~~~e~~e~ll~~l~~~n~  408 (895)
T KOG2076|consen  330 KQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMICLVHLKERELLEALLHFLVEDNV  408 (895)
T ss_pred             HHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhhhhhcccccchHHHHHHHHHHhcC
Confidence            55555555555544411                           1111111 011122233333333333444444443 


Q ss_pred             -CCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccC
Q 039029          181 -MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFN  259 (319)
Q Consensus       181 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  259 (319)
                       +.-+...|.-+..++.+.|.+..|..+|..+......-+...|-.+.+.|...|.+++|.+.|..++..  .|+..   
T Consensus       409 ~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~--~p~~~---  483 (895)
T KOG2076|consen  409 WVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLIL--APDNL---  483 (895)
T ss_pred             ChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCch---
Confidence             223466788899999999999999999999988755556778999999999999999999999999884  45442   


Q ss_pred             cchhhHHHHHHHHHhcCchhHHHHHHHHHHh--------CCCCCChHHHHHHHHHhhhcchhhhh
Q 039029          260 PTRLTYNALIQGLCKNQEGDLAEELLREMVS--------KGITPDDNTYFSLIEGIASVDKAAES  316 (319)
Q Consensus       260 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~~~~~l~~~~~~~g~~~~A  316 (319)
                         ..--.|...+.+.|+.++|.+++..+..        .+..|+..........+.+.|+.++=
T Consensus       484 ---D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~f  545 (895)
T KOG2076|consen  484 ---DARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEF  545 (895)
T ss_pred             ---hhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHH
Confidence               4556778888999999999999998542        34667777777777888888888763

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.56  E-value=4.6e-12  Score=103.15  Aligned_cols=244  Identities=22%  Similarity=0.189  Sum_probs=181.0

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHc-----CC-CcCh-hhHHHHHHHHHHcCchhHHHHHHHHHhhC-----CC
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ-----GI-MPTA-STYNLLIHELLMERKMVEADDMLKEMGEK-----GI  111 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~  111 (319)
                      -..+...+...|...|+++.|+.+++..++.     |. .|.. ...+.+...|...+++.+|..+|+++...     |.
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            3456677999999999999999999998775     21 1233 23345777889999999999999988642     21


Q ss_pred             --CCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc-----CC-CccH-HHHHHHHHHHhhhccHHHHHHHHHHHhhC---
Q 039029          112 --VPDSITYNILINGYCRCGNAKKAFSLHDEMIHK-----GI-QPTM-LTYTSLIFVLSKQNRMIEADQLFENFLAK---  179 (319)
Q Consensus       112 --~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  179 (319)
                        +.-..+++.|..+|.+.|++++|...++...+-     +. .|.. ..++.+...+...+++++|..+++...+.   
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              123456778888999999999998888876542     11 2222 34667777889999999999998876543   


Q ss_pred             CCCc----cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC----C--CC-ChhhHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 039029          180 GMLP----DIVMFNALIDGHCTNGNIERAFSLLKEMDRMK----V--HP-DEVTYNTLMHGRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       180 ~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~--~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  248 (319)
                      -+.+    -..+++.|...|...|++++|.++++.+....    -  .+ ....++.+...|.+.+++++|.++|.+...
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            1122    24678999999999999999999999875431    1  11 234678888999999999999999988654


Q ss_pred             cC--CCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          249 RG--IKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       249 ~~--~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      ..  ..|+.   +....+|..|...|.+.|+++.|.++.+....
T Consensus       438 i~~~~g~~~---~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  438 IMKLCGPDH---PDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHhCCCC---CchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            32  22333   23447899999999999999999999888763

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

Probab=99.56  E-value=6e-12  Score=106.24  Aligned_cols=279  Identities=15%  Similarity=0.072  Sum_probs=216.9

Q ss_pred             CCCCCCCcccHHHHHHHHhccCChHHHHHHHHHHHhC---CCCCCH------HhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039029            3 SRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKEN---GLVPTA------VTYNTLIDGYCNKGNLEMAFSFRDEMVK   73 (319)
Q Consensus         3 ~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~   73 (319)
                      +.|-++.+...|.+.......|++..|...|......   ...++.      .+-..+..+.-..++++.|.+.|..+.+
T Consensus       445 ~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilk  524 (1018)
T KOG2002|consen  445 SKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILK  524 (1018)
T ss_pred             HcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            4555677888999999999999999999999998765   122222      2344566677778899999999999998


Q ss_pred             cCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCccHHH
Q 039029           74 QGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK-GIQPTMLT  152 (319)
Q Consensus        74 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~  152 (319)
                      .. +--...|..++...-..+...+|...+....+..- .++..+..+...+.+...+..|.+-|....+. ...+|+++
T Consensus       525 eh-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  525 EH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDS-SNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYS  602 (1018)
T ss_pred             HC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhccc-CCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhH
Confidence            74 22344555555444456788899999999887643 37778888888999999999999977777664 22357777


Q ss_pred             HHHHHHHHhh------------hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCCh
Q 039029          153 YTSLIFVLSK------------QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDE  220 (319)
Q Consensus       153 ~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  220 (319)
                      ...|...|.+            .+..+.|+++|.++++..+. +...-+-+.-.++..|++..|..+|.++.+... ...
T Consensus       603 liaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~  680 (1018)
T KOG2002|consen  603 LIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFE  680 (1018)
T ss_pred             HHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCC
Confidence            7777765542            35577899999998887544 677778888889999999999999999988753 356


Q ss_pred             hhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          221 VTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       221 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      .+|..+.+.|...|+|..|.++|+...+.-.+-+      +......|.+++.+.|.+.+|.+.+......
T Consensus       681 dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~------~~~vl~~Lara~y~~~~~~eak~~ll~a~~~  745 (1018)
T KOG2002|consen  681 DVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKN------RSEVLHYLARAWYEAGKLQEAKEALLKARHL  745 (1018)
T ss_pred             ceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccC------CHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            7889999999999999999999999888654333      3377889999999999999999998888775

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

Probab=99.51  E-value=1.2e-10  Score=91.51  Aligned_cols=195  Identities=15%  Similarity=0.095  Sum_probs=143.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhc
Q 039029          118 YNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCT  197 (319)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (319)
                      |-.+...|....+.++....|++..+.+ +-++.+|..-...+.-.+++++|..-|++.+...+. +...|-.+.-+..+
T Consensus       363 yI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe-~~~~~iQl~~a~Yr  440 (606)
T KOG0547|consen  363 YIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPE-NAYAYIQLCCALYR  440 (606)
T ss_pred             HHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChh-hhHHHHHHHHHHHH
Confidence            5555666777777777777777777765 446667777777777778888888888888776433 45566666666678


Q ss_pred             CCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCc
Q 039029          198 NGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQE  277 (319)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  277 (319)
                      .+.+++++..|++..+. .+..+..|+.....+..+++++.|.+.|+..++.....+.....+.+..-..++..- -.++
T Consensus       441 ~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d  518 (606)
T KOG0547|consen  441 QHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKED  518 (606)
T ss_pred             HHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-hhhh
Confidence            88999999999998775 455678999999999999999999999999988543333322333333344444333 3489


Q ss_pred             hhHHHHHHHHHHhCCCCC-ChHHHHHHHHHhhhcchhhhhcC
Q 039029          278 GDLAEELLREMVSKGITP-DDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       278 ~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      +..|..++++.++.  .| ....+..+.+.-.+.|+.++|+.
T Consensus       519 ~~~a~~Ll~KA~e~--Dpkce~A~~tlaq~~lQ~~~i~eAie  558 (606)
T KOG0547|consen  519 INQAENLLRKAIEL--DPKCEQAYETLAQFELQRGKIDEAIE  558 (606)
T ss_pred             HHHHHHHHHHHHcc--CchHHHHHHHHHHHHHHHhhHHHHHH
Confidence            99999999999875  34 55678888888899999999863

>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=99.49  E-value=2.8e-10  Score=93.89  Aligned_cols=286  Identities=15%  Similarity=0.130  Sum_probs=198.0

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc--
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLME--   93 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--   93 (319)
                      ....+...|++++|++.++.-... +.............+.+.|+.++|..+|..+++.++ .+..-|..+..+....  
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNP-dn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNP-DNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHhhhcc
Confidence            345667889999999999886554 444566778889999999999999999999999852 2444445555554222  


Q ss_pred             ---CchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029           94 ---RKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNA-KKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        94 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                         .+.+....+|+++...-  |.......+.-.+.....+ ..+..++..+..+|+|   .+|+.+-..|.........
T Consensus        88 ~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i  162 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAII  162 (517)
T ss_pred             cccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHH
Confidence               25677788888887664  3333332222222222223 3455666777788865   3666666667666555556


Q ss_pred             HHHHHHHhhC--------------CCCccHH--HHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcC
Q 039029          170 DQLFENFLAK--------------GMLPDIV--MFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQ  233 (319)
Q Consensus       170 ~~~~~~~~~~--------------~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  233 (319)
                      .+++......              .-+|+..  ++..+...|-..|++++|.++.++.+++. +..+..|..-.+.+-..
T Consensus       163 ~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht-Pt~~ely~~KarilKh~  241 (517)
T PF12569_consen  163 ESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT-PTLVELYMTKARILKHA  241 (517)
T ss_pred             HHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHC
Confidence            6666655432              1134443  44566778889999999999999999874 33367888889999999


Q ss_pred             CcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChH------HH--HHHHH
Q 039029          234 GKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDN------TY--FSLIE  305 (319)
Q Consensus       234 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~------~~--~~l~~  305 (319)
                      |++.+|.+.++.+...+..        |...=+..+..+.+.|+.++|.+++......+..|-..      .|  .....
T Consensus       242 G~~~~Aa~~~~~Ar~LD~~--------DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~  313 (517)
T PF12569_consen  242 GDLKEAAEAMDEARELDLA--------DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAE  313 (517)
T ss_pred             CCHHHHHHHHHHHHhCChh--------hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHH
Confidence            9999999999999886532        22344566778899999999999999988776544322      22  33456


Q ss_pred             Hhhhcchhhhhc
Q 039029          306 GIASVDKAAESS  317 (319)
Q Consensus       306 ~~~~~g~~~~A~  317 (319)
                      +|.+.|++..|.
T Consensus       314 a~~r~~~~~~AL  325 (517)
T PF12569_consen  314 AYLRQGDYGLAL  325 (517)
T ss_pred             HHHHHhhHHHHH
Confidence            788888887764

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=99.49  E-value=1.5e-09  Score=88.58  Aligned_cols=295  Identities=12%  Similarity=0.055  Sum_probs=180.3

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC-------------------------------
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKG-------------------------------   59 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------------------------------   59 (319)
                      .+|..-.+.|.+.+.++-|..+|....+- .+.+...|......--..|                               
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pkae~lwlM~ake~w  595 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPKAEILWLMYAKEKW  595 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCcchhHHHHHHHHHH
Confidence            34555556666666666666666655543 2223344444444444444                               


Q ss_pred             ---ChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHH
Q 039029           60 ---NLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFS  136 (319)
Q Consensus        60 ---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  136 (319)
                         +...|..++....+.... +...|...+.......+++.|..+|.+....  .|+...|.--+..---.++.++|++
T Consensus       596 ~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~r  672 (913)
T KOG0495|consen  596 KAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALR  672 (913)
T ss_pred             hcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHH
Confidence               444444444444444322 3344444444444555555555555554443  2344444444444444555666666


Q ss_pred             HHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC
Q 039029          137 LHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKV  216 (319)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (319)
                      ++++..+. ++.-...|..+...+-+.++++.|...|..-.+.. +-....|..|...-.+.|.+-+|..++++..-.+ 
T Consensus       673 llEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~c-P~~ipLWllLakleEk~~~~~rAR~ildrarlkN-  749 (913)
T KOG0495|consen  673 LLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKC-PNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-  749 (913)
T ss_pred             HHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccC-CCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-
Confidence            66555554 23334455555666666666666666665544442 2245667777777777788888888888876654 


Q ss_pred             CCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCC--------------CCCcc--------cCcchhhHHHHHHHHHh
Q 039029          217 HPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIK--------------PDHIS--------FNPTRLTYNALIQGLCK  274 (319)
Q Consensus       217 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--------------~~~~~--------~~~~~~~~~~l~~~~~~  274 (319)
                      +.+...|...++.-.+.|..+.|..+..++++....              |...+        ...|....-.+...|..
T Consensus       750 Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~  829 (913)
T KOG0495|consen  750 PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWS  829 (913)
T ss_pred             CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHH
Confidence            557788999999999999999999888887664211              11111        34466778888888999


Q ss_pred             cCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchh
Q 039029          275 NQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKA  313 (319)
Q Consensus       275 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  313 (319)
                      ..++++|.+.|.+.+..+ +-+..+|..+...+.+.|.-
T Consensus       830 e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG~e  867 (913)
T KOG0495|consen  830 EKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHGTE  867 (913)
T ss_pred             HHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhCCH
Confidence            999999999999999864 33567788888888888843

>PF13041 PPR_2: PPR repeat family

Probab=99.49  E-value=9.9e-14  Score=76.72  Aligned_cols=50  Identities=46%  Similarity=0.978  Sum_probs=41.7

Q ss_pred             CCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh
Q 039029            8 PDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCN   57 (319)
Q Consensus         8 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   57 (319)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|+.||..+|+.++++|++
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            78888888888888888888888888888888888888888888887763

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.49  E-value=2.7e-11  Score=98.76  Aligned_cols=239  Identities=21%  Similarity=0.146  Sum_probs=178.5

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhC-----C-CCCCHH-hHHHHHHHHHhcCChHHHHHHHHHHHHc-----C--
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKEN-----G-LVPTAV-TYNTLIDGYCNKGNLEMAFSFRDEMVKQ-----G--   75 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--   75 (319)
                      ..+...+...|...|+++.|..+++...+.     | ..|... ..+.+...|...+++++|..+|+++...     |  
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            355666889999999999999999988764     2 123333 3445778899999999999999998763     2  


Q ss_pred             CCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhC-----CCC-CC-hHHHHHHHHHHHhcCChHHHHHHHHHHHHc----
Q 039029           76 IMPTASTYNLLIHELLMERKMVEADDMLKEMGEK-----GIV-PD-SITYNILINGYCRCGNAKKAFSLHDEMIHK----  144 (319)
Q Consensus        76 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  144 (319)
                      .+....+++.|..+|.+.|++++|...++...+.     +.. |. ...++.+...+...+++++|..+++...+.    
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            2233567788888999999999998888776432     111 12 234566778889999999999999877653    


Q ss_pred             -CC--CccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC----C--Cc-cHHHHHHHHHHHhcCCcHHHHHHHHHHHHh-
Q 039029          145 -GI--QPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG----M--LP-DIVMFNALIDGHCTNGNIERAFSLLKEMDR-  213 (319)
Q Consensus       145 -~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-  213 (319)
                       |.  +.-..+++.+...|...|++.+|.+++++++...    .  .+ ....++.+...|.+.+...+|..+|.+... 
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             11  1224689999999999999999999999887541    1  11 235677888899999999999988887533 


Q ss_pred             ---CCC--CCChhhHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 039029          214 ---MKV--HPDEVTYNTLMHGRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       214 ---~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  248 (319)
                         .|.  +....+|..|...|...|+++.|.++.+.+..
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence               222  12245788999999999999999999988764

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

Probab=99.48  E-value=1.3e-10  Score=92.93  Aligned_cols=266  Identities=10%  Similarity=-0.047  Sum_probs=211.1

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILIN  123 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (319)
                      +......-..-|...+++.+..++.+...+.. ++....+..-|.++...|+..+-..+=.++.+..+. .+.+|-++.-
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~-~a~sW~aVg~  320 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPS-KALSWFAVGC  320 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCC-CCcchhhHHH
Confidence            44455556667778899999999999998875 567778888888999999999888888888887544 7889999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHH
Q 039029          124 GYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIER  203 (319)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (319)
                      -|...|+..+|.+.|.+....+ +.-...|..+...|.-.|..++|...+..+-+.-.. ...-+.-+.--|.+.++.+.
T Consensus       321 YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G-~hlP~LYlgmey~~t~n~kL  398 (611)
T KOG1173|consen  321 YYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPG-CHLPSLYLGMEYMRTNNLKL  398 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccC-CcchHHHHHHHHHHhccHHH
Confidence            9999999999999999987754 223568889999999999999999999877665111 11112234445778899999


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc--CCCCCCcccCcchhhHHHHHHHHHhcCchhHH
Q 039029          204 AFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR--GIKPDHISFNPTRLTYNALIQGLCKNQEGDLA  281 (319)
Q Consensus       204 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  281 (319)
                      |..+|.+..... +.|+...+-+.-.....+.+.+|..+|+..+..  ...+...   -...+++.|..+|.+.+.+++|
T Consensus       399 Ae~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~---~w~p~~~NLGH~~Rkl~~~~eA  474 (611)
T KOG1173|consen  399 AEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKI---FWEPTLNNLGHAYRKLNKYEEA  474 (611)
T ss_pred             HHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhcccccc---chhHHHHhHHHHHHHHhhHHHH
Confidence            999999988763 556778888888888889999999999988732  1111111   1335789999999999999999


Q ss_pred             HHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          282 EELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       282 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      +..+++.+.. .+-+..++..+.-.+...|+++.|++
T Consensus       475 I~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid  510 (611)
T KOG1173|consen  475 IDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAID  510 (611)
T ss_pred             HHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHH
Confidence            9999999986 35688899999999999999999874

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.47  E-value=2.1e-10  Score=89.54  Aligned_cols=233  Identities=13%  Similarity=-0.007  Sum_probs=152.6

Q ss_pred             CChHHHHHHHHHHHHcC-CCc--ChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHH
Q 039029           59 GNLEMAFSFRDEMVKQG-IMP--TASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAF  135 (319)
Q Consensus        59 ~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  135 (319)
                      +..+.++.-+.+++... ..|  ....|..+...+...|+.++|...|++..+..+. +...|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHHH
Confidence            45666777777777542 112  2345777777888889999999999988887654 7788888999999999999999


Q ss_pred             HHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC
Q 039029          136 SLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMK  215 (319)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (319)
                      ..|++..+.. +.+..++..+..++...|++++|.+.++...+..+. +. ........+...++.++|...+.+.....
T Consensus       119 ~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~-~~-~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        119 EAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPN-DP-YRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CH-HHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            9999988764 445677888888888889999999999988876433 22 12222223445678899998887654322


Q ss_pred             CCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCC
Q 039029          216 VHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITP  295 (319)
Q Consensus       216 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  295 (319)
                       .|+...+ .+.  ....|+...+ ..+..+.+.. ......-+....+|..+...+.+.|++++|...|++..+.+ +|
T Consensus       196 -~~~~~~~-~~~--~~~lg~~~~~-~~~~~~~~~~-~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~  268 (296)
T PRK11189        196 -DKEQWGW-NIV--EFYLGKISEE-TLMERLKAGA-TDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VY  268 (296)
T ss_pred             -CccccHH-HHH--HHHccCCCHH-HHHHHHHhcC-CCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-Cc
Confidence             2332221 222  2334555443 3444444321 00000001123578888999999999999999999998764 34


Q ss_pred             ChHHHHH
Q 039029          296 DDNTYFS  302 (319)
Q Consensus       296 ~~~~~~~  302 (319)
                      |...+..
T Consensus       269 ~~~e~~~  275 (296)
T PRK11189        269 NFVEHRY  275 (296)
T ss_pred             hHHHHHH
Confidence            5555544

>PF13041 PPR_2: PPR repeat family

Probab=99.46  E-value=2.4e-13  Score=75.16  Aligned_cols=50  Identities=44%  Similarity=0.741  Sum_probs=48.0

Q ss_pred             cchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhh
Q 039029          260 PTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIAS  309 (319)
Q Consensus       260 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  309 (319)
                      ||..+|+.++.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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            67799999999999999999999999999999999999999999999874

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

Probab=99.42  E-value=4.1e-10  Score=80.17  Aligned_cols=208  Identities=16%  Similarity=0.059  Sum_probs=158.0

Q ss_pred             hhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 039029           81 STYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVL  160 (319)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (319)
                      .+...|...|...|+...|..-+++..+..+. +..+|..+...|.+.|+.+.|.+.|++..+.. +.+..+.|.....+
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            34566677788889999999989888887654 77888888888899999999999998888774 55677888888888


Q ss_pred             hhhccHHHHHHHHHHHhhCCCC-ccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHH
Q 039029          161 SKQNRMIEADQLFENFLAKGML-PDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEA  239 (319)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  239 (319)
                      +..|++++|...|++....-.- --..+|..+.-+..+.|+.+.|...|++..+.. +-...+...+.......|++-.|
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            8888999999988888775221 125678888888888899999999998888764 23345667778888888889888


Q ss_pred             HHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHH
Q 039029          240 RRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYF  301 (319)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  301 (319)
                      ..+++.....+. ++.       .+....++.-.+.|+.+.+-+.=..+...  -|....+-
T Consensus       193 r~~~~~~~~~~~-~~A-------~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~q  244 (250)
T COG3063         193 RLYLERYQQRGG-AQA-------ESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEYQ  244 (250)
T ss_pred             HHHHHHHHhccc-ccH-------HHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHH
Confidence            888888877653 333       56666777777888888887776666653  45554443

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

Probab=99.42  E-value=4.2e-10  Score=88.62  Aligned_cols=224  Identities=14%  Similarity=0.109  Sum_probs=180.9

Q ss_pred             HhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHH
Q 039029           20 MCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEA   99 (319)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   99 (319)
                      +.-.|+...|.+.|+..+.....++ ..|.-+...|....+.++..+.|+...+.+. -+..+|..-.+...-.+++++|
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp-~n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLDP-ENPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcCC-CCCchhHhHHHHHHHHHHHHHH
Confidence            3456889999999999988754433 3377788889999999999999999998864 3777888888888889999999


Q ss_pred             HHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC
Q 039029          100 DDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK  179 (319)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (319)
                      ..=|++..+..+. +...|-.+.-+..+.+.++++...|++...+ +|..+..|+....++..+++++.|.+.|+..++.
T Consensus       414 ~aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  414 IADFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            9999999987655 7778888888888999999999999999887 6777899999999999999999999999998875


Q ss_pred             CCC-----cc--HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          180 GML-----PD--IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       180 ~~~-----~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      ...     .+  +.+--.++-. .-.+++..|..++++..+.+ +-....+..|...-.+.|+.++|+++|++....
T Consensus       492 E~~~~~~~v~~~plV~Ka~l~~-qwk~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAielFEksa~l  566 (606)
T KOG0547|consen  492 EPREHLIIVNAAPLVHKALLVL-QWKEDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIELFEKSAQL  566 (606)
T ss_pred             ccccccccccchhhhhhhHhhh-chhhhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            322     11  1111222221 23489999999999999875 334567899999999999999999999997654

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

Probab=99.42  E-value=9.1e-10  Score=78.46  Aligned_cols=198  Identities=14%  Similarity=0.048  Sum_probs=142.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYC  126 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (319)
                      +...+.-.|...|+...|.+-+++.++.+ +.+..++..+...|.+.|+.+.|.+.|++..+..+. +..+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHH
Confidence            45556667777888888888888887775 335667777777788888888888888887776554 6777777777788


Q ss_pred             hcCChHHHHHHHHHHHHcC-CCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHH
Q 039029          127 RCGNAKKAFSLHDEMIHKG-IQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAF  205 (319)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  205 (319)
                      ..|++++|...|++....- ..-...+|..+.-+..+.|+.+.|...|++.++.... ...+...+.......|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHH
Confidence            8888888888888777652 1223457777777777788888888888877776443 3445566677777778888888


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 039029          206 SLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  248 (319)
                      ..++.....+. ++..+.-..|+.-...|+-+.+.++=..+.+
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            77777766553 6777777677777777887777776666655

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

Probab=99.42  E-value=5.1e-09  Score=85.66  Aligned_cols=298  Identities=12%  Similarity=0.057  Sum_probs=196.1

Q ss_pred             CCCCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCC--CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChh
Q 039029            4 RGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVP--TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTAS   81 (319)
Q Consensus         4 ~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   81 (319)
                      .|+.-+...|-.=...|-+.|..-.+..+.......|+.-  -..+|..-.+.|.+.+.++-|..+|...++-- +.+..
T Consensus       473 ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvf-p~k~s  551 (913)
T KOG0495|consen  473 NGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVF-PCKKS  551 (913)
T ss_pred             cceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhc-cchhH
Confidence            3444444444444445555555555555555554444321  22356666667777777777777777777653 33555


Q ss_pred             hHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 039029           82 TYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLS  161 (319)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (319)
                      .|......--..|..++...++++....-++ ....|......+-..|+...|..++....+.. +.+...+...+..-.
T Consensus       552 lWlra~~~ek~hgt~Esl~Allqkav~~~pk-ae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~  629 (913)
T KOG0495|consen  552 LWLRAAMFEKSHGTRESLEALLQKAVEQCPK-AEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEF  629 (913)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhh
Confidence            6666655555567777777777777766433 55666677777777888888888888887764 446677777778888


Q ss_pred             hhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHcCCcHHHHH
Q 039029          162 KQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPD-EVTYNTLMHGRCRQGKVEEAR  240 (319)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~  240 (319)
                      ....++.|..+|.+....  .|+..+|.--+..-...+..++|.+++++..+.  -|+ ...|..+.+.+-+.++.+.|.
T Consensus       630 en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR  705 (913)
T KOG0495|consen  630 ENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAR  705 (913)
T ss_pred             ccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHH
Confidence            888888888888877664  456666666666556677788888888777664  344 345666677777777777777


Q ss_pred             HHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      +.|..-.+.  -|..+      ..|-.+...=-+.|..-+|..++++..-.+ +-+...|...++.-.+.|..+.|.
T Consensus       706 ~aY~~G~k~--cP~~i------pLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~  773 (913)
T KOG0495|consen  706 EAYLQGTKK--CPNSI------PLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAE  773 (913)
T ss_pred             HHHHhcccc--CCCCc------hHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHH
Confidence            776654432  23332      567777776677778888888888877653 346667777788777888777664

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.42  E-value=7.3e-10  Score=86.50  Aligned_cols=219  Identities=14%  Similarity=-0.002  Sum_probs=158.0

Q ss_pred             cCChHHHHHHHHHHHhCCC-CC--CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHH
Q 039029           23 EGRLEEASRMLEQMKENGL-VP--TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEA   99 (319)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   99 (319)
                      .+..+.++.-+.++..... .|  ....|..+...+...|+.+.|...|++.++.. +.+...|+.+...+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            3556778888888876421 22  24568888889999999999999999999875 34678999999999999999999


Q ss_pred             HHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC
Q 039029          100 DDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK  179 (319)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (319)
                      ...|++..+..+. +..+|..+..++...|++++|.+.++...+..  |+..........+...++.++|...+.+....
T Consensus       118 ~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        118 YEAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            9999999987554 67788889999999999999999999998874  33222222223345677899999999775543


Q ss_pred             CCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC---CC---CCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          180 GMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM---KV---HPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       180 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~---~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      . .|+...+ .+..  ...|+...+ ..+..+.+.   .+   +.....|..+...+...|++++|...|+++.+.+
T Consensus       195 ~-~~~~~~~-~~~~--~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        195 L-DKEQWGW-NIVE--FYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             C-CccccHH-HHHH--HHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            2 2232222 2222  334554433 244444321   11   1123578889999999999999999999999854

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

Probab=99.40  E-value=5.4e-10  Score=87.49  Aligned_cols=239  Identities=13%  Similarity=0.082  Sum_probs=181.7

Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHH
Q 039029           24 GRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDML  103 (319)
Q Consensus        24 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  103 (319)
                      .++..|.+.-+...... .-++.....-.......|++++|.+.|.+.+.....-....|| +...+-..|+.++|++.|
T Consensus       470 k~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f  547 (840)
T KOG2003|consen  470 KDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCF  547 (840)
T ss_pred             cchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHH
Confidence            45666666666555432 2233333333344456789999999999999764332333333 334567789999999999


Q ss_pred             HHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCc
Q 039029          104 KEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLP  183 (319)
Q Consensus       104 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  183 (319)
                      -++... ...+..+...+.+.|-...+..+|++++.+.... ++.|+.+.+.+...|-+.|+-.+|.+.+-.--+. ++.
T Consensus       548 ~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~  624 (840)
T KOG2003|consen  548 LKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPC  624 (840)
T ss_pred             HHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCc
Confidence            887653 2237788888899999999999999999888766 6778999999999999999999998887654444 455


Q ss_pred             cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH-HcCCcHHHHHHHHHHHHHcCCCCCCcccCcch
Q 039029          184 DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGR-CRQGKVEEARRLLDQMKRRGIKPDHISFNPTR  262 (319)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  262 (319)
                      +..+...|...|....-++++...|++..-  ++|+..-|..++..| .+.|++++|..+++...+.        |+.+.
T Consensus       625 nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk--------fpedl  694 (840)
T KOG2003|consen  625 NIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK--------FPEDL  694 (840)
T ss_pred             chHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh--------Cccch
Confidence            788888899999999999999999998755  479999999988666 4689999999999998875        23345


Q ss_pred             hhHHHHHHHHHhcCc
Q 039029          263 LTYNALIQGLCKNQE  277 (319)
Q Consensus       263 ~~~~~l~~~~~~~g~  277 (319)
                      .++..|++.+...|-
T Consensus       695 dclkflvri~~dlgl  709 (840)
T KOG2003|consen  695 DCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHhccccc
Confidence            788888888776653

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

Probab=99.40  E-value=4.3e-09  Score=81.47  Aligned_cols=285  Identities=12%  Similarity=0.019  Sum_probs=152.6

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      |+.....+...+...|+.++|+..|++....++- +........-.+.+.|+++....+...+.... .-+...|..-+.
T Consensus       231 NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy-~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~  308 (564)
T KOG1174|consen  231 NEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPD-NVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQ  308 (564)
T ss_pred             cHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChh-hhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhh
Confidence            3444445555555555555555555554442211 11111122222334445555444444443321 112222333333


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIE  168 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (319)
                      .....+++..|+.+-++.++.... +...+-.-...+...|++++|.-.|+...... |-+...|..++.+|...|.+.+
T Consensus       309 ~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kE  386 (564)
T KOG1174|consen  309 LLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKE  386 (564)
T ss_pred             hhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHH
Confidence            344455566666666655554322 33344434455666677777776676665542 3456677777777777777777


Q ss_pred             HHHHHHHHhhCCCCccHHHHHHHH-HHHhc-CCcHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHcCCcHHHHHHHHHH
Q 039029          169 ADQLFENFLAKGMLPDIVMFNALI-DGHCT-NGNIERAFSLLKEMDRMKVHPD-EVTYNTLMHGRCRQGKVEEARRLLDQ  245 (319)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~l~-~~~~~-~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~  245 (319)
                      |...-+...+. .+-+..+...+. ..+.. ..--++|..+++.....  .|+ ....+.+...+...|..+.+..++++
T Consensus       387 A~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~  463 (564)
T KOG1174|consen  387 ANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEK  463 (564)
T ss_pred             HHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHH
Confidence            66655554443 122344444332 22221 12235666666665543  344 33556677778888888888888888


Q ss_pred             HHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcc
Q 039029          246 MKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVD  311 (319)
Q Consensus       246 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  311 (319)
                      .+..  .|       |....+.|.+.+...+.+++|++.|...+..  .|+...-..-++-+.+..
T Consensus       464 ~L~~--~~-------D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~--dP~~~~sl~Gl~~lEK~~  518 (564)
T KOG1174|consen  464 HLII--FP-------DVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ--DPKSKRTLRGLRLLEKSD  518 (564)
T ss_pred             HHhh--cc-------ccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CccchHHHHHHHHHHhcc
Confidence            7763  33       3367788888888888888888888887764  454443333334444433

>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=99.37  E-value=4.2e-09  Score=87.11  Aligned_cols=272  Identities=16%  Similarity=0.170  Sum_probs=187.5

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh-----cCChHHHHHHHHHHHHcCCCcChhhHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCN-----KGNLEMAFSFRDEMVKQGIMPTASTYN   84 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (319)
                      ..........+.+.|+.++|..+|..+.+.++. +..-|..+..+..-     ..+.+....+|+++...-  |......
T Consensus        38 ~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPd-n~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~y--p~s~~~~  114 (517)
T PF12569_consen   38 LAVLEKRAELLLKLGRKEEAEKIYRELIDRNPD-NYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKY--PRSDAPR  114 (517)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhC--ccccchh
Confidence            444667788999999999999999999998633 44444455544422     235677888999887663  3433333


Q ss_pred             HHHHHHHHcCch-hHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc----C----------CCcc
Q 039029           85 LLIHELLMERKM-VEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK----G----------IQPT  149 (319)
Q Consensus        85 ~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~----------~~~~  149 (319)
                      .+.-.+.....+ ..+..++..+..+|+++   +|+.+-..|.......-..+++......    +          -+|+
T Consensus       115 rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~  191 (517)
T PF12569_consen  115 RLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPS  191 (517)
T ss_pred             HhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCch
Confidence            333223222233 34556677777888653   5666666666555555555555555432    1          1344


Q ss_pred             H--HHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHH
Q 039029          150 M--LTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLM  227 (319)
Q Consensus       150 ~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  227 (319)
                      .  .++..+...|...|++++|++++++.+++.+. .+..|..-.+.+-+.|++.+|.+.++.....+. -|...-+..+
T Consensus       192 ~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~a  269 (517)
T PF12569_consen  192 TLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARILKHAGDLKEAAEAMDEARELDL-ADRYINSKCA  269 (517)
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHH
Confidence            4  34566677888999999999999999998533 478888889999999999999999999998763 4666777788


Q ss_pred             HHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhH--HHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          228 HGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTY--NALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      ..+.+.|+.++|.+++....+.+..|..- .....-.|  .....+|.+.|++..|++-|....+
T Consensus       270 Ky~LRa~~~e~A~~~~~~Ftr~~~~~~~~-L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  270 KYLLRAGRIEEAEKTASLFTREDVDPLSN-LNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhcCCCCCcccC-HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            88999999999999999988766533220 00001133  3457789999999999887776654

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 [], [].

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

Probab=99.32  E-value=3.9e-08  Score=77.67  Aligned_cols=285  Identities=14%  Similarity=0.171  Sum_probs=176.7

Q ss_pred             CCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc-CC-CcChhhH
Q 039029            6 VQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ-GI-MPTASTY   83 (319)
Q Consensus         6 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~-~~~~~~~   83 (319)
                      ..|+...|++.|..=.+-..++.|..+|+...-  +.|++..|.-....=.+.|....+..+|...++. |- ..+...+
T Consensus       170 w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lf  247 (677)
T KOG1915|consen  170 WEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILF  247 (677)
T ss_pred             CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            468888888888888888888888888888775  3477777777777666777766666666665542 10 0011111


Q ss_pred             HHHHHHHHHcCchhHHHHHH--------------------------------------------HHHhhCCCCCChHHHH
Q 039029           84 NLLIHELLMERKMVEADDML--------------------------------------------KEMGEKGIVPDSITYN  119 (319)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~--------------------------------------------~~~~~~~~~~~~~~~~  119 (319)
                      .++...-.++..++.|.-+|                                            +.+.+.++ .|-.+|-
T Consensus       248 vaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np-~nYDsWf  326 (677)
T KOG1915|consen  248 VAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNP-YNYDSWF  326 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCC-CCchHHH
Confidence            22111111111222211111                                            12222222 2555565


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCc--------------------------------------------cHHHHHH
Q 039029          120 ILINGYCRCGNAKKAFSLHDEMIHKGIQP--------------------------------------------TMLTYTS  155 (319)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--------------------------------------------~~~~~~~  155 (319)
                      -.++.-...|+.+...++|+..... ++|                                            ...||..
T Consensus       327 dylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~lIPHkkFtFaK  405 (677)
T KOG1915|consen  327 DYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDLIPHKKFTFAK  405 (677)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCcccchHHH
Confidence            5666666666666666666665543 232                                            2233333


Q ss_pred             HHHHHh----hhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 039029          156 LIFVLS----KQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRC  231 (319)
Q Consensus       156 l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  231 (319)
                      +--.|+    ++.++..|.+++...+..  -|-..+|...|..-.+.+.++.+..++++..+.+ +.+..+|......-.
T Consensus       406 iWlmyA~feIRq~~l~~ARkiLG~AIG~--cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~kyaElE~  482 (677)
T KOG1915|consen  406 IWLMYAQFEIRQLNLTGARKILGNAIGK--CPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAWSKYAELET  482 (677)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHhcc--CCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHHHHHHHH
Confidence            322222    345555666666554433  4566777777777788888999999999988876 456778888888888


Q ss_pred             cCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHH
Q 039029          232 RQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIE  305 (319)
Q Consensus       232 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  305 (319)
                      ..|+.+.|..+|.-+++.... +     -....|...|.-=...|.+++|..+++++++.  .+-..+|.+...
T Consensus       483 ~LgdtdRaRaifelAi~qp~l-d-----mpellwkaYIdFEi~~~E~ekaR~LYerlL~r--t~h~kvWisFA~  548 (677)
T KOG1915|consen  483 SLGDTDRARAIFELAISQPAL-D-----MPELLWKAYIDFEIEEGEFEKARALYERLLDR--TQHVKVWISFAK  548 (677)
T ss_pred             HhhhHHHHHHHHHHHhcCccc-c-----cHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh--cccchHHHhHHH
Confidence            889999999999988875321 1     12256777777777899999999999999886  344446655544

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

Probab=99.32  E-value=1.2e-08  Score=79.05  Aligned_cols=297  Identities=11%  Similarity=0.023  Sum_probs=210.7

Q ss_pred             CCCCcccHHHHHHHHh--ccCChHHHHHHHHHHHhC-CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhh
Q 039029            6 VQPDSYTYGSFVSGMC--KEGRLEEASRMLEQMKEN-GLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTAST   82 (319)
Q Consensus         6 ~~p~~~~~~~li~~~~--~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   82 (319)
                      ++|+..+...-+.+++  -.++-..|...+-.+... -.+-++.....+..++...|+.++|+..|+...-.++ -+...
T Consensus       190 ~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dp-y~i~~  268 (564)
T KOG1174|consen  190 VPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANP-DNVEA  268 (564)
T ss_pred             cCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCCh-hhhhh
Confidence            3444444444444443  334444444444333332 2556788889999999999999999999998876532 13333


Q ss_pred             HHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhh
Q 039029           83 YNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSK  162 (319)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (319)
                      .....-.+.+.|+.+....+...+.... +-+...|..-+......++++.|+.+-++.++.+ +.+...+..-...+..
T Consensus       269 MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~  346 (564)
T KOG1174|consen  269 MDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIA  346 (564)
T ss_pred             HHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHh
Confidence            3444445667888888888877776542 1255556666666777889999999999888764 3345566666677888


Q ss_pred             hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHH-HHHH-cCCcHHHHH
Q 039029          163 QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLM-HGRC-RQGKVEEAR  240 (319)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~g~~~~a~  240 (319)
                      .+++.+|.-.|+..+... +-+...|.-|+.+|...|.+.+|..+-+...+. .+-+..+...+. ..+. ....-++|.
T Consensus       347 ~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAK  424 (564)
T KOG1174|consen  347 LERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAK  424 (564)
T ss_pred             ccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHH
Confidence            999999999999888763 236889999999999999999998877765543 234555555552 3333 233467888


Q ss_pred             HHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      +++++.++  +.|+..      ...+.+...+...|..+.++.++++.+.  ..||....+.|.+.+.....+++|.
T Consensus       425 kf~ek~L~--~~P~Y~------~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am  491 (564)
T KOG1174|consen  425 KFAEKSLK--INPIYT------PAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAM  491 (564)
T ss_pred             HHHHhhhc--cCCccH------HHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHH
Confidence            88888776  456543      5677888899999999999999999887  4789999999999998888888775

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

Probab=99.31  E-value=6.5e-08  Score=78.31  Aligned_cols=298  Identities=12%  Similarity=0.048  Sum_probs=183.9

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhCCC-CCCH-HhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGL-VPTA-VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      ..|..+...+...|+.+.+.+.+....+... .++. .........+...|++++|.+.+++..+.. +.+...+.. ..
T Consensus         7 ~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~   84 (355)
T cd05804           7 LGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HL   84 (355)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hH
Confidence            3466666777778888888777777665432 1222 222333445677899999999999998874 334434432 22


Q ss_pred             HHHH----cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhc
Q 039029           89 ELLM----ERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQN  164 (319)
Q Consensus        89 ~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (319)
                      .+..    .+....+.+.+..... ..+........+...+...|++++|...+++..+.. +.+...+..+..++...|
T Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g  162 (355)
T cd05804          85 GAFGLGDFSGMRDHVARVLPLWAP-ENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQG  162 (355)
T ss_pred             HHHHhcccccCchhHHHHHhccCc-CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcC
Confidence            2222    3445555555554211 122234455566778899999999999999999875 556778888899999999


Q ss_pred             cHHHHHHHHHHHhhCCCC-ccH--HHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-CCChhhH-H--HHHHHHHcCCcHH
Q 039029          165 RMIEADQLFENFLAKGML-PDI--VMFNALIDGHCTNGNIERAFSLLKEMDRMKV-HPDEVTY-N--TLMHGRCRQGKVE  237 (319)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~-~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~-~--~l~~~~~~~g~~~  237 (319)
                      ++++|...+++....... |+.  ..|..+...+...|++++|..++++...... .+..... +  .++.-+...|...
T Consensus       163 ~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~  242 (355)
T cd05804         163 RFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVD  242 (355)
T ss_pred             CHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCC
Confidence            999999999998876332 232  3455788889999999999999999864322 1111111 1  2233334445433


Q ss_pred             HHHHHHHHHHHcC--CCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCC------CChHHHHHHHH--Hh
Q 039029          238 EARRLLDQMKRRG--IKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGIT------PDDNTYFSLIE--GI  307 (319)
Q Consensus       238 ~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~------~~~~~~~~l~~--~~  307 (319)
                      .+.++ +.+....  ..+..    ...........++...|+.+.|..+++.+......      ....+-..++.  ++
T Consensus       243 ~~~~w-~~~~~~~~~~~~~~----~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~  317 (355)
T cd05804         243 VGDRW-EDLADYAAWHFPDH----GLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYA  317 (355)
T ss_pred             hHHHH-HHHHHHHHhhcCcc----cchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHH
Confidence            33332 2221110  00111    11122235677888999999999999998764222      11122333444  45


Q ss_pred             hhcchhhhhc
Q 039029          308 ASVDKAAESS  317 (319)
Q Consensus       308 ~~~g~~~~A~  317 (319)
                      ...|++++|.
T Consensus       318 ~~~g~~~~A~  327 (355)
T cd05804         318 FAEGNYATAL  327 (355)
T ss_pred             HHcCCHHHHH
Confidence            6888888875

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.

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

Probab=99.31  E-value=3.4e-08  Score=78.03  Aligned_cols=253  Identities=13%  Similarity=0.088  Sum_probs=127.7

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHH
Q 039029           56 CNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAF  135 (319)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  135 (319)
                      -..|+...|.++|++...-  .|+...|.+.+..-.+-+.++.|..+|+...-.  .|++.+|-.....-.+.|+...+.
T Consensus       152 E~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  152 EMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             HHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHH
Confidence            3345555555555555543  455666666666655666666666666665543  255555655555555666666666


Q ss_pred             HHHHHHHHc-C-CCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCC--------------------------------
Q 039029          136 SLHDEMIHK-G-IQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGM--------------------------------  181 (319)
Q Consensus       136 ~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------------------------------  181 (319)
                      .+|....+. | -..+...+.+....=.++..++.|.-+|+-.++.-+                                
T Consensus       228 ~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KR  307 (677)
T KOG1915|consen  228 SVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKR  307 (677)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhh
Confidence            666655543 1 011122333333333445556666666665544311                                


Q ss_pred             -----------CccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChh--hHHHHH-----HHH---HcCCcHHHHH
Q 039029          182 -----------LPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEV--TYNTLM-----HGR---CRQGKVEEAR  240 (319)
Q Consensus       182 -----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~-----~~~---~~~g~~~~a~  240 (319)
                                 +.|..+|--.++.-...|+.+...++|++.... ++|-..  .|...+     -++   ....+.+.+.
T Consensus       308 k~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr  386 (677)
T KOG1915|consen  308 KFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTR  386 (677)
T ss_pred             hhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence                       012333444444444556666666666665543 333211  111111     111   2345555566


Q ss_pred             HHHHHHHHcCCCCCC-cc------------------------------cCcchhhHHHHHHHHHhcCchhHHHHHHHHHH
Q 039029          241 RLLDQMKRRGIKPDH-IS------------------------------FNPTRLTYNALIQGLCKNQEGDLAEELLREMV  289 (319)
Q Consensus       241 ~~~~~~~~~~~~~~~-~~------------------------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  289 (319)
                      ++++..++  +-|.. ++                              .-|-..+|...|..=.+.++++....++++.+
T Consensus       387 ~vyq~~l~--lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfl  464 (677)
T KOG1915|consen  387 QVYQACLD--LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFL  464 (677)
T ss_pred             HHHHHHHh--hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            66655554  22221 11                              23444556666666666666777777777766


Q ss_pred             hCCCCCChHHHHHHHHHhhhcchhhhh
Q 039029          290 SKGITPDDNTYFSLIEGIASVDKAAES  316 (319)
Q Consensus       290 ~~~~~~~~~~~~~l~~~~~~~g~~~~A  316 (319)
                      ..+ +-|-.+|......-...|+.+.|
T Consensus       465 e~~-Pe~c~~W~kyaElE~~LgdtdRa  490 (677)
T KOG1915|consen  465 EFS-PENCYAWSKYAELETSLGDTDRA  490 (677)
T ss_pred             hcC-hHhhHHHHHHHHHHHHhhhHHHH
Confidence            643 22455666665555566666554

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

Probab=99.29  E-value=3.2e-09  Score=85.39  Aligned_cols=260  Identities=16%  Similarity=0.058  Sum_probs=195.7

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      ...+.+.|++.+|.-.|+...+.++. +...|..|.......++-..|+..+++.++... -+....-.|.-.|...|.-
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP-~NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELDP-TNLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCC-ccHHHHHHHHHHHhhhhhH
Confidence            34567899999999999999887644 788999999999999999999999999998863 3778888899999999999


Q ss_pred             hHHHHHHHHHhhCCCCC--------ChHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCccHHHHHHHHHHHhhhccHH
Q 039029           97 VEADDMLKEMGEKGIVP--------DSITYNILINGYCRCGNAKKAFSLHDEMIHK-GIQPTMLTYTSLIFVLSKQNRMI  167 (319)
Q Consensus        97 ~~a~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~  167 (319)
                      ..|.+.++..+...++-        +...-..  ..+.....+....++|-++... +..+|+.+...|.-.|.-.|+++
T Consensus       370 ~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             HHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            99999999886653220        0000000  1112222344555666555543 44478889999999999999999


Q ss_pred             HHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHcCCcHHHHHHHHHHH
Q 039029          168 EADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPD-EVTYNTLMHGRCRQGKVEEARRLLDQM  246 (319)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~  246 (319)
                      .|.+.|+.++...+. |..+||.|...++...+.++|...|++..+.  +|+ +.+...|.-+|...|.+++|.+.|-.+
T Consensus       448 raiDcf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~A  524 (579)
T KOG1125|consen  448 RAVDCFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEA  524 (579)
T ss_pred             HHHHHHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHH
Confidence            999999999987544 7899999999999999999999999999985  565 557777999999999999999999887


Q ss_pred             HHcCCC---CCCcccCcchhhHHHHHHHHHhcCchhHHHHH
Q 039029          247 KRRGIK---PDHISFNPTRLTYNALIQGLCKNQEGDLAEEL  284 (319)
Q Consensus       247 ~~~~~~---~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  284 (319)
                      +....+   +... ..++-..|..|=.++...++.|.+.++
T Consensus       525 L~mq~ks~~~~~~-~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  525 LSMQRKSRNHNKA-PMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             HHhhhcccccccC-CcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            654222   1111 112335677776667777776655443

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

Probab=99.28  E-value=5.1e-08  Score=78.93  Aligned_cols=271  Identities=12%  Similarity=-0.004  Sum_probs=167.6

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHH----hcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHH
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYC----NKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLM   92 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (319)
                      ...+...|++++|...+++..+..+ .+...+.. ...+.    ..+....+.+.+.... ...+........+...+..
T Consensus        50 a~~~~~~g~~~~A~~~~~~~l~~~P-~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~~~a~~~~~  126 (355)
T cd05804          50 ALSAWIAGDLPKALALLEQLLDDYP-RDLLALKL-HLGAFGLGDFSGMRDHVARVLPLWA-PENPDYWYLLGMLAFGLEE  126 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHH-hHHHHHhcccccCchhHHHHHhccC-cCCCCcHHHHHHHHHHHHH
Confidence            4456778999999999999887642 24444442 22222    2445555555555411 1112233444566678889


Q ss_pred             cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CccH--HHHHHHHHHHhhhccHHHH
Q 039029           93 ERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGI-QPTM--LTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a  169 (319)
                      .|++++|...+++..+..+. +...+..+..++...|++++|...+++...... .++.  ..+..+...+...|++++|
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            99999999999999987644 677888899999999999999999999887532 1232  3455678889999999999


Q ss_pred             HHHHHHHhhCCC-CccHHHH-H--HHHHHHhcCCcHHHHHHH---HHHHHhCCC-CCChhhHHHHHHHHHcCCcHHHHHH
Q 039029          170 DQLFENFLAKGM-LPDIVMF-N--ALIDGHCTNGNIERAFSL---LKEMDRMKV-HPDEVTYNTLMHGRCRQGKVEEARR  241 (319)
Q Consensus       170 ~~~~~~~~~~~~-~~~~~~~-~--~l~~~~~~~~~~~~a~~~---~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~  241 (319)
                      ..++++...... .+..... +  .++..+...|....+.+.   ......... ............++...|+.+.|..
T Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~  285 (355)
T cd05804         206 LAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDK  285 (355)
T ss_pred             HHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHH
Confidence            999999865432 1122111 1  233333444433332222   121111100 1111222356677788999999999


Q ss_pred             HHHHHHHcCCCCCCc-ccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          242 LLDQMKRRGIKPDHI-SFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       242 ~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      .++.+.......+.. .....+...-....++...|++++|.+.+.+....
T Consensus       286 ~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         286 LLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999987643221000 00001122233344567899999999999988765

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.

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

Probab=99.19  E-value=1.5e-08  Score=81.70  Aligned_cols=249  Identities=16%  Similarity=0.084  Sum_probs=183.5

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHH
Q 039029           54 GYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKK  133 (319)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  133 (319)
                      -+.+.|++.+|.-.|+..++.+ |-+...|..|...-...++-..|+..+++..+..+. +......|.-.|...|.-..
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHH
Confidence            4567888999999999998886 347889999998888899999999999999988655 78888899999999999999


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHH-------HHHhhhccHHHHHHHHHHHh-hCCCCccHHHHHHHHHHHhcCCcHHHHH
Q 039029          134 AFSLHDEMIHKGIQPTMLTYTSLI-------FVLSKQNRMIEADQLFENFL-AKGMLPDIVMFNALIDGHCTNGNIERAF  205 (319)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~l~-------~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~  205 (319)
                      |++.++.-..... |-...-..-.       ..+.....+....++|-++. ..+..+|+.+...|.-.|--.|++++|.
T Consensus       372 Al~~L~~Wi~~~p-~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  372 ALKMLDKWIRNKP-KYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHHhCc-cchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            9999988865431 1000000000       11122223334444454444 4444478888888888899999999999


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHH
Q 039029          206 SLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELL  285 (319)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  285 (319)
                      +.|+.+.... +-|..+||.|...++...+.++|...|.++++  +.|...      .+...|.-.|...|.+++|.+.|
T Consensus       451 Dcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yV------R~RyNlgIS~mNlG~ykEA~~hl  521 (579)
T KOG1125|consen  451 DCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYV------RVRYNLGISCMNLGAYKEAVKHL  521 (579)
T ss_pred             HHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCee------eeehhhhhhhhhhhhHHHHHHHH
Confidence            9999998764 44677999999999999999999999999998  567764      56677888899999999999887


Q ss_pred             HHHHhC---C------CCCChHHHHHHHHHhhhcchhh
Q 039029          286 REMVSK---G------ITPDDNTYFSLIEGIASVDKAA  314 (319)
Q Consensus       286 ~~~~~~---~------~~~~~~~~~~l~~~~~~~g~~~  314 (319)
                      -..+..   +      -.++...|..|=.++.-.++.|
T Consensus       522 L~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D  559 (579)
T KOG1125|consen  522 LEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSD  559 (579)
T ss_pred             HHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCch
Confidence            776542   1      1223345655555555555544

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.19  E-value=2.3e-07  Score=77.52  Aligned_cols=301  Identities=19%  Similarity=0.183  Sum_probs=173.9

Q ss_pred             CCCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC-hhhH
Q 039029            5 GVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT-ASTY   83 (319)
Q Consensus         5 g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~   83 (319)
                      .+.-|...|..+.-++...|++..+.+.|++....-. -....|..+...+...|.-..|..+++........|+ ...+
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~-~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF-GEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh-hhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            3445677788888888888888888888888765322 2444566666666666666666666655544321122 1222


Q ss_pred             HHHHHHHH-HcCchh--------------------------------------------------HHHHHHHHHhhCCCC
Q 039029           84 NLLIHELL-MERKMV--------------------------------------------------EADDMLKEMGEKGIV  112 (319)
Q Consensus        84 ~~l~~~~~-~~~~~~--------------------------------------------------~a~~~~~~~~~~~~~  112 (319)
                      -.....|. +.+..+                                                  ++.+.+++..+.+..
T Consensus       397 Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~  476 (799)
T KOG4162|consen  397 LMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT  476 (799)
T ss_pred             HHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC
Confidence            11111111 112222                                                  233333333333222


Q ss_pred             CChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCC----------
Q 039029          113 PDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGML----------  182 (319)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------  182 (319)
                       |+.....+.--|+-.++.+.|.+..++..+.+-..+...|..+...+...+++.+|+.+.+.....-..          
T Consensus       477 -dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~  555 (799)
T KOG4162|consen  477 -DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIH  555 (799)
T ss_pred             -CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhh
Confidence             222222333344555666666666666666533445566666666666666666666555443322000          


Q ss_pred             --------------------------------------------------------------------------------
Q 039029          183 --------------------------------------------------------------------------------  182 (319)
Q Consensus       183 --------------------------------------------------------------------------------  182 (319)
                                                                                                      
T Consensus       556 i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~  635 (799)
T KOG4162|consen  556 IELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPS  635 (799)
T ss_pred             hhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCc
Confidence                                                                                            


Q ss_pred             ------cc------HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          183 ------PD------IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       183 ------~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                            |+      ...|......+.+.+..+++...+.+..... +.....|......+...|.+++|.+.|.....  
T Consensus       636 s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~--  712 (799)
T KOG4162|consen  636 STVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALA--  712 (799)
T ss_pred             ccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh--
Confidence                  00      0111222233333444444444444433321 22333445555666677888889988888776  


Q ss_pred             CCCCCcccCcchhhHHHHHHHHHhcCchhHHHH--HHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          251 IKPDHISFNPTRLTYNALIQGLCKNQEGDLAEE--LLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      +.|+.+      ....++...+.+.|+...|..  ++.++.+.+ +.+...|..+...+.+.|+.++|.
T Consensus       713 ldP~hv------~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aa  774 (799)
T KOG4162|consen  713 LDPDHV------PSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAA  774 (799)
T ss_pred             cCCCCc------HHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHH
Confidence            567664      678899999999999888888  999999875 447889999999999999999875

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

Probab=99.18  E-value=6.3e-08  Score=85.76  Aligned_cols=236  Identities=10%  Similarity=0.080  Sum_probs=186.5

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHc-CCC---cChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ-GIM---PTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYN  119 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  119 (319)
                      +...|...|....+.++.++|.++.++.+.. ++.   --...|.+++..-..-|.-+...++|+++.+..  ..-..|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHH
Confidence            5678999999999999999999999998864 211   123467777777777788888999999998762  1345788


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCC-ccHHHHHHHHHHHhcC
Q 039029          120 ILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGML-PDIVMFNALIDGHCTN  198 (319)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~  198 (319)
                      .|...|.+.+.+++|-++++.|.++ +.-....|...+..+.+.++-+.|..++.++++.-+. -........+..-.+.
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhc
Confidence            9999999999999999999999987 3457789999999999999999999999998876322 1244555666667889


Q ss_pred             CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCch
Q 039029          199 GNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEG  278 (319)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  278 (319)
                      |+.+++..+|+...... +-....|+.+++.-.++|+.+.+..+|++++..++.|....     ..|...+..=-..|+-
T Consensus      1614 GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmK-----fffKkwLeyEk~~Gde 1687 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMK-----FFFKKWLEYEKSHGDE 1687 (1710)
T ss_pred             CCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhH-----HHHHHHHHHHHhcCch
Confidence            99999999999987753 44677899999999999999999999999999988877532     4566666655566776


Q ss_pred             hHHHHHHHHH
Q 039029          279 DLAEELLREM  288 (319)
Q Consensus       279 ~~A~~~~~~~  288 (319)
                      ..+..+=.++
T Consensus      1688 ~~vE~VKarA 1697 (1710)
T KOG1070|consen 1688 KNVEYVKARA 1697 (1710)
T ss_pred             hhHHHHHHHH
Confidence            5555444443

>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=99.18  E-value=5.4e-09  Score=80.62  Aligned_cols=256  Identities=18%  Similarity=0.174  Sum_probs=167.3

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      ++.+.-.|++..++.-.+ ........+......+.+++...|+++.++   .++.... .|.......+...+...++-
T Consensus         8 vrn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTH
T ss_pred             HHHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccch
Confidence            344556799999987666 333332334455667788888999877554   3333333 56666665555555433445


Q ss_pred             hHHHHHHHHHhhCCCC-CChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHH
Q 039029           97 VEADDMLKEMGEKGIV-PDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFEN  175 (319)
Q Consensus        97 ~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (319)
                      +.+..-+++....... .+..........+...|++++|++++...      .+.......+.++.+.++++.|.+.++.
T Consensus        83 e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~  156 (290)
T PF04733_consen   83 ESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKN  156 (290)
T ss_dssp             HCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5555555544433322 23333333446677789999999988643      3667778888999999999999999999


Q ss_pred             HhhCCCCccHHHHHHHHHHHh----cCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCC
Q 039029          176 FLAKGMLPDIVMFNALIDGHC----TNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGI  251 (319)
Q Consensus       176 ~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  251 (319)
                      |.+..  .| .+...+..++.    ..+.+.+|..+|+++.+. ..+++.+.+.+..+....|++++|.+++.+..+.  
T Consensus       157 ~~~~~--eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~--  230 (290)
T PF04733_consen  157 MQQID--ED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEK--  230 (290)
T ss_dssp             HHCCS--CC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--
T ss_pred             HHhcC--Cc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--
Confidence            98763  23 33333444433    345689999999998764 4678888999999999999999999999997653  


Q ss_pred             CCCCcccCcchhhHHHHHHHHHhcCch-hHHHHHHHHHHhCCCCCCh
Q 039029          252 KPDHISFNPTRLTYNALIQGLCKNQEG-DLAEELLREMVSKGITPDD  297 (319)
Q Consensus       252 ~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~~~~  297 (319)
                      .|+.      ..++..++.+....|+. +.+.+.+.++...  .|+.
T Consensus       231 ~~~~------~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~--~p~h  269 (290)
T PF04733_consen  231 DPND------PDTLANLIVCSLHLGKPTEAAERYLSQLKQS--NPNH  269 (290)
T ss_dssp             -CCH------HHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH--TTTS
T ss_pred             ccCC------HHHHHHHHHHHHHhCCChhHHHHHHHHHHHh--CCCC
Confidence            3333      36777788888888888 6677888888764  4553

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.

>PLN02789 farnesyltranstransferase

Probab=99.16  E-value=2.1e-07  Score=72.90  Aligned_cols=214  Identities=7%  Similarity=-0.014  Sum_probs=157.8

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCcChhhHHHHHHHHH
Q 039029           13 YGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKG-NLEMAFSFRDEMVKQGIMPTASTYNLLIHELL   91 (319)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (319)
                      +..+-..+...++.++|+.+..++.+.+.. +..+|+....++...+ ++++++..++.+.+.+.+ +..+|+.....+.
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~  117 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAE  117 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHH
Confidence            445556667788999999999999986533 5557777766777777 679999999999987643 5566776655566


Q ss_pred             HcCch--hHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh---ccH
Q 039029           92 MERKM--VEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ---NRM  166 (319)
Q Consensus        92 ~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~  166 (319)
                      +.++.  +++..+++++.+...+ +..+|+...-++...|+++++++.++++.+.+. .+...|+....++.+.   |..
T Consensus       118 ~l~~~~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~-~N~sAW~~R~~vl~~~~~l~~~  195 (320)
T PLN02789        118 KLGPDAANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRYFVITRSPLLGGL  195 (320)
T ss_pred             HcCchhhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHHHHHHhccccccc
Confidence            66653  6788899899888765 889999999999999999999999999999863 4666777666665544   222


Q ss_pred             ----HHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC----CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 039029          167 ----IEADQLFENFLAKGMLPDIVMFNALIDGHCTN----GNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCR  232 (319)
Q Consensus       167 ----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  232 (319)
                          ++......+++...+. +...|+.+...+...    +...++...+.+..+.+ +.+......|+..|+.
T Consensus       196 ~~~~e~el~y~~~aI~~~P~-N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        196 EAMRDSELKYTIDAILANPR-NESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             cccHHHHHHHHHHHHHhCCC-CcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence                4566677677766443 677788777777663    34466888888876643 3456677888888875

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.16  E-value=5.7e-08  Score=72.29  Aligned_cols=206  Identities=15%  Similarity=0.132  Sum_probs=143.6

Q ss_pred             CCCCCCCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcCh
Q 039029            1 MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTA   80 (319)
Q Consensus         1 M~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (319)
                      |-..|+..-.--+.+++..+.+..++..|++++..-.++..+ +....+.+..+|....++..|-..++++-..  .|..
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            555677776777899999999999999999999988877533 7778889999999999999999999998876  3454


Q ss_pred             hhHHH-HHHHHHHcCchhHHHHHHHHHhhCCCCCChH--HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHH
Q 039029           81 STYNL-LIHELLMERKMVEADDMLKEMGEKGIVPDSI--TYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLI  157 (319)
Q Consensus        81 ~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  157 (319)
                      .-|.. -...+.+.+.+..|+++...|.+.   ++..  +...-.......+++..+..+.++....+   +..+.....
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            44432 345677888999999999888753   1221  11111223345567777777776665332   344444545


Q ss_pred             HHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC
Q 039029          158 FVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKV  216 (319)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (319)
                      -...+.|+++.|.+-|+...+-+.-.....|+..+.. .+.|+.+.|.+...++.+.|+
T Consensus       152 CllykegqyEaAvqkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~  209 (459)
T KOG4340|consen  152 CLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGI  209 (459)
T ss_pred             heeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhh
Confidence            5556788888888888877765333345566655544 456778888888877776654

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

Probab=99.15  E-value=5.5e-09  Score=88.16  Aligned_cols=256  Identities=20%  Similarity=0.293  Sum_probs=180.8

Q ss_pred             HHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCC
Q 039029           31 RMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKG  110 (319)
Q Consensus        31 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (319)
                      .++..+...|+.|+..+|..+|.-|+..|+.+.|- +|..|.-...+.+...|+.++..-...++.+.+.          
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            45667788899999999999999999999999998 9999988888888889999998888888877765          


Q ss_pred             CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHH-------cCCCccHHHHH--------------HHHHHHhhhccHHHH
Q 039029          111 IVPDSITYNILINGYCRCGNAKKAFSLHDEMIH-------KGIQPTMLTYT--------------SLIFVLSKQNRMIEA  169 (319)
Q Consensus       111 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~--------------~l~~~~~~~~~~~~a  169 (319)
                       .|.+.+|..|+.+|...||...-..+-+.+..       .|+.....-+-              ..+....-.|.++.+
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             57889999999999999997652222221221       22211111111              112222334555555


Q ss_pred             HHHHHHHhhCCCCccHHHHHHHHHHHhcCC-cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 039029          170 DQLFENFLAKGMLPDIVMFNALIDGHCTNG-NIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  248 (319)
                      .+++..+...... .+  +..+++-+.... .+++...+.....+   .|++.++..++..-...|+.+.|..++.+|.+
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 LKLLAKVPVSAWN-AP--FQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKE  232 (1088)
T ss_pred             HHHHhhCCccccc-ch--HHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence            5555444322111 11  111244443332 23443333333333   58999999999999999999999999999999


Q ss_pred             cCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhh
Q 039029          249 RGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAA  314 (319)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  314 (319)
                      .|.+.+.       .-|..++-+   .++..-+..+++-|...|+.|+..|+...+..+...|...
T Consensus       233 ~gfpir~-------HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~  288 (1088)
T KOG4318|consen  233 KGFPIRA-------HYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTK  288 (1088)
T ss_pred             cCCCccc-------ccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhh
Confidence            9987665       455566544   8888999999999999999999999999988887755543

>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=99.14  E-value=4e-09  Score=81.30  Aligned_cols=239  Identities=15%  Similarity=0.105  Sum_probs=157.0

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHH
Q 039029           54 GYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKK  133 (319)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  133 (319)
                      -+.-.|++..++.-.+ ...............+.+++...|+.+.++   .++.... .|.......+...+...++-+.
T Consensus        10 n~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~   84 (290)
T PF04733_consen   10 NQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKES   84 (290)
T ss_dssp             HHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHC
T ss_pred             HHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHH
Confidence            3455788888886665 322222233455567788888899877544   4443333 5666666666555544455555


Q ss_pred             HHHHHHHHHHcCCC-ccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 039029          134 AFSLHDEMIHKGIQ-PTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMD  212 (319)
Q Consensus       134 a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (319)
                      ++.-+++....... .+.........++...|++++|++++...      .+.......+..|.+.++++.|.+.++.|.
T Consensus        85 ~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~  158 (290)
T PF04733_consen   85 ALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQ  158 (290)
T ss_dssp             HHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            65555544433322 23333344445677889999999888653      356777788899999999999999999998


Q ss_pred             hCCCCCChhhHHHHHHHHHc----CCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHH
Q 039029          213 RMKVHPDEVTYNTLMHGRCR----QGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREM  288 (319)
Q Consensus       213 ~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  288 (319)
                      +.+  .| .+...+..++..    .+.+.+|..+|+++.+. .       .+++.+.+.+..++...|++++|.+++++.
T Consensus       159 ~~~--eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~-------~~t~~~lng~A~~~l~~~~~~eAe~~L~~a  227 (290)
T PF04733_consen  159 QID--ED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-F-------GSTPKLLNGLAVCHLQLGHYEEAEELLEEA  227 (290)
T ss_dssp             CCS--CC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S---------SHHHHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             hcC--Cc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-c-------CCCHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            753  33 444555555543    34699999999998764 1       234578899999999999999999999998


Q ss_pred             HhCCCCCChHHHHHHHHHhhhcchhhh
Q 039029          289 VSKGITPDDNTYFSLIEGIASVDKAAE  315 (319)
Q Consensus       289 ~~~~~~~~~~~~~~l~~~~~~~g~~~~  315 (319)
                      ...+ +-++.++..++-.....|+..+
T Consensus       228 l~~~-~~~~d~LaNliv~~~~~gk~~~  253 (290)
T PF04733_consen  228 LEKD-PNDPDTLANLIVCSLHLGKPTE  253 (290)
T ss_dssp             CCC--CCHHHHHHHHHHHHHHTT-TCH
T ss_pred             HHhc-cCCHHHHHHHHHHHHHhCCChh
Confidence            8753 3467778888888888888743

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.

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

Probab=99.12  E-value=1.7e-07  Score=83.14  Aligned_cols=233  Identities=13%  Similarity=0.106  Sum_probs=185.3

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCC-----CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVP-----TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTY   83 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (319)
                      +...|-..|....+.++.++|.++++++... +.+     ..-.|.++++.-...|.-+...++|+++.+.  .-....|
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~ 1533 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVH 1533 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHH
Confidence            4566888899999999999999999998865 322     2237888888888889889999999999876  2245678


Q ss_pred             HHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc--cHHHHHHHHHHHh
Q 039029           84 NLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQP--TMLTYTSLIFVLS  161 (319)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~  161 (319)
                      ..|...|.+.+.+++|.++++.|.++ +......|...+..+.+..+-+.|..++.+..+. +|-  ........+..-.
T Consensus      1534 ~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~-lPk~eHv~~IskfAqLEF 1611 (1710)
T KOG1070|consen 1534 LKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS-LPKQEHVEFISKFAQLEF 1611 (1710)
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh-cchhhhHHHHHHHHHHHh
Confidence            89999999999999999999999876 3357889999999999999999999999998875 222  2345566666677


Q ss_pred             hhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCCh--hhHHHHHHHHHcCCcHHHH
Q 039029          162 KQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDE--VTYNTLMHGRCRQGKVEEA  239 (319)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a  239 (319)
                      +.|+.+.+..+|+......+. -...|+.+++.-.++|+.+.++.+|+++...++.|-.  ..|...+..=-+.|+-+.+
T Consensus      1612 k~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~v 1690 (1710)
T KOG1070|consen 1612 KYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNV 1690 (1710)
T ss_pred             hcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhH
Confidence            899999999999998887443 5789999999999999999999999999998876653  3455555555566665555


Q ss_pred             HHHHHHHH
Q 039029          240 RRLLDQMK  247 (319)
Q Consensus       240 ~~~~~~~~  247 (319)
                      +.+=.++.
T Consensus      1691 E~VKarA~ 1698 (1710)
T KOG1070|consen 1691 EYVKARAK 1698 (1710)
T ss_pred             HHHHHHHH
Confidence            55444443

>PF12854 PPR_1: PPR repeat

Probab=99.11  E-value=8.9e-11  Score=58.33  Aligned_cols=34  Identities=44%  Similarity=0.962  Sum_probs=29.7

Q ss_pred             CCCCCCcccHHHHHHHHhccCChHHHHHHHHHHH
Q 039029            4 RGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMK   37 (319)
Q Consensus         4 ~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~   37 (319)
                      +|++||..+|+++|.+|++.|++++|.++|++|.
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            5888999999999999999999999999998873

>PLN02789 farnesyltranstransferase

Probab=99.10  E-value=7.4e-07  Score=69.87  Aligned_cols=229  Identities=10%  Similarity=0.088  Sum_probs=166.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC-chhHHHHHHHHHhhCCCCCChHHHHHHHHHHH
Q 039029           48 YNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMER-KMVEADDMLKEMGEKGIVPDSITYNILINGYC  126 (319)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (319)
                      +..+-..+...++.++|+.+..++++... -+..+|+....++...| ++++++..++++.+..++ +..+|+.....+.
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~lnP-~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~  117 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIRLNP-GNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAE  117 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHCc-hhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHH
Confidence            44444555567789999999999998752 25566766666666777 579999999999988665 6677887766666


Q ss_pred             hcCCh--HHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC---Cc-
Q 039029          127 RCGNA--KKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTN---GN-  200 (319)
Q Consensus       127 ~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~-  200 (319)
                      +.|+.  ++++.+++++.+.+ +-+..+|+....++...|+++++++.++++++.++. +...|+.......+.   |. 
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-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGL  195 (320)
T ss_pred             HcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccc
Confidence            77763  67899999998875 557889999999999999999999999999998765 666776665555443   22 


Q ss_pred             ---HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcC----CcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHH
Q 039029          201 ---IERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQ----GKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLC  273 (319)
Q Consensus       201 ---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  273 (319)
                         .++......++.... +-+...|+.+...+...    +...+|.+.+.++...  .|.      +......|+..|.
T Consensus       196 ~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~--~~~------s~~al~~l~d~~~  266 (320)
T PLN02789        196 EAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSK--DSN------HVFALSDLLDLLC  266 (320)
T ss_pred             cccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcc--cCC------cHHHHHHHHHHHH
Confidence               245666776666654 45677888888888763    4456788888887663  232      2367788888887


Q ss_pred             hcC------------------chhHHHHHHHHHH
Q 039029          274 KNQ------------------EGDLAEELLREMV  289 (319)
Q Consensus       274 ~~g------------------~~~~A~~~~~~~~  289 (319)
                      ...                  ..++|.++++.+.
T Consensus       267 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        267 EGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             hhhccchhhhhhhhccccccccHHHHHHHHHHHH
Confidence            632                  2366888888874

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.10  E-value=2.7e-06  Score=70.07  Aligned_cols=82  Identities=18%  Similarity=0.081  Sum_probs=48.5

Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHH
Q 039029          226 LMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIE  305 (319)
Q Consensus       226 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  305 (319)
                      ++..+-..|+++.|..+++.++.+  .|+.+      ..|..=.+.+.+.|+.++|..++++..+.+ .||...-..-..
T Consensus       377 laqh~D~~g~~~~A~~yId~AIdH--TPTli------Ely~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAK  447 (700)
T KOG1156|consen  377 LAQHYDKLGDYEVALEYIDLAIDH--TPTLI------ELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAK  447 (700)
T ss_pred             HHHHHHHcccHHHHHHHHHHHhcc--CchHH------HHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHH
Confidence            456666777777777777777663  33321      344445567777777777777777777653 234333333444


Q ss_pred             Hhhhcchhhhh
Q 039029          306 GIASVDKAAES  316 (319)
Q Consensus       306 ~~~~~g~~~~A  316 (319)
                      -..+....++|
T Consensus       448 YmLrAn~i~eA  458 (700)
T KOG1156|consen  448 YMLRANEIEEA  458 (700)
T ss_pred             HHHHccccHHH
Confidence            44555555555

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.10  E-value=1.4e-06  Score=71.65  Aligned_cols=296  Identities=15%  Similarity=0.091  Sum_probs=165.7

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHH
Q 039029           13 YGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLM   92 (319)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (319)
                      .....-.+...|+-++|.+......+..+. +..+|+.+.-.+....++++|++.|......+ +-|...+..+...-++
T Consensus        44 lAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~Q  121 (700)
T KOG1156|consen   44 LAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQ  121 (700)
T ss_pred             HHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHH
Confidence            333333445567777777777766664433 66677777777777778888888888887765 3366677766666677


Q ss_pred             cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCccHHHHHHHHH------HHhhhcc
Q 039029           93 ERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKG-IQPTMLTYTSLIF------VLSKQNR  165 (319)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~------~~~~~~~  165 (319)
                      .++++.......++.+..+. ....|..+..++.-.|++..|..++++..+.. ..|+...+.....      ...+.|.
T Consensus       122 mRd~~~~~~tr~~LLql~~~-~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~  200 (700)
T KOG1156|consen  122 MRDYEGYLETRNQLLQLRPS-QRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGS  200 (700)
T ss_pred             HHhhhhHHHHHHHHHHhhhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHccc
Confidence            77777777776666665332 55567777777777777777777777776653 2344444333221      1233444


Q ss_pred             HHHHHHHHHHHhhCCCCccHH-HHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHH-HHH-cCCc-------
Q 039029          166 MIEADQLFENFLAKGMLPDIV-MFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMH-GRC-RQGK-------  235 (319)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~~~-~~g~-------  235 (319)
                      .+.|.+.+...... + .|-. .-..-...+.+.+++++|..++..+...  .||...|...+. ++. -.+.       
T Consensus       201 ~q~ale~L~~~e~~-i-~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~l  276 (700)
T KOG1156|consen  201 LQKALEHLLDNEKQ-I-VDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKAL  276 (700)
T ss_pred             HHHHHHHHHhhhhH-H-HHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            44444444332221 1 1111 1122233444555555555555555443  233333322221 111 1111       


Q ss_pred             ---------------------------HHHHHHHHHHHHHcCCCCCCcc-------------------------------
Q 039029          236 ---------------------------VEEARRLLDQMKRRGIKPDHIS-------------------------------  257 (319)
Q Consensus       236 ---------------------------~~~a~~~~~~~~~~~~~~~~~~-------------------------------  257 (319)
                                                 .+..-+++....+.|+++-..+                               
T Consensus       277 y~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f  356 (700)
T KOG1156|consen  277 YAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMF  356 (700)
T ss_pred             HHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCC
Confidence                                       1111222222333332221111                               


Q ss_pred             --------cCcchhhHH--HHHHHHHhcCchhHHHHHHHHHHhCCCCCChHH-HHHHHHHhhhcchhhhhc
Q 039029          258 --------FNPTRLTYN--ALIQGLCKNQEGDLAEELLREMVSKGITPDDNT-YFSLIEGIASVDKAAESS  317 (319)
Q Consensus       258 --------~~~~~~~~~--~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~  317 (319)
                              -+|+...|.  .++..+-+.|+++.|...++....+  .|+..- |..=.+-+.+.|+.++|.
T Consensus       357 ~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa  425 (700)
T KOG1156|consen  357 NFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAA  425 (700)
T ss_pred             CcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHH
Confidence                    245666564  4677888999999999999998875  676543 434456688888888875

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

Probab=99.08  E-value=6.7e-08  Score=80.17  Aligned_cols=223  Identities=14%  Similarity=0.070  Sum_probs=178.8

Q ss_pred             CCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHH
Q 039029            6 VQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNL   85 (319)
Q Consensus         6 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (319)
                      ++|--..-..+...+...|-...|+.+|+++.         .|..++.+|...|+..+|..+..+..+.  +|+...|..
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~  462 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCL  462 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHH
Confidence            34444444567788888999999999998765         4777888999999999999998888874  678888888


Q ss_pred             HHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhcc
Q 039029           86 LIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNR  165 (319)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (319)
                      +........-+++|.++.+.....       .-..+.....+.+++.++.+.++.-.+.+ +....+|.....+..+.++
T Consensus       463 LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek  534 (777)
T KOG1128|consen  463 LGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEK  534 (777)
T ss_pred             hhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhh
Confidence            888776666678888887765432       22223333445789999999999887764 5567888888888899999


Q ss_pred             HHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHH
Q 039029          166 MIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQ  245 (319)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  245 (319)
                      +..+.+.|.......+. +...||.+-.+|.+.++-.+|...+.+..+.+ .-+...|...+......|.+++|.+.+.+
T Consensus       535 ~q~av~aF~rcvtL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~r  612 (777)
T KOG1128|consen  535 EQAAVKAFHRCVTLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHR  612 (777)
T ss_pred             hHHHHHHHHHHhhcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHH
Confidence            99999999988876432 57899999999999999999999999999887 55667888888889999999999999999


Q ss_pred             HHHc
Q 039029          246 MKRR  249 (319)
Q Consensus       246 ~~~~  249 (319)
                      +...
T Consensus       613 ll~~  616 (777)
T KOG1128|consen  613 LLDL  616 (777)
T ss_pred             HHHh
Confidence            8764

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.06  E-value=2.8e-06  Score=70.06  Aligned_cols=275  Identities=12%  Similarity=0.159  Sum_probs=169.9

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhc----------------C------ChHHHHHHH
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNK----------------G------NLEMAFSFR   68 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------~------~~~~a~~~~   68 (319)
                      ..|++|.+.|.+.|.+++|.++|++....-  .++.-|..+...|+..                +      +++-....|
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~  326 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARF  326 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHH
Confidence            458999999999999999999999987642  2333444444444331                1      122233344


Q ss_pred             HHHHHcCC-----------CcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCC------ChHHHHHHHHHHHhcCCh
Q 039029           69 DEMVKQGI-----------MPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVP------DSITYNILINGYCRCGNA  131 (319)
Q Consensus        69 ~~~~~~~~-----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~  131 (319)
                      +.+.....           +-++..|..-..  ...|+..+....|.+..+. +.|      -...|..+...|-..|+.
T Consensus       327 e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l  403 (835)
T KOG2047|consen  327 ESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDL  403 (835)
T ss_pred             HHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcH
Confidence            44433310           112233332222  2345666777777777653 222      235678888999999999


Q ss_pred             HHHHHHHHHHHHcCCCcc---HHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCC----------c-------cHHHHHHH
Q 039029          132 KKAFSLHDEMIHKGIQPT---MLTYTSLIFVLSKQNRMIEADQLFENFLAKGML----------P-------DIVMFNAL  191 (319)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------~-------~~~~~~~l  191 (319)
                      +.|..+|++..+...+--   ..+|......=.+..+++.|.++++.....-..          |       +...|..+
T Consensus       404 ~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y  483 (835)
T KOG2047|consen  404 DDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMY  483 (835)
T ss_pred             HHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHH
Confidence            999999999887643211   234555555556777888888888776533111          1       33456666


Q ss_pred             HHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHH
Q 039029          192 IDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQG  271 (319)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  271 (319)
                      +..-...|-++....+++++.+..+. ++.........+..+.-++++.+++++-+..-..|..+      ..|+..+.-
T Consensus       484 ~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~------diW~tYLtk  556 (835)
T KOG2047|consen  484 ADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVY------DIWNTYLTK  556 (835)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHH------HHHHHHHHH
Confidence            66666778888889999998877643 33333334444556666788888887765544344433      567666665


Q ss_pred             HHhc---CchhHHHHHHHHHHhCCCCCChH
Q 039029          272 LCKN---QEGDLAEELLREMVSKGITPDDN  298 (319)
Q Consensus       272 ~~~~---g~~~~A~~~~~~~~~~~~~~~~~  298 (319)
                      +.+.   ...+.|..+|++.++ |.+|...
T Consensus       557 fi~rygg~klEraRdLFEqaL~-~Cpp~~a  585 (835)
T KOG2047|consen  557 FIKRYGGTKLERARDLFEQALD-GCPPEHA  585 (835)
T ss_pred             HHHHhcCCCHHHHHHHHHHHHh-cCCHHHH
Confidence            5542   346788888888887 6666543

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.05  E-value=2.5e-06  Score=65.08  Aligned_cols=289  Identities=10%  Similarity=0.050  Sum_probs=187.0

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHH---HHHHHHhcCChHHHHHHHHHHHHcCCCcChhh-HHHHHH
Q 039029           13 YGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNT---LIDGYCNKGNLEMAFSFRDEMVKQGIMPTAST-YNLLIH   88 (319)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~   88 (319)
                      .-.+...+...|++..|+.-|....+-    |+..|.+   -...|...|+...|+.-+...++.  +||-.. -..-..
T Consensus        41 hlElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~  114 (504)
T KOG0624|consen   41 HLELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGV  114 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhch
Confidence            344666777788888888888887763    3333433   344677778888888888877765  455322 112234


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCC--hH----------HH--HHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPD--SI----------TY--NILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYT  154 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~--~~----------~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  154 (319)
                      .+.+.|.++.|..=|+.+.+..+...  ..          .|  ...+..+...|+...|+.....+.+.. +-+...+.
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            56788888888888888877643211  11          11  223455666788888888888888764 45677777


Q ss_pred             HHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhh-H---HH---H-
Q 039029          155 SLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVT-Y---NT---L-  226 (319)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~---~~---l-  226 (319)
                      .-..+|...|.+..|+.-+....+.... +..++-.+-..+...|+.+.++...++..+.  .||... |   ..   + 
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            7788888888888888777776665332 5566666677777888888888887777765  344321 1   11   1 


Q ss_pred             -----HHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCC-hHHH
Q 039029          227 -----MHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPD-DNTY  300 (319)
Q Consensus       227 -----~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~  300 (319)
                           +......++|.++.+-.+..++.......+    ....+..+-.++...|++.+|+....+.++.  .|| ..++
T Consensus       271 K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~i----r~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv~~l  344 (504)
T KOG0624|consen  271 KSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMI----RYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDVQVL  344 (504)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccce----eeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHHHHH
Confidence                 122345667777777777776653221111    1133445556667778888888888887763  454 6677


Q ss_pred             HHHHHHhhhcchhhhhc
Q 039029          301 FSLIEGIASVDKAAESS  317 (319)
Q Consensus       301 ~~l~~~~~~~g~~~~A~  317 (319)
                      ..-..+|.-...+++|+
T Consensus       345 ~dRAeA~l~dE~YD~AI  361 (504)
T KOG0624|consen  345 CDRAEAYLGDEMYDDAI  361 (504)
T ss_pred             HHHHHHHhhhHHHHHHH
Confidence            77777777777777775

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

Probab=99.02  E-value=2.7e-07  Score=67.34  Aligned_cols=119  Identities=11%  Similarity=0.087  Sum_probs=72.0

Q ss_pred             hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHH-HHcCCc--HHHH
Q 039029          163 QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHG-RCRQGK--VEEA  239 (319)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~--~~~a  239 (319)
                      .++.+++...++...+.... +...|..+...|...|++++|...+++..+.. +.+...+..+..+ +...|+  .++|
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            44555555556655555332 56666666667777777777777777666654 2345555555554 345555  4677


Q ss_pred             HHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          240 RRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      .++++++.+.+  |+.      ..++..+...+...|++++|...|+++++.
T Consensus       130 ~~~l~~al~~d--P~~------~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        130 REMIDKALALD--ANE------VTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHhC--CCC------hhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            77777766643  322      245666666667777777777777776664

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

Probab=99.01  E-value=2.5e-07  Score=67.61  Aligned_cols=165  Identities=13%  Similarity=0.011  Sum_probs=128.5

Q ss_pred             ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHH
Q 039029          114 DSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALID  193 (319)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (319)
                      |... ..+-..+...|+-+....+..+.... .+.+.......+....+.|++..|...+.+..... ++|...|+.+.-
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-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHH
Confidence            4444 66677888888888888887776544 24466677778888899999999999999988764 458899999999


Q ss_pred             HHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHH
Q 039029          194 GHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLC  273 (319)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  273 (319)
                      +|.+.|+++.|..-|.+..+.. .-+....+.+.-.+.-.|+++.|..++......+..        +...-..+.....
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a--------d~~v~~NLAl~~~  213 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA--------DSRVRQNLALVVG  213 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC--------chHHHHHHHHHHh
Confidence            9999999999999999988764 234566788888888899999999999988775422        2256677888888


Q ss_pred             hcCchhHHHHHHHHHHh
Q 039029          274 KNQEGDLAEELLREMVS  290 (319)
Q Consensus       274 ~~g~~~~A~~~~~~~~~  290 (319)
                      ..|++++|..+...-..
T Consensus       214 ~~g~~~~A~~i~~~e~~  230 (257)
T COG5010         214 LQGDFREAEDIAVQELL  230 (257)
T ss_pred             hcCChHHHHhhcccccc
Confidence            99999999887665443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.01  E-value=2.8e-07  Score=69.92  Aligned_cols=184  Identities=12%  Similarity=0.029  Sum_probs=100.6

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCC-C-CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcCh--hhHHHHH
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLV-P-TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTA--STYNLLI   87 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~   87 (319)
                      .+-.+...+.+.|++++|...|+++...... | ...++..+..++...|++++|...++.+.+.......  .++..+.
T Consensus        35 ~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g  114 (235)
T TIGR03302        35 ELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRG  114 (235)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHH
Confidence            3444555566666666666666666553221 0 1134455556666666666666666666654321111  1233333


Q ss_pred             HHHHHc--------CchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 039029           88 HELLME--------RKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFV  159 (319)
Q Consensus        88 ~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (319)
                      .++...        |+.++|.+.++.+.+..+. +...+..+.....    ..      ...        ......+...
T Consensus       115 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~----~~------~~~--------~~~~~~~a~~  175 (235)
T TIGR03302       115 LSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDY----LR------NRL--------AGKELYVARF  175 (235)
T ss_pred             HHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHH----HH------HHH--------HHHHHHHHHH
Confidence            344333        4555566666665544322 2112211111000    00      000        0011245566


Q ss_pred             HhhhccHHHHHHHHHHHhhCCC--CccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC
Q 039029          160 LSKQNRMIEADQLFENFLAKGM--LPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (319)
                      +.+.|++.+|...++.+.+...  +.....+..+..++...|++++|..+++.+...
T Consensus       176 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       176 YLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            8888999999999998887632  223577888899999999999999988887654

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).

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

Probab=99.00  E-value=4.7e-07  Score=66.28  Aligned_cols=159  Identities=18%  Similarity=0.066  Sum_probs=131.9

Q ss_pred             HHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh
Q 039029           84 NLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ  163 (319)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (319)
                      ..+-..+...|+-+....+.......... +.......+....+.|++..|...+++..... ++|...++.+.-+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~-d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPK-DRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcc-cHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            56667777888888888888876654333 66677778999999999999999999998875 78899999999999999


Q ss_pred             ccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHH
Q 039029          164 NRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLL  243 (319)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  243 (319)
                      |+.+.|..-|.+..+.... +....+.+.-.+.-.|+.+.|..++......+ .-|..+-..+.......|++++|..+.
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         148 GRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            9999999999999887544 56778888888889999999999999987764 336777788888889999999998877


Q ss_pred             HHH
Q 039029          244 DQM  246 (319)
Q Consensus       244 ~~~  246 (319)
                      ..-
T Consensus       226 ~~e  228 (257)
T COG5010         226 VQE  228 (257)
T ss_pred             ccc
Confidence            654

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

Probab=98.99  E-value=1.6e-07  Score=78.05  Aligned_cols=233  Identities=15%  Similarity=0.114  Sum_probs=180.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHh
Q 039029           48 YNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCR  127 (319)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (319)
                      -..+...+...|-...|..+++++.         .|...+.+|...|+..+|..+..+..++  +|++..|..+.+....
T Consensus       401 q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d  469 (777)
T KOG1128|consen  401 QRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHD  469 (777)
T ss_pred             HHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccC
Confidence            3457778888899999999988654         5667788999999999999999988874  5789899888888777


Q ss_pred             cCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHH
Q 039029          128 CGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSL  207 (319)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  207 (319)
                      ..-+++|.++.+....+       .-..+.....+.++++++.+.|+.-.+... ....+|-.+..+..+.++++.+.+.
T Consensus       470 ~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~np-lq~~~wf~~G~~ALqlek~q~av~a  541 (777)
T KOG1128|consen  470 PSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINP-LQLGTWFGLGCAALQLEKEQAAVKA  541 (777)
T ss_pred             hHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCc-cchhHHHhccHHHHHHhhhHHHHHH
Confidence            77788888888765433       222222333457899999999998777643 3578888899999999999999999


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHH
Q 039029          208 LKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLRE  287 (319)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  287 (319)
                      |....... +-+...||.+-.+|.+.|+-.+|...+.++.+.+..+-        ..|...+......|.++.|++.+.+
T Consensus       542 F~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w--------~iWENymlvsvdvge~eda~~A~~r  612 (777)
T KOG1128|consen  542 FHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHW--------QIWENYMLVSVDVGEFEDAIKAYHR  612 (777)
T ss_pred             HHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCC--------eeeechhhhhhhcccHHHHHHHHHH
Confidence            99987753 33467999999999999999999999999998763322        5677778888999999999999999


Q ss_pred             HHhCCC-CCChHHHHHHHHHhh
Q 039029          288 MVSKGI-TPDDNTYFSLIEGIA  308 (319)
Q Consensus       288 ~~~~~~-~~~~~~~~~l~~~~~  308 (319)
                      +..... .-|......++....
T Consensus       613 ll~~~~~~~d~~vl~~iv~~~~  634 (777)
T KOG1128|consen  613 LLDLRKKYKDDEVLLIIVRTVL  634 (777)
T ss_pred             HHHhhhhcccchhhHHHHHHHH
Confidence            876411 124455555555443

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

Probab=98.99  E-value=5.5e-07  Score=65.76  Aligned_cols=120  Identities=12%  Similarity=0.120  Sum_probs=82.4

Q ss_pred             cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHH-hhhcc--HHHH
Q 039029           93 ERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVL-SKQNR--MIEA  169 (319)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~a  169 (319)
                      .++.+++...+++..+..+. +...|..+...|...|++++|...|++..+.. +.+...+..+..++ ...|+  .++|
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            45556666666666665544 67777777777777777777777777777764 44666666666653 55555  4777


Q ss_pred             HHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC
Q 039029          170 DQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMK  215 (319)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (319)
                      .+++++..+.+.. +...+..+...+...|++++|...|+++.+..
T Consensus       130 ~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        130 REMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            7777777776544 56667777777777777777777777776654

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.98  E-value=4.2e-07  Score=68.97  Aligned_cols=188  Identities=10%  Similarity=-0.023  Sum_probs=122.5

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-c-ChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCCh--HHH
Q 039029           43 PTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM-P-TASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDS--ITY  118 (319)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~  118 (319)
                      .....+......+...|+++.|...++++...... | ....+..+..++...|++++|...++++.+..+....  .++
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            34556777777888888888888888888776321 1 1235666777888888888888888888776433111  134


Q ss_pred             HHHHHHHHhc--------CChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHH
Q 039029          119 NILINGYCRC--------GNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNA  190 (319)
Q Consensus       119 ~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (319)
                      ..+..++...        |++++|.+.++.+.... +.+......+.....    ...      ..        ......
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~~~~----~~~------~~--------~~~~~~  171 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY-PNSEYAPDAKKRMDY----LRN------RL--------AGKELY  171 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC-CCChhHHHHHHHHHH----HHH------HH--------HHHHHH
Confidence            4555555544        66777888888777653 222222222211110    000      00        011124


Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHhCCC--CCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          191 LIDGHCTNGNIERAFSLLKEMDRMKV--HPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      +...|.+.|++++|...++...+...  +.....+..+..++...|++++|..+++.+...
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            56678899999999999999877531  123567889999999999999999999988764

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).

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.96  E-value=1.7e-06  Score=75.73  Aligned_cols=232  Identities=9%  Similarity=0.040  Sum_probs=132.4

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      ...+..|+..+...+++++|.++.+...+..+. ....|-.+...+.+.++.+.+.-+                 .++..
T Consensus        31 ~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~-~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l~~   92 (906)
T PRK14720         31 FKELDDLIDAYKSENLTDEAKDICEEHLKEHKK-SISALYISGILSLSRRPLNDSNLL-----------------NLIDS   92 (906)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCc-ceehHHHHHHHHHhhcchhhhhhh-----------------hhhhh
Confidence            445667777777777777777777766654322 222333333355555554443333                 12222


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      .....++..+..+...+.+.+  -+...+..+..+|-+.|+.+++..+|+++.+.. +-++.+.+.+...|... ++++|
T Consensus        93 ~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA  168 (906)
T PRK14720         93 FSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKA  168 (906)
T ss_pred             cccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHH
Confidence            222333333333334444321  244567777888888888888888888888876 55777888888888777 88888


Q ss_pred             HHHHHHHhhCCC---Ccc--HHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCCCChhhHHHHHHHHHcCCcHHHHHHHH
Q 039029          170 DQLFENFLAKGM---LPD--IVMFNALIDGHCTNGNIERAFSLLKEMDRM-KVHPDEVTYNTLMHGRCRQGKVEEARRLL  243 (319)
Q Consensus       170 ~~~~~~~~~~~~---~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  243 (319)
                      .+++.++...-+   .++  ...|..++.  ....+.+.-..+.+.+... +..--..++..+-..|...++|+++..++
T Consensus       169 ~~m~~KAV~~~i~~kq~~~~~e~W~k~~~--~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iL  246 (906)
T PRK14720        169 ITYLKKAIYRFIKKKQYVGIEEIWSKLVH--YNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYIL  246 (906)
T ss_pred             HHHHHHHHHHHHhhhcchHHHHHHHHHHh--cCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHH
Confidence            887777665411   000  111111111  1122334444444444332 22223445566667778888899999999


Q ss_pred             HHHHHcCCCCCCcccCcchhhHHHHHHHHH
Q 039029          244 DQMKRRGIKPDHISFNPTRLTYNALIQGLC  273 (319)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  273 (319)
                      +.+++..  |+.      ..+...++.+|.
T Consensus       247 K~iL~~~--~~n------~~a~~~l~~~y~  268 (906)
T PRK14720        247 KKILEHD--NKN------NKAREELIRFYK  268 (906)
T ss_pred             HHHHhcC--Ccc------hhhHHHHHHHHH
Confidence            9998853  332      256677777776

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.95  E-value=8.2e-06  Score=74.65  Aligned_cols=299  Identities=13%  Similarity=0.054  Sum_probs=183.4

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHhCCC------CCC--HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcCh----hh
Q 039029           15 SFVSGMCKEGRLEEASRMLEQMKENGL------VPT--AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTA----ST   82 (319)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~~~~~~~------~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~   82 (319)
                      .....+...|+++++..++......-.      .+.  ......+...+...|+++.|...+++........+.    ..
T Consensus       414 ~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a  493 (903)
T PRK04841        414 LQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVA  493 (903)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHH
Confidence            344555677899999888887654311      111  112223344566789999999999888763111111    23


Q ss_pred             HHHHHHHHHHcCchhHHHHHHHHHhhC----CC-CCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCC--c-cH
Q 039029           83 YNLLIHELLMERKMVEADDMLKEMGEK----GI-VPDSITYNILINGYCRCGNAKKAFSLHDEMIHK----GIQ--P-TM  150 (319)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~  150 (319)
                      .+.+...+...|++++|...+++....    +. .....++..+...+...|++++|...+++....    +..  + ..
T Consensus       494 ~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~  573 (903)
T PRK04841        494 TSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHE  573 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHH
Confidence            455566677889999999888887642    11 111234556677788899999999988876653    211  1 22


Q ss_pred             HHHHHHHHHHhhhccHHHHHHHHHHHhhC----CCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCC-ChhhH--
Q 039029          151 LTYTSLIFVLSKQNRMIEADQLFENFLAK----GMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHP-DEVTY--  223 (319)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~--  223 (319)
                      ..+..+...+...|++++|...+.+....    +.......+..+...+...|+.+.|...+.......... ....+  
T Consensus       574 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~  653 (903)
T PRK04841        574 FLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIA  653 (903)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhh
Confidence            33445556677789999999888876543    111123444556667788899999999888875421111 11111  


Q ss_pred             ---HHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC----CCCCC
Q 039029          224 ---NTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK----GITPD  296 (319)
Q Consensus       224 ---~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~  296 (319)
                         ...+..+...|+.+.|..++............    .....+..+..++...|++++|...+++....    |..++
T Consensus       654 ~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~----~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~  729 (903)
T PRK04841        654 NADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNH----FLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSD  729 (903)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccch----hHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHH
Confidence               11224445678888888887664431110000    01122456777888999999999999988763    33322


Q ss_pred             -hHHHHHHHHHhhhcchhhhhc
Q 039029          297 -DNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       297 -~~~~~~l~~~~~~~g~~~~A~  317 (319)
                       ..+...+..++.+.|+.++|.
T Consensus       730 ~a~~~~~la~a~~~~G~~~~A~  751 (903)
T PRK04841        730 LNRNLILLNQLYWQQGRKSEAQ  751 (903)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHH
Confidence             245666677788999988875

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.90  E-value=3.5e-07  Score=68.21  Aligned_cols=233  Identities=12%  Similarity=0.103  Sum_probs=161.3

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHH-HHHH
Q 039029           46 VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI-LING  124 (319)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~  124 (319)
                      .-+.+++..+.+..+++.|++++..-.+.. +.+......+..+|....++..|...++++....  |...-|.. -...
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-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQS   87 (459)
T ss_pred             CchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHH
Confidence            346777777888899999999998888774 3377788899999999999999999999998763  44444433 3566


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCccHHH--HHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHH
Q 039029          125 YCRCGNAKKAFSLHDEMIHKGIQPTMLT--YTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIE  202 (319)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (319)
                      +.+.+.+.+|+.+...|...   ++...  ...-.....+.+++..+..++++....+   +..+.+...-...+.|+++
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            77889999999999888653   22222  1111223456788888888888876443   3444555555557889999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcc------c--------Ccch------
Q 039029          203 RAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHIS------F--------NPTR------  262 (319)
Q Consensus       203 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~------~--------~~~~------  262 (319)
                      .|.+-|+...+.+---....|+.-+. ..+.|++..|+++..++++.|++..+..      -        +|-.      
T Consensus       162 aAvqkFqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal  240 (459)
T KOG4340|consen  162 AAVQKFQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSAL  240 (459)
T ss_pred             HHHHHHHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHH
Confidence            99999999877543333455665554 4567899999999999998877543321      0        1111      


Q ss_pred             -hhHHHHHHHHHhcCchhHHHHHHHHH
Q 039029          263 -LTYNALIQGLCKNQEGDLAEELLREM  288 (319)
Q Consensus       263 -~~~~~l~~~~~~~g~~~~A~~~~~~~  288 (319)
                       ..+|.-...+.+.|+++.|.+.+-+|
T Consensus       241 ~eAfNLKaAIeyq~~n~eAA~eaLtDm  267 (459)
T KOG4340|consen  241 VEAFNLKAAIEYQLRNYEAAQEALTDM  267 (459)
T ss_pred             HHHhhhhhhhhhhcccHHHHHHHhhcC
Confidence             12222233355778888888877766

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.88  E-value=6.7e-07  Score=61.78  Aligned_cols=108  Identities=12%  Similarity=-0.071  Sum_probs=69.5

Q ss_pred             HHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCC
Q 039029           31 RMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKG  110 (319)
Q Consensus        31 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (319)
                      .++++..+.+  |+  .+......+...|++++|...|+...... +.+...+..+..++...|++++|...|++.....
T Consensus        14 ~~~~~al~~~--p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLSVD--PE--TVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHHcC--HH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            3455555432  22  24445666667777777777777776654 3356666667777777777777777777777654


Q ss_pred             CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029          111 IVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       111 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      +. +...+..+..++...|++++|...|+.....
T Consensus        89 p~-~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         89 AS-HPEPVYQTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             CC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            43 6666677777777777777777777776665

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.87  E-value=4.6e-06  Score=72.18  Aligned_cols=180  Identities=6%  Similarity=0.040  Sum_probs=124.0

Q ss_pred             CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHH
Q 039029           42 VPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNIL  121 (319)
Q Consensus        42 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (319)
                      ..++..+..|.....+.|++++|..+++...+.. +-+......+...+.+.+++++|...+++.....+. +......+
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~~  160 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILLE  160 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHHH
Confidence            3456777778888888888888888888888764 235566677777888888888888888888877654 67777777


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcH
Q 039029          122 INGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNI  201 (319)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (319)
                      ..++...|++++|..+|+++...+ +.+..++..+..++...|+.++|...|+...+.. .+....|+.++.      +.
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~~------~~  232 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRLV------DL  232 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHHH------HH
Confidence            888888888888888888888743 4457788888888888888888888888877652 234455554432      33


Q ss_pred             HHHHHHHHHHHhC----CCCCChhhHHHHHHHHH
Q 039029          202 ERAFSLLKEMDRM----KVHPDEVTYNTLMHGRC  231 (319)
Q Consensus       202 ~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~  231 (319)
                      ..-..+++++.-.    |.+........++..|.
T Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (694)
T PRK15179        233 NADLAALRRLGVEGDGRDVPVSILVLEKMLQEIG  266 (694)
T ss_pred             HHHHHHHHHcCcccccCCCceeeeeHHHHHHHHh
Confidence            3444455555322    22333445555555554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.87  E-value=9.3e-06  Score=74.29  Aligned_cols=273  Identities=12%  Similarity=0.049  Sum_probs=177.9

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCH----HhHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CcChhhHHHHH
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTA----VTYNTLIDGYCNKGNLEMAFSFRDEMVKQ----GI-MPTASTYNLLI   87 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~   87 (319)
                      ...+...|++++|...+++........+.    ...+.+...+...|+++.|...+++....    +. ......+..+.
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            34556789999999999988763211121    24456667778899999999999888753    11 11123445666


Q ss_pred             HHHHHcCchhHHHHHHHHHhhC----CCC--C-ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCc--cHHHHHHH
Q 039029           88 HELLMERKMVEADDMLKEMGEK----GIV--P-DSITYNILINGYCRCGNAKKAFSLHDEMIHKG--IQP--TMLTYTSL  156 (319)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l  156 (319)
                      ..+...|+++.|...+++....    +..  + ....+..+...+...|++++|...+.+.....  ..+  ....+..+
T Consensus       539 ~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  618 (903)
T PRK04841        539 EILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAML  618 (903)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHH
Confidence            7788899999999988876542    211  1 22334556667788899999999998876531  112  23344556


Q ss_pred             HHHHhhhccHHHHHHHHHHHhhCC--CCccHH--HH--HHHHHHHhcCCcHHHHHHHHHHHHhCCCCCC---hhhHHHHH
Q 039029          157 IFVLSKQNRMIEADQLFENFLAKG--MLPDIV--MF--NALIDGHCTNGNIERAFSLLKEMDRMKVHPD---EVTYNTLM  227 (319)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~--~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  227 (319)
                      ...+...|+.+.|...+.......  ......  ..  ...+..+...|+.+.+...+...........   ...+..+.
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            667788999999999988875421  111111  11  1122445568899999999877654221111   11134567


Q ss_pred             HHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          228 HGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      .++...|++++|...+.++..........  .....+...+..++.+.|+.++|...+.+..+.
T Consensus       699 ~~~~~~g~~~~A~~~l~~al~~~~~~g~~--~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        699 RAQILLGQFDEAEIILEELNENARSLRLM--SDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhCch--HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            78889999999999999887642111100  011245667778899999999999999999875

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.86  E-value=4.9e-06  Score=72.00  Aligned_cols=145  Identities=11%  Similarity=-0.003  Sum_probs=110.7

Q ss_pred             CcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHH
Q 039029           77 MPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSL  156 (319)
Q Consensus        77 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (319)
                      +.+...+..|.....+.|..++|..+++...+..+. +......+...+.+.+++++|+..+++..... +.+......+
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~  160 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLE  160 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHH
Confidence            456778888888888888888888888888877544 56677778888888888888888888888774 4466777777


Q ss_pred             HHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHH
Q 039029          157 IFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNT  225 (319)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  225 (319)
                      ..++.+.|++++|..+|+++...+. -+..++..+...+...|+.++|...|++..+.. .+....|+.
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p-~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~  227 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHP-EFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTR  227 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHH
Confidence            7888888888888888888887432 247778888888888888888888888876653 333444433

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.86  E-value=4.6e-06  Score=73.18  Aligned_cols=225  Identities=13%  Similarity=0.114  Sum_probs=158.1

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC-hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHH
Q 039029           43 PTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT-ASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNIL  121 (319)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (319)
                      .+...+..|+..+...+++++|.++.+...+..  |+ ...|..+...+.+.++...+..+                 .+
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~--P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~   89 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKEH--KKSISALYISGILSLSRRPLNDSNLL-----------------NL   89 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CcceehHHHHHHHHHhhcchhhhhhh-----------------hh
Confidence            356788999999999999999999999877763  33 33444444456666664444333                 34


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcH
Q 039029          122 INGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNI  201 (319)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (319)
                      +.......++.-+..++..+...  .-+...+..+..+|.+.|+.+++..+|+++++..+. ++.+.|.+...|... +.
T Consensus        90 l~~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-dL  165 (906)
T PRK14720         90 IDSFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-DK  165 (906)
T ss_pred             hhhcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-hH
Confidence            45555555665555555666654  335668899999999999999999999999998744 789999999999999 99


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcc--------------cCcchhhHHH
Q 039029          202 ERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHIS--------------FNPTRLTYNA  267 (319)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~  267 (319)
                      ++|.+++.+....               +...+++..+.++|.++....  |+...              +.--..++..
T Consensus       166 ~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~--~~d~d~f~~i~~ki~~~~~~~~~~~~~~~  228 (906)
T PRK14720        166 EKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYN--SDDFDFFLRIERKVLGHREFTRLVGLLED  228 (906)
T ss_pred             HHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcC--cccchHHHHHHHHHHhhhccchhHHHHHH
Confidence            9999999988654               333445555555555554432  12111              1122245666


Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhh
Q 039029          268 LIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIA  308 (319)
Q Consensus       268 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  308 (319)
                      +-..|...++|+++..+++.+++.. +-|......++.+|.
T Consensus       229 l~~~y~~~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        229 LYEPYKALEDWDEVIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHhhhhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            6678888999999999999999863 336666777777664

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.84  E-value=1e-06  Score=60.91  Aligned_cols=92  Identities=8%  Similarity=-0.146  Sum_probs=45.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCC
Q 039029          120 ILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNG  199 (319)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (319)
                      .+...+...|++++|...|+...... +.+...+..+..++...|++++|...|+....... .+...+..+..++...|
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p-~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDA-SHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHHcC
Confidence            34444455555555555555554442 33444555555555555555555555555554432 13444444555555555


Q ss_pred             cHHHHHHHHHHHHh
Q 039029          200 NIERAFSLLKEMDR  213 (319)
Q Consensus       200 ~~~~a~~~~~~~~~  213 (319)
                      ++++|...|+...+
T Consensus       107 ~~~eAi~~~~~Al~  120 (144)
T PRK15359        107 EPGLAREAFQTAIK  120 (144)
T ss_pred             CHHHHHHHHHHHHH
Confidence            55555555555444

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.82  E-value=1.7e-05  Score=66.78  Aligned_cols=254  Identities=14%  Similarity=0.040  Sum_probs=168.2

Q ss_pred             HHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHH
Q 039029           27 EEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEM  106 (319)
Q Consensus        27 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  106 (319)
                      .++++.+++..+.+.. |+.+...+.--|+..++.+.|.+...+..+.+...+...|..+..++...+++.+|+.+.+..
T Consensus       461 ~kslqale~av~~d~~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~a  539 (799)
T KOG4162|consen  461 KKSLQALEEAVQFDPT-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAA  539 (799)
T ss_pred             HHHHHHHHHHHhcCCC-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            4667777777766543 333333334446677888888888888888755667888888888888888888888887766


Q ss_pred             hhCCCC-------------------CChHHHHHHHHHHHhc-----------------------CChHHHHHHHHHHH--
Q 039029          107 GEKGIV-------------------PDSITYNILINGYCRC-----------------------GNAKKAFSLHDEMI--  142 (319)
Q Consensus       107 ~~~~~~-------------------~~~~~~~~l~~~~~~~-----------------------~~~~~a~~~~~~~~--  142 (319)
                      ...-..                   --..|...++..+-..                       ++..++.+....+.  
T Consensus       540 l~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l  619 (799)
T KOG4162|consen  540 LEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSL  619 (799)
T ss_pred             HHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHH
Confidence            543111                   0112222222222200                       01111111111110  


Q ss_pred             ------HcC---------C--Ccc------HHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCC
Q 039029          143 ------HKG---------I--QPT------MLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNG  199 (319)
Q Consensus       143 ------~~~---------~--~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (319)
                            ..+         +  .|+      ...|......+.+.+..+++...+.+..... +.....|......+...|
T Consensus       620 ~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~  698 (799)
T KOG4162|consen  620 VASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKG  698 (799)
T ss_pred             HHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHH
Confidence                  001         0  111      1234445566777788888887777766653 335677777778888899


Q ss_pred             cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHH--HHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCc
Q 039029          200 NIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARR--LLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQE  277 (319)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  277 (319)
                      .+++|.+.|......+ +.++.+..++...+.+.|+..-|..  ++..+.+.+  |+      +...|..+...+.+.|+
T Consensus       699 ~~~EA~~af~~Al~ld-P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d--p~------n~eaW~~LG~v~k~~Gd  769 (799)
T KOG4162|consen  699 QLEEAKEAFLVALALD-PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD--PL------NHEAWYYLGEVFKKLGD  769 (799)
T ss_pred             hhHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC--CC------CHHHHHHHHHHHHHccc
Confidence            9999999999988764 3346688899999999998888877  999998854  33      33899999999999999


Q ss_pred             hhHHHHHHHHHHhC
Q 039029          278 GDLAEELLREMVSK  291 (319)
Q Consensus       278 ~~~A~~~~~~~~~~  291 (319)
                      .+.|.+.|+...+.
T Consensus       770 ~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  770 SKQAAECFQAALQL  783 (799)
T ss_pred             hHHHHHHHHHHHhh
Confidence            99999999998775

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.81  E-value=1.9e-05  Score=63.83  Aligned_cols=294  Identities=17%  Similarity=0.123  Sum_probs=193.2

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC-hhhHHHHHHHHHHcCc
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT-ASTYNLLIHELLMERK   95 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~   95 (319)
                      ..+.+..|+++.|+..|.+....... +...|..-..+|...|++++|++--.+.++.  .|+ ...|.....+..-.|+
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~p~-nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLSPT-NHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccCCC-ccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhccc
Confidence            35667889999999999998876544 7778888889999999999998877776665  444 4578888888888999


Q ss_pred             hhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcC----------------------------------------------
Q 039029           96 MVEADDMLKEMGEKGIVPDSITYNILINGYCRCG----------------------------------------------  129 (319)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------------------------------------  129 (319)
                      +++|+.-|.+-.+.... +...++.+..++.-..                                              
T Consensus        86 ~~eA~~ay~~GL~~d~~-n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~  164 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKDPS-NKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKL  164 (539)
T ss_pred             HHHHHHHHHHHhhcCCc-hHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhc
Confidence            99999999887776433 5555555554441110                                              


Q ss_pred             --ChHHHHHHHHHHHHc--------C-------CCc---------c-------------HHHHHHHHHHHhhhccHHHHH
Q 039029          130 --NAKKAFSLHDEMIHK--------G-------IQP---------T-------------MLTYTSLIFVLSKQNRMIEAD  170 (319)
Q Consensus       130 --~~~~a~~~~~~~~~~--------~-------~~~---------~-------------~~~~~~l~~~~~~~~~~~~a~  170 (319)
                        +.....+..-.+...        +       ..|         .             ..-...+..+..+..++..+.
T Consensus       165 ~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~  244 (539)
T KOG0548|consen  165 YLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAI  244 (539)
T ss_pred             ccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHH
Confidence              000000000000000        0       001         0             011234445555666777777


Q ss_pred             HHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHH-------HHHHHHHcCCcHHHHHHHH
Q 039029          171 QLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYN-------TLMHGRCRQGKVEEARRLL  243 (319)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-------~l~~~~~~~g~~~~a~~~~  243 (319)
                      +.+.......  -+..-++....+|...|.+..+........+.|-. ....|+       .+..+|.+.++++.+...|
T Consensus       245 q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~  321 (539)
T KOG0548|consen  245 QHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYY  321 (539)
T ss_pred             HHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHH
Confidence            7777777664  35556667777888888888887777776655421 122222       2344666778899999999


Q ss_pred             HHHHHcCCCCCCcc-----------------cCcchh-hHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHH
Q 039029          244 DQMKRRGIKPDHIS-----------------FNPTRL-TYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIE  305 (319)
Q Consensus       244 ~~~~~~~~~~~~~~-----------------~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  305 (319)
                      .+.+.....|+..+                 +.|... -...-...+.+.|++..|+..|.+++... +-|...|..-.-
T Consensus       322 ~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAa  400 (539)
T KOG0548|consen  322 QKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAA  400 (539)
T ss_pred             HHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHH
Confidence            99877665555433                 222221 11222556788999999999999999975 457788888999


Q ss_pred             HhhhcchhhhhcC
Q 039029          306 GIASVDKAAESSN  318 (319)
Q Consensus       306 ~~~~~g~~~~A~~  318 (319)
                      +|.+.|.+.+|..
T Consensus       401 c~~kL~~~~~aL~  413 (539)
T KOG0548|consen  401 CYLKLGEYPEALK  413 (539)
T ss_pred             HHHHHhhHHHHHH
Confidence            9999999988753

>PF12854 PPR_1: PPR repeat

Probab=98.81  E-value=8.9e-09  Score=51.09  Aligned_cols=32  Identities=56%  Similarity=1.099  Sum_probs=17.3

Q ss_pred             CCCCChHHHHHHHHHHHhcCChHHHHHHHHHH
Q 039029          110 GIVPDSITYNILINGYCRCGNAKKAFSLHDEM  141 (319)
Q Consensus       110 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  141 (319)
                      |+.||..+|++|+.+|++.|+.++|.++|++|
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            44555555555555555555555555555554

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.80  E-value=3.6e-05  Score=63.06  Aligned_cols=124  Identities=13%  Similarity=0.035  Sum_probs=88.3

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC
Q 039029           15 SFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMER   94 (319)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (319)
                      +=++.+.+.|++++|.+...++...+ +-+...+..-+-+..+.+++++|+.+.+.-...  ..+...+.--+.+..+.+
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            34667788899999999999999876 446667777777888999999999665543221  111111123345667889


Q ss_pred             chhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 039029           95 KMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKG  145 (319)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (319)
                      ..++|...++-....    +..+...-...+.+.|++++|+.+|+.+.+.+
T Consensus        94 k~Dealk~~~~~~~~----~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~  140 (652)
T KOG2376|consen   94 KLDEALKTLKGLDRL----DDKLLELRAQVLYRLERYDEALDIYQHLAKNN  140 (652)
T ss_pred             cHHHHHHHHhccccc----chHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            999999988833221    34466666788899999999999999986654

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.79  E-value=2e-05  Score=58.08  Aligned_cols=264  Identities=14%  Similarity=0.135  Sum_probs=165.8

Q ss_pred             CCCCCCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChh
Q 039029            2 KSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTAS   81 (319)
Q Consensus         2 ~~~g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   81 (319)
                      -..+.-|+...|+  ++.+.-.|++..++..-.......  -+...-.-+.++|...|.+.....-   +.... .|...
T Consensus         2 ~~~~~g~~d~LF~--iRn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~~~e---I~~~~-~~~lq   73 (299)
T KOG3081|consen    2 SSMEAGPEDELFN--IRNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIVISE---IKEGK-ATPLQ   73 (299)
T ss_pred             CccccCcchhHHH--HHHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHcccccccccc---ccccc-CChHH
Confidence            3344445544454  344445688888877666554432  3444444566677777765543322   22222 23333


Q ss_pred             hHHHHHHHHHHcCchhH-HHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 039029           82 TYNLLIHELLMERKMVE-ADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVL  160 (319)
Q Consensus        82 ~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (319)
                      .+..+......-+..++ ..++.+.+.......+......-...|...|++++|++......      +......=+..+
T Consensus        74 Avr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~  147 (299)
T KOG3081|consen   74 AVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQIL  147 (299)
T ss_pred             HHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHH
Confidence            33333333333333333 33445555555444344444455678899999999999887622      333444445566


Q ss_pred             hhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhc----CCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcH
Q 039029          161 SKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCT----NGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKV  236 (319)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  236 (319)
                      .+..+.+.|.+.+++|...   .+..+.+.|..++.+    .+....|.-+|+++.+. .+|+..+.+-...++...|++
T Consensus       148 lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~  223 (299)
T KOG3081|consen  148 LKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRY  223 (299)
T ss_pred             HHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCH
Confidence            7888999999999999886   256777777766654    45688999999999774 478888899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhH-HHHHHHHHHhC
Q 039029          237 EEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDL-AEELLREMVSK  291 (319)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~  291 (319)
                      ++|..+++.++.....        ++.+...++-+-...|...+ ..+.+.++...
T Consensus       224 eeAe~lL~eaL~kd~~--------dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  224 EEAESLLEEALDKDAK--------DPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHHHHhccCC--------CHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            9999999999886432        22566666666566666544 44556666553

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.79  E-value=8.8e-06  Score=59.46  Aligned_cols=190  Identities=15%  Similarity=0.111  Sum_probs=137.4

Q ss_pred             ccCChHHHHHHHHHHHhC---C-CCCCHH-hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           22 KEGRLEEASRMLEQMKEN---G-LVPTAV-TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      ...+.++..+++.++...   | ..++.. .|..++-+....|+.+.|...++.+...- +-+..+-..-...+-..|.+
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhch
Confidence            456788888888887643   3 344443 45667777788899999999999887763 22222322223335567899


Q ss_pred             hHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHH
Q 039029           97 VEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENF  176 (319)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (319)
                      ++|.++++.+.+.++. |..++..=+...-..|..-+|++-+....+. +..|...|.-+...|...|+++.|.-.++++
T Consensus       103 ~~A~e~y~~lL~ddpt-~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLEDDPT-DTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccCcc-hhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            9999999999887643 7777777677777788888888888888777 5778899999999999999999999999988


Q ss_pred             hhCCCCccHHHHHHHHHHHhcCC---cHHHHHHHHHHHHhCC
Q 039029          177 LAKGMLPDIVMFNALIDGHCTNG---NIERAFSLLKEMDRMK  215 (319)
Q Consensus       177 ~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~  215 (319)
                      .-..+. ++..+..+...+...|   +.+-+.+.|.+..+..
T Consensus       181 ll~~P~-n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  181 LLIQPF-NPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            876432 5555666666554433   5667888888887754

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.75  E-value=3.8e-05  Score=58.90  Aligned_cols=270  Identities=13%  Similarity=0.038  Sum_probs=185.7

Q ss_pred             CCcccHHHHH---HHHhccCChHHHHHHHHHHHhCCCCCCHHh-HHHHHHHHHhcCChHHHHHHHHHHHHcCCCc--Chh
Q 039029            8 PDSYTYGSFV---SGMCKEGRLEEASRMLEQMKENGLVPTAVT-YNTLIDGYCNKGNLEMAFSFRDEMVKQGIMP--TAS   81 (319)
Q Consensus         8 p~~~~~~~li---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~   81 (319)
                      .|+..|.++.   ..|...|+...|+.-+....+.  +||-.. -..-...+.+.|.++.|..-|+.+++....-  +..
T Consensus        67 ~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~e  144 (504)
T KOG0624|consen   67 GDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLE  144 (504)
T ss_pred             CCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHH
Confidence            3444444443   4677788888888888887774  455422 2223446778999999999999998874211  111


Q ss_pred             hH------------HHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc
Q 039029           82 TY------------NLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPT  149 (319)
Q Consensus        82 ~~------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  149 (319)
                      .+            ...+..+...|+...|+.....+.+..+- +...+..-..+|...|++..|+.=++...+.. ..+
T Consensus       145 aqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~W-da~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~Dn  222 (504)
T KOG0624|consen  145 AQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPW-DASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDN  222 (504)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcc-hhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccc
Confidence            11            12234456678899999999999887543 88888888899999999999988887776664 346


Q ss_pred             HHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHH----HHHH---------HHHHhcCCcHHHHHHHHHHHHhCCC
Q 039029          150 MLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVM----FNAL---------IDGHCTNGNIERAFSLLKEMDRMKV  216 (319)
Q Consensus       150 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~l---------~~~~~~~~~~~~a~~~~~~~~~~~~  216 (319)
                      ..++..+-..+...|+.+.++...++.++.  .||...    |-.+         +......++|.++.+-.+...+...
T Consensus       223 Te~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep  300 (504)
T KOG0624|consen  223 TEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEP  300 (504)
T ss_pred             hHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCC
Confidence            677777778888899999988888888775  344321    1111         1223455677777777777666542


Q ss_pred             CCCh---hhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          217 HPDE---VTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       217 ~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      ....   ..+..+-.++...|++.+|++...++++  +.|+.      ..++.--..+|.-...++.|+.-|+...+.
T Consensus       301 ~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~--~d~~d------v~~l~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  301 EETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD--IDPDD------VQVLCDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             cccceeeeeeheeeecccccCCHHHHHHHHHHHHh--cCchH------HHHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            2122   2344556667778889999999998887  34442      467777788888888899999988888775

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.75  E-value=3.4e-06  Score=71.63  Aligned_cols=230  Identities=13%  Similarity=0.114  Sum_probs=141.0

Q ss_pred             HHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcC---------CCcChhhHHHHHHH
Q 039029           19 GMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQG---------IMPTASTYNLLIHE   89 (319)
Q Consensus        19 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~~~~~~~~~l~~~   89 (319)
                      .|...|+.+.|.+-.+-++      +..+|..+.+.|.+.++.+-|.-.+-.|....         -.++ .+-......
T Consensus       737 fyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvL  809 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVL  809 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHH
Confidence            4566788888877776655      44589999999999999888877776664321         1121 222333344


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      ....|..++|..+|++..+.         ..|=..|...|.|++|+++-+.--.-.+   ..||.....-+...++.+.|
T Consensus       810 AieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~A  877 (1416)
T KOG3617|consen  810 AIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAA  877 (1416)
T ss_pred             HHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHH
Confidence            56778899999999887653         3455667788888888887654322211   24555555666667777777


Q ss_pred             HHHHHHHhhC----------CC---------CccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 039029          170 DQLFENFLAK----------GM---------LPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGR  230 (319)
Q Consensus       170 ~~~~~~~~~~----------~~---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  230 (319)
                      ++.|++....          .+         ..|...|.-........|+.+.|+.+|....+         |-.+++..
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 LEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIK  948 (1416)
T ss_pred             HHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeE
Confidence            7777653221          00         11333444444445556777777777665543         33444555


Q ss_pred             HcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHH
Q 039029          231 CRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMV  289 (319)
Q Consensus       231 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  289 (319)
                      +-+|+.++|.++.++--.             ..+.-.+.+.|-..|++.+|..+|.+..
T Consensus       949 C~qGk~~kAa~iA~esgd-------------~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  949 CIQGKTDKAARIAEESGD-------------KAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             eeccCchHHHHHHHhccc-------------HHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            556666666655544221             1344566777777777777777766654

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.74  E-value=9.1e-06  Score=59.83  Aligned_cols=220  Identities=18%  Similarity=0.083  Sum_probs=133.6

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHH-HHHHHHHHcCCCcChhhHHHHHHHHHHc
Q 039029           15 SFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAF-SFRDEMVKQGIMPTASTYNLLIHELLME   93 (319)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (319)
                      -+.++|...|++...+.   +++... .|....+..+......-++.+.-+ ++.+.+.......+......-...|...
T Consensus        46 y~~raylAlg~~~~~~~---eI~~~~-~~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~  121 (299)
T KOG3081|consen   46 YMYRAYLALGQYQIVIS---EIKEGK-ATPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHD  121 (299)
T ss_pred             HHHHHHHHccccccccc---cccccc-CChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcC
Confidence            35566777776654433   222222 233334444444444444444433 4445554443333333344445567788


Q ss_pred             CchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhh----hccHHHH
Q 039029           94 RKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSK----QNRMIEA  169 (319)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  169 (319)
                      +++++|.+......      +......=...+.+..+.+-|.+.+++|.+..   +..+.+.|..++.+    .+.+.+|
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            88888888777622      33333333455667777888888888887753   55666666666543    4567788


Q ss_pred             HHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcH-HHHHHHHHHHHH
Q 039029          170 DQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKV-EEARRLLDQMKR  248 (319)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~  248 (319)
                      .-+|+++.+. .+|+..+.+-...++...|++++|..+++...... ..++.+...++..-...|.. +...+.+.++..
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-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD-AKDPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             HHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc-CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            8888887764 45678888888888888888888888888887764 33556666666555555554 445566666665


Q ss_pred             c
Q 039029          249 R  249 (319)
Q Consensus       249 ~  249 (319)
                      .
T Consensus       271 ~  271 (299)
T KOG3081|consen  271 S  271 (299)
T ss_pred             c
Confidence            3

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.70  E-value=3.3e-06  Score=57.96  Aligned_cols=97  Identities=13%  Similarity=-0.003  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 039029          116 ITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGH  195 (319)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (319)
                      .....+...+...|++++|...++.+...+ +.+...+..+..++...|++++|...++...+.+. .+...+..+...+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDP-DDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CChHHHHHHHHHH
Confidence            334444555555556666666655555543 33445555555555555666666665555554432 2344455555555


Q ss_pred             hcCCcHHHHHHHHHHHHhC
Q 039029          196 CTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~  214 (319)
                      ...|++++|...|+...+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            5556666666666555543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.70  E-value=3.8e-05  Score=61.54  Aligned_cols=149  Identities=15%  Similarity=0.060  Sum_probs=101.9

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHH
Q 039029          123 NGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIE  202 (319)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (319)
                      -.+...|++++|+..++.+... .|.|+.........+.+.++..+|.+.++++....+. .....-.+..++.+.|++.
T Consensus       314 ~~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~-~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         314 LQTYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPN-SPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-ccHHHHHHHHHHHhcCChH
Confidence            3445667788888888887765 3556666677777778888888888888887776322 2555666777788888888


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHH
Q 039029          203 RAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAE  282 (319)
Q Consensus       203 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  282 (319)
                      +|..+++...... +.|+..|..|.++|...|+..++..-..+                         .+...|+++.|.
T Consensus       392 eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE-------------------------~~~~~G~~~~A~  445 (484)
T COG4783         392 EAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAE-------------------------GYALAGRLEQAI  445 (484)
T ss_pred             HHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHH-------------------------HHHhCCCHHHHH
Confidence            8888887776653 55677788888888888877766544333                         344567777777


Q ss_pred             HHHHHHHhCCCCCChHHH
Q 039029          283 ELLREMVSKGITPDDNTY  300 (319)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~  300 (319)
                      ..+....+. +.++..+|
T Consensus       446 ~~l~~A~~~-~~~~~~~~  462 (484)
T COG4783         446 IFLMRASQQ-VKLGFPDW  462 (484)
T ss_pred             HHHHHHHHh-ccCCcHHH
Confidence            777777665 33444443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.67  E-value=3.5e-06  Score=57.81  Aligned_cols=97  Identities=14%  Similarity=0.027  Sum_probs=57.1

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHH
Q 039029           46 VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGY  125 (319)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (319)
                      .....+...+...|++++|...++.+...+ +.+...+..+..++...|++++|..++++..+.++. +...+..+..++
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            344455555666666666666666665543 234555556666666666666666666666554322 455555566666


Q ss_pred             HhcCChHHHHHHHHHHHHc
Q 039029          126 CRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~  144 (319)
                      ...|++++|...++...+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            6666666666666666554

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>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=98.66  E-value=1.6e-06  Score=69.38  Aligned_cols=126  Identities=19%  Similarity=0.102  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 039029          151 LTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGR  230 (319)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  230 (319)
                      .....++..+...++++.|..+++++.+..  |+  ....+++.+...++..+|.+++.+..... +-+......-...+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fL  244 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            344455566666777777777777777663  33  33446666666677777777777766542 33455555556667


Q ss_pred             HcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHH
Q 039029          231 CRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMV  289 (319)
Q Consensus       231 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  289 (319)
                      .+.++++.|..+.+++.+  ..|+.+      .+|..|..+|...|+++.|+-.++.+-
T Consensus       245 l~k~~~~lAL~iAk~av~--lsP~~f------~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVE--LSPSEF------ETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HhcCCHHHHHHHHHHHHH--hCchhH------HHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            777777777777777776  345544      677777777777788777777776553

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.66  E-value=8.2e-05  Score=57.39  Aligned_cols=89  Identities=12%  Similarity=0.041  Sum_probs=60.8

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      +.-+..+.++..|+.+++--...+-.-...+-.-+..++.+.|++++|...+..+.+.. .++...+..+.-++.-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHH
Confidence            45566678888888888766543322222333346667788899999999998887754 55666666677777777888


Q ss_pred             hHHHHHHHHH
Q 039029           97 VEADDMLKEM  106 (319)
Q Consensus        97 ~~a~~~~~~~  106 (319)
                      .+|..+-...
T Consensus       108 ~eA~~~~~ka  117 (557)
T KOG3785|consen  108 IEAKSIAEKA  117 (557)
T ss_pred             HHHHHHHhhC
Confidence            8887765554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.64  E-value=6.3e-05  Score=55.17  Aligned_cols=189  Identities=16%  Similarity=0.186  Sum_probs=131.2

Q ss_pred             cCChHHHHHHHHHHHHc---C-CCcChh-hHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChH
Q 039029           58 KGNLEMAFSFRDEMVKQ---G-IMPTAS-TYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAK  132 (319)
Q Consensus        58 ~~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  132 (319)
                      ..+.++..+++.+++..   | ..++.. .|..++-+....|+.+.|...++++...- +-+...-..-...+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchh
Confidence            34556666666665542   2 334433 34555666777888999999999887763 223333333334455678899


Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 039029          133 KAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMD  212 (319)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (319)
                      +|.++|+.+.+.+ |.|..++-.-+.+.-..|+.-+|++-+....+. +..|...|..+...|...|++++|.-.++++.
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            9999999998876 556667766666666777777888888877776 44588999999999999999999999999987


Q ss_pred             hCCCCCChhhHHHHHHHHHcCC---cHHHHHHHHHHHHHcC
Q 039029          213 RMKVHPDEVTYNTLMHGRCRQG---KVEEARRLLDQMKRRG  250 (319)
Q Consensus       213 ~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~  250 (319)
                      -.. |.++..+..+...+.-.|   +.+.+.++|.+.++..
T Consensus       182 l~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  182 LIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            653 445556666776655444   4667888888877743

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.62  E-value=5.1e-05  Score=61.46  Aligned_cols=238  Identities=16%  Similarity=0.084  Sum_probs=151.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHH------
Q 039029           48 YNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNIL------  121 (319)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------  121 (319)
                      ...+.+...+..+++.+++.+....+..  -+..-++....++...|........-....+.|.. ....|+.+      
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            3456666777778888888888777764  35555666667777777777766666665555433 22333333      


Q ss_pred             -HHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCc
Q 039029          122 -INGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGN  200 (319)
Q Consensus       122 -~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (319)
                       ..+|.+.++++.++..|.+.......|+         ...+....+++.+..+...-.+... ..-...-...+.+.|+
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt~~---------~ls~lk~~Ek~~k~~e~~a~~~pe~-A~e~r~kGne~Fk~gd  373 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRTPD---------LLSKLKEAEKALKEAERKAYINPEK-AEEEREKGNEAFKKGD  373 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcCHH---------HHHHHHHHHHHHHHHHHHHhhChhH-HHHHHHHHHHHHhccC
Confidence             3355556677788888777655432222         2223334444444444333322221 1112222556677888


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhH
Q 039029          201 IERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDL  280 (319)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  280 (319)
                      +..|...|.+++... +-|...|..-.-+|.+.|.+..|++-.+..++.  .|+.      ...|..=..++....+|++
T Consensus       374 y~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~------~kgy~RKg~al~~mk~ydk  444 (539)
T KOG0548|consen  374 YPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNF------IKAYLRKGAALRAMKEYDK  444 (539)
T ss_pred             HHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchH------HHHHHHHHHHHHHHHHHHH
Confidence            888888888888775 557778888888888888888888887777775  3332      2566666667777788888


Q ss_pred             HHHHHHHHHhCCCCCChHHHHHHHHHhhh
Q 039029          281 AEELLREMVSKGITPDDNTYFSLIEGIAS  309 (319)
Q Consensus       281 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  309 (319)
                      |.+.|++.++.  .|+...+...+.-|..
T Consensus       445 Aleay~eale~--dp~~~e~~~~~~rc~~  471 (539)
T KOG0548|consen  445 ALEAYQEALEL--DPSNAEAIDGYRRCVE  471 (539)
T ss_pred             HHHHHHHHHhc--CchhHHHHHHHHHHHH
Confidence            88888888875  4766666655555544

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.62  E-value=7.9e-05  Score=59.83  Aligned_cols=143  Identities=16%  Similarity=0.118  Sum_probs=118.8

Q ss_pred             HHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhcc
Q 039029           86 LIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNR  165 (319)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (319)
                      ....+...|+.++|+..++.+....+. |+..+......+...++.++|.+.++++.... +........+..++.+.|+
T Consensus       312 ~A~~~~~~~~~d~A~~~l~~L~~~~P~-N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~-P~~~~l~~~~a~all~~g~  389 (484)
T COG4783         312 RALQTYLAGQYDEALKLLQPLIAAQPD-NPYYLELAGDILLEANKAKEAIERLKKALALD-PNSPLLQLNLAQALLKGGK  389 (484)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCccHHHHHHHHHHHhcCC
Confidence            334456789999999999999887543 77778888899999999999999999999873 3336777788899999999


Q ss_pred             HHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHH
Q 039029          166 MIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQ  245 (319)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  245 (319)
                      +.+|+.+++....... -|+..|..|..+|...|+..++..-..                  ..|...|+++.|...+..
T Consensus       390 ~~eai~~L~~~~~~~p-~dp~~w~~LAqay~~~g~~~~a~~A~A------------------E~~~~~G~~~~A~~~l~~  450 (484)
T COG4783         390 PQEAIRILNRYLFNDP-EDPNGWDLLAQAYAELGNRAEALLARA------------------EGYALAGRLEQAIIFLMR  450 (484)
T ss_pred             hHHHHHHHHHHhhcCC-CCchHHHHHHHHHHHhCchHHHHHHHH------------------HHHHhCCCHHHHHHHHHH
Confidence            9999999999887754 488999999999999999887765443                  445678999999999988


Q ss_pred             HHHc
Q 039029          246 MKRR  249 (319)
Q Consensus       246 ~~~~  249 (319)
                      ..+.
T Consensus       451 A~~~  454 (484)
T COG4783         451 ASQQ  454 (484)
T ss_pred             HHHh
Confidence            8775

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.61  E-value=4e-05  Score=59.03  Aligned_cols=216  Identities=13%  Similarity=0.135  Sum_probs=138.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC-------chhHHHHHHHHHhhCCCCCChH-HHHH
Q 039029           49 NTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMER-------KMVEADDMLKEMGEKGIVPDSI-TYNI  120 (319)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~-~~~~  120 (319)
                      -.++-.|.++++..+|..+.+++.    +.++.-|..-.......|       ...-|.+.|+-..+.+...|.. --..
T Consensus       289 lNL~iYyL~q~dVqeA~~L~Kdl~----PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQs  364 (557)
T KOG3785|consen  289 LNLIIYYLNQNDVQEAISLCKDLD----PTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQS  364 (557)
T ss_pred             hhheeeecccccHHHHHHHHhhcC----CCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHH
Confidence            345556778899999988877654    223333333333333333       3455666666666655444432 2345


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHH-HHHHHHHhcCC
Q 039029          121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMF-NALIDGHCTNG  199 (319)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~  199 (319)
                      +.+.+.-..++++++..++.+...- ..|...-..+..++...|++.+|+++|-.+....+. +..+| ..|.++|.+.+
T Consensus       365 mAs~fFL~~qFddVl~YlnSi~sYF-~NdD~Fn~N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nk  442 (557)
T KOG3785|consen  365 MASYFFLSFQFDDVLTYLNSIESYF-TNDDDFNLNLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNK  442 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHh-cCcchhhhHHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcC
Confidence            5666667778899999988887763 334444445678888999999999999887766555 44444 55678899999


Q ss_pred             cHHHHHHHHHHHHhCCCCCChh-hHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhc
Q 039029          200 NIERAFSLLKEMDRMKVHPDEV-TYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKN  275 (319)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  275 (319)
                      .++.|++++-++..   +.+.. ....+..-|.+.+.+--|.+.|+.+...+..|...  .--..+...+.+.++..
T Consensus       443 kP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~pEnW--eGKRGACaG~f~~l~~~  514 (557)
T KOG3785|consen  443 KPQLAWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTPENW--EGKRGACAGLFRQLANH  514 (557)
T ss_pred             CchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCcccc--CCccchHHHHHHHHHcC
Confidence            99999888766543   22333 33445577888899988999999888765544432  22223444455544433

>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=98.61  E-value=3.1e-06  Score=67.83  Aligned_cols=126  Identities=15%  Similarity=0.103  Sum_probs=88.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYC  126 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (319)
                      ....++..+...++++.|+.+++++.+..  |+  ....+++.+...++-.+|.+++.+..+..+. +......-...+.
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--VAVLLARVYLLMNEEVEAIRLLNEALKENPQ-DSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            34455666666777888888888877663  33  3445667777777777788887777765333 5666666677777


Q ss_pred             hcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhh
Q 039029          127 RCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLA  178 (319)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (319)
                      +.++++.|+.+.+++.... |.+..+|..|..+|.+.|+++.|+..++.+.-
T Consensus       246 ~k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            8888888888888887763 44456788888888888888888877776653

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.61  E-value=0.0002  Score=58.98  Aligned_cols=119  Identities=17%  Similarity=0.125  Sum_probs=73.2

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHH--------HHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC--CCCCCc
Q 039029          187 MFNALIDGHCTNGNIERAFSLLK--------EMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRG--IKPDHI  256 (319)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~  256 (319)
                      +....+......|+++.|.+++.        .+.+.+..|  .+...+...+.+.++-+.|..++...+..-  -.+.. 
T Consensus       378 v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s-  454 (652)
T KOG2376|consen  378 VLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGS-  454 (652)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccc-
Confidence            33444555566777777777777        444433333  344555566666666555666665554320  00111 


Q ss_pred             ccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcc
Q 039029          257 SFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVD  311 (319)
Q Consensus       257 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  311 (319)
                        ..-..++..++..-.+.|.-++|..+++++.+. .++|..+...++.+|++.+
T Consensus       455 --~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~-n~~d~~~l~~lV~a~~~~d  506 (652)
T KOG2376|consen  455 --IALLSLMREAAEFKLRHGNEEEASSLLEELVKF-NPNDTDLLVQLVTAYARLD  506 (652)
T ss_pred             --hHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHh-CCchHHHHHHHHHHHHhcC
Confidence              001123444444556779999999999999986 3678999999999998764

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.59  E-value=0.00023  Score=59.24  Aligned_cols=293  Identities=10%  Similarity=0.103  Sum_probs=178.9

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhC-CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHH
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKEN-GLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHEL   90 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (319)
                      .|-..++.+.++|++......|+..... .+.....+|...+......+-++.+..+|++.++-    ++..-...+..+
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L  179 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYL  179 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHH
Confidence            4455566677788888888888876654 22234457888888888888888899999888865    334466777888


Q ss_pred             HHcCchhHHHHHHHHHhhC------CCCCChHHHHHHHHHHHhcCChHH---HHHHHHHHHHcCCCcc--HHHHHHHHHH
Q 039029           91 LMERKMVEADDMLKEMGEK------GIVPDSITYNILINGYCRCGNAKK---AFSLHDEMIHKGIQPT--MLTYTSLIFV  159 (319)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~~--~~~~~~l~~~  159 (319)
                      .+.+++++|.+.+......      ..+.+...|..+-....+.-+.-.   +..+++.+...  -+|  ...|..|..-
T Consensus       180 ~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdY  257 (835)
T KOG2047|consen  180 AKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADY  257 (835)
T ss_pred             HhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHH
Confidence            8889999998888877543      123355666666665555443332   33344444333  233  3578888888


Q ss_pred             HhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC----------------C------cHHHHHHHHHHHHhCC--
Q 039029          160 LSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTN----------------G------NIERAFSLLKEMDRMK--  215 (319)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------~------~~~~a~~~~~~~~~~~--  215 (319)
                      |.+.|.++.|..+|++.+..-.  +..-|+.+.+.|+.-                +      +++-...-|+.+.+..  
T Consensus       258 YIr~g~~ekarDvyeeai~~v~--tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~  335 (835)
T KOG2047|consen  258 YIRSGLFEKARDVYEEAIQTVM--TVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPL  335 (835)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhe--ehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccch
Confidence            8999999999999888776522  233333444443321                1      1222223333332221  


Q ss_pred             ---------CCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHH
Q 039029          216 ---------VHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLR  286 (319)
Q Consensus       216 ---------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  286 (319)
                               -+.+...|..-+  -+..|+..+-...+.+++.. +.|... .......|..+...|-..|+.+.|..+|+
T Consensus       336 ~lNsVlLRQn~~nV~eW~kRV--~l~e~~~~~~i~tyteAv~~-vdP~ka-~Gs~~~Lw~~faklYe~~~~l~~aRvife  411 (835)
T KOG2047|consen  336 LLNSVLLRQNPHNVEEWHKRV--KLYEGNAAEQINTYTEAVKT-VDPKKA-VGSPGTLWVEFAKLYENNGDLDDARVIFE  411 (835)
T ss_pred             HHHHHHHhcCCccHHHHHhhh--hhhcCChHHHHHHHHHHHHc-cCcccC-CCChhhHHHHHHHHHHhcCcHHHHHHHHH
Confidence                     012233333322  23457788888888888765 344332 11223578899999999999999999999


Q ss_pred             HHHhCCCCCC---hHHHHHHHHHhhhcchhhhh
Q 039029          287 EMVSKGITPD---DNTYFSLIEGIASVDKAAES  316 (319)
Q Consensus       287 ~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A  316 (319)
                      +......+--   ..+|......=.+..+++.|
T Consensus       412 ka~~V~y~~v~dLa~vw~~waemElrh~~~~~A  444 (835)
T KOG2047|consen  412 KATKVPYKTVEDLAEVWCAWAEMELRHENFEAA  444 (835)
T ss_pred             HhhcCCccchHHHHHHHHHHHHHHHhhhhHHHH
Confidence            9887543221   23444444444445555544

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.55  E-value=1.5e-05  Score=55.36  Aligned_cols=125  Identities=18%  Similarity=0.184  Sum_probs=70.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc---HHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccH--HHHHHHH
Q 039029          118 YNILINGYCRCGNAKKAFSLHDEMIHKGIQPT---MLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDI--VMFNALI  192 (319)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~  192 (319)
                      |..++..+ ..++...+...++.+.... +.+   ....-.+...+...|++++|...|+.+......|+.  .....+.
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHH
Confidence            33444444 3566666666666666652 222   122333445566677777777777777665432221  2333456


Q ss_pred             HHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHH
Q 039029          193 DGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQM  246 (319)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  246 (319)
                      ..+...|++++|...++.....  ......+......+...|++++|...|+..
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            6666777777777777554332  233445556667777777777777777653

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.53  E-value=0.00033  Score=61.50  Aligned_cols=163  Identities=14%  Similarity=0.081  Sum_probs=94.6

Q ss_pred             ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHH
Q 039029          114 DSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALID  193 (319)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (319)
                      .+..|..+..+-.+.|...+|.+-|-+.      .|+..|..++....+.|.+++..+++...++....|..  =+.|+-
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~ 1174 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIF 1174 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHH
Confidence            3455666666666666666666554322      24556777777777777777777777666655444433  345666


Q ss_pred             HHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHH
Q 039029          194 GHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLC  273 (319)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  273 (319)
                      +|++.++..+.+++..       -|+......+..-|...|.++.|.-+|...                .-|..+...+.
T Consensus      1175 AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~v----------------SN~a~La~TLV 1231 (1666)
T KOG0985|consen 1175 AYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNV----------------SNFAKLASTLV 1231 (1666)
T ss_pred             HHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHh----------------hhHHHHHHHHH
Confidence            6777766665544431       355555566666666666666665555543                34666666666


Q ss_pred             hcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchh
Q 039029          274 KNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKA  313 (319)
Q Consensus       274 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  313 (319)
                      ..|++..|.+.-++.      .+..||-.+--+|...+.+
T Consensus      1232 ~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~EF 1265 (1666)
T KOG0985|consen 1232 YLGEYQGAVDAARKA------NSTKTWKEVCFACVDKEEF 1265 (1666)
T ss_pred             HHHHHHHHHHHhhhc------cchhHHHHHHHHHhchhhh
Confidence            677776666544432      2344555555555544443

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.53  E-value=1e-05  Score=56.16  Aligned_cols=128  Identities=16%  Similarity=0.095  Sum_probs=93.4

Q ss_pred             HHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCcc--HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCC--hhhHHHH
Q 039029          151 LTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPD--IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPD--EVTYNTL  226 (319)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l  226 (319)
                      ..|..++..+ ..++...+...++.+......-.  ......+...+...|++++|...|+.+......|+  ......+
T Consensus        13 ~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   13 ALYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            4455555555 47888888888998888743321  23344466788899999999999999988653332  2244557


Q ss_pred             HHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHH
Q 039029          227 MHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREM  288 (319)
Q Consensus       227 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  288 (319)
                      ...+...|++++|+..++......         .....+......+.+.|++++|...|+..
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~---------~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEA---------FKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcc---------hHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            888999999999999996632211         12256778889999999999999999864

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.51  E-value=8.4e-05  Score=65.00  Aligned_cols=116  Identities=19%  Similarity=0.195  Sum_probs=77.6

Q ss_pred             ChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 039029           79 TASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIF  158 (319)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (319)
                      .+..|..+..+-.+.|.+.+|.+-|-+.      -|+..|..++....+.|.|++..+.+....++...|  ..-+.++-
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~--~id~eLi~ 1174 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREP--YIDSELIF 1174 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCc--cchHHHHH
Confidence            4456777777777777777777665443      266778888888888888888888887776664443  34456777


Q ss_pred             HHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHH
Q 039029          159 VLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLK  209 (319)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (319)
                      +|++.+++.+.++++.       .|+......+..-|...+.++.|.-+|.
T Consensus      1175 AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~ 1218 (1666)
T KOG0985|consen 1175 AYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYS 1218 (1666)
T ss_pred             HHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHH
Confidence            8888887776655442       2455555555666666666665555544

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.50  E-value=0.00037  Score=56.87  Aligned_cols=133  Identities=11%  Similarity=0.149  Sum_probs=87.8

Q ss_pred             HHHHHHHHHhhhccHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 039029          152 TYTSLIFVLSKQNRMIEADQLFENFLAKGMLP-DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGR  230 (319)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  230 (319)
                      +|...+....+..-+..|..+|.++.+.+..+ ++.+.++++..|| .++.+-|.++|+-=.+. ..-+..--...+..+
T Consensus       368 v~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL  445 (656)
T KOG1914|consen  368 VYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFL  445 (656)
T ss_pred             ehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHH
Confidence            44455555556666777788888877776665 5666677777665 45667777777763332 112233335566666


Q ss_pred             HcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          231 CRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       231 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      ...++-..+..+|++....++.++.     ....|..++.-=..-|+...+.++-+++...
T Consensus       446 ~~lNdd~N~R~LFEr~l~s~l~~~k-----s~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  446 SHLNDDNNARALFERVLTSVLSADK-----SKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             HHhCcchhHHHHHHHHHhccCChhh-----hHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            7777778888888888777655554     2367888887777788888888777776553

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.49  E-value=3.1e-07  Score=46.30  Aligned_cols=34  Identities=53%  Similarity=0.872  Sum_probs=32.4

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCh
Q 039029          264 TYNALIQGLCKNQEGDLAEELLREMVSKGITPDD  297 (319)
Q Consensus       264 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  297 (319)
                      +|+.++.+|.+.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            7999999999999999999999999999999973

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.48  E-value=3.4e-07  Score=46.13  Aligned_cols=33  Identities=42%  Similarity=0.927  Sum_probs=23.1

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCC
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPT   44 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~   44 (319)
                      +|+++|.+|++.|++++|.++|++|.+.|+.||
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.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.47  E-value=6.9e-06  Score=66.26  Aligned_cols=124  Identities=19%  Similarity=0.197  Sum_probs=103.1

Q ss_pred             CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc--CCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHH
Q 039029           40 GLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ--GIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSIT  117 (319)
Q Consensus        40 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  117 (319)
                      +.+.+......+++.+....+.+.+..++-+.+..  ....-..+..++++.|.+.|..+.++.+++.=...|+-||..+
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            44556667778888888888889999998888776  2223345667999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh
Q 039029          118 YNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ  163 (319)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (319)
                      ++.||..+.+.|++..|.++...|..++...+..|+...+.+|.+.
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            9999999999999999999999998887777777777766666654

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 [].

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.46  E-value=3.8e-07  Score=45.61  Aligned_cols=33  Identities=30%  Similarity=0.610  Sum_probs=22.6

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhCCCCC
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGLVP   43 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~   43 (319)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            466777777777777777777777777666655

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.46  E-value=1.8e-05  Score=63.94  Aligned_cols=104  Identities=16%  Similarity=0.225  Sum_probs=50.8

Q ss_pred             CccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC--CCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHH
Q 039029          147 QPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK--GMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYN  224 (319)
Q Consensus       147 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  224 (319)
                      +.+......++..+....+++.+..++.++...  ....-..|..++++.|...|..+.+..++..=...|+-||..+++
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            334444444555555555555555555544433  111112233355555555555555555555555555555555555


Q ss_pred             HHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          225 TLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       225 ~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      .|+..+.+.|++..|.++...|...+
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe  168 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQE  168 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhh
Confidence            55555555555555555555544443

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 [].

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.45  E-value=4.2e-07  Score=45.43  Aligned_cols=33  Identities=39%  Similarity=0.619  Sum_probs=31.7

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCC
Q 039029          263 LTYNALIQGLCKNQEGDLAEELLREMVSKGITP  295 (319)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  295 (319)
                      .+|+.++.+|.+.|+++.|.++|++|.+.|+.|
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            589999999999999999999999999999987

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.41  E-value=0.001  Score=57.66  Aligned_cols=226  Identities=14%  Similarity=0.125  Sum_probs=154.1

Q ss_pred             HHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHH--HHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           19 GMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLID--GYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        19 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      -....+++..|+....++.+.-  |+.. |..++.  ...+.|+.++|..+++.....+.. |..+...+-.+|...++.
T Consensus        18 d~ld~~qfkkal~~~~kllkk~--Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~   93 (932)
T KOG2053|consen   18 DLLDSSQFKKALAKLGKLLKKH--PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKL   93 (932)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHC--CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhh
Confidence            3456788999999999887753  4432 333333  346789999999888887766544 788889999999999999


Q ss_pred             hHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhc----------cH
Q 039029           97 VEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQN----------RM  166 (319)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------~~  166 (319)
                      ++|..+|++....  .|+......+..+|.+.+++.+-.+.--++.+. ++.+.+.|-.+++.+.+.-          -.
T Consensus        94 d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l  170 (932)
T KOG2053|consen   94 DEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILL  170 (932)
T ss_pred             hHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhH
Confidence            9999999999876  456777888888999988887655444444433 4556666666666654321          12


Q ss_pred             HHHHHHHHHHhhCC-CCccHHHHHHHHHHHhcCCcHHHHHHHHHH-HHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHH
Q 039029          167 IEADQLFENFLAKG-MLPDIVMFNALIDGHCTNGNIERAFSLLKE-MDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLD  244 (319)
Q Consensus       167 ~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  244 (319)
                      .-|.+.++.+.+.+ ..-+..-...........|.+++|.+++.. ..+.-..-+...-+.-+..+...++|.+..++..
T Consensus       171 ~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~  250 (932)
T KOG2053|consen  171 ALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSS  250 (932)
T ss_pred             HHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHH
Confidence            34666667666654 222222233334445677889999999843 3333223334444566677788889999888888


Q ss_pred             HHHHcCC
Q 039029          245 QMKRRGI  251 (319)
Q Consensus       245 ~~~~~~~  251 (319)
                      ++...+.
T Consensus       251 ~Ll~k~~  257 (932)
T KOG2053|consen  251 RLLEKGN  257 (932)
T ss_pred             HHHHhCC
Confidence            8888763

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.39  E-value=0.00013  Score=61.86  Aligned_cols=232  Identities=15%  Similarity=0.108  Sum_probs=128.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHH------
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI------  120 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~------  120 (319)
                      .-.+.++++...|+-++|-++-.    .    +..+ ...|..|.+.|.+.+|.+....-..  ...|......      
T Consensus       591 lk~sy~q~l~dt~qd~ka~elk~----s----dgd~-laaiqlyika~~p~~a~~~a~n~~~--l~~de~il~~ia~ali  659 (1636)
T KOG3616|consen  591 LKRSYLQALMDTGQDEKAAELKE----S----DGDG-LAAIQLYIKAGKPAKAARAALNDEE--LLADEEILEHIAAALI  659 (1636)
T ss_pred             HHHHHHHHHHhcCchhhhhhhcc----c----cCcc-HHHHHHHHHcCCchHHHHhhcCHHH--hhccHHHHHHHHHHHH
Confidence            34566777777888777754421    1    1112 2345677777777776654321111  1113333333      


Q ss_pred             -------HHHHHHhcCChHHHHHHHHHHHHc---------CCCccHHHH-HHHHHHHhhhccHHHHHHHHHHHhhCCCCc
Q 039029          121 -------LINGYCRCGNAKKAFSLHDEMIHK---------GIQPTMLTY-TSLIFVLSKQNRMIEADQLFENFLAKGMLP  183 (319)
Q Consensus       121 -------l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  183 (319)
                             ....|-+..++++|++.|++--..         .+|....+. ......+...|+++.|...|-+...     
T Consensus       660 k~elydkagdlfeki~d~dkale~fkkgdaf~kaielarfafp~evv~lee~wg~hl~~~~q~daainhfiea~~-----  734 (1636)
T KOG3616|consen  660 KGELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIELARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEANC-----  734 (1636)
T ss_pred             hhHHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHHHHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhhh-----
Confidence                   333344444555555555431110         111111111 1122333445555555555433221     


Q ss_pred             cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchh
Q 039029          184 DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRL  263 (319)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  263 (319)
                          .-..+.+......|.+|..+++.+.+.+  ....-|..+...|...|+++.|.++|.+.                .
T Consensus       735 ----~~kaieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~----------------~  792 (1636)
T KOG3616|consen  735 ----LIKAIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA----------------D  792 (1636)
T ss_pred             ----HHHHHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc----------------c
Confidence                2233455566778888888888887754  23445677788888888888888888663                2


Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          264 TYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       264 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      .++-.+..|.+.|+|+.|.++-.+..  |-......|..-.+-+.+.|++.||+.
T Consensus       793 ~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeq  845 (1636)
T KOG3616|consen  793 LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQ  845 (1636)
T ss_pred             hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhh
Confidence            45667778888888888888765543  323344455555556777888877753

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.36  E-value=7.6e-05  Score=63.17  Aligned_cols=109  Identities=23%  Similarity=0.231  Sum_probs=71.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcH
Q 039029          122 INGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNI  201 (319)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (319)
                      +.+.....+|.+|+.+++.+..+..  ....|..+...|+..|+++.|.++|.+.         ..++-.+.+|.+.|+|
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--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccH
Confidence            4455666788888888887776532  3445677778888888888888888642         2355567788888888


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHH
Q 039029          202 ERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLL  243 (319)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  243 (319)
                      +.|.++-.+...  .......|..-..-+-.+|++.+|.+++
T Consensus       808 ~da~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  808 EDAFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            888887666542  2233444444444455566666655544

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.36  E-value=0.0014  Score=56.89  Aligned_cols=224  Identities=17%  Similarity=0.125  Sum_probs=148.7

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH--HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHH
Q 039029           56 CNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH--ELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKK  133 (319)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  133 (319)
                      ...+++.+|+.....+.+..  |+.. |...+.  ...+.|+.++|..+++.....+.. |..|...+-.+|...++.++
T Consensus        20 ld~~qfkkal~~~~kllkk~--Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH--PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC--CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            45678999999999988773  3432 333333  356889999999999988877665 88999999999999999999


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCC-c---------HHH
Q 039029          134 AFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNG-N---------IER  203 (319)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~---------~~~  203 (319)
                      |..+|+...+.  .|+......+..+|.+.+.+.+-.+.--++-+. .+-....+-++++.+...- .         ..-
T Consensus        96 ~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~L  172 (932)
T KOG2053|consen   96 AVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLAL  172 (932)
T ss_pred             HHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHH
Confidence            99999999887  567888888888999888776544443333332 2223444444444443321 1         233


Q ss_pred             HHHHHHHHHhCC-CCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHH
Q 039029          204 AFSLLKEMDRMK-VHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAE  282 (319)
Q Consensus       204 a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  282 (319)
                      |...++.+.+.+ .--+..-.......+...|++++|+.++..=......+..      ...-+.-+..+...+++.+..
T Consensus       173 A~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~------~~l~~~~~dllk~l~~w~~l~  246 (932)
T KOG2053|consen  173 AEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSAN------LYLENKKLDLLKLLNRWQELF  246 (932)
T ss_pred             HHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccc------hHHHHHHHHHHHHhcChHHHH
Confidence            555566655543 1112222233345556789999999999543333222221      133345667778889999999


Q ss_pred             HHHHHHHhCC
Q 039029          283 ELLREMVSKG  292 (319)
Q Consensus       283 ~~~~~~~~~~  292 (319)
                      ++..++...|
T Consensus       247 ~l~~~Ll~k~  256 (932)
T KOG2053|consen  247 ELSSRLLEKG  256 (932)
T ss_pred             HHHHHHHHhC
Confidence            9988888875

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.34  E-value=0.00018  Score=61.72  Aligned_cols=211  Identities=16%  Similarity=0.113  Sum_probs=139.1

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhC-C--------CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKEN-G--------LVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT   79 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   79 (319)
                      +...|..+.+.|.+..+++-|.-.+-.|... |        -.++ ..-..+.-.....|..++|..+|.+..+.     
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            3467899999999999988887766665431 1        1121 22222333456789999999999988764     


Q ss_pred             hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHH----------HcC----
Q 039029           80 ASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMI----------HKG----  145 (319)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----------~~~----  145 (319)
                          ..|=..|-..|.+++|.++-+.-.+....   .||.....-+-..++.+.|++.|++.-          ...    
T Consensus       830 ----DLlNKlyQs~g~w~eA~eiAE~~DRiHLr---~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~  902 (1416)
T KOG3617|consen  830 ----DLLNKLYQSQGMWSEAFEIAETKDRIHLR---NTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQI  902 (1416)
T ss_pred             ----HHHHHHHHhcccHHHHHHHHhhccceehh---hhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHH
Confidence                23334566789999999887654433322   345555556666777888887776531          110    


Q ss_pred             -----CCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCCh
Q 039029          146 -----IQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDE  220 (319)
Q Consensus       146 -----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  220 (319)
                           -..|...|......+...|+++.|+.+|....+         |-.+++..|-.|+.++|-.+-++-      -|.
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 EQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES------GDK  967 (1416)
T ss_pred             HHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc------ccH
Confidence                 123445566666666778888888888876543         445666677788888887776543      244


Q ss_pred             hhHHHHHHHHHcCCcHHHHHHHHHHHH
Q 039029          221 VTYNTLMHGRCRQGKVEEARRLLDQMK  247 (319)
Q Consensus       221 ~~~~~l~~~~~~~g~~~~a~~~~~~~~  247 (319)
                      ...-.+.+.|...|++.+|..+|.++.
T Consensus       968 AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  968 AACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            555667788888888888888877653

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.33  E-value=1.7e-05  Score=50.36  Aligned_cols=77  Identities=16%  Similarity=0.380  Sum_probs=42.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCC-CcChhhHHHHHHHHHHcC--------chhHHHHHHHHHhhCCCCCChHHHHHH
Q 039029           51 LIDGYCNKGNLEMAFSFRDEMVKQGI-MPTASTYNLLIHELLMER--------KMVEADDMLKEMGEKGIVPDSITYNIL  121 (319)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (319)
                      .|..|...+++.....+|+.+++.|+ .|+..+|+.++.+..+..        +.-..+.+|+.|...+++|+..+|+.+
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYniv  110 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIV  110 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            34444444555555555555555555 455555555555544322        233455566666666666666666666


Q ss_pred             HHHHHh
Q 039029          122 INGYCR  127 (319)
Q Consensus       122 ~~~~~~  127 (319)
                      +..+.+
T Consensus       111 l~~Llk  116 (120)
T PF08579_consen  111 LGSLLK  116 (120)
T ss_pred             HHHHHH
Confidence            655543

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 [, , ].

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.32  E-value=5e-05  Score=50.67  Aligned_cols=97  Identities=14%  Similarity=0.014  Sum_probs=43.5

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhCCCC--CCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--cChhhHHHHHH
Q 039029           13 YGSFVSGMCKEGRLEEASRMLEQMKENGLV--PTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM--PTASTYNLLIH   88 (319)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~   88 (319)
                      +-.++..+.+.|++++|.+.|..+......  .....+..+..++...|+++.|...++.+......  .....+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            334444455555555555555555443211  01223344445555555555555555555443211  11233444444


Q ss_pred             HHHHcCchhHHHHHHHHHhhC
Q 039029           89 ELLMERKMVEADDMLKEMGEK  109 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~  109 (319)
                      ++...|+.++|...++++.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            444555555555555555444

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.30  E-value=7.8e-05  Score=49.71  Aligned_cols=98  Identities=13%  Similarity=0.012  Sum_probs=56.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--cChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCC--CChHHHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM--PTASTYNLLIHELLMERKMVEADDMLKEMGEKGIV--PDSITYNILI  122 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~  122 (319)
                      ++......+.+.|++++|.+.+..+......  .....+..+..++...|+++.|...++.+....+.  .....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            3445555666667777777777666654211  11234455666666666666666666666554222  1234455556


Q ss_pred             HHHHhcCChHHHHHHHHHHHHc
Q 039029          123 NGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      .++.+.|++++|...++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            6666666666666666666665

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.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.29  E-value=0.00066  Score=59.54  Aligned_cols=164  Identities=11%  Similarity=0.028  Sum_probs=110.8

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CcChhhHHHHHHH
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGI-MPTASTYNLLIHE   89 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~   89 (319)
                      ..|..|...|+...+...|.+.|+...+.+.. +...+......|++..+++.|..+.-..-+... ..-...|....-.
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            34677777777777788888888887775432 566777788888888888888877333222210 0011222234445


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH-HHHHHHHHHHhhhccHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTM-LTYTSLIFVLSKQNRMIE  168 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~  168 (319)
                      +...++...+...|+...+..+. |...|..++.+|...|.+..|.++|.+....  .|+. ..--.....-+..|.+.+
T Consensus       572 yLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s~y~~fk~A~~ecd~GkYke  648 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLSKYGRFKEAVMECDNGKYKE  648 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHhHHHHHHHHHHHHHhhhHHH
Confidence            66777888888888888877655 8889999999999999999999999888775  3332 222222233456788888


Q ss_pred             HHHHHHHHhh
Q 039029          169 ADQLFENFLA  178 (319)
Q Consensus       169 a~~~~~~~~~  178 (319)
                      +...+.....
T Consensus       649 ald~l~~ii~  658 (1238)
T KOG1127|consen  649 ALDALGLIIY  658 (1238)
T ss_pred             HHHHHHHHHH
Confidence            8888776654

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.28  E-value=2.5e-05  Score=49.62  Aligned_cols=74  Identities=12%  Similarity=0.279  Sum_probs=36.3

Q ss_pred             HHHHHcCchhHHHHHHHHHhhCCC-CCChHHHHHHHHHHHhcC--------ChHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 039029           88 HELLMERKMVEADDMLKEMGEKGI-VPDSITYNILINGYCRCG--------NAKKAFSLHDEMIHKGIQPTMLTYTSLIF  158 (319)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (319)
                      ..+...+++...-.+|+.+++.|+ .|+..+|+.++.+..+..        ..-..+.+|+.|...+++|+..+|+.++.
T Consensus        33 ~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~  112 (120)
T PF08579_consen   33 NSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLG  112 (120)
T ss_pred             HHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHH
Confidence            333344555555555555555555 455555555555444332        12344555555555555555555555554


Q ss_pred             HHh
Q 039029          159 VLS  161 (319)
Q Consensus       159 ~~~  161 (319)
                      .+.
T Consensus       113 ~Ll  115 (120)
T PF08579_consen  113 SLL  115 (120)
T ss_pred             HHH
Confidence            443

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 [, , ].

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.23  E-value=9.7e-05  Score=57.57  Aligned_cols=183  Identities=13%  Similarity=0.093  Sum_probs=103.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHHc----CCCc-cHHHHHHHHHHHhhhccHHHHHHHHHHHhhC---CCCcc--HHHHHHHH
Q 039029          123 NGYCRCGNAKKAFSLHDEMIHK----GIQP-TMLTYTSLIFVLSKQNRMIEADQLFENFLAK---GMLPD--IVMFNALI  192 (319)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~--~~~~~~l~  192 (319)
                      ..|...|++++|.+.|.+....    +-+. -...|.....+|. ..++++|...+++....   .-.|+  ...+..+.
T Consensus        43 ~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k-~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA  121 (282)
T PF14938_consen   43 NCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYK-KGDPDEAIECYEKAIEIYREAGRFSQAAKCLKELA  121 (282)
T ss_dssp             HHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH-HTTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH-hhCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            4455556666665555554321    1000 1123333333333 33666666666655432   11122  34566677


Q ss_pred             HHHhcC-CcHHHHHHHHHHHHhC----CCCCC--hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcch-hh
Q 039029          193 DGHCTN-GNIERAFSLLKEMDRM----KVHPD--EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTR-LT  264 (319)
Q Consensus       193 ~~~~~~-~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~  264 (319)
                      ..|... |++++|.+.|++..+.    + .+.  ..++..+...+.+.|++++|.++|+++.......+..  ..+. ..
T Consensus       122 ~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~--~~~~~~~  198 (282)
T PF14938_consen  122 EIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLL--KYSAKEY  198 (282)
T ss_dssp             HHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTT--GHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhccccc--chhHHHH
Confidence            788888 8999999999887443    2 111  3456677888999999999999999988754332211  1112 23


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhC--CCCCC--hHHHHHHHHHhhh
Q 039029          265 YNALIQGLCKNQEGDLAEELLREMVSK--GITPD--DNTYFSLIEGIAS  309 (319)
Q Consensus       265 ~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~--~~~~~~l~~~~~~  309 (319)
                      |...+-++...||+..|.+.+++....  ++..+  ......|+.++..
T Consensus       199 ~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~  247 (282)
T PF14938_consen  199 FLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEE  247 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHh
Confidence            334455777889999999999998865  22222  3445556666643

>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=98.23  E-value=6.3e-05  Score=47.66  Aligned_cols=93  Identities=17%  Similarity=0.100  Sum_probs=47.3

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC
Q 039029          119 NILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTN  198 (319)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (319)
                      ..+...+...|++++|...+++..+.. +.+...+..+..++...++++.|.+.++........ +..++..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHHHHHHHH
Confidence            334445555556666666665555442 223344555555555555555565555555544322 233444455555555


Q ss_pred             CcHHHHHHHHHHHHh
Q 039029          199 GNIERAFSLLKEMDR  213 (319)
Q Consensus       199 ~~~~~a~~~~~~~~~  213 (319)
                      |+++.|...+....+
T Consensus        82 ~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 GKYEEALEAYEKALE   96 (100)
T ss_pred             HhHHHHHHHHHHHHc
Confidence            555555555555443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.21  E-value=5.1e-06  Score=51.55  Aligned_cols=9  Identities=33%  Similarity=0.471  Sum_probs=3.2

Q ss_pred             HHHHHHHHH
Q 039029           27 EEASRMLEQ   35 (319)
Q Consensus        27 ~~a~~~~~~   35 (319)
                      +.|+.++++
T Consensus         6 ~~Ai~~~~k   14 (84)
T PF12895_consen    6 ENAIKYYEK   14 (84)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            333333333

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.20  E-value=2.8e-06  Score=41.31  Aligned_cols=29  Identities=48%  Similarity=0.951  Sum_probs=20.8

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCC
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENG   40 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~   40 (319)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            57777777777777777777777776655

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.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.19  E-value=7.1e-05  Score=58.10  Aligned_cols=132  Identities=9%  Similarity=0.099  Sum_probs=52.0

Q ss_pred             HHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHH-HhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 039029          152 TYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDG-HCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGR  230 (319)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  230 (319)
                      +|..++...-+.+..+.|..+|.++.+.+. .+..+|...... |...++.+.|..+|+...+. .+.+...|...+..+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~-~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKR-CTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            344444444444445555555554443211 122222222222 11123334455555544332 233344444444444


Q ss_pred             HcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          231 CRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       231 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      ...++.+.|..+|++.+.. +.++.    -....|...+.-=.+.|+.+.+..+.+++.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~----~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEK----QSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHH----HCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchh----HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4455555555555554432 11110    0113444444444445555555555555444

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.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.18  E-value=5.9e-06  Score=51.29  Aligned_cols=8  Identities=13%  Similarity=0.356  Sum_probs=2.8

Q ss_pred             HHHHHHHH
Q 039029           63 MAFSFRDE   70 (319)
Q Consensus        63 ~a~~~~~~   70 (319)
                      .|+.++++
T Consensus         7 ~Ai~~~~k   14 (84)
T PF12895_consen    7 NAIKYYEK   14 (84)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            33333333

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.18  E-value=9.1e-05  Score=59.63  Aligned_cols=91  Identities=9%  Similarity=0.014  Sum_probs=59.8

Q ss_pred             HHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcH
Q 039029          157 IFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKV  236 (319)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  236 (319)
                      ...+...|+++.|+..|.++++.... +...|..+..+|...|++++|...++++.+.. +.+...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            34455667777777777777765433 45666666667777777777777777776653 23455666666777777777


Q ss_pred             HHHHHHHHHHHHc
Q 039029          237 EEARRLLDQMKRR  249 (319)
Q Consensus       237 ~~a~~~~~~~~~~  249 (319)
                      ++|...|+++++.
T Consensus        87 ~eA~~~~~~al~l   99 (356)
T PLN03088         87 QTAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777776663

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.18  E-value=0.00017  Score=56.07  Aligned_cols=129  Identities=11%  Similarity=0.025  Sum_probs=59.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHH-cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLM-ERKMVEADDMLKEMGEKGIVPDSITYNILINGY  125 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (319)
                      +|..+++..-+.+..+.|..+|.+.++.+ ..+..+|......-.. .++.+.|.++|+...+. +..+...|...+..+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            45555555555555555555555555332 1233333333333222 33444455555555543 223445555555555


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCccH---HHHHHHHHHHhhhccHHHHHHHHHHHhh
Q 039029          126 CRCGNAKKAFSLHDEMIHKGIQPTM---LTYTSLIFVLSKQNRMIEADQLFENFLA  178 (319)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (319)
                      .+.++.+.|..+|++.... ++++.   ..|...+..=.+.|+++.+.++.+++.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555443 22211   2455555544555555555555554444

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.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.18  E-value=0.00017  Score=56.18  Aligned_cols=24  Identities=17%  Similarity=0.152  Sum_probs=13.0

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHH
Q 039029           13 YGSFVSGMCKEGRLEEASRMLEQM   36 (319)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~~   36 (319)
                      |......|...+++++|.+.|...
T Consensus        38 y~~Aa~~fk~~~~~~~A~~ay~kA   61 (282)
T PF14938_consen   38 YEKAANCFKLAKDWEKAAEAYEKA   61 (282)
T ss_dssp             HHHHHHHHHHTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccchhHHHHHHH
Confidence            444555555556666666666554

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.18  E-value=0.00087  Score=52.98  Aligned_cols=279  Identities=13%  Similarity=0.020  Sum_probs=163.5

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      ...+.+..++..|+..+....+..+. ++.-|..-+..+...++++++.--.+.-++.... ........-+++...++.
T Consensus        56 gn~~yk~k~Y~nal~~yt~Ai~~~pd-~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~-~~k~~~r~~~c~~a~~~~  133 (486)
T KOG0550|consen   56 GNAFYKQKTYGNALKNYTFAIDMCPD-NASYYSNRAATLMMLGRFEEALGDARQSVRLKDG-FSKGQLREGQCHLALSDL  133 (486)
T ss_pred             cchHHHHhhHHHHHHHHHHHHHhCcc-chhhhchhHHHHHHHHhHhhcccchhhheecCCC-ccccccchhhhhhhhHHH
Confidence            34455667788888888888886543 5666777777777788888887666655543211 111222333333333333


Q ss_pred             hHHHHHHH---------------HHhhCC-CCCChHHHHHH-HHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 039029           97 VEADDMLK---------------EMGEKG-IVPDSITYNIL-INGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFV  159 (319)
Q Consensus        97 ~~a~~~~~---------------~~~~~~-~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (319)
                      .+|.+.++               .+.... -+|....|..+ ..++.-.|++++|.++--...+.+ ..+......-..+
T Consensus       134 i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~  212 (486)
T KOG0550|consen  134 IEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLC  212 (486)
T ss_pred             HHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cchhHHHHhcccc
Confidence            33333332               111111 11333344433 355667788888888777666653 2233333333344


Q ss_pred             HhhhccHHHHHHHHHHHhhCCCCccHHH-------------HHHHHHHHhcCCcHHHHHHHHHHHHhCC---CCCChhhH
Q 039029          160 LSKQNRMIEADQLFENFLAKGMLPDIVM-------------FNALIDGHCTNGNIERAFSLLKEMDRMK---VHPDEVTY  223 (319)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~  223 (319)
                      +.-.++.+.+...|++.++.+  |+...             +..=..-..+.|.+..|.+.+.+.+..+   +.|+...|
T Consensus       213 ~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY  290 (486)
T KOG0550|consen  213 LYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLY  290 (486)
T ss_pred             cccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHH
Confidence            556778888888888877764  33221             1222233456788899999998887643   33455566


Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCC-ChHHHHH
Q 039029          224 NTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITP-DDNTYFS  302 (319)
Q Consensus       224 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~  302 (319)
                      ........+.|+.++|+.--+...+.+  +..      +..|..-..++...++|++|.+-++...+..-.+ ...++..
T Consensus       291 ~nra~v~~rLgrl~eaisdc~~Al~iD--~sy------ikall~ra~c~l~le~~e~AV~d~~~a~q~~~s~e~r~~l~~  362 (486)
T KOG0550|consen  291 GNRALVNIRLGRLREAISDCNEALKID--SSY------IKALLRRANCHLALEKWEEAVEDYEKAMQLEKDCEIRRTLRE  362 (486)
T ss_pred             HHhHhhhcccCCchhhhhhhhhhhhcC--HHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccchHHHHHH
Confidence            667777788899999988888877632  221      1344444556667788888888888877653333 2334444


Q ss_pred             HHHHhh
Q 039029          303 LIEGIA  308 (319)
Q Consensus       303 l~~~~~  308 (319)
                      ...++.
T Consensus       363 A~~aLk  368 (486)
T KOG0550|consen  363 AQLALK  368 (486)
T ss_pred             HHHHHH
Confidence            444444

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.17  E-value=0.00042  Score=60.68  Aligned_cols=183  Identities=15%  Similarity=0.127  Sum_probs=133.7

Q ss_pred             ChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHH
Q 039029           60 NLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHD  139 (319)
Q Consensus        60 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  139 (319)
                      +...++..|-+..+... --...|..|...|....+...|.+.|+...+.... +...+......|+...+++.|..+.-
T Consensus       473 ~~~~al~ali~alrld~-~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l  550 (1238)
T KOG1127|consen  473 NSALALHALIRALRLDV-SLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICL  550 (1238)
T ss_pred             hHHHHHHHHHHHHhccc-chhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHH
Confidence            35666666665555432 23567888888888888899999999999887554 77888899999999999999999843


Q ss_pred             HHHHcCCCccH--HHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCC
Q 039029          140 EMIHKGIQPTM--LTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVH  217 (319)
Q Consensus       140 ~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  217 (319)
                      ...+.. +...  ..|....-.|.+.++...+..-|+...+..+. |...|..++.+|..+|++..|.++|.++...  .
T Consensus       551 ~~~qka-~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--r  626 (1238)
T KOG1127|consen  551 RAAQKA-PAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL--R  626 (1238)
T ss_pred             HHhhhc-hHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc--C
Confidence            333321 1111  22333444567888999999999998887655 8899999999999999999999999998775  3


Q ss_pred             CChhhHHHH--HHHHHcCCcHHHHHHHHHHHHHc
Q 039029          218 PDEVTYNTL--MHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       218 ~~~~~~~~l--~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      |+.. |...  ...-+..|.+.+|...+...+..
T Consensus       627 P~s~-y~~fk~A~~ecd~GkYkeald~l~~ii~~  659 (1238)
T KOG1127|consen  627 PLSK-YGRFKEAVMECDNGKYKEALDALGLIIYA  659 (1238)
T ss_pred             cHhH-HHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            4432 2222  23345678999999888877653

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.17  E-value=0.00044  Score=47.49  Aligned_cols=91  Identities=10%  Similarity=-0.069  Sum_probs=44.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCC
Q 039029           51 LIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGN  130 (319)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  130 (319)
                      +...+...|++++|.++|+.+...++ -+..-|..|..++-..|++++|+..|.......+. ++..+-.+..++...|+
T Consensus        41 ~A~~ly~~G~l~~A~~~f~~L~~~Dp-~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L~lG~  118 (157)
T PRK15363         41 YAMQLMEVKEFAGAARLFQLLTIYDA-WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHHcCC
Confidence            33344445555555555555544431 13334444444555555555555555555544432 44555555555555555


Q ss_pred             hHHHHHHHHHHHH
Q 039029          131 AKKAFSLHDEMIH  143 (319)
Q Consensus       131 ~~~a~~~~~~~~~  143 (319)
                      .+.|.+.|+....
T Consensus       119 ~~~A~~aF~~Ai~  131 (157)
T PRK15363        119 VCYAIKALKAVVR  131 (157)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555554443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.15  E-value=0.00018  Score=57.97  Aligned_cols=94  Identities=12%  Similarity=0.015  Sum_probs=75.6

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCc
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERK   95 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (319)
                      ....+...|++++|++.|+++.+.... +...|..+..++...|++++|+..+++++... +.+...|..+..++...|+
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            355667788999999999998886543 66778888888889999999999999888875 3366778888888888999


Q ss_pred             hhHHHHHHHHHhhCCC
Q 039029           96 MVEADDMLKEMGEKGI  111 (319)
Q Consensus        96 ~~~a~~~~~~~~~~~~  111 (319)
                      +++|...|++..+..+
T Consensus        86 ~~eA~~~~~~al~l~P  101 (356)
T PLN03088         86 YQTAKAALEKGASLAP  101 (356)
T ss_pred             HHHHHHHHHHHHHhCC
Confidence            9999999988887643

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.15  E-value=3.5e-06  Score=40.95  Aligned_cols=30  Identities=47%  Similarity=0.711  Sum_probs=28.4

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhCCC
Q 039029          264 TYNALIQGLCKNQEGDLAEELLREMVSKGI  293 (319)
Q Consensus       264 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  293 (319)
                      +|+.++++|.+.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            799999999999999999999999998874

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.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.14  E-value=0.00014  Score=49.94  Aligned_cols=95  Identities=5%  Similarity=-0.148  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhh
Q 039029           83 YNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSK  162 (319)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (319)
                      ...+...+...|++++|.++|+.+....+. +..-|..|..++...|++++|+..|......+ +.++..+-.+..++..
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~  115 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHH
Confidence            334444556667777777777776665443 56666666777777777777777777766665 3456666666667777


Q ss_pred             hccHHHHHHHHHHHhhC
Q 039029          163 QNRMIEADQLFENFLAK  179 (319)
Q Consensus       163 ~~~~~~a~~~~~~~~~~  179 (319)
                      .|+.+.|.+.|+..+..
T Consensus       116 lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        116 CDNVCYAIKALKAVVRI  132 (157)
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            77777777777666554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.14  E-value=0.00011  Score=52.45  Aligned_cols=96  Identities=14%  Similarity=0.104  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcch
Q 039029          185 IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHP--DEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTR  262 (319)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  262 (319)
                      ...+..+...+...|++++|...|++.......+  ...++..+...+...|++++|...++++...  .|..      .
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~--~~~~------~  106 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER--NPFL------P  106 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCc------H
Confidence            4455666667777788888888888876543222  2346777888888888888888888887764  3332      1


Q ss_pred             hhHHHHHHHHH-------hcCchhHHHHHHHHH
Q 039029          263 LTYNALIQGLC-------KNQEGDLAEELLREM  288 (319)
Q Consensus       263 ~~~~~l~~~~~-------~~g~~~~A~~~~~~~  288 (319)
                      .++..+...+.       ..|+++.|...+++.
T Consensus       107 ~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        107 QALNNMAVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            34555555555       778877665555544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.13  E-value=0.00013  Score=52.06  Aligned_cols=81  Identities=14%  Similarity=-0.057  Sum_probs=48.8

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc--ChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHH
Q 039029           45 AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMP--TASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILI  122 (319)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (319)
                      ...|..+...+...|++++|+..|+........+  ...++..+..++...|++++|...+++....... ...++..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~-~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPF-LPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHH
Confidence            4455666666667777777777777776543222  2235666666777777777777777776654322 344455555


Q ss_pred             HHHH
Q 039029          123 NGYC  126 (319)
Q Consensus       123 ~~~~  126 (319)
                      ..+.
T Consensus       114 ~i~~  117 (168)
T CHL00033        114 VICH  117 (168)
T ss_pred             HHHH
Confidence            5554

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.12  E-value=5e-05  Score=57.13  Aligned_cols=93  Identities=18%  Similarity=0.144  Sum_probs=62.1

Q ss_pred             HHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHH
Q 039029          159 VLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEE  238 (319)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  238 (319)
                      -..+.+++.+|+..|.++++..+. |...|..-..+|.+.|.++.|.+-.+.....+ +-...+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHH
Confidence            345667777777777777776433 55666666777777777777777777666643 2235567777777777777777


Q ss_pred             HHHHHHHHHHcCCCCCC
Q 039029          239 ARRLLDQMKRRGIKPDH  255 (319)
Q Consensus       239 a~~~~~~~~~~~~~~~~  255 (319)
                      |.+.|++.++  +.|+.
T Consensus       168 A~~aykKaLe--ldP~N  182 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDN  182 (304)
T ss_pred             HHHHHHhhhc--cCCCc
Confidence            7777777666  44444

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.12  E-value=0.0034  Score=51.61  Aligned_cols=187  Identities=12%  Similarity=0.049  Sum_probs=129.4

Q ss_pred             hHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC---chhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHH
Q 039029           61 LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMER---KMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSL  137 (319)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  137 (319)
                      -+++..+++..+..-...+..+|..+...--..-   ..+.....++++...-..--..+|..+++...+..-.+.|..+
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~i  388 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKI  388 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHH
Confidence            3455556665554322223333333332211111   2556666777766543332345677888888888889999999


Q ss_pred             HHHHHHcCCCc-cHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC
Q 039029          138 HDEMIHKGIQP-TMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKV  216 (319)
Q Consensus       138 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (319)
                      |.++.+.+..+ ...+.++++..++ .++..-|.++|+--.+. ...++.--...+..+...++-..+..+|++....++
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            99999887665 5667777777665 57888999999866554 222445556677888889999999999999988755


Q ss_pred             CCC--hhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          217 HPD--EVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       217 ~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      .++  ...|..++..=..-|+...+.++-++....
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            554  468999999989999999999998887654

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.11  E-value=0.002  Score=48.87  Aligned_cols=184  Identities=10%  Similarity=0.059  Sum_probs=108.3

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhh---HHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTAST---YNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI  120 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  120 (319)
                      ++..+-.....+...|++++|.+.|+.+....+.+ ...   .-.++.++.+.+++++|...+++..+..+......+..
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~  109 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVL  109 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHH
Confidence            44444445556677899999999999998864322 222   24566788899999999999999988754433334444


Q ss_pred             HHHHHHh--c---------------CC---hHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC
Q 039029          121 LINGYCR--C---------------GN---AKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG  180 (319)
Q Consensus       121 l~~~~~~--~---------------~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (319)
                      .+.+.+.  .               .+   ..+|+..|+.+++.  -|++             .-..+|...+..+... 
T Consensus       110 Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A~~rl~~l~~~-  173 (243)
T PRK10866        110 YMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDATKRLVFLKDR-  173 (243)
T ss_pred             HHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHHHHHHHHHHHH-
Confidence            4433321  1               11   23455666666665  2332             1123333333332221 


Q ss_pred             CCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC--CCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHH
Q 039029          181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM--KVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMK  247 (319)
Q Consensus       181 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  247 (319)
                         =...-..+.+.|.+.|.+..|..-++.+.+.  +.+........+..+|...|..++|..+...+.
T Consensus       174 ---la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        174 ---LAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             ---HHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence               0111114556677778887777777777654  112234455667788888888888877766554

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.09  E-value=0.00049  Score=49.34  Aligned_cols=91  Identities=13%  Similarity=-0.009  Sum_probs=64.4

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC--hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT--ASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNIL  121 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (319)
                      ....+..+...+...|++++|...|++..+....+.  ...+..+..++.+.|++++|...+++..+..+. +...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHH
Confidence            344567777788888888888888888876533222  356777788888888888888888888776433 56666667


Q ss_pred             HHHHHhcCChHHHH
Q 039029          122 INGYCRCGNAKKAF  135 (319)
Q Consensus       122 ~~~~~~~~~~~~a~  135 (319)
                      ...+...|+...+.
T Consensus       113 g~~~~~~g~~~~a~  126 (172)
T PRK02603        113 AVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHcCChHhHh
Confidence            77777777654443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.08  E-value=0.00041  Score=49.73  Aligned_cols=91  Identities=14%  Similarity=0.061  Sum_probs=66.0

Q ss_pred             ChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCC--hHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHH
Q 039029           79 TASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPD--SITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSL  156 (319)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (319)
                      ....+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+.+..+.. +.+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            344567777788888999999999998876543322  4577888888899999999999998888763 3355666666


Q ss_pred             HHHHhhhccHHHHH
Q 039029          157 IFVLSKQNRMIEAD  170 (319)
Q Consensus       157 ~~~~~~~~~~~~a~  170 (319)
                      ..++...|+...+.
T Consensus       113 g~~~~~~g~~~~a~  126 (172)
T PRK02603        113 AVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHcCChHhHh
Confidence            77777766654443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.05  E-value=0.0016  Score=55.06  Aligned_cols=138  Identities=10%  Similarity=0.074  Sum_probs=99.1

Q ss_pred             CCCCChHHHHHHHHHHHhcC-----ChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh--------ccHHHHHHHHHHH
Q 039029          110 GIVPDSITYNILINGYCRCG-----NAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ--------NRMIEADQLFENF  176 (319)
Q Consensus       110 ~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~  176 (319)
                      ..+.+...|...+++.....     +...|..+|++..+.. |.....+..+..++...        .++..+.+...+.
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld-P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE-PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            34567788888887754432     3678999999999874 33455666554444322        2233444444443


Q ss_pred             hhC-CCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          177 LAK-GMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       177 ~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      ... ....+...+..+.-.+...|++++|...++++.+.+  |+...|..+...+...|+.++|.+.++++...+
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            332 123356778877777777899999999999999875  688899999999999999999999999998743

>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=98.01  E-value=0.0014  Score=47.46  Aligned_cols=36  Identities=31%  Similarity=0.354  Sum_probs=31.4

Q ss_pred             cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCc
Q 039029          200 NIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGK  235 (319)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  235 (319)
                      +-+-|.+++++|...|+-||..++..++..+.+.+.
T Consensus       118 Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  118 QQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            456789999999999999999999999999877664

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.98  E-value=0.0038  Score=47.39  Aligned_cols=54  Identities=9%  Similarity=-0.059  Sum_probs=24.8

Q ss_pred             HHHHhhhccHHHHHHHHHHHhhC--CCCccHHHHHHHHHHHhcCCcHHHHHHHHHH
Q 039029          157 IFVLSKQNRMIEADQLFENFLAK--GMLPDIVMFNALIDGHCTNGNIERAFSLLKE  210 (319)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (319)
                      .+.|.+.|.+..|..-++.+++.  +.+........+..+|...|..++|......
T Consensus       182 a~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~  237 (243)
T PRK10866        182 AEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKI  237 (243)
T ss_pred             HHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            34455555555555555555443  1112233444444555555555555544433

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.98  E-value=0.0015  Score=48.27  Aligned_cols=60  Identities=15%  Similarity=0.133  Sum_probs=31.5

Q ss_pred             HHHHHHHHcCchhHHHHHHHHHhhCCCC--CChHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           85 LLIHELLMERKMVEADDMLKEMGEKGIV--PDSITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      .....+...|++.+|.+.|+.+....+.  --....-.++.++.+.|+++.|...++...+.
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3344455666666666666666554221  12233444556666666666666666666554

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.95  E-value=0.00098  Score=50.62  Aligned_cols=112  Identities=19%  Similarity=0.119  Sum_probs=80.2

Q ss_pred             cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcC---CcHHHHHHHHHHHHHcCCCCCCcccCc
Q 039029          184 DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQ---GKVEEARRLLDQMKRRGIKPDHISFNP  260 (319)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~~~~~~~~~~~  260 (319)
                      |...|..|...|...|+...|..-|.+..+.. .++...+..+..++...   ....++..+|++++..  .|+      
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~--D~~------  225 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL--DPA------  225 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc--CCc------
Confidence            77888888888888888888888888887753 45666666666665433   2366788888888874  333      


Q ss_pred             chhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHH
Q 039029          261 TRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEG  306 (319)
Q Consensus       261 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  306 (319)
                      ++.+...|...+...|++.+|...|+.|++.  -|....+..+++.
T Consensus       226 ~iral~lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie~  269 (287)
T COG4235         226 NIRALSLLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLIER  269 (287)
T ss_pred             cHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHHHH
Confidence            3367777888888888898888888888876  3444444555443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.95  E-value=0.00028  Score=53.23  Aligned_cols=101  Identities=14%  Similarity=0.040  Sum_probs=69.1

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHH
Q 039029           55 YCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKA  134 (319)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  134 (319)
                      +.+.+++.+|+..|.+.++.. +-|...|..-..+|.+.|.++.|++-.+..+..... ...+|..|..+|...|++++|
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            456777778888887777764 235666666777777778777777777777665433 566777777778888888888


Q ss_pred             HHHHHHHHHcCCCccHHHHHHHHHH
Q 039029          135 FSLHDEMIHKGIQPTMLTYTSLIFV  159 (319)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~l~~~  159 (319)
                      .+.|++..+.  .|+-.+|-.=+..
T Consensus       169 ~~aykKaLel--dP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  169 IEAYKKALEL--DPDNESYKSNLKI  191 (304)
T ss_pred             HHHHHhhhcc--CCCcHHHHHHHHH
Confidence            7777777664  4555555544444

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.95  E-value=0.0018  Score=42.79  Aligned_cols=54  Identities=15%  Similarity=0.075  Sum_probs=23.7

Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCC--hHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPD--SITYNILINGYCRCGNAKKAFSLHDEMIH  143 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (319)
                      +-..|+.++|+.+|++....|....  ...+-.+.+.+...|++++|+.++++...
T Consensus        11 ~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~   66 (120)
T PF12688_consen   11 HDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE   66 (120)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3344444444444444444443321  12233344444444555555555544443

>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=97.94  E-value=0.00024  Score=51.21  Aligned_cols=103  Identities=17%  Similarity=0.164  Sum_probs=54.6

Q ss_pred             cChhhHHHHHHHHHH-----cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHH
Q 039029           78 PTASTYNLLIHELLM-----ERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLT  152 (319)
Q Consensus        78 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (319)
                      .+..+|..++..+.+     .|.++-....+..|.+.|+.-|..+|+.|++.+=+ |.+. -..+|+.+--         
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~F~---------  113 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAEFM---------  113 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHHhc---------
Confidence            355566666665543     35566666677777777777777777777776654 2221 0111111110         


Q ss_pred             HHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCC
Q 039029          153 YTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNG  199 (319)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (319)
                            -  .-.+-+-|++++++|...|+.||..++..++..+++.+
T Consensus       114 ------h--yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  114 ------H--YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             ------c--CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence                  0  01223445555555555555555555555555555444

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.91  E-value=8.1e-05  Score=58.59  Aligned_cols=128  Identities=11%  Similarity=0.031  Sum_probs=67.2

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHH----HhCCCC-CChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcc
Q 039029          187 MFNALIDGHCTNGNIERAFSLLKEM----DRMKVH-PDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPT  261 (319)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  261 (319)
                      .|..|...|.-.|+++.|+...+.-    .+.|-+ .....+..+..++.-.|+++.|.+.|+......+.....+  ..
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~--vE  274 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRT--VE  274 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchh--HH
Confidence            3445555555566677666544321    222211 1233455666667777777777777766433222111100  11


Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhC-----CCCCChHHHHHHHHHhhhcchhhhh
Q 039029          262 RLTYNALIQGLCKNQEGDLAEELLREMVSK-----GITPDDNTYFSLIEGIASVDKAAES  316 (319)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A  316 (319)
                      ..+.-+|..+|.-..++++|+.++++-+..     +..-....+++|..++...|..+.|
T Consensus       275 AQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kA  334 (639)
T KOG1130|consen  275 AQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKA  334 (639)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHH
Confidence            133445666666666777777666553321     1223455666777777766666655

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.88  E-value=0.0033  Score=53.20  Aligned_cols=143  Identities=12%  Similarity=0.007  Sum_probs=96.5

Q ss_pred             CCcChhhHHHHHHHHHHc-----CchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcC--------ChHHHHHHHHHHH
Q 039029           76 IMPTASTYNLLIHELLME-----RKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCG--------NAKKAFSLHDEMI  142 (319)
Q Consensus        76 ~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~  142 (319)
                      .+.+...|...+++....     ++...|..+|++..+..+. ....|..+..++....        +...+.+...+..
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            455667787777775432     2366888888888887543 4555555444333221        1223333333333


Q ss_pred             Hc-CCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChh
Q 039029          143 HK-GIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEV  221 (319)
Q Consensus       143 ~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  221 (319)
                      .. ..+.+...+..+.......|++++|...++++...+  |+...|..+...+...|+.++|.+.+++....+  |...
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--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR--PGEN  487 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCc
Confidence            32 134455777777666677899999999999999875  578889999999999999999999999987753  5544


Q ss_pred             hH
Q 039029          222 TY  223 (319)
Q Consensus       222 ~~  223 (319)
                      +|
T Consensus       488 t~  489 (517)
T PRK10153        488 TL  489 (517)
T ss_pred             hH
Confidence            44

>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=6.7e-05  Score=44.33  Aligned_cols=52  Identities=23%  Similarity=0.316  Sum_probs=29.9

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           22 KEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ   74 (319)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (319)
                      +.|++++|+++|+.+....+. +..++..+..+|.+.|++++|..+++.+...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            456666666666666554322 5555555666666666666666666665554

...

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.85  E-value=0.0057  Score=45.14  Aligned_cols=59  Identities=19%  Similarity=0.223  Sum_probs=33.0

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCC--CCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLV--PTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ   74 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (319)
                      ....+.+.|++.+|++.|+.+....+.  -.....-.++.++.+.|+++.|...+++.++.
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344555667777777777766654211  12234445566666677777777777666655

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.84  E-value=0.0027  Score=42.00  Aligned_cols=91  Identities=23%  Similarity=0.172  Sum_probs=54.1

Q ss_pred             HHHHHhhhccHHHHHHHHHHHhhCCCCcc--HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCC----hhhHHHHHHH
Q 039029          156 LIFVLSKQNRMIEADQLFENFLAKGMLPD--IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPD----EVTYNTLMHG  229 (319)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~  229 (319)
                      ...++...|+.++|+.+|++....|....  ...+-.+...+...|++++|..++++.....  |+    ......+..+
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHH
Confidence            34455666777777777777776665433  2345556666777777777777777765532  22    1222223345


Q ss_pred             HHcCCcHHHHHHHHHHHHH
Q 039029          230 RCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       230 ~~~~g~~~~a~~~~~~~~~  248 (319)
                      +...|+.++|.+.+-....
T Consensus        85 L~~~gr~~eAl~~~l~~la  103 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEALA  103 (120)
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            5667777777776665543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.84  E-value=0.00029  Score=55.58  Aligned_cols=270  Identities=16%  Similarity=0.050  Sum_probs=158.9

Q ss_pred             HHHhccCChHHHHHHHHHHHhCCCCCCH----HhHHHHHHHHHhcCChHHHHHHHHHHH--Hc--CCC-cChhhHHHHHH
Q 039029           18 SGMCKEGRLEEASRMLEQMKENGLVPTA----VTYNTLIDGYCNKGNLEMAFSFRDEMV--KQ--GIM-PTASTYNLLIH   88 (319)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~--~~~-~~~~~~~~l~~   88 (319)
                      .-+++.|+......+|+...+.|.. |.    .+|..+..+|.-.+++++|+++...=+  ..  |-. -.......|..
T Consensus        25 ERLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGN  103 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGN  103 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccc
Confidence            4578999999999999999987754 32    357778888888899999988653311  11  100 01112222333


Q ss_pred             HHHHcCchhHHHHHHHHH----hhCCC-CCChHHHHHHHHHHHhcCC--------------------hHHHHHHHHHHHH
Q 039029           89 ELLMERKMVEADDMLKEM----GEKGI-VPDSITYNILINGYCRCGN--------------------AKKAFSLHDEMIH  143 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~----~~~~~-~~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~  143 (319)
                      .+-..|.+++|...-.+-    .+.|. ......+..+...|...|.                    ++.|.+.|.+=.+
T Consensus       104 tlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~  183 (639)
T KOG1130|consen  104 TLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLE  183 (639)
T ss_pred             hhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHH
Confidence            344455666655432221    11111 1133455556666655542                    2334444433221


Q ss_pred             ----cCC-CccHHHHHHHHHHHhhhccHHHHHHHHHHHhh----CCCC-ccHHHHHHHHHHHhcCCcHHHHHHHHHHHHh
Q 039029          144 ----KGI-QPTMLTYTSLIFVLSKQNRMIEADQLFENFLA----KGML-PDIVMFNALIDGHCTNGNIERAFSLLKEMDR  213 (319)
Q Consensus       144 ----~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (319)
                          .|- -.-...|..+...|.-.|+++.|+...+.-+.    .|-. .....+..+..++.-.|+++.|.+.|+....
T Consensus       184 l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~  263 (639)
T KOG1130|consen  184 LSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLN  263 (639)
T ss_pred             HHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHH
Confidence                110 01123566666666778899998877654322    2211 1245677888999999999999998876532


Q ss_pred             ----CCC-CCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHH
Q 039029          214 ----MKV-HPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREM  288 (319)
Q Consensus       214 ----~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  288 (319)
                          .|- .....+.-.|...|.-..++++|+.++.+-+...-..+..  --...++.+|..+|...|..++|+.+...-
T Consensus       264 LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~Dr--iGe~RacwSLgna~~alg~h~kAl~fae~h  341 (639)
T KOG1130|consen  264 LAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDR--IGELRACWSLGNAFNALGEHRKALYFAELH  341 (639)
T ss_pred             HHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhhHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence                221 1233455667888888888999999887643311000000  011257778999999999999999887766


Q ss_pred             Hh
Q 039029          289 VS  290 (319)
Q Consensus       289 ~~  290 (319)
                      ++
T Consensus       342 l~  343 (639)
T KOG1130|consen  342 LR  343 (639)
T ss_pred             HH
Confidence            54

>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=97.83  E-value=0.00022  Score=42.22  Aligned_cols=62  Identities=21%  Similarity=0.185  Sum_probs=30.0

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhc-cHHHHHHHHHHHh
Q 039029          115 SITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQN-RMIEADQLFENFL  177 (319)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~  177 (319)
                      +..|..+...+...|++++|+..|++..+.+ +.+...+..+..++...| ++++|.+.+++.+
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            3444444555555555555555555555442 233444444445555554 4555555554443

...

>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=0.00023  Score=41.54  Aligned_cols=56  Identities=11%  Similarity=0.080  Sum_probs=29.5

Q ss_pred             HHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           88 HELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      ..+...|++++|...|+++.+..+. +...+..+..++...|++++|...|+++.+.
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            3445555555555555555554432 4555555555555555555555555555443

>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=0.00016  Score=42.20  Aligned_cols=58  Identities=14%  Similarity=0.242  Sum_probs=37.6

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ   74 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (319)
                      +...+.+.|++++|+..|+++.+... -+...+..+..++...|++++|...|+++++.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDP-DNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCST-THHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34556667777777777777776542 25566666777777777777777777766654

>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=97.79  E-value=0.00025  Score=41.97  Aligned_cols=63  Identities=16%  Similarity=0.163  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCC-cHHHHHHHHHHHHH
Q 039029          185 IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQG-KVEEARRLLDQMKR  248 (319)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~  248 (319)
                      ..+|..+...+...|++++|+..|.+..+.+ +.+...|..+..++...| ++++|.+.+++.++
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            4556666666667777777777777766653 334556666666677776 57777777766655

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.78  E-value=0.0041  Score=47.37  Aligned_cols=102  Identities=14%  Similarity=0.039  Sum_probs=69.9

Q ss_pred             CccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC---CcHHHHHHHHHHHHhCCCCCChhhH
Q 039029          147 QPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTN---GNIERAFSLLKEMDRMKVHPDEVTY  223 (319)
Q Consensus       147 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~  223 (319)
                      +.|...|..|..+|...|+.+.|...|.+..+... ++...+..+.+++...   ....++..+|+++...+ +-+....
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            55777788888888888888888888877776632 2555555555544333   23567777888777654 3456666


Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          224 NTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       224 ~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      ..|...+...|++.+|...|+.|.+..
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            667777778888888888888887763

>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=97.76  E-value=0.00018  Score=42.46  Aligned_cols=18  Identities=22%  Similarity=0.276  Sum_probs=6.1

Q ss_pred             HHHHHhcCChHHHHHHHH
Q 039029          122 INGYCRCGNAKKAFSLHD  139 (319)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~  139 (319)
                      ..+|.+.|++++|..+++
T Consensus        32 a~~~~~~g~~~~A~~~l~   49 (68)
T PF14559_consen   32 AQCYLKQGQYDEAEELLE   49 (68)
T ss_dssp             HHHHHHTT-HHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHH
Confidence            333333333333333333

...

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.70  E-value=0.0067  Score=48.24  Aligned_cols=254  Identities=12%  Similarity=-0.019  Sum_probs=151.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCC
Q 039029           51 LIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGN  130 (319)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  130 (319)
                      ....+.+..++..|+..+...++..+. +..-|..-+..+...++++++.--.+.-.+.... ........-.++...++
T Consensus        55 ~gn~~yk~k~Y~nal~~yt~Ai~~~pd-~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~-~~k~~~r~~~c~~a~~~  132 (486)
T KOG0550|consen   55 EGNAFYKQKTYGNALKNYTFAIDMCPD-NASYYSNRAATLMMLGRFEEALGDARQSVRLKDG-FSKGQLREGQCHLALSD  132 (486)
T ss_pred             hcchHHHHhhHHHHHHHHHHHHHhCcc-chhhhchhHHHHHHHHhHhhcccchhhheecCCC-ccccccchhhhhhhhHH
Confidence            334566677888899999888887533 4555655566666777777776655554433111 11122222233333333


Q ss_pred             hHHHHHHHH---------------HHHHcC-CCccHHHHHHH-HHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHH
Q 039029          131 AKKAFSLHD---------------EMIHKG-IQPTMLTYTSL-IFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALID  193 (319)
Q Consensus       131 ~~~a~~~~~---------------~~~~~~-~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (319)
                      ..+|.+.++               ...... -+|....+..+ ..++.-.|+.++|.++--..++...   ...+..+++
T Consensus       133 ~i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~---~n~~al~vr  209 (486)
T KOG0550|consen  133 LIEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDA---TNAEALYVR  209 (486)
T ss_pred             HHHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhccc---chhHHHHhc
Confidence            333333332               111111 12322333333 2445678888888888777776632   222333333


Q ss_pred             --HHhcCCcHHHHHHHHHHHHhCCCCCChhhH---HH----------HHHHHHcCCcHHHHHHHHHHHHHcCCCCCCccc
Q 039029          194 --GHCTNGNIERAFSLLKEMDRMKVHPDEVTY---NT----------LMHGRCRQGKVEEARRLLDQMKRRGIKPDHISF  258 (319)
Q Consensus       194 --~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~----------l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  258 (319)
                        ++...++.+.+...|++....+  |+...-   ..          =..-..+.|++..|.+.|.+.+.  +.|+.  .
T Consensus       210 g~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~--idP~n--~  283 (486)
T KOG0550|consen  210 GLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALN--IDPSN--K  283 (486)
T ss_pred             ccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhc--CCccc--c
Confidence              3445678899999999887754  443221   11          12234678999999999999876  45554  5


Q ss_pred             CcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCC-hHHHHHHHHHhhhcchhhhhc
Q 039029          259 NPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPD-DNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       259 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      .|+...|.....+..+.|+..+|+.-.++..+.  .++ ...+..-.+++...+++++|.
T Consensus       284 ~~naklY~nra~v~~rLgrl~eaisdc~~Al~i--D~syikall~ra~c~l~le~~e~AV  341 (486)
T KOG0550|consen  284 KTNAKLYGNRALVNIRLGRLREAISDCNEALKI--DSSYIKALLRRANCHLALEKWEEAV  341 (486)
T ss_pred             chhHHHHHHhHhhhcccCCchhhhhhhhhhhhc--CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            688889999999999999999999999988763  222 112222233456677777763

>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=97.67  E-value=0.0017  Score=43.40  Aligned_cols=91  Identities=15%  Similarity=0.142  Sum_probs=65.7

Q ss_pred             hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCC--------CCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          220 EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGI--------KPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       220 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      ..++..++.++++.|+.+....+++..-.-++        .+......|+..+..+++.+|+..|++..|+++++...+.
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~   81 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRK   81 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            44566666666666766666666655421110        1222236789999999999999999999999999998875


Q ss_pred             -CCCCChHHHHHHHHHhhhc
Q 039029          292 -GITPDDNTYFSLIEGIASV  310 (319)
Q Consensus       292 -~~~~~~~~~~~l~~~~~~~  310 (319)
                       +++.+..+|..|++=+...
T Consensus        82 Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   82 YPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             cCCCCCHHHHHHHHHHHHHh
Confidence             7888899999998854433

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>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=97.67  E-value=0.00012  Score=44.60  Aligned_cols=67  Identities=21%  Similarity=0.185  Sum_probs=51.7

Q ss_pred             hhHHHHHHHHHcCCcHHHHHHHHHHHHHcC--CCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          221 VTYNTLMHGRCRQGKVEEARRLLDQMKRRG--IKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       221 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      .+++.+...|...|++++|+..|++..+..  ..++.   +-...++..+..++...|++++|++.+++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~---~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDH---PDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHH---HHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCC---HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            467888899999999999999999887651  11111   11257889999999999999999999998764

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.63  E-value=0.0024  Score=48.86  Aligned_cols=98  Identities=15%  Similarity=-0.010  Sum_probs=57.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc--ChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCC--CChHHHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMP--TASTYNLLIHELLMERKMVEADDMLKEMGEKGIV--PDSITYNILI  122 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~  122 (319)
                      .|...+....+.|++++|+..|+.+++..+..  ....+..+..+|...|++++|...|+.+.+..+.  .....+..+.
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            34444444455567777777777776653211  1245556666677777777777777777654221  1233444455


Q ss_pred             HHHHhcCChHHHHHHHHHHHHc
Q 039029          123 NGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      .++...|+.++|..+|+.+.+.
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            5666677777777777777665

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.62  E-value=0.0039  Score=46.46  Aligned_cols=150  Identities=8%  Similarity=0.007  Sum_probs=111.4

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHH
Q 039029           25 RLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLK  104 (319)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  104 (319)
                      -.+..+++|++=.       ..+.+.++.++.-.+.+.-....+.+.++...+.++.....+.+...+.||.+.|...|+
T Consensus       164 ~~ESsv~lW~KRl-------~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~  236 (366)
T KOG2796|consen  164 AEESSIRLWRKRL-------GRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQ  236 (366)
T ss_pred             chhhHHHHHHHHH-------HHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            3366677776533       246677888888888999999999999988767788888899999999999999999999


Q ss_pred             HHhhCCCCCChHHHH-----HHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC
Q 039029          105 EMGEKGIVPDSITYN-----ILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK  179 (319)
Q Consensus       105 ~~~~~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (319)
                      ...+..-..+..+.+     .....|.-.+++..|...+.+....+ +.++...+.-.-+..-.|+..+|.+.++.+...
T Consensus       237 ~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  237 DVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             HHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            776543333444433     33456677788999999998888765 345555555555556678999999999999887


Q ss_pred             CCC
Q 039029          180 GML  182 (319)
Q Consensus       180 ~~~  182 (319)
                      .+.
T Consensus       316 ~P~  318 (366)
T KOG2796|consen  316 DPR  318 (366)
T ss_pred             CCc
Confidence            433

>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=97.59  E-value=0.0077  Score=41.81  Aligned_cols=59  Identities=20%  Similarity=0.267  Sum_probs=31.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHh
Q 039029          118 YNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFL  177 (319)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (319)
                      ...++..+...|++++|..+.+.+.... |.+...+..++.++...|+...|.++|+.+.
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~  123 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYR  123 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            3344455555566666666666655553 4455556666666666666666665555543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.59  E-value=0.024  Score=44.90  Aligned_cols=24  Identities=29%  Similarity=0.504  Sum_probs=18.4

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHH
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQ   35 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~   35 (319)
                      +|..+.......|+.+-|..+++.
T Consensus         2 S~a~IA~~A~~~GR~~LA~~LL~~   25 (319)
T PF04840_consen    2 SYAEIARKAYEEGRPKLATKLLEL   25 (319)
T ss_pred             CHHHHHHHHHHcChHHHHHHHHHc
Confidence            467777788888888888887754

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

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.57  E-value=0.0041  Score=47.62  Aligned_cols=98  Identities=10%  Similarity=-0.020  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc---HHHHHHHHHHHhhhccHHHHHHHHHHHhhCCC--CccHHHHHH
Q 039029          116 ITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPT---MLTYTSLIFVLSKQNRMIEADQLFENFLAKGM--LPDIVMFNA  190 (319)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~  190 (319)
                      ..|......+.+.|++++|...|+.+.... |-+   ...+..+..+|...|++++|...|..+.+...  +.....+..
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y-P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKY-PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            344444444455677777777777776652 111   24566666777777777777777777765421  112344444


Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHhC
Q 039029          191 LIDGHCTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~  214 (319)
                      +...+...|+.++|..+|+.+.+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            555666677777777777776654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.56  E-value=0.019  Score=43.03  Aligned_cols=130  Identities=17%  Similarity=0.062  Sum_probs=62.7

Q ss_pred             HHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHH-----HH
Q 039029           84 NLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSL-----IF  158 (319)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-----~~  158 (319)
                      +.++.+..-.+.+.-....+.+.++...+.++.....|++.-.+.||.+.|...|+...+..-..+..+++.+     ..
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~  260 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAF  260 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhh
Confidence            4444555555556666666666665554555555666666666666666666666654432112222222222     22


Q ss_pred             HHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC
Q 039029          159 VLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (319)
                      .+.-.+++..+...+.++...+.. ++...|.-.-+....|+...|.+.++.|.+.
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             heecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            333445555555555555444322 3333333222333345555555555555543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.50  E-value=0.0013  Score=39.38  Aligned_cols=65  Identities=22%  Similarity=0.135  Sum_probs=52.8

Q ss_pred             HHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHH
Q 039029          227 MHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYF  301 (319)
Q Consensus       227 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  301 (319)
                      ...|.+.+++++|.+++++++..  .|+.      ...|......+.+.|++++|.+.+++..+.  .|+.....
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~--~p~~------~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~--~p~~~~~~   66 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALEL--DPDD------PELWLQRARCLFQLGRYEEALEDLERALEL--SPDDPDAR   66 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHh--Cccc------chhhHHHHHHHHHhccHHHHHHHHHHHHHH--CCCcHHHH
Confidence            35688999999999999999985  3443      267888999999999999999999999986  46555443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.47  E-value=0.037  Score=44.38  Aligned_cols=166  Identities=12%  Similarity=0.032  Sum_probs=86.4

Q ss_pred             hHHHHHHHHHHcCchhHHHHHHHHHhhCC---CCCChHHHHHHHHHHHh---cCChHHHHHHHHHHHHcCCCccHHHHHH
Q 039029           82 TYNLLIHELLMERKMVEADDMLKEMGEKG---IVPDSITYNILINGYCR---CGNAKKAFSLHDEMIHKGIQPTMLTYTS  155 (319)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (319)
                      +...++-+|-...+++...++++.+....   +..+...-....-++.+   .|+.++|++++..+......+++.++..
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            33444555666677777777777766541   11122222233444555   6777777777777555444566667766


Q ss_pred             HHHHHhh---------hccHHHHHHHHHHHhhCCCCccHHH---HHHHHHHHhcC-CcHHHHHHHH---H-HHHhCCC--
Q 039029          156 LIFVLSK---------QNRMIEADQLFENFLAKGMLPDIVM---FNALIDGHCTN-GNIERAFSLL---K-EMDRMKV--  216 (319)
Q Consensus       156 l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~-~~~~~a~~~~---~-~~~~~~~--  216 (319)
                      +...|-.         ....+.|...|.+.-+..  |+...   +..|+...... ....+...+-   . .+.+.|.  
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            6665531         223566777776655442  33211   12222222211 1111222222   1 1112221  


Q ss_pred             -CCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          217 -HPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       217 -~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                       ..+-..+..++.++.-.|+.++|.+..++|.+.
T Consensus       301 ~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  301 KMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence             234445566777888888888888888888765

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.43  E-value=0.021  Score=40.44  Aligned_cols=153  Identities=14%  Similarity=0.015  Sum_probs=101.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCCh
Q 039029           52 IDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNA  131 (319)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  131 (319)
                      ..+..+.=+++...+-..+-..  ..|++.....|...+...|+..+|...|++...--+.-|......+..+....+++
T Consensus        63 ~~a~~q~ldP~R~~Rea~~~~~--~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~  140 (251)
T COG4700          63 LMALQQKLDPERHLREATEELA--IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEF  140 (251)
T ss_pred             HHHHHHhcChhHHHHHHHHHHh--hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccH
Confidence            3344444455554433322222  35777777788888888999999999998887655556777778888888888999


Q ss_pred             HHHHHHHHHHHHcCC-CccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHH
Q 039029          132 KKAFSLHDEMIHKGI-QPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLL  208 (319)
Q Consensus       132 ~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (319)
                      ..|...++++.+... .-++.+...+.+.+...|.+.+|+..|+.....-  |+...-......+.+.|+.+++..-+
T Consensus       141 A~a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~y--pg~~ar~~Y~e~La~qgr~~ea~aq~  216 (251)
T COG4700         141 AAAQQTLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISYY--PGPQARIYYAEMLAKQGRLREANAQY  216 (251)
T ss_pred             HHHHHHHHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHhC--CCHHHHHHHHHHHHHhcchhHHHHHH
Confidence            999888888877531 0122345556677888888888888888888763  44443333444455666555544433

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.41  E-value=0.022  Score=40.33  Aligned_cols=133  Identities=17%  Similarity=0.131  Sum_probs=105.6

Q ss_pred             CCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC---CCccHHHH
Q 039029          112 VPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG---MLPDIVMF  188 (319)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~  188 (319)
                      .|+...-..|..+....|++.+|...|++...--+.-|......+..+....+++..+...++.+.+..   ..||  +.
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 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GH  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--ch
Confidence            467778888999999999999999999998876566688888999999999999999999999988763   2344  44


Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHH----HHHHHHH
Q 039029          189 NALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARR----LLDQMKR  248 (319)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~----~~~~~~~  248 (319)
                      ..+.+.+...|.+.+|+.-|+.....  -|+...-......+.++|+.+++..    +++.+.+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~d~~~r  225 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAVVDTAKR  225 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHh
Confidence            56778888999999999999998875  5666665666667778887766654    4455444

>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=97.41  E-value=0.0033  Score=43.69  Aligned_cols=72  Identities=21%  Similarity=0.241  Sum_probs=52.1

Q ss_pred             hHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHH-----cCCCccHHHHH
Q 039029           82 TYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIH-----KGIQPTMLTYT  154 (319)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  154 (319)
                      +...++..+...|+++.|..+.+.+....+. +...|..+|.++...|+...|.++|+.+..     .|+.|+..+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPY-DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            4455667778889999999999999887654 888999999999999999999999988754     37777776543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.40  E-value=0.072  Score=46.01  Aligned_cols=104  Identities=16%  Similarity=0.210  Sum_probs=74.1

Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHH
Q 039029          189 NALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNAL  268 (319)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  268 (319)
                      +--+.-+...|+..+|.++-.+.+    -||...|-.-+.+++..++|++-+++-+....    |         .-|...
T Consensus       688 ~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskks----P---------IGy~PF  750 (829)
T KOG2280|consen  688 HDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS----P---------IGYLPF  750 (829)
T ss_pred             HHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC----C---------CCchhH
Confidence            333444556677777777766654    47888888888888888998887776555321    2         467888


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          269 IQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       269 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      +.+|.+.|+.++|.+++-+.-.     ..    ....+|.+.|++.+|++
T Consensus       751 Ve~c~~~~n~~EA~KYiprv~~-----l~----ekv~ay~~~~~~~eAad  791 (829)
T KOG2280|consen  751 VEACLKQGNKDEAKKYIPRVGG-----LQ----EKVKAYLRVGDVKEAAD  791 (829)
T ss_pred             HHHHHhcccHHHHhhhhhccCC-----hH----HHHHHHHHhccHHHHHH
Confidence            9999999999999988765432     11    56678888888888864

>PRK15331 chaperone protein SicA; Provisional

Probab=97.40  E-value=0.012  Score=40.91  Aligned_cols=87  Identities=11%  Similarity=-0.093  Sum_probs=49.7

Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      +...|++++|..+|+-+.-.++. +..-|..|..++...+++++|...|......+ ..|+..+-....++...|+.+.|
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-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHHH
Confidence            44566666666666666554433 45555566666666666666666666555443 22333444445556666666666


Q ss_pred             HHHHHHHhh
Q 039029          170 DQLFENFLA  178 (319)
Q Consensus       170 ~~~~~~~~~  178 (319)
                      ...|.....
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            666665555

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.39  E-value=0.002  Score=38.49  Aligned_cols=56  Identities=16%  Similarity=0.052  Sum_probs=31.8

Q ss_pred             HHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           18 SGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ   74 (319)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (319)
                      ..+.+.+++++|+++++.+...++. ++..+.....++...|++++|.+.++...+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            3455556666666666666554322 4455555555666666666666666665554

>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=97.31  E-value=0.0019  Score=39.22  Aligned_cols=62  Identities=21%  Similarity=0.225  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-Ccc-HHHHHHHHHHHhhhccHHHHHHHHHHHh
Q 039029          116 ITYNILINGYCRCGNAKKAFSLHDEMIHK----GI-QPT-MLTYTSLIFVLSKQNRMIEADQLFENFL  177 (319)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (319)
                      .+++.+...|...|++++|+..|++..+.    |. .|. ..++..+..++...|++++|.+.+++..
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            34555666666666666666666655532    10 111 3345555555666666666666655543

...

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.29  E-value=0.033  Score=47.71  Aligned_cols=53  Identities=17%  Similarity=0.191  Sum_probs=30.5

Q ss_pred             cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHH
Q 039029          184 DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQ  245 (319)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  245 (319)
                      +....-.+..++...|.-++|.+.+-+..    .|     ...+..|...++|.+|.++.++
T Consensus       851 ~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~p-----kaAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  851 DSELLPVMADMFTSVGMCDQAVEAYLRRS----LP-----KAAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             ccchHHHHHHHHHhhchHHHHHHHHHhcc----Cc-----HHHHHHHHHHHHHHHHHHHHHh
Confidence            44555566666666776666666554321    12     2345566666677777666554

>PRK15331 chaperone protein SicA; Provisional

Probab=97.26  E-value=0.024  Score=39.38  Aligned_cols=89  Identities=13%  Similarity=-0.030  Sum_probs=56.2

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHH
Q 039029           54 GYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKK  133 (319)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  133 (319)
                      -+...|++++|..+|..+...+. -+..-+..|..++-..+++++|...|......+.. |+..+-....++...|+.+.
T Consensus        46 ~~y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~~~~  123 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCCHHH
Confidence            34566777777777777666542 24445556666666677777777777665544432 45555556667777777777


Q ss_pred             HHHHHHHHHHc
Q 039029          134 AFSLHDEMIHK  144 (319)
Q Consensus       134 a~~~~~~~~~~  144 (319)
                      |...|......
T Consensus       124 A~~~f~~a~~~  134 (165)
T PRK15331        124 ARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHhC
Confidence            77777766653

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.23  E-value=0.045  Score=46.91  Aligned_cols=206  Identities=12%  Similarity=0.026  Sum_probs=129.3

Q ss_pred             CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCc--------ChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCC
Q 039029           42 VPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ-GIMP--------TASTYNLLIHELLMERKMVEADDMLKEMGEKGIV  112 (319)
Q Consensus        42 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  112 (319)
                      .|.+..|..+.......-.++.|+..|-+...- |++.        +...-..-+.+  --|++++|+++|-++.+..  
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 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISA--FYGEFEEAEKLYLDADRRD--  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhh--hhcchhHhhhhhhccchhh--
Confidence            377788888888777777777777777655432 2211        00111111222  2378888888887776542  


Q ss_pred             CChHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHH
Q 039029          113 PDSITYNILINGYCRCGNAKKAFSLHDEMIHK-GIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNAL  191 (319)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  191 (319)
                             ..+..+.+.|+|-.+.++++.--.. +-..-...++.+...+.....+++|.+.|..-..         ....
T Consensus       765 -------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~---------~e~~  828 (1189)
T KOG2041|consen  765 -------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD---------TENQ  828 (1189)
T ss_pred             -------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc---------hHhH
Confidence                   2466777888888777776532111 0011235788888888888888888888875332         1235


Q ss_pred             HHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHH
Q 039029          192 IDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQG  271 (319)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  271 (319)
                      +.++.+..++++.+.+.+.+     +.+....-.+..++.+.|.-++|.+.+-+--.    |            ...+.+
T Consensus       829 ~ecly~le~f~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----p------------kaAv~t  887 (1189)
T KOG2041|consen  829 IECLYRLELFGELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYLRRSL----P------------KAAVHT  887 (1189)
T ss_pred             HHHHHHHHhhhhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHHhccC----c------------HHHHHH
Confidence            56666666666655555443     44566777788888999998888887755311    1            345667


Q ss_pred             HHhcCchhHHHHHHHHH
Q 039029          272 LCKNQEGDLAEELLREM  288 (319)
Q Consensus       272 ~~~~g~~~~A~~~~~~~  288 (319)
                      |...++|.+|.++.++.
T Consensus       888 Cv~LnQW~~avelaq~~  904 (1189)
T KOG2041|consen  888 CVELNQWGEAVELAQRF  904 (1189)
T ss_pred             HHHHHHHHHHHHHHHhc
Confidence            77788888887776654

>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=97.16  E-value=0.014  Score=39.04  Aligned_cols=46  Identities=20%  Similarity=0.204  Sum_probs=20.8

Q ss_pred             CCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCccHHHHHHHH
Q 039029          112 VPDSITYNILINGYCRCGNAKKAFSLHDEMIHK-GIQPTMLTYTSLI  157 (319)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~  157 (319)
                      .|+..+..+++.+|+..|++..|+++.+...+. +++.+..+|..|+
T Consensus        49 ~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll   95 (126)
T PF12921_consen   49 YPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLL   95 (126)
T ss_pred             CCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            344444444444444444444444444444432 3333344444444

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>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=97.09  E-value=0.073  Score=44.30  Aligned_cols=156  Identities=17%  Similarity=0.124  Sum_probs=86.4

Q ss_pred             HHHHcCchhHHHHHHH--HHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccH
Q 039029           89 ELLMERKMVEADDMLK--EMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRM  166 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (319)
                      ...-.++++.+.++.+  ++.. .+  +....+.++..+.+.|-.+.|+++-..-..            -.....+.|++
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L  334 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNL  334 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-H
T ss_pred             HHHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCH
Confidence            3444566666655554  1111 11  244466677777777777777766432211            12333466777


Q ss_pred             HHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHH
Q 039029          167 IEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQM  246 (319)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  246 (319)
                      +.|.++.++.      .+...|..|.......|+++-|++.|.+..+         |..|+-.|...|+.+.-.++.+..
T Consensus       335 ~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a  399 (443)
T PF04053_consen  335 DIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIA  399 (443)
T ss_dssp             HHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHH
Confidence            7776554432      2566777777777777887777777776543         455666667777777777777666


Q ss_pred             HHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHH
Q 039029          247 KRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLRE  287 (319)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  287 (319)
                      ...|             -++....++.-.|+.++..+++.+
T Consensus       400 ~~~~-------------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  400 EERG-------------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHTT--------------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHcc-------------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6554             245556666667777777766654

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.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.09  E-value=0.0089  Score=48.62  Aligned_cols=98  Identities=14%  Similarity=0.139  Sum_probs=70.5

Q ss_pred             ccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCCh----hhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCccc
Q 039029          183 PDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDE----VTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISF  258 (319)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  258 (319)
                      .+...++.+..+|...|++++|...|++..+.+  |+.    .+|..+..+|...|+.++|...++++++.+ .      
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n------  143 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-N------  143 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-c------
Confidence            357888999999999999999999999988864  553    358889999999999999999999998852 1      


Q ss_pred             CcchhhHHHHHH--HHHhcCchhHHHHHHHHHHhCCC
Q 039029          259 NPTRLTYNALIQ--GLCKNQEGDLAEELLREMVSKGI  293 (319)
Q Consensus       259 ~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~~~~~  293 (319)
                          ..|..+..  .+....+.++..++++.+...|.
T Consensus       144 ----~~f~~i~~DpdL~plR~~pef~eLlee~rk~G~  176 (453)
T PLN03098        144 ----LKFSTILNDPDLAPFRASPEFKELQEEARKGGE  176 (453)
T ss_pred             ----hhHHHHHhCcchhhhcccHHHHHHHHHHHHhCC
Confidence                12321111  11122334466677777777664

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=97.08  E-value=0.047  Score=37.56  Aligned_cols=125  Identities=13%  Similarity=0.135  Sum_probs=70.9

Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcC
Q 039029          154 TSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQ  233 (319)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  233 (319)
                      ..++..+...+.......+++.+...+. .+....+.++..|++.+. .+..+.+..      ..+......+++.|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            3444555555666666666666666543 455666666666665532 333333331      12334445567777777


Q ss_pred             CcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhc-CchhHHHHHHHHHHhCCCCCChHHHHHHHHHhh
Q 039029          234 GKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKN-QEGDLAEELLREMVSKGITPDDNTYFSLIEGIA  308 (319)
Q Consensus       234 g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  308 (319)
                      +-++++..++.++..                +...+..+... ++++.|.+++++      .-+...|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~----------------~~~Al~~~l~~~~d~~~a~~~~~~------~~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGN----------------FKDAIVTLIEHLGNYEKAIEYFVK------QNNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcC----------------HHHHHHHHHHcccCHHHHHHHHHh------CCCHHHHHHHHHHHH
Confidence            777777777766522                33444444444 677777776664      125556666666554

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.08  E-value=0.11  Score=41.81  Aligned_cols=172  Identities=13%  Similarity=0.057  Sum_probs=110.8

Q ss_pred             ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC---CCccHHHHHHHHHHHhh---hccHHHHHHHHHHHhhCCCCccHHH
Q 039029          114 DSITYNILINGYCRCGNAKKAFSLHDEMIHKG---IQPTMLTYTSLIFVLSK---QNRMIEADQLFENFLAKGMLPDIVM  187 (319)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~  187 (319)
                      +..+...++-+|....+++...++.+.+....   +.....+-.....++.+   .|+.+.|.+++..+......+++.+
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            34445566667999999999999999998752   22233333444556667   8999999999999776667778899


Q ss_pred             HHHHHHHHhc---------CCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCc-H---HHHHHHH---H-HHHHcC
Q 039029          188 FNALIDGHCT---------NGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGK-V---EEARRLL---D-QMKRRG  250 (319)
Q Consensus       188 ~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~---~~a~~~~---~-~~~~~~  250 (319)
                      +..+.+.|-.         ....++|...|.+.-+.  .|+...-..++..+.-.|. .   .+..++-   . .+.+.|
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            9888877632         22467788888876554  3555544334433433443 1   1222222   2 222333


Q ss_pred             CCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          251 IKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      .....    .+-=.+.+++.++.-.|++++|.+..++|...
T Consensus       298 ~~~~~----~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  298 SLEKM----QDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccccc----ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            22221    11123467888899999999999999999976

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.02  E-value=0.18  Score=43.16  Aligned_cols=264  Identities=14%  Similarity=0.124  Sum_probs=136.3

Q ss_pred             CCCCcccHHHHHHHHhccCChHHHHHHH---------HHHHhCCCCCCHHhHHHHHHHHHhcCChH--HHHHHHHHHHHc
Q 039029            6 VQPDSYTYGSFVSGMCKEGRLEEASRML---------EQMKENGLVPTAVTYNTLIDGYCNKGNLE--MAFSFRDEMVKQ   74 (319)
Q Consensus         6 ~~p~~~~~~~li~~~~~~~~~~~a~~~~---------~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~   74 (319)
                      +.|-...+.+-+..+...|.+++|.++-         +.+...  ..++-.++..=.+|.+.++..  +.+.-++++.+.
T Consensus       552 i~~~evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~--ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~r  629 (1081)
T KOG1538|consen  552 ISAVEVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAME--ALEALDFETARKAYIRVRDLRYLELISELEERKKR  629 (1081)
T ss_pred             eecccccccccchhhhhccchhhhhcccccceecchHHHHHHH--HHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhc
Confidence            4455556666677778888888876532         111111  012233444445555554432  333445566666


Q ss_pred             CCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHH-----HHHHHHhcCChHHHHHHHHHHHHc--CCC
Q 039029           75 GIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI-----LINGYCRCGNAKKAFSLHDEMIHK--GIQ  147 (319)
Q Consensus        75 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----l~~~~~~~~~~~~a~~~~~~~~~~--~~~  147 (319)
                      |-.|+...   +...++-.|++.+|.++|.+-...+-.  ...|+-     ...-+...|..++-..+.++-.+.  ++.
T Consensus       630 ge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~enRA--lEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~k  704 (1081)
T KOG1538|consen  630 GETPNDLL---LADVFAYQGKFHEAAKLFKRSGHENRA--LEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADWARNIK  704 (1081)
T ss_pred             CCCchHHH---HHHHHHhhhhHHHHHHHHHHcCchhhH--HHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHhhhcC
Confidence            76666554   344566678888888887764322100  011111     122333344444333333222111  111


Q ss_pred             ccHHHHHHHHHHHhhhccHHHHHHHHH------HHhhCCCC---ccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCC
Q 039029          148 PTMLTYTSLIFVLSKQNRMIEADQLFE------NFLAKGML---PDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHP  218 (319)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~a~~~~~------~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  218 (319)
                      ..    ......+...|+.++|..+.-      -+.+.+..   .+..+...+...+-+...+.-|.++|..|-+.    
T Consensus       705 eP----kaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~----  776 (1081)
T KOG1538|consen  705 EP----KAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL----  776 (1081)
T ss_pred             Cc----HHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccH----
Confidence            11    122233344555555544321      11111111   13445555555556667777888888877542    


Q ss_pred             ChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcc----cCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          219 DEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHIS----FNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       219 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                           ..+++.....++|++|..+.++..+.  .|+...    +-....-|...-.+|.+.|+-.+|.++++++...
T Consensus       777 -----ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  777 -----KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             -----HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence                 34667778889999999888776542  222210    0011123445567788889999999999888654

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.00  E-value=0.09  Score=39.46  Aligned_cols=67  Identities=15%  Similarity=0.155  Sum_probs=48.0

Q ss_pred             HHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChH
Q 039029          225 TLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDN  298 (319)
Q Consensus       225 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  298 (319)
                      .+.+.|.+.|.+..|..-++++++.  -|+..   -....+-.+..+|.+.|-.++|...-+-+...  .|+..
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~--y~~t~---~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N--~p~s~  238 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLEN--YPDTS---AVREALARLEEAYYALGLTDEAKKTAKVLGAN--YPDSQ  238 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhc--ccccc---chHHHHHHHHHHHHHhCChHHHHHHHHHHHhc--CCCCc
Confidence            4567788999999999999999886  22221   12356777888899999999998887666553  45543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.98  E-value=0.15  Score=41.59  Aligned_cols=135  Identities=13%  Similarity=0.187  Sum_probs=66.5

Q ss_pred             HhccCChHHHHHHHHHHHhCCCCCCHH------hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH--HHH
Q 039029           20 MCKEGRLEEASRMLEQMKENGLVPTAV------TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH--ELL   91 (319)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~   91 (319)
                      +.+++++.+|.++|.++.+.. ..++.      .-+.++++|.. ++.+.....+....+..  | ...|-.+..  .+.
T Consensus        16 Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQF--G-KSAYLPLFKALVAY   90 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhc--C-CchHHHHHHHHHHH
Confidence            456788888888888876642 11211      22345555533 34454444444444431  1 112222222  234


Q ss_pred             HcCchhHHHHHHHHHhhC--CCCC------------ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC----CccHHHH
Q 039029           92 MERKMVEADDMLKEMGEK--GIVP------------DSITYNILINGYCRCGNAKKAFSLHDEMIHKGI----QPTMLTY  153 (319)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~--~~~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~  153 (319)
                      +.+++.+|.+.+....+.  +..+            |-..-+..+.++...|++.++..+++++...=+    .-+..+|
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            566666666665554433  1111            111123445566666777777766666655422    2455555


Q ss_pred             HHHHHH
Q 039029          154 TSLIFV  159 (319)
Q Consensus       154 ~~l~~~  159 (319)
                      +.++-.
T Consensus       171 d~~vlm  176 (549)
T PF07079_consen  171 DRAVLM  176 (549)
T ss_pred             HHHHHH
Confidence            554333

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.90  E-value=0.16  Score=40.67  Aligned_cols=185  Identities=16%  Similarity=0.111  Sum_probs=98.7

Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHhHHHHHH--HHHhcCChHHHHHHHHHHHHcCCCcChh--hHHHHHHHHHHcCchhH
Q 039029           23 EGRLEEASRMLEQMKENGLVPTAVTYNTLID--GYCNKGNLEMAFSFRDEMVKQGIMPTAS--TYNLLIHELLMERKMVE   98 (319)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~   98 (319)
                      .|+-..|.++-.+..+. +..|......++.  +-.-.|+++.|.+-|+.|...   |...  -...|.-..-+.|+.+.
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            45666666666554432 2234444444443  334468888888888888753   1111  12223233345677888


Q ss_pred             HHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCccHH--HHHHHHHHH--h-hhccHHHHHHH
Q 039029           99 ADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKG-IQPTML--TYTSLIFVL--S-KQNRMIEADQL  172 (319)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~--~~~~l~~~~--~-~~~~~~~a~~~  172 (319)
                      |.++-+..-..... -...+...+...+..|+|+.|+++.+.-.... +.++..  .-..|+.+-  . -..+...|...
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            88777777665433 45667778888888888888888887765532 222221  111222111  1 11223344443


Q ss_pred             HHHHhhCCCCccHH-HHHHHHHHHhcCCcHHHHHHHHHHHHhC
Q 039029          173 FENFLAKGMLPDIV-MFNALIDGHCTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       173 ~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (319)
                      -.+..+.  .||.. .--....++.+.|+..++-.+++.+-+.
T Consensus       252 A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~  292 (531)
T COG3898         252 ALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKA  292 (531)
T ss_pred             HHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhc
Confidence            3333332  23321 1122344556666666666666666554

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.88  E-value=0.056  Score=44.18  Aligned_cols=66  Identities=11%  Similarity=0.027  Sum_probs=51.5

Q ss_pred             CCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCH---HhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029            8 PDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTA---VTYNTLIDGYCNKGNLEMAFSFRDEMVKQ   74 (319)
Q Consensus         8 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (319)
                      .+...++.+..+|.+.|++++|+..|++..+.+.. +.   .+|..+..+|...|+.++|+..+++.++.
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            34566888888888888999999888888875433 22   35888888888888888888888888875

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.85  E-value=0.04  Score=43.95  Aligned_cols=97  Identities=13%  Similarity=0.020  Sum_probs=58.9

Q ss_pred             hhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 039029           81 STYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVL  160 (319)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (319)
                      .++..+..++.+.+++..|++.-++.+..+.. |....-.-..++...|+++.|...|+++.+.. |.|..+-+.++.+-
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~-N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~-P~Nka~~~el~~l~  335 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPN-NVKALYRRGQALLALGEYDLARDDFQKALKLE-PSNKAARAELIKLK  335 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCC-chhHHHHHHHHHHhhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            35566666777777777777777777766443 66666666677777777777777777777653 33444444444444


Q ss_pred             hhhccHH-HHHHHHHHHhhC
Q 039029          161 SKQNRMI-EADQLFENFLAK  179 (319)
Q Consensus       161 ~~~~~~~-~a~~~~~~~~~~  179 (319)
                      .+..... ...++|..|...
T Consensus       336 ~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  336 QKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHHHhhc
Confidence            4433333 335566666543

>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=96.85  E-value=0.047  Score=45.41  Aligned_cols=157  Identities=19%  Similarity=0.188  Sum_probs=75.9

Q ss_pred             HHHhccCChHHHHHHHHH--HHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCc
Q 039029           18 SGMCKEGRLEEASRMLEQ--MKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERK   95 (319)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (319)
                      +...-+++++++.++.+.  +.. .+  +....+.++..+.+.|.++.|+++..+-.            .-.....+.|+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~  333 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCC
Confidence            344455666666555541  111 11  13345666666666666666666543321            11233455666


Q ss_pred             hhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHH
Q 039029           96 MVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFEN  175 (319)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (319)
                      .+.|.++.++.      .+...|..|.....+.|+++-|.+.|.+..         -+..++-.|.-.|+.+...++.+.
T Consensus       334 L~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~  398 (443)
T PF04053_consen  334 LDIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKI  398 (443)
T ss_dssp             HHHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHH
Confidence            66666543332      255567777777777777777666665542         234444555556666665555555


Q ss_pred             HhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHH
Q 039029          176 FLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKE  210 (319)
Q Consensus       176 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (319)
                      ....|.      ++....++.-.|+.+++.+++.+
T Consensus       399 a~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  399 AEERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            554431      33333444445666666655554

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.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.80  E-value=0.073  Score=42.56  Aligned_cols=97  Identities=12%  Similarity=-0.031  Sum_probs=74.6

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 039029          115 SITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDG  194 (319)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  194 (319)
                      ..++..+..++.+.+++..|++..++.+..+ ++|......-..++...|+++.|+..|+++++..+. |-.+-+.++.+
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~-Nka~~~el~~l  334 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLEPS-NKAARAELIKL  334 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHH
Confidence            4467788899999999999999999999886 678888888889999999999999999999987433 44445555555


Q ss_pred             HhcCCcH-HHHHHHHHHHHh
Q 039029          195 HCTNGNI-ERAFSLLKEMDR  213 (319)
Q Consensus       195 ~~~~~~~-~~a~~~~~~~~~  213 (319)
                      -.+.... ++..++|..|-.
T Consensus       335 ~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            4444443 444778888754

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.77  E-value=0.098  Score=39.61  Aligned_cols=100  Identities=17%  Similarity=0.153  Sum_probs=76.6

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCC--CChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchh
Q 039029          186 VMFNALIDGHCTNGNIERAFSLLKEMDRMKVH--PDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRL  263 (319)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  263 (319)
                      ..|+.-+..+ +.|++..|...|....+....  -....+-+|..++...|++++|..+|..+.+.-  |+..   .-+.
T Consensus       143 ~~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~--P~s~---KApd  216 (262)
T COG1729         143 KLYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDY--PKSP---KAPD  216 (262)
T ss_pred             HHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhC--CCCC---CChH
Confidence            3677766654 677899999999998775311  123456779999999999999999999988752  3321   1226


Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          264 TYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       264 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      ++--|.....+.|+.++|..+|+++.+.
T Consensus       217 allKlg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         217 ALLKLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            7778888899999999999999999886

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.70  E-value=0.22  Score=39.53  Aligned_cols=109  Identities=15%  Similarity=0.181  Sum_probs=76.9

Q ss_pred             HHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 039029          152 TYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRC  231 (319)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  231 (319)
                      +.+..+.-+...|+...|.++-.+..    .|+...|..-+.+++..++|++...+...      .-++.-|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            44444556667777777777765542    36888888888888888988877765432      224577888888888


Q ss_pred             cCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHH
Q 039029          232 RQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLRE  287 (319)
Q Consensus       232 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  287 (319)
                      ..|...+|..+..++                 .+..-+..|.+.|++.+|.+...+
T Consensus       249 ~~~~~~eA~~yI~k~-----------------~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI-----------------PDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HCCCHHHHHHHHHhC-----------------ChHHHHHHHHHCCCHHHHHHHHHH
Confidence            888888888887772                 124567778888888888765443

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

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.67  E-value=0.12  Score=40.36  Aligned_cols=153  Identities=9%  Similarity=-0.007  Sum_probs=98.4

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc---CCCcChhhHHHHHHHHHHcCchhH
Q 039029           22 KEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ---GIMPTASTYNLLIHELLMERKMVE   98 (319)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~   98 (319)
                      -+|++.+|-..++++.+. .+.|...+...=.+|...|+.+.-...++++...   ++|........+.-++..+|-+++
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            356777777777777764 4446667777777788888888888888777654   222223333445556677888888


Q ss_pred             HHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC---ccHHHHHHHHHHHhhhccHHHHHHHHHH
Q 039029           99 ADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQ---PTMLTYTSLIFVLSKQNRMIEADQLFEN  175 (319)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (319)
                      |++.-++..+.+.. |...-.+....+-..|+++++.+...+-...--.   .-..-|-...-.+...+.++.|+++|+.
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            88888888776543 6777777888888888888888776554322000   0111122223334556788888888874


Q ss_pred             H
Q 039029          176 F  176 (319)
Q Consensus       176 ~  176 (319)
                      -
T Consensus       273 e  273 (491)
T KOG2610|consen  273 E  273 (491)
T ss_pred             H
Confidence            3

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.57  E-value=0.39  Score=40.68  Aligned_cols=180  Identities=19%  Similarity=0.183  Sum_probs=112.9

Q ss_pred             HHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCcC-----hhhHHHHHHHHHH----cCch
Q 039029           27 EEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQG-IMPT-----ASTYNLLIHELLM----ERKM   96 (319)
Q Consensus        27 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~-----~~~~~~l~~~~~~----~~~~   96 (319)
                      .-..-+|.-+... +||   .+..+++...-.|+-+.+++.+.+..+.+ +.-.     .-.|...+..+..    ....
T Consensus       174 ~~G~G~f~L~lSl-LPp---~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~  249 (468)
T PF10300_consen  174 YFGFGLFNLVLSL-LPP---KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPL  249 (468)
T ss_pred             HHHHHHHHHHHHh-CCH---HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCH
Confidence            3445566666654 232   34566666677788888888887766542 2111     1234444444433    3457


Q ss_pred             hHHHHHHHHHhhCCCCCChHHHHH-HHHHHHhcCChHHHHHHHHHHHHcC---CCccHHHHHHHHHHHhhhccHHHHHHH
Q 039029           97 VEADDMLKEMGEKGIVPDSITYNI-LINGYCRCGNAKKAFSLHDEMIHKG---IQPTMLTYTSLIFVLSKQNRMIEADQL  172 (319)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (319)
                      +.+.++++.+.+.  -|+...|.. -.+.+...|+.++|++.|+......   .......+--+.-.+.-..++++|...
T Consensus       250 ~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~  327 (468)
T PF10300_consen  250 EEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEY  327 (468)
T ss_pred             HHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHH
Confidence            7788888888876  345555543 3567777889999999998755321   112334555566677888999999999


Q ss_pred             HHHHhhCCCCccHHHHHHHH-HHHhcCCcH-------HHHHHHHHHHHh
Q 039029          173 FENFLAKGMLPDIVMFNALI-DGHCTNGNI-------ERAFSLLKEMDR  213 (319)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~-~~~~~~~~~-------~~a~~~~~~~~~  213 (319)
                      |..+.+...- +..+|.-+. .++...|+.       ++|.++|.++..
T Consensus       328 f~~L~~~s~W-Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  328 FLRLLKESKW-SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHhcccc-HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            9988876433 444444433 334556666       888888887744

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.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.55  E-value=0.13  Score=35.01  Aligned_cols=54  Identities=22%  Similarity=0.276  Sum_probs=22.0

Q ss_pred             hccCChHHHHHHHHHHHhCCC--CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           21 CKEGRLEEASRMLEQMKENGL--VPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ   74 (319)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (319)
                      .+.|++++|.+.|+.+..+-+  +-...+--.++.++.+.++++.|...+++.++.
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            344444444444444443311  111222333444444444444444444444444

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.52  E-value=0.091  Score=39.79  Aligned_cols=87  Identities=17%  Similarity=0.122  Sum_probs=36.2

Q ss_pred             cCChHHHHHHHHHHHHcCCC--cChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCC-C-ChHHHHHHHHHHHhcCChHH
Q 039029           58 KGNLEMAFSFRDEMVKQGIM--PTASTYNLLIHELLMERKMVEADDMLKEMGEKGIV-P-DSITYNILINGYCRCGNAKK  133 (319)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~  133 (319)
                      .|++..|...|...++..+.  -....+.-|..++...|++++|..+|..+.+.-+. | -+..+--|..+..+.|+.++
T Consensus       154 sgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~  233 (262)
T COG1729         154 SGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDE  233 (262)
T ss_pred             cCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHH
Confidence            33444444444444443211  11223333444444445555544444444432111 0 12334444444444455555


Q ss_pred             HHHHHHHHHHc
Q 039029          134 AFSLHDEMIHK  144 (319)
Q Consensus       134 a~~~~~~~~~~  144 (319)
                      |..+|+++.+.
T Consensus       234 A~atl~qv~k~  244 (262)
T COG1729         234 ACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHH
Confidence            55555554443

>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=96.44  E-value=0.31  Score=38.07  Aligned_cols=224  Identities=14%  Similarity=0.125  Sum_probs=127.1

Q ss_pred             HhccCChHHHHHHHHHHHhCC--CCCCHH------hHHHHHHHHHhcC-ChHHHHHHHHHHHHc--------CCCcC---
Q 039029           20 MCKEGRLEEASRMLEQMKENG--LVPTAV------TYNTLIDGYCNKG-NLEMAFSFRDEMVKQ--------GIMPT---   79 (319)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~------~~~~l~~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~---   79 (319)
                      ..+.|+++.|..++.++....  ..|+..      .|+.-. .....+ +++.|..++++..+.        ...|+   
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~-~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~e   81 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGK-SLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSE   81 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHH-HHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHH
Confidence            457899999999999987643  222221      233333 334455 888888877776543        11222   


Q ss_pred             --hhhHHHHHHHHHHcCchh---HHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHH
Q 039029           80 --ASTYNLLIHELLMERKMV---EADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYT  154 (319)
Q Consensus        80 --~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  154 (319)
                        ..++..++.++...+..+   +|.++++.+...... .+..+..-+..+.+.++.+.+.+++.+|... +.-....+.
T Consensus        82 lr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~-~~~~e~~~~  159 (278)
T PF08631_consen   82 LRLSILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRS-VDHSESNFD  159 (278)
T ss_pred             HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHh-cccccchHH
Confidence              234566777777766644   456666666554332 4556666677888889999999999999986 222334555


Q ss_pred             HHHHHH---hhhccHHHHHHHHHHHhhCCCCccHH-HHHH-HHH-H--HhcCCc------HHHHHHHHHHHHh-CCCCCC
Q 039029          155 SLIFVL---SKQNRMIEADQLFENFLAKGMLPDIV-MFNA-LID-G--HCTNGN------IERAFSLLKEMDR-MKVHPD  219 (319)
Q Consensus       155 ~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~-l~~-~--~~~~~~------~~~a~~~~~~~~~-~~~~~~  219 (319)
                      .++..+   .... ...+...+..+....+.|... .... ++. .  ..+.++      .+....++..+.+ .+.+.+
T Consensus       160 ~~l~~i~~l~~~~-~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls  238 (278)
T PF08631_consen  160 SILHHIKQLAEKS-PELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLS  238 (278)
T ss_pred             HHHHHHHHHHhhC-cHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCC
Confidence            555444   3333 345666666665554444443 1111 111 1  112211      4444455554332 222333


Q ss_pred             hhhHHH---H----HHHHHcCCcHHHHHHHHHHHH
Q 039029          220 EVTYNT---L----MHGRCRQGKVEEARRLLDQMK  247 (319)
Q Consensus       220 ~~~~~~---l----~~~~~~~g~~~~a~~~~~~~~  247 (319)
                      ..+-..   +    +..+.+.++++.|..+|+-..
T Consensus       239 ~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  239 AEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            333222   2    234567899999999998654

It is also involved in sporulation [].

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.43  E-value=0.34  Score=38.44  Aligned_cols=228  Identities=12%  Similarity=0.013  Sum_probs=137.9

Q ss_pred             HhccCChHHHHHHHHHHHhCC--CCCCHHhHHHHHHHHHhcCChHHHHHHHHHH----HHc-CCCcChhhHHHHHHHHHH
Q 039029           20 MCKEGRLEEASRMLEQMKENG--LVPTAVTYNTLIDGYCNKGNLEMAFSFRDEM----VKQ-GIMPTASTYNLLIHELLM   92 (319)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~-~~~~~~~~~~~l~~~~~~   92 (319)
                      +....+.++|+..|.+...+-  ...-..++..+..+.++.|.+++++..--.-    .+. ....-...|..+.+.+-+
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~   95 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345677888888887766531  1112346677778888888888776542221    111 001123445556666666


Q ss_pred             cCchhHHHHHHHHHhhC-CCCC---ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-----CCccHHHHHHHHHHHhhh
Q 039029           93 ERKMVEADDMLKEMGEK-GIVP---DSITYNILINGYCRCGNAKKAFSLHDEMIHKG-----IQPTMLTYTSLIFVLSKQ  163 (319)
Q Consensus        93 ~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~  163 (319)
                      .-++.+++.+-..-... |..|   .-....++..++...+.++++++.|+...+.-     ......++..+...|.+.
T Consensus        96 l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   96 LCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            66666666655544332 2222   11234456777888888999999999877631     112235788888999999


Q ss_pred             ccHHHHHHHHHHHhhC----CCCccH-HHH-----HHHHHHHhcCCcHHHHHHHHHHHHh----CCCCC-ChhhHHHHHH
Q 039029          164 NRMIEADQLFENFLAK----GMLPDI-VMF-----NALIDGHCTNGNIERAFSLLKEMDR----MKVHP-DEVTYNTLMH  228 (319)
Q Consensus       164 ~~~~~a~~~~~~~~~~----~~~~~~-~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~  228 (319)
                      .+++++.-+..+..+.    ++. |. .-|     ..+.-++...|....|.+..++..+    .|-++ -......+.+
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~-d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aD  254 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLK-DWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFAD  254 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcC-chhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHH
Confidence            9999888776655432    222 21 112     2233445667777777777776543    33222 2334566788


Q ss_pred             HHHcCCcHHHHHHHHHHHHH
Q 039029          229 GRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       229 ~~~~~g~~~~a~~~~~~~~~  248 (319)
                      .|...|+.+.|+.-|+.+..
T Consensus       255 IyR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  255 IYRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHHhcccHhHHHHHHHHHHH
Confidence            99999999999888877543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.41  E-value=0.21  Score=39.56  Aligned_cols=227  Identities=10%  Similarity=-0.007  Sum_probs=133.2

Q ss_pred             hcCChHHHHHHHHHHHHcC--CCcChhhHHHHHHHHHHcCchhHHHHH----HHHHhhCC-CCCChHHHHHHHHHHHhcC
Q 039029           57 NKGNLEMAFSFRDEMVKQG--IMPTASTYNLLIHELLMERKMVEADDM----LKEMGEKG-IVPDSITYNILINGYCRCG  129 (319)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~~~~~~-~~~~~~~~~~l~~~~~~~~  129 (319)
                      ...+.++|+..+...+..-  ..--..++..+..+..+.|.+++++..    ++...+.. -..-...|..+.+++-+..
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            4455666666555544330  001122344445556666666655432    22222110 0012344555666666666


Q ss_pred             ChHHHHHHHHHHHHc-CCCc---cHHHHHHHHHHHhhhccHHHHHHHHHHHhhC-----CCCccHHHHHHHHHHHhcCCc
Q 039029          130 NAKKAFSLHDEMIHK-GIQP---TMLTYTSLIFVLSKQNRMIEADQLFENFLAK-----GMLPDIVMFNALIDGHCTNGN  200 (319)
Q Consensus       130 ~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~  200 (319)
                      ++.+++.+-..-... |..|   .......+..++...+.++.+++.|+...+.     +......++-.|...|.+..|
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            666666665554432 2222   1234455677788888899999999877653     112234678889999999999


Q ss_pred             HHHHHHHHHHHHh----CCCCCChh-----hHHHHHHHHHcCCcHHHHHHHHHHHHHc----CCCCCCcccCcchhhHHH
Q 039029          201 IERAFSLLKEMDR----MKVHPDEV-----TYNTLMHGRCRQGKVEEARRLLDQMKRR----GIKPDHISFNPTRLTYNA  267 (319)
Q Consensus       201 ~~~a~~~~~~~~~----~~~~~~~~-----~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~~~~~~~~  267 (319)
                      +++|.-+..+..+    .++..-..     ....+.-++...|....|.+.-++..+.    |-.+..      ......
T Consensus       178 ~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~------arc~~~  251 (518)
T KOG1941|consen  178 YEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQ------ARCLLC  251 (518)
T ss_pred             hhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHH------HHHHHH
Confidence            9998877766533    22221111     2234556778889988888888776553    333222      145567


Q ss_pred             HHHHHHhcCchhHHHHHHHHHH
Q 039029          268 LIQGLCKNQEGDLAEELLREMV  289 (319)
Q Consensus       268 l~~~~~~~g~~~~A~~~~~~~~  289 (319)
                      +.+.|...|+.+.|..-|+...
T Consensus       252 ~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  252 FADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHhcccHhHHHHHHHHHH
Confidence            7888999999999887777653

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.41  E-value=0.3  Score=37.58  Aligned_cols=152  Identities=12%  Similarity=-0.010  Sum_probs=97.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcH
Q 039029          122 INGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNI  201 (319)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (319)
                      .......|++.+|...|....... +-+...-..+..+|...|+.+.|..++..+...-..........-+..+.+....
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            345667889999999999888874 3456777788889999999999999998876543222223322333444444444


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHH
Q 039029          202 ERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLA  281 (319)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  281 (319)
                      .+...+-.+.-..  +-|...-..+...+...|+.+.|.+.+-.+++.+.....      ...-..++..+.-.|.-+.+
T Consensus       220 ~~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d------~~~Rk~lle~f~~~g~~Dp~  291 (304)
T COG3118         220 PEIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFED------GEARKTLLELFEAFGPADPL  291 (304)
T ss_pred             CCHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccC------cHHHHHHHHHHHhcCCCCHH
Confidence            4444444444331  236666677888888999999999888777766433222      14556666666666644443


Q ss_pred             H
Q 039029          282 E  282 (319)
Q Consensus       282 ~  282 (319)
                      .
T Consensus       292 ~  292 (304)
T COG3118         292 V  292 (304)
T ss_pred             H
Confidence            3

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.40  E-value=0.31  Score=37.54  Aligned_cols=49  Identities=16%  Similarity=0.142  Sum_probs=21.3

Q ss_pred             HcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHH
Q 039029           92 MERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEM  141 (319)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  141 (319)
                      ..|++.+|...|......... +...--.+..+|...|+.+.|..++..+
T Consensus       146 ~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~l  194 (304)
T COG3118         146 EAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAAL  194 (304)
T ss_pred             hccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhC
Confidence            344444444444444443222 2333334444444444444444444444

>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=96.37  E-value=0.054  Score=38.87  Aligned_cols=102  Identities=14%  Similarity=0.134  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchh
Q 039029          186 VMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPD--EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRL  263 (319)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  263 (319)
                      ..+..+...|.+.|+.+.|.+.|.++.+....+.  ...+..+++.....+++..+.....++...-..+......+-..
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            4455666666666776666666666665543333  22345556666666666666666666544322222111111112


Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHH
Q 039029          264 TYNALIQGLCKNQEGDLAEELLREMV  289 (319)
Q Consensus       264 ~~~~l~~~~~~~g~~~~A~~~~~~~~  289 (319)
                      +|..+.  +...+++..|-+.|-+..
T Consensus       117 ~~~gL~--~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLA--NLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHH--HHHhchHHHHHHHHHccC
Confidence            222222  344567777766665543

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.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.37  E-value=0.52  Score=39.92  Aligned_cols=157  Identities=14%  Similarity=0.117  Sum_probs=102.5

Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCCh------HHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCccHHHHHHH-HH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDS------ITYNILINGYCR----CGNAKKAFSLHDEMIHKGIQPTMLTYTSL-IF  158 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~  158 (319)
                      ..=.|+-+.+++.+.+..+.+--..+      -.|+..+..++.    ..+.+.|.++++.+.++  -|+...|... .+
T Consensus       198 vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR  275 (468)
T PF10300_consen  198 VGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLFFEGR  275 (468)
T ss_pred             cCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHH
Confidence            34467888888888876654211122      233444444433    35678899999999887  4565555433 46


Q ss_pred             HHhhhccHHHHHHHHHHHhhCC---CCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHH-HHcCC
Q 039029          159 VLSKQNRMIEADQLFENFLAKG---MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHG-RCRQG  234 (319)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g  234 (319)
                      .+...|++++|.+.|+......   .+.....+-.+.-.+.-..+|++|...|..+.+.. ..+..+|..+.-+ +...|
T Consensus       276 ~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~  354 (468)
T PF10300_consen  276 LERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAACLLMLG  354 (468)
T ss_pred             HHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhc
Confidence            6778999999999999766421   11223344556667788899999999999998754 3344455444433 34567


Q ss_pred             cH-------HHHHHHHHHHHHc
Q 039029          235 KV-------EEARRLLDQMKRR  249 (319)
Q Consensus       235 ~~-------~~a~~~~~~~~~~  249 (319)
                      +.       ++|.++|.++...
T Consensus       355 ~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  355 REEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             cchhhhhhHHHHHHHHHHHHHH
Confidence            77       8888888887543

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.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.37  E-value=0.16  Score=33.85  Aligned_cols=91  Identities=14%  Similarity=0.061  Sum_probs=46.0

Q ss_pred             HHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhh---HHHHHHHHHHcCc
Q 039029           19 GMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTAST---YNLLIHELLMERK   95 (319)
Q Consensus        19 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~   95 (319)
                      +++..|+.+.|++.|.+.... .+..+..||.-.+++.-.|+.++|++-+++.++..-..+...   |..-...|-..|+
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            445556666666666665553 223455666666666666666666666665555421212221   2222223444555


Q ss_pred             hhHHHHHHHHHhhCC
Q 039029           96 MVEADDMLKEMGEKG  110 (319)
Q Consensus        96 ~~~a~~~~~~~~~~~  110 (319)
                      .+.|..=|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            555555555544443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.36  E-value=0.62  Score=40.67  Aligned_cols=111  Identities=16%  Similarity=0.220  Sum_probs=83.0

Q ss_pred             HHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 039029          151 LTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGR  230 (319)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  230 (319)
                      -+.+--+.-+...|+..+|.++-.++.    .||-..|-.-+.+++..+++++.+++-+...      ++.-|.-+..+|
T Consensus       685 lSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c  754 (829)
T KOG2280|consen  685 LSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEAC  754 (829)
T ss_pred             CcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHH
Confidence            344444555667788888888776654    3688888888899999999998776654432      356688899999


Q ss_pred             HcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHH
Q 039029          231 CRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLRE  287 (319)
Q Consensus       231 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  287 (319)
                      .+.|+.++|.+++-+...                +.....+|.+.|++.+|.++.-+
T Consensus       755 ~~~~n~~EA~KYiprv~~----------------l~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  755 LKQGNKDEAKKYIPRVGG----------------LQEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HhcccHHHHhhhhhccCC----------------hHHHHHHHHHhccHHHHHHHHHH
Confidence            999999999999887532                22567888999999888876543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.33  E-value=0.29  Score=36.56  Aligned_cols=195  Identities=16%  Similarity=0.125  Sum_probs=98.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC------hhhHHHHHHHHHHcCchhHHHHHHHHHh----hCCCCCChH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT------ASTYNLLIHELLMERKMVEADDMLKEMG----EKGIVPDSI  116 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~  116 (319)
                      .|.....+|...+++++|...+.+..+.. .-+      ...|...+...-....+.++..++++..    +.| .|++.
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~~y-EnnrslfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~G-spdtA  110 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASKGY-ENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECG-SPDTA  110 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHHH-HhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhC-CcchH
Confidence            44445555666666666666555544210 111      1122222223333444555555555432    222 22322


Q ss_pred             HHHH-HHHHHHhcCChHHHHHHHHHHHHc---C--CCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC----CCCcc-H
Q 039029          117 TYNI-LINGYCRCGNAKKAFSLHDEMIHK---G--IQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK----GMLPD-I  185 (319)
Q Consensus       117 ~~~~-l~~~~~~~~~~~~a~~~~~~~~~~---~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~  185 (319)
                      .... -..-....-++++|+++|++....   +  ...-...+......+.+...+.++-..+.+-...    .--++ -
T Consensus       111 AmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~  190 (308)
T KOG1585|consen  111 AMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQC  190 (308)
T ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHH
Confidence            2110 011123345677777777765442   1  0111234455556667777777766555432211    11112 2


Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHhC---CCCCChhhHHHHHHHHHcCCcHHHHHHHHH
Q 039029          186 VMFNALIDGHCTNGNIERAFSLLKEMDRM---KVHPDEVTYNTLMHGRCRQGKVEEARRLLD  244 (319)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  244 (319)
                      ..|-..+-.|....++..|...++.-.+.   .-+-+..+...|+.+| ..|+.+++..++.
T Consensus       191 k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  191 KAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHHc
Confidence            34555666677778999999999884332   2234566788888887 4678888776653

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.31  E-value=0.3  Score=36.50  Aligned_cols=207  Identities=15%  Similarity=0.053  Sum_probs=105.2

Q ss_pred             hhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 039029           81 STYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVL  160 (319)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (319)
                      ..|.....+|-..+++++|...+.+..+- .+.+...|.       ....++.|--+.+++...  +--...+......|
T Consensus        32 s~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfh-------AAKayEqaamLake~~kl--sEvvdl~eKAs~lY  101 (308)
T KOG1585|consen   32 SLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFH-------AAKAYEQAAMLAKELSKL--SEVVDLYEKASELY  101 (308)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHH-------HHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHH
Confidence            34445555565666666666655554421 121222221       122344455555555442  11234455555566


Q ss_pred             hhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC---C--CCCChhhHHHHHHHHHcCCc
Q 039029          161 SKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM---K--VHPDEVTYNTLMHGRCRQGK  235 (319)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~--~~~~~~~~~~l~~~~~~~g~  235 (319)
                      ...|.++.|-..+++.-+.                ...-+++.|+.++++....   +  .+--...+....+.+.+...
T Consensus       102 ~E~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~k  165 (308)
T KOG1585|consen  102 VECGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEK  165 (308)
T ss_pred             HHhCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHH
Confidence            6666666665555544322                2233445555555543221   0  01112234445566677777


Q ss_pred             HHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCC---CCCChHHHHHHHHHhhhcch
Q 039029          236 VEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKG---ITPDDNTYFSLIEGIASVDK  312 (319)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~  312 (319)
                      +++|...+.+-.......+..  +.--..|-..|-.+....|+..|...+++-.+.+   -.-+..+...|+.+|-. |+
T Consensus       166 f~Eaa~a~lKe~~~~~~~~~y--~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd~-gD  242 (308)
T KOG1585|consen  166 FTEAATAFLKEGVAADKCDAY--NSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYDE-GD  242 (308)
T ss_pred             hhHHHHHHHHhhhHHHHHhhc--ccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhcc-CC
Confidence            887777665543221111110  0011345566667778889999999998855542   12356677788887754 55


Q ss_pred             hhhh
Q 039029          313 AAES  316 (319)
Q Consensus       313 ~~~A  316 (319)
                      .|++
T Consensus       243 ~E~~  246 (308)
T KOG1585|consen  243 IEEI  246 (308)
T ss_pred             HHHH
Confidence            5554

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.29  E-value=0.53  Score=39.16  Aligned_cols=86  Identities=10%  Similarity=0.101  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCC-CChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhh
Q 039029          186 VMFNALIDGHCTNGNIERAFSLLKEMDRMKVH-PDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLT  264 (319)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  264 (319)
                      .+-..+..++.+.|+.++|.+.++++.+.... ........|+..+...+.+.++..++.+.-+.. .|...     ..+
T Consensus       260 y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~-lpkSA-----ti~  333 (539)
T PF04184_consen  260 YAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDIS-LPKSA-----TIC  333 (539)
T ss_pred             hhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcccc-CCchH-----HHH
Confidence            33345666777889999999999988654311 234466778888999999999999888864332 22221     156


Q ss_pred             HHHHHHHHHhcCc
Q 039029          265 YNALIQGLCKNQE  277 (319)
Q Consensus       265 ~~~l~~~~~~~g~  277 (319)
                      |+..+-.+...++
T Consensus       334 YTaALLkaRav~d  346 (539)
T PF04184_consen  334 YTAALLKARAVGD  346 (539)
T ss_pred             HHHHHHHHHhhcc
Confidence            6665544443333

The molecular function of this protein is uncertain.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.27  E-value=0.064  Score=40.78  Aligned_cols=72  Identities=21%  Similarity=0.195  Sum_probs=49.7

Q ss_pred             CchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcC----------------ChHHHHHHHHHHHHcCCCccHHHHHHHH
Q 039029           94 RKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCG----------------NAKKAFSLHDEMIHKGIQPTMLTYTSLI  157 (319)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a~~~~~~~~~~~~~~~~~~~~~l~  157 (319)
                      +.++-....++.|.+.|+.-|..+|+.|++.+-+-.                +-+-++.++++|...|+-||..+-..++
T Consensus        86 ~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lv  165 (406)
T KOG3941|consen   86 THVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILV  165 (406)
T ss_pred             chHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHH
Confidence            344445555666666666666677766666543321                2345788889999999999999988899


Q ss_pred             HHHhhhcc
Q 039029          158 FVLSKQNR  165 (319)
Q Consensus       158 ~~~~~~~~  165 (319)
                      .++.+.+-
T Consensus       166 n~FGr~~~  173 (406)
T KOG3941|consen  166 NAFGRWNF  173 (406)
T ss_pred             HHhccccc
Confidence            88887664

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.27  E-value=0.33  Score=36.58  Aligned_cols=71  Identities=13%  Similarity=0.030  Sum_probs=39.7

Q ss_pred             HHhcCChHHHHHHHHHHHHcCC--CcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHH
Q 039029           55 YCNKGNLEMAFSFRDEMVKQGI--MPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGY  125 (319)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (319)
                      -.+.|++++|.+.|+.+....+  +-...+.-.++.++.+.++++.|+..+++.....+......|..-|.++
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgL  116 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGL  116 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHH
Confidence            3466777777777777765421  1223444555566667777777777777766554333333344334433

>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=96.21  E-value=0.2  Score=33.47  Aligned_cols=66  Identities=14%  Similarity=0.210  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCC
Q 039029          185 IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGI  251 (319)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  251 (319)
                      .......+......|.-++..+++..+.+.+ .+++...-.+..+|.+.|+..++.+++.++.+.|+
T Consensus        86 se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   86 SEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             -HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            3344445555666666666666666655422 45556666666666666666666666666666654

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.21  E-value=0.81  Score=40.55  Aligned_cols=213  Identities=18%  Similarity=0.173  Sum_probs=130.2

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCC--HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPT--AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      ....-+..+.+..-++-|+.+-+.-   +..++  .........-+.+.|++++|...|-+.+.. +.|     ..++.-
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~---~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~k  406 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQ---HLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKK  406 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhc---CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHH
Confidence            3455667777777777777766442   22222  223445555667789999999888776643 122     234555


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      |...........+++.+.+.|.. +...-..|+.+|.+.++.++..+..+... .|..  ..-....+..+.+.+-.++|
T Consensus       407 fLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a  482 (933)
T KOG2114|consen  407 FLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEA  482 (933)
T ss_pred             hcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHH
Confidence            67777788888889999998876 77788889999999999988777766544 2211  11244556666777777777


Q ss_pred             HHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          170 DQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      ..+-.....     +......++   -..+++++|.+.+..+.-..   -..+.+.....+. ...+++...++-+....
T Consensus       483 ~~LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi~slp~~e---~l~~l~kyGk~Ll-~h~P~~t~~ili~~~t~  550 (933)
T KOG2114|consen  483 ELLATKFKK-----HEWVLDILL---EDLHNYEEALRYISSLPISE---LLRTLNKYGKILL-EHDPEETMKILIELITE  550 (933)
T ss_pred             HHHHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcCCHHH---HHHHHHHHHHHHH-hhChHHHHHHHHHHHhh
Confidence            666555433     334444444   34678888888877652110   1112222222222 23556666666555544

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.10  E-value=0.03  Score=29.46  Aligned_cols=39  Identities=28%  Similarity=0.388  Sum_probs=31.7

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCC-ChHHHHHH
Q 039029          263 LTYNALIQGLCKNQEGDLAEELLREMVSKGITP-DDNTYFSL  303 (319)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l  303 (319)
                      .+|..+...|.+.|++++|.++++++++.  .| |...+..+
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~--~P~~~~a~~~L   41 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALAL--DPDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCCHHHHHHh
Confidence            46788999999999999999999999986  45 44455444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.08  E-value=0.52  Score=37.09  Aligned_cols=23  Identities=26%  Similarity=0.417  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHhCCCCCCHHhHHH
Q 039029           28 EASRMLEQMKENGLVPTAVTYNT   50 (319)
Q Consensus        28 ~a~~~~~~~~~~~~~~~~~~~~~   50 (319)
                      +.+.+++.+.+.|...+..+|-+
T Consensus        80 ~~~~~y~~L~~~gFk~~~y~~la  102 (297)
T PF13170_consen   80 EVLDIYEKLKEAGFKRSEYLYLA  102 (297)
T ss_pred             HHHHHHHHHHHhccCccChHHHH
Confidence            34455555555555555444433

>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=96.06  E-value=0.24  Score=33.07  Aligned_cols=61  Identities=18%  Similarity=0.158  Sum_probs=24.6

Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC
Q 039029          154 TSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMK  215 (319)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (319)
                      ...+..+...|.-+...+++..+.+. -.+++...-.+..+|.+.|+..++.+++.++-+.|
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            33344444444444444444444331 22344444444444555555555555554444444

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.03  E-value=0.47  Score=36.35  Aligned_cols=104  Identities=16%  Similarity=0.221  Sum_probs=56.9

Q ss_pred             CChHHHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHH
Q 039029          113 PDSITYNILINGYCRC-----GNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVM  187 (319)
Q Consensus       113 ~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  187 (319)
                      -|-.+|...+..+...     +..+-....++.|.+.|+.-|..+|..|+..+-+..                +.|.. .
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgk----------------fiP~n-v  127 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGK----------------FIPQN-V  127 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccc----------------cccHH-H
Confidence            3566666666655432     445555666677777777777777777776543211                11111 1


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCc
Q 039029          188 FNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGK  235 (319)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  235 (319)
                      +....-.|-  .+-+-+..++++|...|+.||..+-..++.++.+.+-
T Consensus       128 fQ~~F~HYP--~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  128 FQKVFLHYP--QQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHhhCc--hhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            111111111  1223456677777777777777776667776665553

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.00  E-value=0.037  Score=29.10  Aligned_cols=27  Identities=22%  Similarity=0.274  Sum_probs=12.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029          118 YNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      +..+...|...|++++|.++|++..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            334444444444444444444444443

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.91  E-value=0.44  Score=42.07  Aligned_cols=179  Identities=17%  Similarity=0.127  Sum_probs=106.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC--hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT--ASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILING  124 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (319)
                      ....-+..+.+...++.|+.+-+.   .+..++  ..........+.+.|++++|...|-+-... +.|     ..++.-
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~---~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~k  406 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKS---QHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKK  406 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHh---cCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHH
Confidence            344556666677777777766543   222222  223344445566778888888777666543 222     224555


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHH
Q 039029          125 YCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERA  204 (319)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (319)
                      |.......+-..+++.+.+.|+. +...-+.|+.+|.+.++.+...++.+... .|..  ..-....+..+.+.+-.++|
T Consensus       407 fLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a  482 (933)
T KOG2114|consen  407 FLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEA  482 (933)
T ss_pred             hcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHH
Confidence            56666677777778888887753 56666777888888888877776666543 2211  11133455666666777777


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHH
Q 039029          205 FSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQM  246 (319)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  246 (319)
                      ..+-.+...     .......+   +-..+++++|.+++..+
T Consensus       483 ~~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  483 ELLATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcC
Confidence            666554432     22223333   34567888888887764

>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=95.85  E-value=0.65  Score=36.33  Aligned_cols=229  Identities=16%  Similarity=0.077  Sum_probs=126.7

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCcChhhHHHH-------HHHHHHcC-chhHHHHHHHHHhhC--------CCCCC----
Q 039029           55 YCNKGNLEMAFSFRDEMVKQGIMPTASTYNLL-------IHELLMER-KMVEADDMLKEMGEK--------GIVPD----  114 (319)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~----  114 (319)
                      ..+.|+.+.|..++.+........++.....+       .......+ +++.|..++++..+.        ...++    
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            35789999999999988764312222222222       23334556 888888777765432        11222    


Q ss_pred             -hHHHHHHHHHHHhcCChH---HHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHH
Q 039029          115 -SITYNILINGYCRCGNAK---KAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNA  190 (319)
Q Consensus       115 -~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (319)
                       ..++..++.+|...+..+   +|.++++.+... .+..+.++..-+..+.+.++.+.+.+.+.+|+..-.. ....+..
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~-~e~~~~~  160 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDH-SESNFDS  160 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhccc-ccchHHH
Confidence             245667788888887765   455566666444 2333566666677777789999999999999987322 2233444


Q ss_pred             HHHHH---hcCCcHHHHHHHHHHHHhCCCCCChh-hHHHHH--HHH--HcCC------cHHHHHHHHHHHHHcCCCCCCc
Q 039029          191 LIDGH---CTNGNIERAFSLLKEMDRMKVHPDEV-TYNTLM--HGR--CRQG------KVEEARRLLDQMKRRGIKPDHI  256 (319)
Q Consensus       191 l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~--~~~--~~~g------~~~~a~~~~~~~~~~~~~~~~~  256 (319)
                      .+..+   .... ...+...+..+......|... ....++  ..+  .+.+      ..+....+++.+.+....|-..
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            44443   3333 345555665554444444443 111111  111  1211      1455555566444332222221


Q ss_pred             ccCcchhhHHHH----HHHHHhcCchhHHHHHHHHHH
Q 039029          257 SFNPTRLTYNAL----IQGLCKNQEGDLAEELLREMV  289 (319)
Q Consensus       257 ~~~~~~~~~~~l----~~~~~~~g~~~~A~~~~~~~~  289 (319)
                         +...+..++    +..+.+.++++.|.+.|+-..
T Consensus       240 ---~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  240 ---EAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             ---HHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence               111222233    233567899999999988544

It is also involved in sporulation [].

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.74  E-value=0.23  Score=38.23  Aligned_cols=80  Identities=14%  Similarity=0.108  Sum_probs=61.2

Q ss_pred             ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhh-----CCCCccHHHH
Q 039029          114 DSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLA-----KGMLPDIVMF  188 (319)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  188 (319)
                      -..++..++..+...|+++.+...++++.... +-+...|..++.+|.+.|+...|+..|+++.+     .|+.|...+.
T Consensus       152 ~~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~  230 (280)
T COG3629         152 FIKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELR  230 (280)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHH
Confidence            34567777888888888888888888888774 56777888888888888888888888877665     3777777777


Q ss_pred             HHHHHH
Q 039029          189 NALIDG  194 (319)
Q Consensus       189 ~~l~~~  194 (319)
                      ......
T Consensus       231 ~~y~~~  236 (280)
T COG3629         231 ALYEEI  236 (280)
T ss_pred             HHHHHH
Confidence            666665

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.73  E-value=0.029  Score=28.00  Aligned_cols=27  Identities=15%  Similarity=0.082  Sum_probs=23.1

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          264 TYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       264 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      +|..|...|.+.|++++|++++++.+.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            478899999999999999999999654

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.65  E-value=0.91  Score=36.59  Aligned_cols=248  Identities=15%  Similarity=0.176  Sum_probs=146.3

Q ss_pred             HHHHHHHHHh--cCChHHHHHHHHHHHHcCCCcChhhHHHHHH--HHHHcCchhHHHHHHHHHhhCCCCCChHH--HHHH
Q 039029           48 YNTLIDGYCN--KGNLEMAFSFRDEMVKQGIMPTASTYNLLIH--ELLMERKMVEADDMLKEMGEKGIVPDSIT--YNIL  121 (319)
Q Consensus        48 ~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l  121 (319)
                      |..|-.++.-  .|+-..|.++-.+..+. +..|......++.  .-.-.|+++.|.+-|+.|...   |....  ...|
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgL  160 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGL  160 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHH
Confidence            4444444433  46666776666554422 1223333444443  344579999999999999864   22222  2333


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC-CCccHH--HHHHHHHHHh--
Q 039029          122 INGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG-MLPDIV--MFNALIDGHC--  196 (319)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~--~~~~l~~~~~--  196 (319)
                      .-...+.|+.+.|..+-+.....- +--.......+...+..|+++.|+++++.-.... +.++..  .-..|+.+-.  
T Consensus       161 yleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s  239 (531)
T COG3898         161 YLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMS  239 (531)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHH
Confidence            444467788999988888877652 3345678888899999999999999998765542 233321  2223333211  


Q ss_pred             -cCCcHHHHHHHHHHHHhCCCCCChhh-HHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHh
Q 039029          197 -TNGNIERAFSLLKEMDRMKVHPDEVT-YNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCK  274 (319)
Q Consensus       197 -~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  274 (319)
                       -.-+...|.+.-.+..+  +.||..- -..-..++.+.|+..++-.+++.+-+...+|+.             ...|.+
T Consensus       240 ~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~i-------------a~lY~~  304 (531)
T COG3898         240 LLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDI-------------ALLYVR  304 (531)
T ss_pred             HhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHH-------------HHHHHH
Confidence             12356666666666555  3566443 233457889999999999999999886555432             233444


Q ss_pred             cCchhHHHHHHHHHHhC-CCCC-ChHHHHHHHHHhhhcchhhh
Q 039029          275 NQEGDLAEELLREMVSK-GITP-DDNTYFSLIEGIASVDKAAE  315 (319)
Q Consensus       275 ~g~~~~A~~~~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~~  315 (319)
                      ...-+.++.-+++.... .++| +......+.++-...|++..
T Consensus       305 ar~gdta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~  347 (531)
T COG3898         305 ARSGDTALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSA  347 (531)
T ss_pred             hcCCCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHH
Confidence            44444455555544432 2344 34445555555555555543

>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=95.59  E-value=0.51  Score=33.31  Aligned_cols=135  Identities=12%  Similarity=0.135  Sum_probs=74.0

Q ss_pred             HHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhC
Q 039029           30 SRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEK  109 (319)
Q Consensus        30 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (319)
                      .+.+..+.+.+++|+...+..++..+.+.|++.....++    ..++-+|.......+-.+  .+....+.++=-.|...
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qll----q~~Vi~DSk~lA~~LLs~--~~~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLL----QYHVIPDSKPLACQLLSL--GNQYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH----hhcccCCcHHHHHHHHHh--HccChHHHHHHHHHHHH
Confidence            445555666778888888888888888888766554444    334444444443333222  12223333333333322


Q ss_pred             CCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhh
Q 039029          110 GIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLA  178 (319)
Q Consensus       110 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (319)
                          =...+..+++.+...|++-+|+++.+.....    +......++.+..+.++...-..+++....
T Consensus        88 ----L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   88 ----LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             ----hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                0113455667777888888888877665322    112224455666666666655555555444

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.59  E-value=0.37  Score=32.15  Aligned_cols=91  Identities=12%  Similarity=0.014  Sum_probs=51.8

Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH---HHHHHHHHHHhhhcc
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTM---LTYTSLIFVLSKQNR  165 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~  165 (319)
                      ++...|+.+.|++.|.+....-++ ....||.-..++.-.|+.++|++=+++..+..-+-+.   ..|..-...|...|+
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 ALAEAGDLDGALELFGQALCLAPE-RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhccc-chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            345566777777777666655333 5666676666776677777776666666654211111   223333344555666


Q ss_pred             HHHHHHHHHHHhhCC
Q 039029          166 MIEADQLFENFLAKG  180 (319)
Q Consensus       166 ~~~a~~~~~~~~~~~  180 (319)
                      .+.|..-|+..-+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            666666666555544

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.55  E-value=0.47  Score=32.59  Aligned_cols=41  Identities=12%  Similarity=0.156  Sum_probs=18.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHH
Q 039029           51 LIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLM   92 (319)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (319)
                      ++..+...+.......+++.+...+. .+...++.++..|++
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~   53 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHH
Confidence            33344444444444444444444431 334444444444443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.53  E-value=1.4  Score=38.03  Aligned_cols=209  Identities=16%  Similarity=0.188  Sum_probs=114.6

Q ss_pred             HHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHH-----HHHHHHHHcCchhHHHHH
Q 039029           28 EASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYN-----LLIHELLMERKMVEADDM  102 (319)
Q Consensus        28 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~  102 (319)
                      +.+.-+++++++|-.|+..   .+...|+-.|++.+|-++|.+--..+  .-.+.|+     .+.+-+...|..++-..+
T Consensus       618 ~li~EL~~~k~rge~P~~i---LlA~~~Ay~gKF~EAAklFk~~G~en--RAlEmyTDlRMFD~aQE~~~~g~~~eKKmL  692 (1081)
T KOG1538|consen  618 ELISELEERKKRGETPNDL---LLADVFAYQGKFHEAAKLFKRSGHEN--RALEMYTDLRMFDYAQEFLGSGDPKEKKML  692 (1081)
T ss_pred             HHHHHHHHHHhcCCCchHH---HHHHHHHhhhhHHHHHHHHHHcCchh--hHHHHHHHHHHHHHHHHHhhcCChHHHHHH
Confidence            3334445566677667664   34455677888888888886532221  0111111     112223334444433333


Q ss_pred             HHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHH------HHHcCC---CccHHHHHHHHHHHhhhccHHHHHHHH
Q 039029          103 LKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDE------MIHKGI---QPTMLTYTSLIFVLSKQNRMIEADQLF  173 (319)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~------~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~  173 (319)
                      .++-.+..  -+..--.+....+...|+.++|..+.-+      +.+-+.   ..+..+...+..-+.+...+..|-++|
T Consensus       693 ~RKRA~WA--r~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF  770 (1081)
T KOG1538|consen  693 IRKRADWA--RNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIF  770 (1081)
T ss_pred             HHHHHHHh--hhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHH
Confidence            33222110  0111112334556677877777665421      112111   123344445445555666777788888


Q ss_pred             HHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChh-----------hHHHHHHHHHcCCcHHHHHHH
Q 039029          174 ENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEV-----------TYNTLMHGRCRQGKVEEARRL  242 (319)
Q Consensus       174 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----------~~~~l~~~~~~~g~~~~a~~~  242 (319)
                      ..+-+.         ..++......++|++|..+-+...+.  .||+.           -|...-.+|.+.|+-.+|..+
T Consensus       771 ~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~v  839 (1081)
T KOG1538|consen  771 LKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQV  839 (1081)
T ss_pred             HHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHH
Confidence            776432         34667788899999999998877654  33332           133344678888999999999


Q ss_pred             HHHHHHcCCCCC
Q 039029          243 LDQMKRRGIKPD  254 (319)
Q Consensus       243 ~~~~~~~~~~~~  254 (319)
                      ++++....+..+
T Consensus       840 LeQLtnnav~E~  851 (1081)
T KOG1538|consen  840 LEQLTNNAVAES  851 (1081)
T ss_pred             HHHhhhhhhhhh
Confidence            988876544433

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.45  E-value=0.4  Score=37.25  Aligned_cols=98  Identities=20%  Similarity=0.171  Sum_probs=52.8

Q ss_pred             ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC---CCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHH
Q 039029          114 DSITYNILINGYCRCGNAKKAFSLHDEMIHKG---IQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNA  190 (319)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (319)
                      ...+...++..-....+++.+...+-++...-   ..|+. +-..+++.+. .-++..++.++..=+..|+-||-.+++.
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~~c~  140 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFTFCL  140 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHHH-ccChHHHHHHHhCcchhccccchhhHHH
Confidence            34444444544445556666666666554321   11111 1122222222 2344566666666666677777777777


Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHh
Q 039029          191 LIDGHCTNGNIERAFSLLKEMDR  213 (319)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~  213 (319)
                      +++.+.+.+++..|..+...|..
T Consensus       141 l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  141 LMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHH
Confidence            77777777777776666666544

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.41  E-value=0.05  Score=27.11  Aligned_cols=27  Identities=26%  Similarity=0.186  Sum_probs=21.2

Q ss_pred             hHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 039029          222 TYNTLMHGRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       222 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  248 (319)
                      ++..|...|.+.|++++|.+++++.+.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            367788889999999999999988553

>PRK11906 transcriptional regulator; Provisional

Probab=95.39  E-value=1.3  Score=36.71  Aligned_cols=145  Identities=14%  Similarity=0.078  Sum_probs=87.6

Q ss_pred             hhHHHHHHHHHhhC-CCCC-ChHHHHHHHHHHHh---------cCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhc
Q 039029           96 MVEADDMLKEMGEK-GIVP-DSITYNILINGYCR---------CGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQN  164 (319)
Q Consensus        96 ~~~a~~~~~~~~~~-~~~~-~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (319)
                      .+.|..+|.+.... ...| ....|..+..++..         ..+..+|.+.-+...+.+ +.|......+..+..-.+
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhc
Confidence            45677777777721 1222 24444444333322         123456667777777765 567777777777777778


Q ss_pred             cHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChh---hHHHHHHHHHcCCcHHHHHH
Q 039029          165 RMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEV---TYNTLMHGRCRQGKVEEARR  241 (319)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~a~~  241 (319)
                      +++.+...|++....++. ...+|........-.|+.++|.+.+++..+.  .|...   .....+..|+.. ..+.|.+
T Consensus       353 ~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~~~~~~~~~~~~~~~-~~~~~~~  428 (458)
T PRK11906        353 QAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRKAVVIKECVDMYVPN-PLKNNIK  428 (458)
T ss_pred             chhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhHHHHHHHHHHHHcCC-chhhhHH
Confidence            888888888888876433 3455555555566788888888888886664  33322   222233355443 4666666


Q ss_pred             HHHH
Q 039029          242 LLDQ  245 (319)
Q Consensus       242 ~~~~  245 (319)
                      ++-+
T Consensus       429 ~~~~  432 (458)
T PRK11906        429 LYYK  432 (458)
T ss_pred             HHhh
Confidence            6644

>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=95.38  E-value=0.0022  Score=44.33  Aligned_cols=84  Identities=15%  Similarity=0.181  Sum_probs=52.7

Q ss_pred             HHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCc
Q 039029          156 LIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGK  235 (319)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  235 (319)
                      ++..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++..       +..-...++..|.+.|.
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            34555566677777777777776555556777777778887777666666666521       11233456677777777


Q ss_pred             HHHHHHHHHHH
Q 039029          236 VEEARRLLDQM  246 (319)
Q Consensus       236 ~~~a~~~~~~~  246 (319)
                      ++++..++.++
T Consensus        86 ~~~a~~Ly~~~   96 (143)
T PF00637_consen   86 YEEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHc
Confidence            77777777664

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.34  E-value=0.36  Score=37.24  Aligned_cols=81  Identities=14%  Similarity=0.118  Sum_probs=69.7

Q ss_pred             HHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHh-----CCCCCChhhHH
Q 039029          150 MLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDR-----MKVHPDEVTYN  224 (319)
Q Consensus       150 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  224 (319)
                      ..++..++..+...|+.+.+...++++....+. +...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            457888889999999999999999999988654 788999999999999999999999998744     68889988888


Q ss_pred             HHHHHHH
Q 039029          225 TLMHGRC  231 (319)
Q Consensus       225 ~l~~~~~  231 (319)
                      .......
T Consensus       232 ~y~~~~~  238 (280)
T COG3629         232 LYEEILR  238 (280)
T ss_pred             HHHHHhc
Confidence            7777743

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.26  E-value=1.4  Score=36.31  Aligned_cols=145  Identities=16%  Similarity=0.295  Sum_probs=95.3

Q ss_pred             hhHHHHHHHHHHcCchhHHHHHHHHHhhCC-CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 039029           81 STYNLLIHELLMERKMVEADDMLKEMGEKG-IVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFV  159 (319)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (319)
                      .+|...+....+..-.+.|..+|-+..+.+ +.+++..+++++..++ .|+..-|..+|+--... ++.+...-...+..
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~-f~d~~~y~~kyl~f  475 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK-FPDSTLYKEKYLLF  475 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh-CCCchHHHHHHHHH
Confidence            345556666666777888888888888877 5667777888887665 47778888888765554 23333444455566


Q ss_pred             HhhhccHHHHHHHHHHHhhCCCCcc--HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 039029          160 LSKQNRMIEADQLFENFLAKGMLPD--IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGR  230 (319)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  230 (319)
                      +...++-..|..+|+..+.. +..+  ...|..++..-...|+...+..+-+++.+.  .|-..+...+..-|
T Consensus       476 Li~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry  545 (660)
T COG5107         476 LIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRY  545 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHH
Confidence            67778888888888855433 1112  457888888878888888777777777653  34443333343333

>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=95.18  E-value=0.79  Score=32.98  Aligned_cols=96  Identities=15%  Similarity=0.015  Sum_probs=46.9

Q ss_pred             HHHHHHHHHhhhccHHHHHHHHHHHhhCCCCcc--HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCC-hhhHH--H-
Q 039029          152 TYTSLIFVLSKQNRMIEADQLFENFLAKGMLPD--IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPD-EVTYN--T-  225 (319)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~--~-  225 (319)
                      .+..+...|.+.|+.+.|.+.|.++.+....+.  ...+..+++.....+++..+...+.++...-..+. ...-+  . 
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            344555555566666666666665555433322  23344455555555666655555555433211111 11111  1 


Q ss_pred             -HHHHHHcCCcHHHHHHHHHHHH
Q 039029          226 -LMHGRCRQGKVEEARRLLDQMK  247 (319)
Q Consensus       226 -l~~~~~~~g~~~~a~~~~~~~~  247 (319)
                       -.-.+...|++..|.+.|-...
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHccC
Confidence             1122345677888777776654

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.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.14  E-value=1.4  Score=35.71  Aligned_cols=55  Identities=16%  Similarity=0.242  Sum_probs=34.7

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ   74 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (319)
                      .+.+.-+.|+|+...+........  .++...+..+...  ..++++++...++.....
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~   58 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQL   58 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHHH
Confidence            356777889998855555544432  1344445544433  788888888887777653

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.08  E-value=1  Score=33.63  Aligned_cols=224  Identities=21%  Similarity=0.103  Sum_probs=156.4

Q ss_pred             CChHHHHHHHHHHHhCCCCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCcChhhHHHHHHHHHHcCchhHHHH
Q 039029           24 GRLEEASRMLEQMKENGLVP-TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ-GIMPTASTYNLLIHELLMERKMVEADD  101 (319)
Q Consensus        24 ~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (319)
                      +....+...+.......... ....+......+...+.+..+...+...... ........+......+...+....+..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            45566666666665543221 3567777888888899999999888887752 224455667777777888888999999


Q ss_pred             HHHHHhhCCCCCChHHHHHHHH-HHHhcCChHHHHHHHHHHHHcCC--CccHHHHHHHHHHHhhhccHHHHHHHHHHHhh
Q 039029          102 MLKEMGEKGIVPDSITYNILIN-GYCRCGNAKKAFSLHDEMIHKGI--QPTMLTYTSLIFVLSKQNRMIEADQLFENFLA  178 (319)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (319)
                      .+.........+ ......... .+...|+++.+...+.+......  ......+......+...++.+.+...+.....
T Consensus       117 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  195 (291)
T COG0457         117 LLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK  195 (291)
T ss_pred             HHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh
Confidence            999988754442 222333333 78899999999999999865321  12334444444456778899999999998887


Q ss_pred             CCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          179 KGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPD-EVTYNTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       179 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      .........+..+...+...++++.+...+.......  |+ ...+..+...+...+..+.+...+.+.....
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (291)
T COG0457         196 LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELD--PDNAEALYNLALLLLELGRYEEALEALEKALELD  266 (291)
T ss_pred             hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhC--cccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            6332135677788888888889999999999887753  33 3444555555557777999999998887753

>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=95.05  E-value=0.76  Score=32.08  Aligned_cols=86  Identities=19%  Similarity=0.193  Sum_probs=41.1

Q ss_pred             hhhccHHHHHHHHHHHhhCCCC-ccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHH
Q 039029          161 SKQNRMIEADQLFENFLAKGML-PDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEA  239 (319)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  239 (319)
                      .+.++.+++..++..+.-..+. |...++.  ...+...|++.+|..+|+++.+..  |....-..|+..|....+-..-
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~--~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~D~~W   96 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFD--GWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALGDPSW   96 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHH--HHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcCChHH
Confidence            3455666666666665544221 1122222  233456667777777777765532  3333334444444443333333


Q ss_pred             HHHHHHHHHcC
Q 039029          240 RRLLDQMKRRG  250 (319)
Q Consensus       240 ~~~~~~~~~~~  250 (319)
                      ..+-.++.+.+
T Consensus        97 r~~A~evle~~  107 (160)
T PF09613_consen   97 RRYADEVLESG  107 (160)
T ss_pred             HHHHHHHHhcC
Confidence            33344444443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.04  E-value=1.3  Score=34.90  Aligned_cols=160  Identities=13%  Similarity=0.011  Sum_probs=112.7

Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc---CCCccHHHHHHHHHHHhhhccH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK---GIQPTMLTYTSLIFVLSKQNRM  166 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~  166 (319)
                      ....|++.+|-..++++.+.-+ .|...+...=.+|.-.|+...-...++++...   ++|-.+..-....-++...|-+
T Consensus       113 ~~~~g~~h~a~~~wdklL~d~P-tDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  113 LWGRGKHHEAAIEWDKLLDDYP-TDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hhccccccHHHHHHHHHHHhCc-hhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            3456888888888999988644 48888888888999999999988888888765   3333334444455566789999


Q ss_pred             HHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCC---hhhHHHHHHHHHcCCcHHHHHHHH
Q 039029          167 IEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPD---EVTYNTLMHGRCRQGKVEEARRLL  243 (319)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~  243 (319)
                      ++|++.-++..+.+.. |...-.+........|++.++.++..+-...=-..+   ..-|-...-.+...+.++.|+++|
T Consensus       192 ~dAEk~A~ralqiN~~-D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  192 DDAEKQADRALQINRF-DCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             hhHHHHHHhhccCCCc-chHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            9999999988877543 666667777788888999999988776543210000   112233344456678999999999


Q ss_pred             HHHHHcCC
Q 039029          244 DQMKRRGI  251 (319)
Q Consensus       244 ~~~~~~~~  251 (319)
                      ++-+-...
T Consensus       271 D~ei~k~l  278 (491)
T KOG2610|consen  271 DREIWKRL  278 (491)
T ss_pred             HHHHHHHh
Confidence            87544333

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.00  E-value=0.93  Score=35.37  Aligned_cols=104  Identities=21%  Similarity=0.254  Sum_probs=74.7

Q ss_pred             CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcC---CCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChH
Q 039029           40 GLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQG---IMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSI  116 (319)
Q Consensus        40 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  116 (319)
                      |.+.++.+...++..-....+++.++..+-.++...   ..|+...+ ..++.+. .-++++++.++..=++.|+-||..
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlll-ky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHH-ccChHHHHHHHhCcchhccccchh
Confidence            444455556666666666778888988887776541   22222222 2233332 346778998888888999999999


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 039029          117 TYNILINGYCRCGNAKKAFSLHDEMIHKG  145 (319)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (319)
                      +++.+|+.+.+.+++.+|.++.-.|..+.
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            99999999999999999999888887764

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.87  E-value=3.3  Score=38.57  Aligned_cols=114  Identities=19%  Similarity=0.170  Sum_probs=63.2

Q ss_pred             CccHHHHHHHH----HHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChh-
Q 039029          147 QPTMLTYTSLI----FVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEV-  221 (319)
Q Consensus       147 ~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-  221 (319)
                      .|+...+..+.    ..+.....+++|.-.|+..-+         ....+.+|..+|+|.+|..+..++...   .+.. 
T Consensus       932 ~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~  999 (1265)
T KOG1920|consen  932 KPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEG---KDELV  999 (1265)
T ss_pred             ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCC---HHHHH
Confidence            34544444333    334455566666655554322         223466677778888887777766431   1222 


Q ss_pred             -hHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHH
Q 039029          222 -TYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLRE  287 (319)
Q Consensus       222 -~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  287 (319)
                       +-..|+.-+...+++-+|.++..+....               ....+..|++...|++|.++...
T Consensus      1000 ~~a~~L~s~L~e~~kh~eAa~il~e~~sd---------------~~~av~ll~ka~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1000 ILAEELVSRLVEQRKHYEAAKILLEYLSD---------------PEEAVALLCKAKEWEEALRVASK 1051 (1265)
T ss_pred             HHHHHHHHHHHHcccchhHHHHHHHHhcC---------------HHHHHHHHhhHhHHHHHHHHHHh
Confidence             2255667777788888887777776542               12334445555556666555443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.87  E-value=0.79  Score=31.32  Aligned_cols=82  Identities=12%  Similarity=-0.004  Sum_probs=60.1

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHH
Q 039029           46 VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGI--MPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILIN  123 (319)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (319)
                      ..+-.-.....+.|++++|.+.|+.+...-+  +-...+-..++.++.+.+++++|...++++++..+...-..|...+.
T Consensus        11 ~~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~   90 (142)
T PF13512_consen   11 QELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMR   90 (142)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHH
Confidence            3344445556789999999999999988721  22345667788999999999999999999998866544455555555


Q ss_pred             HHHh
Q 039029          124 GYCR  127 (319)
Q Consensus       124 ~~~~  127 (319)
                      +++.
T Consensus        91 gL~~   94 (142)
T PF13512_consen   91 GLSY   94 (142)
T ss_pred             HHHH
Confidence            5443

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.82  E-value=1.4  Score=34.06  Aligned_cols=138  Identities=9%  Similarity=0.075  Sum_probs=79.3

Q ss_pred             cCChHHHHHHHHHHHH-cCCCcChhhHHHHHHHHHH-cC-chhHHHHHHHHHhh-CCCCCChHHHHHHHHHHHhcCChHH
Q 039029           58 KGNLEMAFSFRDEMVK-QGIMPTASTYNLLIHELLM-ER-KMVEADDMLKEMGE-KGIVPDSITYNILINGYCRCGNAKK  133 (319)
Q Consensus        58 ~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~  133 (319)
                      .....+|+++|+..-. ..+-.|..+...+++.... .+ ....-.++.+-+.. .+..++..+...++..++..++|.+
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNK  220 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHH
Confidence            3345566666663222 2233466666666666554 22 12222233333322 2345566777777788888888888


Q ss_pred             HHHHHHHHHHc-CCCccHHHHHHHHHHHhhhccHHHHHHHHHH-----HhhCCCCccHHHHHHHHHHH
Q 039029          134 AFSLHDEMIHK-GIQPTMLTYTSLIFVLSKQNRMIEADQLFEN-----FLAKGMLPDIVMFNALIDGH  195 (319)
Q Consensus       134 a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~l~~~~  195 (319)
                      ..++++..... +...|...|..+++.....|+..-..++..+     +.+.++..+...-.++-+.+
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            88877776655 4455667788888888888887776666653     23345555555544444443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.57  E-value=1.1  Score=31.69  Aligned_cols=139  Identities=12%  Similarity=0.059  Sum_probs=83.7

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChh-hHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChH-HHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTAS-TYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSI-TYNIL  121 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l  121 (319)
                      +...|...++. .+.+..++|+.-|..+.+.|...-+. ............|+...|...|+++-.....|-.. -...|
T Consensus        58 sgd~flaAL~l-A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          58 SGDAFLAALKL-AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             chHHHHHHHHH-HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            44455555543 45667778888888877765442111 11222334566778888888888876654444332 11112


Q ss_pred             --HHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCc
Q 039029          122 --INGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLP  183 (319)
Q Consensus       122 --~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  183 (319)
                        .-.+...|.++++..-.+.+...+-+.....-..|.-+-.+.|++..|.+.|..+......|
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              22345677788877777776665544445556666667777888888888888776653333

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.44  E-value=0.11  Score=25.33  Aligned_cols=29  Identities=14%  Similarity=0.051  Sum_probs=25.6

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          263 LTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      .+|..+..+|...|++++|+..|++.++.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            47889999999999999999999999874

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 ....

>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=94.34  E-value=1.2  Score=31.13  Aligned_cols=20  Identities=15%  Similarity=0.267  Sum_probs=10.0

Q ss_pred             HHhcCChHHHHHHHHHHHHc
Q 039029           55 YCNKGNLEMAFSFRDEMVKQ   74 (319)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~   74 (319)
                      +...|++.+|..+|+++...
T Consensus        54 ~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   54 HIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HHHhCCHHHHHHHHHHHhcc
Confidence            34455555555555554433

>PRK11906 transcriptional regulator; Provisional

Probab=94.23  E-value=2.8  Score=34.91  Aligned_cols=162  Identities=17%  Similarity=0.137  Sum_probs=106.9

Q ss_pred             HhH--HHHHHHHHhcC-----ChHHHHHHHHHHHHc-CCCcC-hhhHHHHHHHHHH---------cCchhHHHHHHHHHh
Q 039029           46 VTY--NTLIDGYCNKG-----NLEMAFSFRDEMVKQ-GIMPT-ASTYNLLIHELLM---------ERKMVEADDMLKEMG  107 (319)
Q Consensus        46 ~~~--~~l~~~~~~~~-----~~~~a~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~  107 (319)
                      ..|  ..++++.....     ..+.|+.+|.+.... ...|+ ...|..+..++..         ..+..+|.+.-+...
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            455  55666555422     356788889998832 12333 4555555544432         223556777777778


Q ss_pred             hCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCcc-HH
Q 039029          108 EKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPD-IV  186 (319)
Q Consensus       108 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~  186 (319)
                      +.+.. |+.....+..+....++++.+...|++....+ |....++......+.-.|+.++|.+.+++..+..+.-- ..
T Consensus       332 eld~~-Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~  409 (458)
T PRK11906        332 DITTV-DGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAV  409 (458)
T ss_pred             hcCCC-CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHH
Confidence            77655 88888888888888899999999999998874 44456676666777788999999999999777632211 22


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHH
Q 039029          187 MFNALIDGHCTNGNIERAFSLLKE  210 (319)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~  210 (319)
                      .....+..|+.++ .+.+..++-+
T Consensus       410 ~~~~~~~~~~~~~-~~~~~~~~~~  432 (458)
T PRK11906        410 VIKECVDMYVPNP-LKNNIKLYYK  432 (458)
T ss_pred             HHHHHHHHHcCCc-hhhhHHHHhh
Confidence            2333444666554 5667776654

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.22  E-value=2.7  Score=34.77  Aligned_cols=146  Identities=15%  Similarity=0.188  Sum_probs=101.2

Q ss_pred             HHHHHHHHHHHhhhccHHHHHHHHHHHhhCC-CCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhH-HHHH
Q 039029          150 MLTYTSLIFVLSKQNRMIEADQLFENFLAKG-MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTY-NTLM  227 (319)
Q Consensus       150 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~  227 (319)
                      ..+|...+....+..-++.|..+|-++.+.+ ..+++..+++++..++ .|+..-|..+|+--...  -||...| +..+
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  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            3566777777778888899999999998887 5567788888888765 56777888888864432  3454444 4566


Q ss_pred             HHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHH
Q 039029          228 HGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEG  306 (319)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  306 (319)
                      ..+...++-+.|..+|+..+..- ..+.     -...|..++.--..-|+...+..+=++|...  -|-..+......-
T Consensus       474 ~fLi~inde~naraLFetsv~r~-~~~q-----~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sr  544 (660)
T COG5107         474 LFLIRINDEENARALFETSVERL-EKTQ-----LKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSR  544 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHH-HHhh-----hhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHH
Confidence            67778889999999998554321 1010     0157888888888889998888888888764  4444443333333

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.19  E-value=0.094  Score=25.72  Aligned_cols=21  Identities=33%  Similarity=0.449  Sum_probs=10.5

Q ss_pred             ChHHHHHHHHHHHhcCChHHH
Q 039029          114 DSITYNILINGYCRCGNAKKA  134 (319)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a  134 (319)
                      +...|+.+...|...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            444555555555555555444

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.13  E-value=1.4  Score=31.19  Aligned_cols=139  Identities=14%  Similarity=0.143  Sum_probs=95.3

Q ss_pred             ChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChH-HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHH-HHHHH
Q 039029           79 TASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSI-TYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTML-TYTSL  156 (319)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l  156 (319)
                      +...|...+. +.+.+..++|+.-|..+.+.|...-+. ............|+...|...|+++-.....|-.. -...+
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            4445555444 457788999999999998876552222 22233456778899999999999987754333322 12222


Q ss_pred             --HHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCC
Q 039029          157 --IFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHP  218 (319)
Q Consensus       157 --~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  218 (319)
                        .-.+...|.++....-.+-+-..+-+.-...-..|.-+-.+.|++.+|...|..+......|
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              23456789999998888877766555455566677778889999999999999987643333

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.07  E-value=2.4  Score=33.51  Aligned_cols=138  Identities=14%  Similarity=0.173  Sum_probs=82.4

Q ss_pred             hhHHHHHHHHHhhCCCCCChHHHHHHHHHHHh--cC----ChHHHHHHHHHHHHcCC---CccHHHHHHHHHHHhhhcc-
Q 039029           96 MVEADDMLKEMGEKGIVPDSITYNILINGYCR--CG----NAKKAFSLHDEMIHKGI---QPTMLTYTSLIFVLSKQNR-  165 (319)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~-  165 (319)
                      ++....+++.+.+.|+.-+..+|-+.......  ..    ...++..+|+.|.+...   .++...+..++..  ..++ 
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            34556677888888887777666553333332  22    24568888888887631   2333455555433  2233 


Q ss_pred             ---HHHHHHHHHHHhhCCCCcc--HHHHHHHHHHHhcCCc--HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCc
Q 039029          166 ---MIEADQLFENFLAKGMLPD--IVMFNALIDGHCTNGN--IERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGK  235 (319)
Q Consensus       166 ---~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  235 (319)
                         .+.++.+|+.+.+.|+..+  ....+.++..+.....  ..++.++++.+.+.++++....|..+.-...-.+.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~  232 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDP  232 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCc
Confidence               3456777777777666544  3344444444333332  44788888999998988887777766554443333

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.06  E-value=1.8  Score=32.18  Aligned_cols=224  Identities=20%  Similarity=0.071  Sum_probs=158.6

Q ss_pred             cCChHHHHHHHHHHHHcCCC-cChhhHHHHHHHHHHcCchhHHHHHHHHHhhC-CCCCChHHHHHHHHHHHhcCChHHHH
Q 039029           58 KGNLEMAFSFRDEMVKQGIM-PTASTYNLLIHELLMERKMVEADDMLKEMGEK-GIVPDSITYNILINGYCRCGNAKKAF  135 (319)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~  135 (319)
                      .+....+...+......... .....+......+...+.+..+...+...... ........+......+...+++..+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            45566666666666655322 13566777788888899999999888887752 23346667777888888889999999


Q ss_pred             HHHHHHHHcCCCccHHHHHHHHH-HHhhhccHHHHHHHHHHHhhCCC--CccHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 039029          136 SLHDEMIHKGIQPTMLTYTSLIF-VLSKQNRMIEADQLFENFLAKGM--LPDIVMFNALIDGHCTNGNIERAFSLLKEMD  212 (319)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (319)
                      ..+.........+ ......... .+...|+++.+...+.+......  ......+......+...++.+.+...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            9999988754332 222333333 78899999999999999866322  1233444444555677889999999999988


Q ss_pred             hCCCCC-ChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          213 RMKVHP-DEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       213 ~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      ... .. ....+..+...+...++++.+...+.........  .      ...+..+...+...+..+.+...+.+....
T Consensus       195 ~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~--~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         195 KLN-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD--N------AEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             hhC-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc--c------HHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            753 23 3667788888899999999999999998875322  1      134455555555777899999999888775

>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=94.00  E-value=1.5  Score=31.03  Aligned_cols=26  Identities=23%  Similarity=0.360  Sum_probs=12.2

Q ss_pred             HHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           71 MVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        71 ~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      +.+.+++|+...+..++..+.+.|++
T Consensus        20 l~~~~i~~~~~L~~lli~lLi~~~~~   45 (167)
T PF07035_consen   20 LNQHNIPVQHELYELLIDLLIRNGQF   45 (167)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHHcCCH
Confidence            33344444444444555555444443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.81  E-value=1  Score=28.53  Aligned_cols=60  Identities=12%  Similarity=0.223  Sum_probs=35.1

Q ss_pred             HHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 039029          168 EADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMH  228 (319)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (319)
                      +..+-++.+......|++.+..+.+++|.+.+++..|.++|+.++..- .+....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHHH
Confidence            455566666666777777777777777777777777777777765431 222225555443

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 ....

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.71  E-value=0.18  Score=25.77  Aligned_cols=28  Identities=25%  Similarity=0.196  Sum_probs=24.7

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          263 LTYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      .+++.+...|...|++++|..++++...
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            5789999999999999999999999876

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.58  E-value=0.22  Score=24.04  Aligned_cols=29  Identities=14%  Similarity=0.013  Sum_probs=25.0

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          263 LTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      ..|..+...+...|++++|++.+++.++.
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            46778899999999999999999999875

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 ....

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.49  E-value=4  Score=34.29  Aligned_cols=62  Identities=19%  Similarity=0.192  Sum_probs=34.8

Q ss_pred             HHHHHHHHHhhhccHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHhcCCcHHHHHHHHHHHHh
Q 039029          152 TYTSLIFVLSKQNRMIEADQLFENFLAKGMLP-DIVMFNALIDGHCTNGNIERAFSLLKEMDR  213 (319)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (319)
                      +-..+..++-+.|+.++|.+.+.++.+..... .......|+.++...+.+.++..++.+..+
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            33444455556666666666666666543221 223445566666666666666666666543

The molecular function of this protein is uncertain.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=93.40  E-value=2.4  Score=31.37  Aligned_cols=177  Identities=15%  Similarity=0.003  Sum_probs=99.0

Q ss_pred             hHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHH
Q 039029           61 LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDE  140 (319)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  140 (319)
                      +.-|.--|.+..... |.-+.+||.+.-.+...|+++.|.+.|+...+..+.-+-...|.-+ ++.-.|+++-|.+=+.+
T Consensus        81 ~~LAR~DftQaLai~-P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~d~~~  158 (297)
T COG4785          81 RALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQDDLLA  158 (297)
T ss_pred             HHHHhhhhhhhhhcC-CCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHHHHHH
Confidence            333333344444332 2235678888888889999999999999998875443322333222 23345788888877777


Q ss_pred             HHHcCCCccH--HHHHHHHHHHhhhccHHHHHH-HHHHHhhCCCCccHHHHHHHH-HHHhcCCcHHHHHHHHHHHHhCCC
Q 039029          141 MIHKGIQPTM--LTYTSLIFVLSKQNRMIEADQ-LFENFLAKGMLPDIVMFNALI-DGHCTNGNIERAFSLLKEMDRMKV  216 (319)
Q Consensus       141 ~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~  216 (319)
                      .-+.+ +.|+  ..|.-+.   .+.-++.+|.. +.++....    |..-|...+ ..|.  |++. ...+++++....-
T Consensus       159 fYQ~D-~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~yL--gkiS-~e~l~~~~~a~a~  227 (297)
T COG4785         159 FYQDD-PNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFYL--GKIS-EETLMERLKADAT  227 (297)
T ss_pred             HHhcC-CCChHHHHHHHHH---HhhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHHH--hhcc-HHHHHHHHHhhcc
Confidence            66653 2222  2222222   23334555544 33444433    444444333 2222  2221 1233444433211


Q ss_pred             C------CChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          217 H------PDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       217 ~------~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      .      .=..+|-.+...+...|+.++|..+|+-.+..+
T Consensus       228 ~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         228 DNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             chHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            0      113467778888999999999999999988764

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.36  E-value=0.13  Score=25.26  Aligned_cols=21  Identities=43%  Similarity=0.621  Sum_probs=10.8

Q ss_pred             CHHhHHHHHHHHHhcCChHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMA   64 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a   64 (319)
                      +..+|+.+...+...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            444555555555555555544

>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=93.34  E-value=1.6  Score=31.81  Aligned_cols=81  Identities=15%  Similarity=0.059  Sum_probs=46.3

Q ss_pred             hcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhc
Q 039029          196 CTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKN  275 (319)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  275 (319)
                      .+.|+ +.|.+.|-.+...+.--++.....|...|. ..+.+++..++.++.+.. .++.   .+|+..+..|+..+.+.
T Consensus       118 sr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~-~~~~---~~n~eil~sLas~~~~~  191 (203)
T PF11207_consen  118 SRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELS-NPDD---NFNPEILKSLASIYQKL  191 (203)
T ss_pred             hccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhc-CCCC---CCCHHHHHHHHHHHHHh
Confidence            44454 446666666665554444444444444444 456777777777766643 2221   24556677777777777


Q ss_pred             CchhHHH
Q 039029          276 QEGDLAE  282 (319)
Q Consensus       276 g~~~~A~  282 (319)
                      |+++.|-
T Consensus       192 ~~~e~AY  198 (203)
T PF11207_consen  192 KNYEQAY  198 (203)
T ss_pred             cchhhhh
Confidence            7776653

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.30  E-value=0.28  Score=23.66  Aligned_cols=28  Identities=18%  Similarity=0.201  Sum_probs=17.5

Q ss_pred             hHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          222 TYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       222 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      .+..+...+...|++++|.+.|++.++.
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            3455666666777777777777766653

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 ....

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=93.26  E-value=0.2  Score=26.30  Aligned_cols=26  Identities=27%  Similarity=0.380  Sum_probs=23.5

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCC
Q 039029          267 ALIQGLCKNQEGDLAEELLREMVSKG  292 (319)
Q Consensus       267 ~l~~~~~~~g~~~~A~~~~~~~~~~~  292 (319)
                      .+..+|...|+.+.|.+++++....|
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            47889999999999999999999764

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.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=93.23  E-value=2.2  Score=32.80  Aligned_cols=91  Identities=10%  Similarity=-0.033  Sum_probs=54.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHH-
Q 039029           48 YNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYC-  126 (319)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-  126 (319)
                      ...-|++++..+++.+++.+.-+.-+.--+....+...-|-.|.+.+++..+.++-.......-.-+...|..++..|. 
T Consensus        86 cvvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl  165 (309)
T PF07163_consen   86 CVVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLL  165 (309)
T ss_pred             hhhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHH
Confidence            3445677788888887776655554432122233444455567788888877777776665422223334655554443 


Q ss_pred             ----hcCChHHHHHHH
Q 039029          127 ----RCGNAKKAFSLH  138 (319)
Q Consensus       127 ----~~~~~~~a~~~~  138 (319)
                          -.|.+++|.++.
T Consensus       166 ~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  166 HVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHhccccHHHHHHHH
Confidence                458888887776

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

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.09  E-value=0.4  Score=23.20  Aligned_cols=27  Identities=22%  Similarity=0.460  Sum_probs=13.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVK   73 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~   73 (319)
                      +|..+..++...|++++|+..|++.++
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            344445555555555555555555444

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 ....

>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=92.90  E-value=2.1  Score=31.25  Aligned_cols=79  Identities=15%  Similarity=0.041  Sum_probs=52.1

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC---CCCccHHHHHHHHHHHhcCCcH
Q 039029          125 YCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK---GMLPDIVMFNALIDGHCTNGNI  201 (319)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~  201 (319)
                      +.+.|+ +.|.+.|-.+...+.--++.....+...|. ..+.+++..++.+..+.   +-.+|+..+..|...+.+.|++
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-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            444444 567777777776664445555555555554 56677777777776654   3356778888888888888888


Q ss_pred             HHHH
Q 039029          202 ERAF  205 (319)
Q Consensus       202 ~~a~  205 (319)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            7764

>PRK09687 putative lyase; Provisional

Probab=92.82  E-value=3.8  Score=32.12  Aligned_cols=235  Identities=13%  Similarity=0.045  Sum_probs=148.1

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch----hHHHHHHHHHhhCCCCCChHHH
Q 039029           43 PTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM----VEADDMLKEMGEKGIVPDSITY  118 (319)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~  118 (319)
                      ++..+....+..+...|.. .+...+..+...   ++...-...+.++...|+.    .++...+..+...  .++..+-
T Consensus        35 ~d~~vR~~A~~aL~~~~~~-~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR  108 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQ-DVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVR  108 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcc-hHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHH
Confidence            5666777777777777653 344444444433   3556666677777777764    4577777776443  2465666


Q ss_pred             HHHHHHHHhcCCh-----HHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHH
Q 039029          119 NILINGYCRCGNA-----KKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALID  193 (319)
Q Consensus       119 ~~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (319)
                      ...+.++...+..     ..+...+.....   .++..+-...+.++.+.++. .+...+-.+.+.   ++..+-...+.
T Consensus       109 ~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~~-~ai~~L~~~L~d---~~~~VR~~A~~  181 (280)
T PRK09687        109 ASAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVINDE-AAIPLLINLLKD---PNGDVRNWAAF  181 (280)
T ss_pred             HHHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCCH-HHHHHHHHHhcC---CCHHHHHHHHH
Confidence            5566666555421     233344333332   34667777778888888774 566666666653   35555555566


Q ss_pred             HHhcCC-cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHH
Q 039029          194 GHCTNG-NIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGL  272 (319)
Q Consensus       194 ~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  272 (319)
                      ++.+.+ +.+.+...+..+..   .++..+-...+.++.+.|+ ..+...+-...+.+.            .....+.++
T Consensus       182 aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~~------------~~~~a~~AL  245 (280)
T PRK09687        182 ALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKKGT------------VGDLIIEAA  245 (280)
T ss_pred             HHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcCCc------------hHHHHHHHH
Confidence            666543 24456666666664   4577777888888888888 456666666655431            234678888


Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhh
Q 039029          273 CKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIAS  309 (319)
Q Consensus       273 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  309 (319)
                      ...|+. +|...+..+...  .||..+-...+.+|.+
T Consensus       246 g~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~~  279 (280)
T PRK09687        246 GELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLKR  279 (280)
T ss_pred             HhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHhc
Confidence            888886 688888888874  4688887777777654

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=92.80  E-value=1.5  Score=27.53  Aligned_cols=49  Identities=14%  Similarity=0.151  Sum_probs=33.3

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039029           25 RLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVK   73 (319)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   73 (319)
                      +.-++.+-++.+......|++.+..+.+++|.+.+++..|.++++-++.
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3445566666666666677777777777777777777777777776653

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.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=92.52  E-value=3.3  Score=30.67  Aligned_cols=187  Identities=14%  Similarity=0.015  Sum_probs=106.0

Q ss_pred             cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHH
Q 039029           93 ERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQL  172 (319)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (319)
                      .|-+.-|.-=|.+.....+. -+.+||-+.--+...|+++.|.+.|+...+.+.. ...+...-.-++.-.|++.-|.+-
T Consensus        78 lGL~~LAR~DftQaLai~P~-m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~-y~Ya~lNRgi~~YY~gR~~LAq~d  155 (297)
T COG4785          78 LGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRYKLAQDD  155 (297)
T ss_pred             hhHHHHHhhhhhhhhhcCCC-cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCc-chHHHhccceeeeecCchHhhHHH
Confidence            34455555555555544333 4678888888889999999999999999887522 223333323334456888888776


Q ss_pred             HHHHhhCCCC-ccHHHHHHHHHHHhcCCcHHHHHHHH-HHHHhCCCCCChhhHHHHHH-HHHcCCcHHHHHHHHHHHHHc
Q 039029          173 FENFLAKGML-PDIVMFNALIDGHCTNGNIERAFSLL-KEMDRMKVHPDEVTYNTLMH-GRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       173 ~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~-~~~~~~~~~~~~~~~~~l~~-~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      +...-..+.. |-...|.-+..   ..-++.+|..-+ ++...    .|..-|...+- .|...=..+   .+++++...
T Consensus       156 ~~~fYQ~D~~DPfR~LWLYl~E---~k~dP~~A~tnL~qR~~~----~d~e~WG~~iV~~yLgkiS~e---~l~~~~~a~  225 (297)
T COG4785         156 LLAFYQDDPNDPFRSLWLYLNE---QKLDPKQAKTNLKQRAEK----SDKEQWGWNIVEFYLGKISEE---TLMERLKAD  225 (297)
T ss_pred             HHHHHhcCCCChHHHHHHHHHH---hhCCHHHHHHHHHHHHHh----ccHhhhhHHHHHHHHhhccHH---HHHHHHHhh
Confidence            6666555332 22333433332   334566665443 34443    34455554443 333222222   223333221


Q ss_pred             CCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCC
Q 039029          250 GIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKG  292 (319)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  292 (319)
                      . ..+..--..-..||--+...+...|+.++|..+|+-.+..+
T Consensus       226 a-~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         226 A-TDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             c-cchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            1 10000000112578888999999999999999999888753

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.40  E-value=0.48  Score=24.13  Aligned_cols=28  Identities=29%  Similarity=0.388  Sum_probs=16.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039029          116 ITYNILINGYCRCGNAKKAFSLHDEMIH  143 (319)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (319)
                      .+++.+...|...|++++|..++++...
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            3555666666666666666666665543

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.36  E-value=3.8  Score=35.31  Aligned_cols=99  Identities=19%  Similarity=0.101  Sum_probs=57.8

Q ss_pred             hhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHH
Q 039029          161 SKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR  240 (319)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  240 (319)
                      .+.|+++.|.++..+..      +..-|..|.++....+++..|.+.|.+..+         |..|+-.+...|+-+...
T Consensus       648 l~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~  712 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLA  712 (794)
T ss_pred             hhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHH
Confidence            35666777666654432      455677777777777777777777766554         234555555566655555


Q ss_pred             HHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHH
Q 039029          241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLRE  287 (319)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  287 (319)
                      .+-....+.|.             .|...-+|...|+++++.+++..
T Consensus       713 ~la~~~~~~g~-------------~N~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  713 VLASLAKKQGK-------------NNLAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHHHHhhcc-------------cchHHHHHHHcCCHHHHHHHHHh
Confidence            55555544442             23334455566666666666543

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=92.34  E-value=2.6  Score=35.19  Aligned_cols=90  Identities=14%  Similarity=0.073  Sum_probs=48.0

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHH
Q 039029          123 NGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIE  202 (319)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (319)
                      ..+...|+++.+...+...... +.....+...+++...+.|++++|...-.-|....+. ++.............|-++
T Consensus       331 ~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d  408 (831)
T PRK15180        331 VIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFD  408 (831)
T ss_pred             HHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHH
Confidence            3455566666666666554433 2234445566666666666666666666666555443 3333333333333445566


Q ss_pred             HHHHHHHHHHhC
Q 039029          203 RAFSLLKEMDRM  214 (319)
Q Consensus       203 ~a~~~~~~~~~~  214 (319)
                      ++...|+++...
T Consensus       409 ~~~~~wk~~~~~  420 (831)
T PRK15180        409 KSYHYWKRVLLL  420 (831)
T ss_pred             HHHHHHHHHhcc
Confidence            666666655443

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=92.32  E-value=6.1  Score=33.24  Aligned_cols=294  Identities=13%  Similarity=0.084  Sum_probs=151.9

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHH--HHHHHHHHHHcCCCc----------
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEM--AFSFRDEMVKQGIMP----------   78 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--a~~~~~~~~~~~~~~----------   78 (319)
                      .........-...+.++..+++++.+...|.......++.....|.+.|....  -++-+..+...-..|          
T Consensus        18 ~~l~~~a~~~f~~~~~d~cl~~l~~l~t~~~~~~~v~~n~av~~~~kt~~tq~~~ll~el~aL~~~~~~~~~~~~gld~~   97 (696)
T KOG2471|consen   18 YSLLCQAHEQFNNSEFDRCLELLQELETRGESSGPVLHNRAVVSYYKTGCTQHSVLLKELEALTADADAPGDVSSGLSLK   97 (696)
T ss_pred             HHHHHHHHhccCCcchHHHHHHHHHHHhccccccceeeehhhHHHHhcccchhHHHHHHHHHHHHhhccccchhcchhhh
Confidence            33333344445678899999999999998877777778887878888775432  222233332211111          


Q ss_pred             -ChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCCh-----HHHHHHHHHHHhcCChHHHHHHH---HHHHHcC----
Q 039029           79 -TASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDS-----ITYNILINGYCRCGNAKKAFSLH---DEMIHKG----  145 (319)
Q Consensus        79 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~---~~~~~~~----  145 (319)
                       ....+......|.....+..|.++...+... .+|=.     .........+......++|+.++   .++...+    
T Consensus        98 ~~t~~~yn~aVi~yh~~~~g~a~~~~~~lv~r-~e~le~~~aa~v~~l~~~l~~~t~q~e~al~~l~vL~~~~~~~~~~~  176 (696)
T KOG2471|consen   98 QGTVMDYNFAVIFYHHEENGSAMQLSSNLVSR-TESLESSSAASVTLLSDLLAAETSQCEEALDYLNVLAEIEAEKRMKL  176 (696)
T ss_pred             cchHHhhhhheeeeeHhhcchHHHhhhhHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence             1112222222334445556666555444332 01000     01111223344444555555544   4443321    


Q ss_pred             -------------CCccHHHHHHH------------HHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHH-HHHHhcCC
Q 039029          146 -------------IQPTMLTYTSL------------IFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNAL-IDGHCTNG  199 (319)
Q Consensus       146 -------------~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~  199 (319)
                                   .+|....-..+            +.++....++..+..-.+.....  .-|...+..| -..+.-.|
T Consensus       177 ~gn~~~~nn~~kt~s~~aAe~s~~~a~~k~~~~~ykVr~llq~~~Lk~~krevK~vmn~--a~~s~~~l~LKsq~eY~~g  254 (696)
T KOG2471|consen  177 VGNHIPANNLLKTLSPSAAERSFSTADLKLELQLYKVRFLLQTRNLKLAKREVKHVMNI--AQDSSMALLLKSQLEYAHG  254 (696)
T ss_pred             cccccchhhhcccCCcchhcccchhhccchhhhHhhHHHHHHHHHHHHHHHhhhhhhhh--cCCCcHHHHHHHHHHHHhc
Confidence                         01111111111            12222222222222222211111  1122112211 23345679


Q ss_pred             cHHHHHHHHHHHHh---CCCCCC-----hhhHHHHHHHHHcCCcHHHHHHHHHHHHH-------cCCCCCCcc-c--Cc-
Q 039029          200 NIERAFSLLKEMDR---MKVHPD-----EVTYNTLMHGRCRQGKVEEARRLLDQMKR-------RGIKPDHIS-F--NP-  260 (319)
Q Consensus       200 ~~~~a~~~~~~~~~---~~~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-------~~~~~~~~~-~--~~-  260 (319)
                      ++.+|.+++...--   .|...+     -..||.|.....+.|.+..+..+|.++++       .|++|.... .  +. 
T Consensus       255 n~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tls~nks  334 (696)
T KOG2471|consen  255 NHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTLSQNKS  334 (696)
T ss_pred             chHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceehhcccc
Confidence            99999998876522   121111     22346777777788888888888877764       465554321 1  11 


Q ss_pred             chhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhh
Q 039029          261 TRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIAS  309 (319)
Q Consensus       261 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  309 (319)
                      -..+|| ..-.|...|++-.|.+.|.+.... +.-++..|..+.++|..
T Consensus       335 ~eilYN-cG~~~Lh~grPl~AfqCf~~av~v-fh~nPrlWLRlAEcCim  381 (696)
T KOG2471|consen  335 MEILYN-CGLLYLHSGRPLLAFQCFQKAVHV-FHRNPRLWLRLAECCIM  381 (696)
T ss_pred             hhhHHh-hhHHHHhcCCcHHHHHHHHHHHHH-HhcCcHHHHHHHHHHHH
Confidence            112333 345688999999999999999875 67799999999999853

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=92.12  E-value=0.3  Score=23.32  Aligned_cols=27  Identities=19%  Similarity=0.198  Sum_probs=23.2

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          265 YNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       265 ~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      +-.+..++.+.|++++|.+.|+++++.
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            445777888999999999999999875

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=91.84  E-value=2.2  Score=31.54  Aligned_cols=77  Identities=19%  Similarity=0.162  Sum_probs=49.2

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCcChhhHHHHHHH
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQG--IMPTASTYNLLIHE   89 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~   89 (319)
                      |.+..++.+.+.+++.+++.+.++-.+.++ .+...-..+++.++-.|++++|..-++-.-+..  ..+-..+|..++++
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakP-tda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKP-TDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCC-ccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            345566777778888888887777666543 255566777788888888888876666554432  12334455555544

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.59  E-value=4  Score=29.64  Aligned_cols=92  Identities=14%  Similarity=0.118  Sum_probs=47.0

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHH
Q 039029          192 IDGHCTNGNIERAFSLLKEMDRMKVHPD--EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALI  269 (319)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  269 (319)
                      ...+...+++++|..-++.........+  ...-..|.+.....|.+++|+..++.....+..+         .....-.
T Consensus        96 Ak~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~---------~~~elrG  166 (207)
T COG2976          96 AKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWAA---------IVAELRG  166 (207)
T ss_pred             HHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHHH---------HHHHHhh
Confidence            3445566666666666665543210000  1112234455556666666666666655432211         1122334


Q ss_pred             HHHHhcCchhHHHHHHHHHHhCC
Q 039029          270 QGLCKNQEGDLAEELLREMVSKG  292 (319)
Q Consensus       270 ~~~~~~g~~~~A~~~~~~~~~~~  292 (319)
                      +.+...|+-++|+.-|+..+..+
T Consensus       167 Dill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         167 DILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             hHHHHcCchHHHHHHHHHHHHcc
Confidence            55666677777777776666653

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.47  E-value=3.4  Score=28.53  Aligned_cols=20  Identities=25%  Similarity=0.336  Sum_probs=9.6

Q ss_pred             HHHcCchhHHHHHHHHHhhC
Q 039029           90 LLMERKMVEADDMLKEMGEK  109 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~  109 (319)
                      +...|++.+|.++|+++.+.
T Consensus        54 ~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        54 LIARGNYDEAARILRELLSS   73 (153)
T ss_pred             HHHcCCHHHHHHHHHhhhcc
Confidence            33445555555555554443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.47  E-value=2.5  Score=26.94  Aligned_cols=47  Identities=15%  Similarity=0.222  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           28 EASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ   74 (319)
Q Consensus        28 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (319)
                      +..+-++.+......|++.+..+.+++|.+.+++..|.++++-++..
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            45555666666666677777777777777777777777777666544

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 ....

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=91.38  E-value=13  Score=35.08  Aligned_cols=86  Identities=17%  Similarity=0.189  Sum_probs=53.7

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHH
Q 039029          188 FNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNA  267 (319)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  267 (319)
                      |.+....+.....+++|.-.|+..-+         ..--+.+|...|+|.+|+.+..++....   +..     ..+-..
T Consensus       942 ~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~~---de~-----~~~a~~ 1004 (1265)
T KOG1920|consen  942 YEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEGK---DEL-----VILAEE 1004 (1265)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCCH---HHH-----HHHHHH
Confidence            33344444555667777766665433         1345677888888888888887764311   110     011256


Q ss_pred             HHHHHHhcCchhHHHHHHHHHHh
Q 039029          268 LIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       268 l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      |+.-+...++.-+|-++..+..+
T Consensus      1005 L~s~L~e~~kh~eAa~il~e~~s 1027 (1265)
T KOG1920|consen 1005 LVSRLVEQRKHYEAAKILLEYLS 1027 (1265)
T ss_pred             HHHHHHHcccchhHHHHHHHHhc
Confidence            77778888888888888877765

>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=91.33  E-value=0.086  Score=36.40  Aligned_cols=54  Identities=17%  Similarity=0.175  Sum_probs=29.6

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHH
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRD   69 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   69 (319)
                      ++..+.+.+.+......++.+...+...+....+.++..|++.++.++..++++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            455555556666666666666654444455556666666666655555555544

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=91.29  E-value=7.7  Score=32.32  Aligned_cols=138  Identities=8%  Similarity=0.049  Sum_probs=84.3

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCcChh------hHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHH--HHHH
Q 039029           55 YCNKGNLEMAFSFRDEMVKQGIMPTAS------TYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILI--NGYC  126 (319)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~  126 (319)
                      +-+.+++.++.++|.++.+.. ..+..      .-+.++.+|.. .+.+.....+..+.+...  . ..|-.+.  -.+.
T Consensus        16 Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~~--~-s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQFG--K-SAYLPLFKALVAY   90 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhcC--C-chHHHHHHHHHHH
Confidence            446789999999999887652 11212      23455666653 455666666666655422  1 1233332  2345


Q ss_pred             hcCChHHHHHHHHHHHHc--CCC------------ccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC----CCccHHHH
Q 039029          127 RCGNAKKAFSLHDEMIHK--GIQ------------PTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG----MLPDIVMF  188 (319)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~--~~~------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~  188 (319)
                      +.+++.+|.+.+..-.+.  +..            +|-..-+..+.++...|++.++..+++++...-    ..-+..+|
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            778899999888776654  211            122223445667788999999999998887652    33678888


Q ss_pred             HHHHHHHhc
Q 039029          189 NALIDGHCT  197 (319)
Q Consensus       189 ~~l~~~~~~  197 (319)
                      +.++-.+++
T Consensus       171 d~~vlmlsr  179 (549)
T PF07079_consen  171 DRAVLMLSR  179 (549)
T ss_pred             HHHHHHHhH
Confidence            875555443

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=91.26  E-value=8  Score=32.48  Aligned_cols=124  Identities=15%  Similarity=0.109  Sum_probs=73.7

Q ss_pred             HHHhccCChHHHHH-HHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           18 SGMCKEGRLEEASR-MLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        18 ~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      .-....|+.-.|-+ ++.-+....-.|+..  ..........|+++.+...+...... +.....+...+++...+.|++
T Consensus       297 ~k~~~~gd~~aas~~~~~~lr~~~~~p~~i--~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~  373 (831)
T PRK15180        297 TKQLADGDIIAASQQLFAALRNQQQDPVLI--QLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARW  373 (831)
T ss_pred             HHHhhccCHHHHHHHHHHHHHhCCCCchhh--HHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhH
Confidence            33344566555543 333333332223332  22333455678888887777665443 233556677777888888888


Q ss_pred             hHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 039029           97 VEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKG  145 (319)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (319)
                      ++|...-.-|....++ ++..........-..|-++++...++++...+
T Consensus       374 ~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        374 REALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             HHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            8888888777776665 55555444444555666777777777776543

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=91.05  E-value=5.2  Score=30.91  Aligned_cols=90  Identities=10%  Similarity=0.064  Sum_probs=64.4

Q ss_pred             HHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHH---
Q 039029           84 NLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVL---  160 (319)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---  160 (319)
                      ..=|++++..++|.++..+.-+.-+.--+..+......|-.|.+.+++..+.++-..-.+..-.-+...|..++..|   
T Consensus        87 vvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~  166 (309)
T PF07163_consen   87 VVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLH  166 (309)
T ss_pred             hhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHH
Confidence            34478899999999999877766554333445666777778999999999999888777642122233466666555   


Q ss_pred             --hhhccHHHHHHHH
Q 039029          161 --SKQNRMIEADQLF  173 (319)
Q Consensus       161 --~~~~~~~~a~~~~  173 (319)
                        .-.|.+++|+++.
T Consensus       167 VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  167 VLLPLGHFSEAEELV  181 (309)
T ss_pred             HHhccccHHHHHHHH
Confidence              4579999999887

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

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.93  E-value=5.5  Score=29.96  Aligned_cols=59  Identities=10%  Similarity=0.216  Sum_probs=31.9

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHH---HHH---HHHcCCcHHHHHHHHHHHHHc
Q 039029          191 LIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNT---LMH---GRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---l~~---~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      ....-...+++.+|..+|+++....+..+..-|..   ++.   .+.-..+.-.+...+++..+.
T Consensus       160 vA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~~  224 (288)
T KOG1586|consen  160 VAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQEL  224 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHhc
Confidence            33444566788999999998866544333322221   111   112234555566666666553

>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=90.89  E-value=0.78  Score=22.08  Aligned_cols=29  Identities=14%  Similarity=-0.003  Sum_probs=25.6

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          263 LTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      .+|..+...|...|++++|.+.|++..+.
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            46788899999999999999999998864

...

>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=90.72  E-value=0.91  Score=21.82  Aligned_cols=28  Identities=21%  Similarity=0.176  Sum_probs=22.2

Q ss_pred             hHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          222 TYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       222 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      +|..+...|...|++++|...|++..+.
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            5667778888888888888888887763

...

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=90.51  E-value=13  Score=33.76  Aligned_cols=265  Identities=15%  Similarity=0.113  Sum_probs=139.4

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhC---------------CCCCCHHhHH----HHH--HHHHhcCChHHHHHHHHHHHHc
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKEN---------------GLVPTAVTYN----TLI--DGYCNKGNLEMAFSFRDEMVKQ   74 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~----~l~--~~~~~~~~~~~a~~~~~~~~~~   74 (319)
                      -|...++.|+++.|-.++++....               .+ |+....+    .++  -......++.+|..++.++...
T Consensus       366 AI~hAlaA~d~~~aa~lle~~~~~L~~~~~lsll~~~~~~l-P~~~l~~~P~Lvll~aW~~~s~~r~~ea~~li~~l~~~  444 (894)
T COG2909         366 AIDHALAAGDPEMAADLLEQLEWQLFNGSELSLLLAWLKAL-PAELLASTPRLVLLQAWLLASQHRLAEAETLIARLEHF  444 (894)
T ss_pred             HHHHHHhCCCHHHHHHHHHhhhhhhhcccchHHHHHHHHhC-CHHHHhhCchHHHHHHHHHHHccChHHHHHHHHHHHHH
Confidence            344556677888887777765211               11 1111111    122  2344567899999998888765


Q ss_pred             CCCcChh-------hHHHH-HHHHHHcCchhHHHHHHHHHhhC----CCCCChHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 039029           75 GIMPTAS-------TYNLL-IHELLMERKMVEADDMLKEMGEK----GIVPDSITYNILINGYCRCGNAKKAFSLHDEMI  142 (319)
Q Consensus        75 ~~~~~~~-------~~~~l-~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (319)
                      -..|+..       .++.+ .......|+++++.++.+.....    ...+....+..+..+..-.|++++|..+..+..
T Consensus       445 l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~  524 (894)
T COG2909         445 LKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAAHIRGELTQALALMQQAE  524 (894)
T ss_pred             hCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHHHHhchHHHHHHHHHHHH
Confidence            3232222       22222 12234568888888887776543    233456677778888888999999999988776


Q ss_pred             HcCCCccHHHHHHH-----HHHHhhhccH--HHHHHHHHHHhhC--CCC----ccHHHHHHHHHHHhcCCcHHHHHHHHH
Q 039029          143 HKGIQPTMLTYTSL-----IFVLSKQNRM--IEADQLFENFLAK--GML----PDIVMFNALIDGHCTNGNIERAFSLLK  209 (319)
Q Consensus       143 ~~~~~~~~~~~~~l-----~~~~~~~~~~--~~a~~~~~~~~~~--~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (319)
                      +..-.-+...+..+     ...+...|+.  .+....+......  .-.    +-..+...++.++.+   .+.+..-..
T Consensus       525 ~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~ll~~~~r---~~~~~~ear  601 (894)
T COG2909         525 QMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQLLRAWLR---LDLAEAEAR  601 (894)
T ss_pred             HHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHHHHHHHH---HhhhhHHhh
Confidence            64222233332222     2335556633  2333333332221  001    123445555555555   222222222


Q ss_pred             HH----HhCCCCCChh--hHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHH--HHHhcCchhHH
Q 039029          210 EM----DRMKVHPDEV--TYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQ--GLCKNQEGDLA  281 (319)
Q Consensus       210 ~~----~~~~~~~~~~--~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~A  281 (319)
                      .-    ......|-..  .+..|+......|+.++|...++++......+...   ++..+-...+.  .-...|+.+.+
T Consensus       602 ~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~---~~~~a~~~~v~~~lwl~qg~~~~a  678 (894)
T COG2909         602 LGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYH---VDYLAAAYKVKLILWLAQGDKELA  678 (894)
T ss_pred             hcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCC---chHHHHHHHhhHHHhcccCCHHHH
Confidence            11    1111111111  12357788889999999999999987765444311   11111112222  23456777777


Q ss_pred             HHHHHH
Q 039029          282 EELLRE  287 (319)
Q Consensus       282 ~~~~~~  287 (319)
                      .....+
T Consensus       679 ~~~l~~  684 (894)
T COG2909         679 AEWLLK  684 (894)
T ss_pred             HHHHHh
Confidence            666555

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.46  E-value=8.3  Score=31.29  Aligned_cols=69  Identities=14%  Similarity=0.122  Sum_probs=49.9

Q ss_pred             CChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          218 PDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       218 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      ....+|..++..+.+.|.++.|...+.++...+......    .+...-.-+......|+.++|+..+++...
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~----~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESL----LPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCC----CcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345678888899999999999999999887754222210    123445556777788999999988888877

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=89.88  E-value=0.56  Score=21.18  Aligned_cols=23  Identities=39%  Similarity=0.397  Sum_probs=18.9

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHH
Q 039029          264 TYNALIQGLCKNQEGDLAEELLR  286 (319)
Q Consensus       264 ~~~~l~~~~~~~g~~~~A~~~~~  286 (319)
                      ....+..++...|++++|..+++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHh
Confidence            45677888999999999998875

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

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.82  E-value=3.5  Score=25.98  Aligned_cols=45  Identities=13%  Similarity=0.265  Sum_probs=27.8

Q ss_pred             HHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 039029          168 EADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMD  212 (319)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (319)
                      ++.+-++.+......|++....+.+++|.+.+|+.-|.++|+.++
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            445555555555666666666666666666666666666666554

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=89.58  E-value=2.3  Score=33.75  Aligned_cols=89  Identities=15%  Similarity=0.006  Sum_probs=48.2

Q ss_pred             HHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHH
Q 039029          158 FVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVE  237 (319)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  237 (319)
                      .-|.++|.+++|+..|...+..... +..++..-..+|.+...+..|+.=.......+ ..-...|..-+.+-...|...
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~P~-NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVYPH-NPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccCCC-CccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHH
Confidence            4567777777777777766554221 56666666667777777776666655554432 111222333333333344455


Q ss_pred             HHHHHHHHHHH
Q 039029          238 EARRLLDQMKR  248 (319)
Q Consensus       238 ~a~~~~~~~~~  248 (319)
                      +|.+=++.+++
T Consensus       183 EAKkD~E~vL~  193 (536)
T KOG4648|consen  183 EAKKDCETVLA  193 (536)
T ss_pred             HHHHhHHHHHh
Confidence            55555554444

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.43  E-value=6.6  Score=28.59  Aligned_cols=131  Identities=11%  Similarity=0.080  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHH--HHHHHHhhhccHHHHHHHHHHHhhCCCCcc--HHHHHHH
Q 039029          116 ITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYT--SLIFVLSKQNRMIEADQLFENFLAKGMLPD--IVMFNAL  191 (319)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l  191 (319)
                      ..|..++.... .+.. +.....+++....-...-.++.  .+...+...+++++|...++.........+  ..+--.|
T Consensus        55 ~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRL  132 (207)
T COG2976          55 AQYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRL  132 (207)
T ss_pred             HHHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHH
Confidence            34445554443 2333 4445555555542111111222  223557788889999888887775421111  1222335


Q ss_pred             HHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          192 IDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      .+.....|.+++|..+++...+.+  ........-.+.+...|+-++|..-|...+..+
T Consensus       133 Arvq~q~~k~D~AL~~L~t~~~~~--w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         133 ARVQLQQKKADAALKTLDTIKEES--WAAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHhhhHHHHHHHHhcccccc--HHHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            566677888999998888776543  123334445677888899999999999888865

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.24  E-value=7  Score=28.65  Aligned_cols=90  Identities=14%  Similarity=0.040  Sum_probs=41.7

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCccH-----HHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhc
Q 039029          123 NGYCRCGNAKKAFSLHDEMIHKGIQPTM-----LTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCT  197 (319)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (319)
                      .-+++.|++++|..-|...+..- ++..     ..|..-..++.+.+.++.|+.-..+.++.+.. .......-..+|.+
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek  180 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEK  180 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHh
Confidence            33555666666666666655541 2211     22333334445555555555555555544321 11222222334555


Q ss_pred             CCcHHHHHHHHHHHHhC
Q 039029          198 NGNIERAFSLLKEMDRM  214 (319)
Q Consensus       198 ~~~~~~a~~~~~~~~~~  214 (319)
                      ...++.|++=|..+.+.
T Consensus       181 ~ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILES  197 (271)
T ss_pred             hhhHHHHHHHHHHHHHh
Confidence            55555555555555543

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=88.96  E-value=5.8  Score=27.35  Aligned_cols=99  Identities=12%  Similarity=0.110  Sum_probs=62.9

Q ss_pred             HHHHhCCCCCCHH--hHHHHHHHHHhcCChHHHHHHHHHHHHcC-----CCcChhhHHHHHHHHHHcCc-hhHHHHHHHH
Q 039029           34 EQMKENGLVPTAV--TYNTLIDGYCNKGNLEMAFSFRDEMVKQG-----IMPTASTYNLLIHELLMERK-MVEADDMLKE  105 (319)
Q Consensus        34 ~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~  105 (319)
                      ..|.+.+..++..  ..+.++.-....+++.....+++.+....     -..+...|..++.+..+..- ---+..+|.-
T Consensus        26 ~y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~  105 (145)
T PF13762_consen   26 PYMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNF  105 (145)
T ss_pred             HHhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHH
Confidence            3344444444432  34666666666777777777776664321     12356678888888765555 4456677777


Q ss_pred             HhhCCCCCChHHHHHHHHHHHhcCChH
Q 039029          106 MGEKGIVPDSITYNILINGYCRCGNAK  132 (319)
Q Consensus       106 ~~~~~~~~~~~~~~~l~~~~~~~~~~~  132 (319)
                      +.+.+.+++..-|..++.++.+....+
T Consensus       106 Lk~~~~~~t~~dy~~li~~~l~g~~~~  132 (145)
T PF13762_consen  106 LKKNDIEFTPSDYSCLIKAALRGYFHD  132 (145)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHcCCCCc
Confidence            777777888888888888877654433

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=88.89  E-value=7.5  Score=28.52  Aligned_cols=91  Identities=14%  Similarity=0.057  Sum_probs=63.9

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCcC----hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcC
Q 039029           54 GYCNKGNLEMAFSFRDEMVKQGIMPT----ASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCG  129 (319)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  129 (319)
                      -+...|++++|..-|.+.+..-....    ...|..-..++.+.+.++.|+.-..+.++.++. .......-..+|.+..
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEKME  182 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHhhh
Confidence            34577888888888888887632211    223444456778888888888888888776543 3444445567888888


Q ss_pred             ChHHHHHHHHHHHHcC
Q 039029          130 NAKKAFSLHDEMIHKG  145 (319)
Q Consensus       130 ~~~~a~~~~~~~~~~~  145 (319)
                      .+++|+.=|.++.+..
T Consensus       183 k~eealeDyKki~E~d  198 (271)
T KOG4234|consen  183 KYEEALEDYKKILESD  198 (271)
T ss_pred             hHHHHHHHHHHHHHhC
Confidence            8999999888888763

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.68  E-value=6.4  Score=29.28  Aligned_cols=51  Identities=20%  Similarity=0.244  Sum_probs=22.3

Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDE  140 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  140 (319)
                      .+.+.+...+++...++-.+..+. |...-..++..++-.|+|++|..-++-
T Consensus        10 eLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l   60 (273)
T COG4455          10 ELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNL   60 (273)
T ss_pred             HHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHH
Confidence            334444444444444443333222 333444444445555555555444433

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.29  E-value=17  Score=31.91  Aligned_cols=180  Identities=15%  Similarity=0.090  Sum_probs=106.3

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHhHHHHHHH-----HHhcCChHHHHHHHHHHHH-------cCCCcChhhHHHHHHHHHHc
Q 039029           26 LEEASRMLEQMKENGLVPTAVTYNTLIDG-----YCNKGNLEMAFSFRDEMVK-------QGIMPTASTYNLLIHELLME   93 (319)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~   93 (319)
                      ...|.+.++...+.|   +...-..+..+     +....+.+.|+.++..+.+       .+   .......+..+|.+.
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 LSEAFKYYREAAKLG---HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhc---chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            457888888877765   22222222222     3355689999999998877       44   334566677777764


Q ss_pred             C-----chhHHHHHHHHHhhCCCCCChHHHHHHHHHHHh-cCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHh--hhcc
Q 039029           94 R-----KMVEADDMLKEMGEKGIVPDSITYNILINGYCR-CGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLS--KQNR  165 (319)
Q Consensus        94 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~  165 (319)
                      .     +...|..++....+.|.+ +.......+..... ..+...|.++|......|.. ....+..++-...  ...+
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 LGVEKIDYEKALKLYTKAAELGNP-DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVERN  379 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcCCc-hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcCCC
Confidence            3     567799999988887643 44433332222222 24678999999999988842 2222222222211  3457


Q ss_pred             HHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC
Q 039029          166 MIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMK  215 (319)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (319)
                      ...|..++.+.-+.|.. ....-...+..+.. +.++.+...+..+.+.+
T Consensus       380 ~~~A~~~~k~aA~~g~~-~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  380 LELAFAYYKKAAEKGNP-SAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             HHHHHHHHHHHHHccCh-hhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence            78889999988888733 32222223333333 66666666555555443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=88.17  E-value=3.3  Score=32.98  Aligned_cols=90  Identities=14%  Similarity=0.002  Sum_probs=56.2

Q ss_pred             HHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHH
Q 039029           88 HELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMI  167 (319)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (319)
                      .-|.+.|.+++|+..|.......+. +++++..-..+|.+...+..|..=.......+ ..-...|+.-+.+-...|...
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~P~-NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVYPH-NPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccCCC-CccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHH
Confidence            3467788888888888877665322 77777777788888887777766665555442 112233444444444556666


Q ss_pred             HHHHHHHHHhhC
Q 039029          168 EADQLFENFLAK  179 (319)
Q Consensus       168 ~a~~~~~~~~~~  179 (319)
                      +|.+-++..++.
T Consensus       183 EAKkD~E~vL~L  194 (536)
T KOG4648|consen  183 EAKKDCETVLAL  194 (536)
T ss_pred             HHHHhHHHHHhh
Confidence            666666655554

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.03  E-value=2  Score=22.56  Aligned_cols=21  Identities=29%  Similarity=0.434  Sum_probs=9.6

Q ss_pred             HHHHHhcCChHHHHHHHHHHH
Q 039029          122 INGYCRCGNAKKAFSLHDEMI  142 (319)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~  142 (319)
                      ..+|...|+.+.|.+++++..
T Consensus         6 A~ayie~Gd~e~Ar~lL~evl   26 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEVI   26 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHHH
Confidence            344444444444444444444

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.

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=87.81  E-value=19  Score=32.03  Aligned_cols=191  Identities=14%  Similarity=0.070  Sum_probs=106.4

Q ss_pred             HHHHHHHHh-hCCCCCC--hHHHHHHHHHHH-hcCChHHHHHHHHHHHHcCCCccH-----HHHHHHHHHHhhhccHHHH
Q 039029           99 ADDMLKEMG-EKGIVPD--SITYNILINGYC-RCGNAKKAFSLHDEMIHKGIQPTM-----LTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        99 a~~~~~~~~-~~~~~~~--~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a  169 (319)
                      |++.++.+. +..++|.  ..++-.+...+. ...+++.|...+++.....-.++.     ..-..++..+.+.+... |
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            344455554 3333332  334445555555 677888888888876554222221     12234456666666555 8


Q ss_pred             HHHHHHHhhCC----CCccHHHHHHH-HHHHhcCCcHHHHHHHHHHHHhCC---CCCChhhHHHHHHHHH--cCCcHHHH
Q 039029          170 DQLFENFLAKG----MLPDIVMFNAL-IDGHCTNGNIERAFSLLKEMDRMK---VHPDEVTYNTLMHGRC--RQGKVEEA  239 (319)
Q Consensus       170 ~~~~~~~~~~~----~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~--~~g~~~~a  239 (319)
                      ...+++.++.-    ..+-...|..+ +..+...++...|.+.++.+....   ..|...++..++.+..  ..+..+++
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            88777766541    11222333333 333333479999999998875532   2334444555555443  45667777


Q ss_pred             HHHHHHHHHcCCCC--CCcccCcchhhHHHHHHHH--HhcCchhHHHHHHHHHHh
Q 039029          240 RRLLDQMKRRGIKP--DHISFNPTRLTYNALIQGL--CKNQEGDLAEELLREMVS  290 (319)
Q Consensus       240 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~~~~--~~~g~~~~A~~~~~~~~~  290 (319)
                      .+.++++......+  +.....|-..+|..+++.+  ...|+++.+...++++.+
T Consensus       199 ~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~  253 (608)
T PF10345_consen  199 LELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQ  253 (608)
T ss_pred             HHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77777764432221  1111456667888887755  467777777777666643

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 [].

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=87.65  E-value=7.3  Score=26.96  Aligned_cols=49  Identities=16%  Similarity=0.203  Sum_probs=21.2

Q ss_pred             hccHHHHHHHHHHHhhCCCC-ccHHHHHHHHHHHhcCCcHHHHHHHHHHHHh
Q 039029          163 QNRMIEADQLFENFLAKGML-PDIVMFNALIDGHCTNGNIERAFSLLKEMDR  213 (319)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (319)
                      .++++++..++..+.-..+. +...++..  ..+...|++.+|..+|+++.+
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~~e~d~~dg--~l~i~rg~w~eA~rvlr~l~~   72 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNLKELDMFDG--WLLIARGNYDEAARILRELLS   72 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccccchhHH--HHHHHcCCHHHHHHHHHhhhc
Confidence            45555555555544433211 11222222  223445555555555555544

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>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=87.50  E-value=1.9  Score=25.89  Aligned_cols=54  Identities=9%  Similarity=-0.084  Sum_probs=38.7

Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHH
Q 039029          226 LMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELL  285 (319)
Q Consensus       226 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  285 (319)
                      .+..| .....++|+..|...++.-..+...     -.++..++.+|...|++.+++++-
T Consensus        13 GlkLY-~~~~~~~Al~~W~~aL~k~~~~~~r-----f~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   13 GLKLY-HQNETQQALQKWRKALEKITDREDR-----FRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             HHHHh-ccchHHHHHHHHHHHHhhcCChHHH-----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444 6678889999999988764443321     157788889999999998887763

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

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=87.00  E-value=21  Score=31.43  Aligned_cols=180  Identities=19%  Similarity=0.137  Sum_probs=110.0

Q ss_pred             hHHHHHHHHHHHHcCCCcChhhHHHHHHH-----HHHcCchhHHHHHHHHHhh-------CCCCCChHHHHHHHHHHHhc
Q 039029           61 LEMAFSFRDEMVKQGIMPTASTYNLLIHE-----LLMERKMVEADDMLKEMGE-------KGIVPDSITYNILINGYCRC  128 (319)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~  128 (319)
                      ...+.++++.....|   +......+..+     +...++.+.|..+++...+       .+   .......+..+|.+.
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 LSEAFKYYREAAKLG---HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhc---chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            467888888888776   23333333332     3356789999999998876       44   333556667777764


Q ss_pred             C-----ChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhh-hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHH--hcCCc
Q 039029          129 G-----NAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSK-QNRMIEADQLFENFLAKGMLPDIVMFNALIDGH--CTNGN  200 (319)
Q Consensus       129 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~  200 (319)
                      .     +.+.|+.++.+....| .|+...+...+..... ..+...|.++|...-+.|..+ ...+..++-..  ....+
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-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHIL-AIYRLALCYELGLGVERN  379 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChH-HHHHHHHHHHhCCCcCCC
Confidence            3     6778999999999887 3455444443333333 356789999999998887542 22222222111  13347


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          201 IERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      ...|..++.+.-+.| .|...--...+..+.. ++++.+.-.+..+.+.+
T Consensus       380 ~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  380 LELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             HHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence            889999999988877 3332222222233333 66666666666555544

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=86.64  E-value=13  Score=28.74  Aligned_cols=268  Identities=14%  Similarity=0.172  Sum_probs=152.7

Q ss_pred             CCCCCCcccHHHHHHH-HhccCChHHHHHHHHHHHhCCCCCCH---HhHHHHHHHHHhcCChHHHHHHHHHHHHc---CC
Q 039029            4 RGVQPDSYTYGSFVSG-MCKEGRLEEASRMLEQMKENGLVPTA---VTYNTLIDGYCNKGNLEMAFSFRDEMVKQ---GI   76 (319)
Q Consensus         4 ~g~~p~~~~~~~li~~-~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~   76 (319)
                      .|-.||+..=|..-.+ -.+...+++|+.-|+...+.......   .....++....+.+++++....|.+++.-   .+
T Consensus        20 s~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAV   99 (440)
T KOG1464|consen   20 SNSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAV   99 (440)
T ss_pred             cCCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHH
Confidence            4556776654443322 23456889999999988875433333   34556788888999999999888887642   11


Q ss_pred             --CcChhhHHHHHHHHHHcCchhHHHHHHHHHhhC--CCCCChHH----HHHHHHHHHhcCChHHHHHHHHHHHHcCC--
Q 039029           77 --MPTASTYNLLIHELLMERKMVEADDMLKEMGEK--GIVPDSIT----YNILINGYCRCGNAKKAFSLHDEMIHKGI--  146 (319)
Q Consensus        77 --~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--  146 (319)
                        .-+....|.++.......+.+...++|+.-.+.  ..+ +...    -..|...|...+++.+..+++.++...-.  
T Consensus       100 TrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAK-NeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~e  178 (440)
T KOG1464|consen  100 TRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAK-NERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTE  178 (440)
T ss_pred             hccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhh-cceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccc
Confidence              224456777777777677777766666654321  111 2222    24567788888888888888888876411  


Q ss_pred             --Ccc-------HHHHHHHHHHHhhhccHHHHHHHHHHHhhC-CCCccHHHHHHHHH----HHhcCCcHHHHHH-HHHHH
Q 039029          147 --QPT-------MLTYTSLIFVLSKQNRMIEADQLFENFLAK-GMLPDIVMFNALID----GHCTNGNIERAFS-LLKEM  211 (319)
Q Consensus       147 --~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~----~~~~~~~~~~a~~-~~~~~  211 (319)
                        ..|       ...|..=+..|....+-.....++++.+.. .-.|.+.....+-.    +..+.|.+++|.. +|+..
T Consensus       179 dGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhTDFFEAF  258 (440)
T KOG1464|consen  179 DGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHTDFFEAF  258 (440)
T ss_pred             cCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHhHHHHHH
Confidence              111       145666677777777777777777766543 23345544443322    2345577777654 33433


Q ss_pred             Hh---CCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCc------ccCcchhhHHHHHHHHHhcCchhHHH
Q 039029          212 DR---MKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHI------SFNPTRLTYNALIQGLCKNQEGDLAE  282 (319)
Q Consensus       212 ~~---~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~A~  282 (319)
                      ..   .| .|...+....             +.+...+.+.|+.|-..      .-.|.+.+.+.++.+|.. ++..+-.
T Consensus       259 KNYDEsG-spRRttCLKY-------------LVLANMLmkS~iNPFDsQEAKPyKNdPEIlAMTnlv~aYQ~-NdI~eFE  323 (440)
T KOG1464|consen  259 KNYDESG-SPRRTTCLKY-------------LVLANMLMKSGINPFDSQEAKPYKNDPEILAMTNLVAAYQN-NDIIEFE  323 (440)
T ss_pred             hcccccC-CcchhHHHHH-------------HHHHHHHHHcCCCCCcccccCCCCCCHHHHHHHHHHHHHhc-ccHHHHH
Confidence            33   23 2222221110             11222334455544322      134566777888888754 4444444


Q ss_pred             HHHHH
Q 039029          283 ELLRE  287 (319)
Q Consensus       283 ~~~~~  287 (319)
                      ++++.
T Consensus       324 ~Il~~  328 (440)
T KOG1464|consen  324 RILKS  328 (440)
T ss_pred             HHHHh
Confidence            44443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=86.53  E-value=26  Score=32.11  Aligned_cols=50  Identities=12%  Similarity=-0.127  Sum_probs=31.0

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCC----CCChHHHHHHHHH--hhhcchhhhh
Q 039029          267 ALIQGLCKNQEGDLAEELLREMVSKGI----TPDDNTYFSLIEG--IASVDKAAES  316 (319)
Q Consensus       267 ~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~~~l~~~--~~~~g~~~~A  316 (319)
                      .|+......|+.++|...+.++.....    .++...-...++.  ....|+.++|
T Consensus       623 ~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~v~~~lwl~qg~~~~a  678 (894)
T COG2909         623 MLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYKVKLILWLAQGDKELA  678 (894)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHHhhHHHhcccCCHHHH
Confidence            677788889999999998888876522    3333333333333  2345555544

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=85.88  E-value=7.4  Score=26.98  Aligned_cols=66  Identities=17%  Similarity=0.188  Sum_probs=50.7

Q ss_pred             HHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhh
Q 039029          241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAA  314 (319)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  314 (319)
                      .+...+.+.|.+++.        --..++..+...++.-.|.++++++.+.+...+..|....++.+...|-..
T Consensus         7 ~~~~~lk~~glr~T~--------qR~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Glv~   72 (145)
T COG0735           7 DAIERLKEAGLRLTP--------QRLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGLVH   72 (145)
T ss_pred             HHHHHHHHcCCCcCH--------HHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCCEE
Confidence            445566777877664        346788888888888999999999999877777777777778887777544

>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]

Probab=85.56  E-value=12  Score=29.91  Aligned_cols=85  Identities=16%  Similarity=0.254  Sum_probs=50.8

Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhH--HHHHHHHHhcCchhHHHHHHHHHHh-----CCCCCChH
Q 039029          226 LMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTY--NALIQGLCKNQEGDLAEELLREMVS-----KGITPDDN  298 (319)
Q Consensus       226 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~  298 (319)
                      ++....+.++.++|.++++++.+.-..-+.    |+...|  ..+.+.+...||..++.+.+.+..+     .|++|+..
T Consensus        81 ~l~~~~~~~D~~~al~~Le~i~~~~~~~~e----~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh  156 (380)
T KOG2908|consen   81 LLVVSEQISDKDEALEFLEKIIEKLKEYKE----PDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVH  156 (380)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHhhcc----chhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhh
Confidence            344445566788888888887665222111    223333  4566777788899888888888776     47777655


Q ss_pred             H-HHHHHHH-hhhcchhh
Q 039029          299 T-YFSLIEG-IASVDKAA  314 (319)
Q Consensus       299 ~-~~~l~~~-~~~~g~~~  314 (319)
                      + |..+-.- |...|++.
T Consensus       157 ~~fY~lssqYyk~~~d~a  174 (380)
T KOG2908|consen  157 SSFYSLSSQYYKKIGDFA  174 (380)
T ss_pred             hhHHHHHHHHHHHHHhHH
Confidence            4 3333332 33444443

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=85.51  E-value=8.6  Score=25.71  Aligned_cols=39  Identities=13%  Similarity=0.299  Sum_probs=18.4

Q ss_pred             HHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHH
Q 039029          173 FENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEM  211 (319)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (319)
                      ++.+...++.|++......+++|.+.+|+..|.++|+-+
T Consensus        72 lN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~i  110 (149)
T KOG4077|consen   72 LNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAI  110 (149)
T ss_pred             HHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            333344444444444444444444445554444444444

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=85.43  E-value=11  Score=27.03  Aligned_cols=41  Identities=15%  Similarity=0.203  Sum_probs=20.2

Q ss_pred             hHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC
Q 039029          131 AKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK  179 (319)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (319)
                      +++|...|++..+.  .|+..+|..-+....      .|-++..++.+.
T Consensus        96 F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~~------kap~lh~e~~~~  136 (186)
T PF06552_consen   96 FEKATEYFQKAVDE--DPNNELYRKSLEMAA------KAPELHMEIHKQ  136 (186)
T ss_dssp             HHHHHHHHHHHHHH---TT-HHHHHHHHHHH------THHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhc--CCCcHHHHHHHHHHH------hhHHHHHHHHHH
Confidence            34455555555543  566667766665543      234444444444

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.34  E-value=23  Score=30.93  Aligned_cols=133  Identities=16%  Similarity=0.136  Sum_probs=92.3

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHH
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELL   91 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (319)
                      .-+.++..+-++|-.++|+++-       ..|+.     -.....+.|+++.|.++..+..      +..-|..|..+..
T Consensus       616 ~rt~va~Fle~~g~~e~AL~~s-------~D~d~-----rFelal~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al  677 (794)
T KOG0276|consen  616 IRTKVAHFLESQGMKEQALELS-------TDPDQ-----RFELALKLGRLDIAFDLAVEAN------SEVKWRQLGDAAL  677 (794)
T ss_pred             hhhhHHhHhhhccchHhhhhcC-------CChhh-----hhhhhhhcCcHHHHHHHHHhhc------chHHHHHHHHHHh
Confidence            4556777777778777776653       12222     2334457899999988876643      5677999999999


Q ss_pred             HcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHH
Q 039029           92 MERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQ  171 (319)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  171 (319)
                      +.+++..|.+.|....+         |..|+-.+...|+.+....+-....+.|. .|.. |    .+|...|+++++.+
T Consensus       678 ~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~-~N~A-F----~~~~l~g~~~~C~~  742 (794)
T KOG0276|consen  678 SAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK-NNLA-F----LAYFLSGDYEECLE  742 (794)
T ss_pred             hcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc-cchH-H----HHHHHcCCHHHHHH
Confidence            99999999999887654         45566677778887776666666666663 3332 2    24556799999988


Q ss_pred             HHHHHh
Q 039029          172 LFENFL  177 (319)
Q Consensus       172 ~~~~~~  177 (319)
                      ++..-.
T Consensus       743 lLi~t~  748 (794)
T KOG0276|consen  743 LLISTQ  748 (794)
T ss_pred             HHHhcC
Confidence            876543

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=85.30  E-value=18  Score=31.88  Aligned_cols=24  Identities=29%  Similarity=0.454  Sum_probs=0.0

Q ss_pred             cCCcHHHHHHHHHHHHHcCCCCCC
Q 039029          232 RQGKVEEARRLLDQMKRRGIKPDH  255 (319)
Q Consensus       232 ~~g~~~~a~~~~~~~~~~~~~~~~  255 (319)
                      +.|++.+|.+.+-.+......|..
T Consensus       507 ~~~~~~~Aa~~Lv~Ll~~~~~Pk~  530 (566)
T PF07575_consen  507 DEGDFREAASLLVSLLKSPIAPKS  530 (566)
T ss_dssp             ------------------------
T ss_pred             hhhhHHHHHHHHHHHHCCCCCcHH
Confidence            457888888888888777776665

Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=85.30  E-value=23  Score=30.32  Aligned_cols=179  Identities=12%  Similarity=0.078  Sum_probs=107.2

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILIN  123 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (319)
                      |....-+++..+.......-+..+..+|+..|  -+...|..++.+|... ..+....+|+++.+..+. |+..-..|..
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            44455566666666666666777777777664  3566777788888777 667777788877776554 4444444444


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCC-----ccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC-CCCccHHHHHHHHHHHhc
Q 039029          124 GYCRCGNAKKAFSLHDEMIHKGIQ-----PTMLTYTSLIFVLSKQNRMIEADQLFENFLAK-GMLPDIVMFNALIDGHCT  197 (319)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~  197 (319)
                      .|-+ ++...+...|.++..+-++     .-...|..+....  ..+.+....+...+... |...-...+.-+-..|..
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~  217 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSE  217 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcc
Confidence            4444 7777777777777654221     0112444444321  24455555555555543 333334555566677888


Q ss_pred             CCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 039029          198 NGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGR  230 (319)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  230 (319)
                      ..++.+|.+++..+.+.+ ..|...-..++..+
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            888999999888877664 33444444444433

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=84.41  E-value=20  Score=28.91  Aligned_cols=125  Identities=10%  Similarity=0.032  Sum_probs=71.5

Q ss_pred             HHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc---CCcHHHHHHHH
Q 039029          167 IEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCR---QGKVEEARRLL  243 (319)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~a~~~~  243 (319)
                      +.-+.+++++++.+. .+...+..++..+.+..+.++..+-++++.... +-+...|...+.....   .-.++....+|
T Consensus        48 E~klsilerAL~~np-~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~-~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y  125 (321)
T PF08424_consen   48 ERKLSILERALKHNP-DSERLLLGYLEEGEKVWDSEKLAKKWEELLFKN-PGSPELWREYLDFRQSNFASFTVSDVRDVY  125 (321)
T ss_pred             HHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHhccCcHHHHHHHH
Confidence            344566666666633 356666677777777777777777777776653 2355666666655443   22455555555


Q ss_pred             HHHHHc--CCCCCC-cccCcch-------hhHHHHHHHHHhcCchhHHHHHHHHHHhCCC
Q 039029          244 DQMKRR--GIKPDH-ISFNPTR-------LTYNALIQGLCKNQEGDLAEELLREMVSKGI  293 (319)
Q Consensus       244 ~~~~~~--~~~~~~-~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  293 (319)
                      .+.++.  +..... ....+..       ..+..+..-+...|-.+.|..+++-+++.++
T Consensus       126 ~~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~~aG~~E~Ava~~Qa~lE~n~  185 (321)
T PF08424_consen  126 EKCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLRQAGYTERAVALWQALLEFNF  185 (321)
T ss_pred             HHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHc
Confidence            554332  000000 0000111       2233344445678999999999999998754

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=84.04  E-value=18  Score=28.26  Aligned_cols=139  Identities=7%  Similarity=0.127  Sum_probs=88.4

Q ss_pred             ccHHHHHHHHHHHhh-CCCCccHHHHHHHHHHHhc-CC-cHHHHHHHHHHHH-hCCCCCChhhHHHHHHHHHcCCcHHHH
Q 039029          164 NRMIEADQLFENFLA-KGMLPDIVMFNALIDGHCT-NG-NIERAFSLLKEMD-RMKVHPDEVTYNTLMHGRCRQGKVEEA  239 (319)
Q Consensus       164 ~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a  239 (319)
                      ..+.+|+++|+.... ..+.-|..+...+++.... .+ ....-.++.+-+. ..+-.++..+...++..++..++|.+-
T Consensus       142 ~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl  221 (292)
T PF13929_consen  142 KIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKL  221 (292)
T ss_pred             HHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHH
Confidence            344566666663221 2244467777777776655 22 2222223333332 223467778888899999999999999


Q ss_pred             HHHHHHHHHc-CCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHH-----HHhCCCCCChHHHHHHHHHhhh
Q 039029          240 RRLLDQMKRR-GIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLRE-----MVSKGITPDDNTYFSLIEGIAS  309 (319)
Q Consensus       240 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-----~~~~~~~~~~~~~~~l~~~~~~  309 (319)
                      .+++...... +...       |...|..++......||..-...+..+     +...|+..+...-..+-+.+.+
T Consensus       222 ~~fW~~~~~~~~~~~-------D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~~  290 (292)
T PF13929_consen  222 FQFWEQCIPNSVPGN-------DPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFKK  290 (292)
T ss_pred             HHHHHHhcccCCCCC-------CCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHHh
Confidence            9999887654 2222       337899999999999998877776665     2334666666666665555544

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=83.74  E-value=21  Score=28.73  Aligned_cols=117  Identities=11%  Similarity=0.052  Sum_probs=60.9

Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhc---CCcHHHHHHHHH
Q 039029          133 KAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCT---NGNIERAFSLLK  209 (319)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~  209 (319)
                      .-+.++++..+.+ +.+.......+..+.+..+.+...+.++++...... +...|...+.....   .-.++....+|.
T Consensus        49 ~klsilerAL~~n-p~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~~~-~~~LW~~yL~~~q~~~~~f~v~~~~~~y~  126 (321)
T PF08424_consen   49 RKLSILERALKHN-PDSERLLLGYLEEGEKVWDSEKLAKKWEELLFKNPG-SPELWREYLDFRQSNFASFTVSDVRDVYE  126 (321)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHHhccCcHHHHHHHHH
Confidence            3445555555552 344555555666666666666666666666655322 45555555544332   122334444443


Q ss_pred             HHHhC------CC------CCC-----hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCC
Q 039029          210 EMDRM------KV------HPD-----EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGI  251 (319)
Q Consensus       210 ~~~~~------~~------~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  251 (319)
                      +....      +.      .++     ..++..+.....+.|..+.|..+++.+++.+.
T Consensus       127 ~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~~aG~~E~Ava~~Qa~lE~n~  185 (321)
T PF08424_consen  127 KCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLRQAGYTERAVALWQALLEFNF  185 (321)
T ss_pred             HHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHc
Confidence            32110      10      011     11233344455678899999999998888764

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.69  E-value=33  Score=30.95  Aligned_cols=124  Identities=17%  Similarity=0.171  Sum_probs=73.0

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCC---CHHhHHHHHHHHHhcCChHHHHHHHHHHHHc-------------------
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVP---TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ-------------------   74 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------------------   74 (319)
                      |+.+.+.+.+++|+++.+.....  .+   ....+..++..+...|+++.|-...-.|...                   
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~--~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~  440 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGN--EERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLT  440 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCC--ccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccc
Confidence            56677788888888887665443  22   3345667777777778877776654444321                   


Q ss_pred             --------CC-CcChhhHHHHHHHHHHcCchhHHHHHHHHHhhC---------CC-------CCChHHHHHHHHHHHhcC
Q 039029           75 --------GI-MPTASTYNLLIHELLMERKMVEADDMLKEMGEK---------GI-------VPDSITYNILINGYCRCG  129 (319)
Q Consensus        75 --------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~-------~~~~~~~~~l~~~~~~~~  129 (319)
                              +. ..+...|..++..+.. .+...-.++..+....         ..       .-+...-..|+..|...+
T Consensus       441 ~Ia~~lPt~~~rL~p~vYemvLve~L~-~~~~~F~e~i~~Wp~~Lys~l~iisa~~~q~~q~Se~~~L~e~La~LYl~d~  519 (846)
T KOG2066|consen  441 DIAPYLPTGPPRLKPLVYEMVLVEFLA-SDVKGFLELIKEWPGHLYSVLTIISATEPQIKQNSESTALLEVLAHLYLYDN  519 (846)
T ss_pred             hhhccCCCCCcccCchHHHHHHHHHHH-HHHHHHHHHHHhCChhhhhhhHHHhhcchHHHhhccchhHHHHHHHHHHHcc
Confidence                    11 1245567777776665 3333333322221100         00       112334455888899999


Q ss_pred             ChHHHHHHHHHHHH
Q 039029          130 NAKKAFSLHDEMIH  143 (319)
Q Consensus       130 ~~~~a~~~~~~~~~  143 (319)
                      ++..|+.++-.+.+
T Consensus       520 ~Y~~Al~~ylklk~  533 (846)
T KOG2066|consen  520 KYEKALPIYLKLQD  533 (846)
T ss_pred             ChHHHHHHHHhccC
Confidence            99999988876653

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.06  E-value=40  Score=31.34  Aligned_cols=18  Identities=22%  Similarity=0.403  Sum_probs=11.8

Q ss_pred             HhccCChHHHHHHHHHHH
Q 039029           20 MCKEGRLEEASRMLEQMK   37 (319)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~   37 (319)
                      +..++++++|.+.|..+.
T Consensus       356 lf~q~~f~ea~~~F~~~~  373 (877)
T KOG2063|consen  356 LFLQKQFEEAMSLFEKSE  373 (877)
T ss_pred             HHHhhhHHHHHHHHHhhc
Confidence            345677777777777654

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=82.00  E-value=6  Score=21.19  Aligned_cols=37  Identities=8%  Similarity=-0.023  Sum_probs=31.1

Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHH
Q 039029          270 QGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEG  306 (319)
Q Consensus       270 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  306 (319)
                      ....+.|-.+++..++++|.+.|+..+...+..+++.
T Consensus        10 ~~Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~   46 (48)
T PF11848_consen   10 LLAKRRGLISEVKPLLDRLQQAGFRISPKLIEEILRR   46 (48)
T ss_pred             HHHHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence            3346778888999999999999999999998887764

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=81.79  E-value=23  Score=27.80  Aligned_cols=69  Identities=19%  Similarity=0.186  Sum_probs=50.2

Q ss_pred             HHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHh-----CCCCCCh
Q 039029          223 YNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVS-----KGITPDD  297 (319)
Q Consensus       223 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~  297 (319)
                      +....+.|..+|.+.+|.++.++.+..+  |      .+...+..++..+...||--.|.+-++++..     .|+..+.
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltld--p------L~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vdd  353 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTLD--P------LSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDD  353 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcC--h------hhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcch
Confidence            3555678889999999999999888753  2      2335778888999999998888777777643     3666554


Q ss_pred             HH
Q 039029          298 NT  299 (319)
Q Consensus       298 ~~  299 (319)
                      ..
T Consensus       354 si  355 (361)
T COG3947         354 SI  355 (361)
T ss_pred             hH
Confidence            43

>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]

Probab=81.73  E-value=13  Score=27.93  Aligned_cols=98  Identities=16%  Similarity=0.187  Sum_probs=46.5

Q ss_pred             ccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCC---ChhhH--HHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcc
Q 039029          183 PDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHP---DEVTY--NTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHIS  257 (319)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~--~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  257 (319)
                      +...-++.|+--|.-+..+.+|...|..  +.++.|   +..++  ..-++.....|+.++|.+....+.     |....
T Consensus        24 ~~~~d~n~LVmnylv~eg~~EaA~~Fa~--e~~i~~~~~d~~~~~eR~~Ir~~I~~G~Ie~Aie~in~l~-----PeiLd   96 (228)
T KOG2659|consen   24 VMREDLNRLVMNYLVHEGYVEAAEKFAK--ESGIKPPSIDLDSMDERLQIRRAIEEGQIEEAIEKVNQLN-----PEILD   96 (228)
T ss_pred             cchhhHHHHHHHHHHhccHHHHHHHhcc--ccCCCCccCchhhHhHHHHHHHHHHhccHHHHHHHHHHhC-----hHHHc
Confidence            3444455554444444444444444443  223333   22222  234556677777777777776643     33211


Q ss_pred             cCcchhhHHHHH----HHHHhcCchhHHHHHHHHHH
Q 039029          258 FNPTRLTYNALI----QGLCKNQEGDLAEELLREMV  289 (319)
Q Consensus       258 ~~~~~~~~~~l~----~~~~~~g~~~~A~~~~~~~~  289 (319)
                        .|...+-.+.    --..+.|..++|+++.+.=.
T Consensus        97 --~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~L  130 (228)
T KOG2659|consen   97 --TNRELFFHLQQLHLIELIREGKTEEALEFAQTKL  130 (228)
T ss_pred             --cchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHc
Confidence              1221222221    12356666777777666543

>smart00028 TPR Tetratricopeptide repeats

Probab=81.44  E-value=3.1  Score=18.81  Aligned_cols=29  Identities=17%  Similarity=-0.008  Sum_probs=24.7

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          263 LTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      ..|..+...+...|+++.|...+++.++.
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~   30 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALEL   30 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            45778888999999999999999988763

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=81.13  E-value=8.6  Score=27.69  Aligned_cols=41  Identities=22%  Similarity=0.190  Sum_probs=29.2

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhc
Q 039029          267 ALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASV  310 (319)
Q Consensus       267 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  310 (319)
                      ..+-.|.+.|.+++|.+++++..+.   |+......-+....+.
T Consensus       116 ~aV~VCm~~g~Fk~A~eiLkr~~~d---~~~~~~r~kL~~II~~  156 (200)
T cd00280         116 QAVAVCMENGEFKKAEEVLKRLFSD---PESQKLRMKLLMIIRE  156 (200)
T ss_pred             HHHHHHHhcCchHHHHHHHHHHhcC---CCchhHHHHHHHHHHc
Confidence            4456799999999999999999873   5555555544444443

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.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=80.71  E-value=14  Score=24.70  Aligned_cols=43  Identities=12%  Similarity=0.189  Sum_probs=22.2

Q ss_pred             HHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039029          101 DMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIH  143 (319)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (319)
                      +-++.+....+.|++.....-++++.+.+++..|.++|+-++.
T Consensus        70 kglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~  112 (149)
T KOG4077|consen   70 KGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKD  112 (149)
T ss_pred             HHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3344444444555555555555555555555555555555443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=80.50  E-value=26  Score=27.55  Aligned_cols=59  Identities=15%  Similarity=0.010  Sum_probs=41.4

Q ss_pred             HHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHH
Q 039029          152 TYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEM  211 (319)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (319)
                      ++....+.|..+|.+.+|.++.+..+..+ +.+...+-.++..+...||--.+..-++++
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            44555677788888888888888777764 336677777888888888765565555554

>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=80.19  E-value=2.4  Score=28.53  Aligned_cols=34  Identities=24%  Similarity=0.352  Sum_probs=26.6

Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHh
Q 039029          272 LCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGI  307 (319)
Q Consensus       272 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  307 (319)
                      ....|.-..|-.+|++|++.|-+||  .|..|+..+
T Consensus       105 lR~ygsk~DaY~VF~kML~~G~pPd--dW~~Ll~~a  138 (140)
T PF11663_consen  105 LRAYGSKTDAYAVFRKMLERGNPPD--DWDALLKEA  138 (140)
T ss_pred             hhhhccCCcHHHHHHHHHhCCCCCc--cHHHHHHHh
Confidence            4456777889999999999999997  456666654

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 [].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	319
4g24_A	501	Crystal Structure Of Proteinaceous Rnase P 1 (Prorp		7e-06
4g24_A	501	Crystal Structure Of Proteinaceous Rnase P 1 (Prorp		1e-04

>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From A. Thaliana With Mn Length = 501

Iteration: 1
 Score = 48.1 bits (113), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 36/133 (27%), Positives = 62/133 (46%), Gaps = 12/133 (9%)
Query: 20  MC-KEGRLEEASRMLEQMKENGLVPTAVTYNTLI----------DGYCNKGNLEMAFSFR 68
           MC K+G + EA R+ ++ + NG+  +   YN L+          +   N G L   F   
Sbjct: 35  MCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPG-LSRGFDIF 93
Query: 69  DEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRC 128
            +M+   ++P  +T+       + +     A DM+K+M   GI P   +Y   + G+CR 
Sbjct: 94  KQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRK 153
Query: 129 GNAKKAFSLHDEM 141
           G+A KA+ +   M
Sbjct: 154 GDADKAYEVDAHM 166

>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From A. Thaliana With Mn Length = 501

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 27/120 (22%), Positives = 51/120 (42%), Gaps = 9/120 (7%)
Query: 129 GNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEAD---------QLFENFLAK 179
           G+  +A  L+DE    G+Q +   Y  L++V S      E+           +F+  +  
Sbjct: 40  GDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVD 99
Query: 180 GMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEA 239
            ++P+   F           + E AF ++K+M    + P   +Y   + G CR+G  ++A
Sbjct: 100 KVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKA 159

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	319
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	9e-20
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-18
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-16
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-13
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	3e-08
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	4e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	4e-06
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	4e-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 = 89.1 bits (219), Expect = 9e-20
 Identities = 25/228 (10%), Positives = 74/228 (32%), Gaps = 5/228 (2%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLE---QMKENGLVPTAVTYNTLIDGYCN 57
                +        +F        +L  A  +L      ++   + T   YN ++ G+  
Sbjct: 118 HSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWAR 177

Query: 58  KGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELL-MERKMVEADDMLKEMGEKGIVPDSI 116
           +G  +        +   G+ P   +Y   +  +   ++     +  L++M ++G+   ++
Sbjct: 178 QGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQAL 237

Query: 117 TYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENF 176
              +L++   R    K    +          P  +  + L+  +  ++  +   +L    
Sbjct: 238 FTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPL 297

Query: 177 LAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYN 224
                L +  + +  +       ++E+     KE+   +     +   
Sbjct: 298 KTLQCLFEKQL-HMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQ 344

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 84.1 bits (206), Expect = 4e-18
 Identities = 29/256 (11%), Positives = 68/256 (26%), Gaps = 33/256 (12%)

Query: 1   MKSRGVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN 60
            +     P        +     +  L+       Q  +  L                   
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 61  LEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI 120
           L +A                       H LL+               +K  +     YN 
Sbjct: 143 LPLA-----------------------HHLLVV---------HHGQRQKRKLLTLDMYNA 170

Query: 121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA-DQLFENFLAK 179
           ++ G+ R G  K+   +   +   G+ P +L+Y + +  + +Q++     ++  E    +
Sbjct: 171 VMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQE 230

Query: 180 GMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEA 239
           G+    +    L+        ++    +          P  V  + L+     +      
Sbjct: 231 GLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSY 290

Query: 240 RRLLDQMKRRGIKPDH 255
            +L   +K      + 
Sbjct: 291 PKLHLPLKTLQCLFEK 306

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 78.3 bits (191), Expect = 4e-16
 Identities = 27/186 (14%), Positives = 57/186 (30%), Gaps = 8/186 (4%)

Query: 127 RCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIV 186
                +     H +    G Q  +L +     +  +         +      K  L  + 
Sbjct: 107 SLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLD 166

Query: 187 MFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEA-RRLLDQ 245
           M+NA++ G    G  +    +L  +    + PD ++Y   +    RQ +      R L+Q
Sbjct: 167 MYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQ 226

Query: 246 MKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIE 305
           M + G+K   +           L+    +        ++          P       L+ 
Sbjct: 227 MSQEGLKLQAL-------FTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLR 279

Query: 306 GIASVD 311
            + + D
Sbjct: 280 DVYAKD 285

>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 = 1e-13
 Identities = 17/117 (14%), Positives = 42/117 (35%), Gaps = 4/117 (3%)

Query: 200 NIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFN 259
           +++   +   +  + ++   +              ++  A  LL     +  K       
Sbjct: 107 SLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKL---- 162

Query: 260 PTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAES 316
            T   YNA++ G  +         +L  +   G+TPD  +Y + ++ +   D+ A +
Sbjct: 163 LTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGT 219

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2 Length = 373

 Score = 53.4 bits (128), Expect = 3e-08
 Identities = 36/295 (12%), Positives = 76/295 (25%), Gaps = 35/295 (11%)

Query: 24  GRLEEA----SRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQG---- 75
           G  +EA       LE++         V  + L +    KG L  + +   +  +      
Sbjct: 28  GNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHD 87

Query: 76  -IMPTASTYNLLIHELLMERKMVEADDML-------KEMGEKGIVPDSITYNILINGYCR 127
                  +       L  +  +  A +          E   + +        I       
Sbjct: 88  VWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWA 147

Query: 128 CGNAKKAFSLHDEMI----HKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLA----K 179
                +A +     I        Q  +     LI     +  +  A              
Sbjct: 148 WARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNG 207

Query: 180 GMLPDIVMFNALIDGHC--TNGNIERAFSLLKEM---DRMKVHPDEVTYNTLMHGRCRQG 234
               D +     +        G+   A + L+     +    H  +  +  +   +   G
Sbjct: 208 KYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLG 267

Query: 235 KVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDL--AEELLRE 287
           + E A  +L+++              + L  N L+      Q G    A+ +L +
Sbjct: 268 EFEPAEIVLEELNENARSLRL----MSDLNRNLLLLNQLYWQAGRKSDAQRVLLD 318

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 49.7 bits (118), Expect = 4e-07
 Identities = 36/266 (13%), Positives = 75/266 (28%), Gaps = 33/266 (12%)

Query: 26  LEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNL 85
           + EA R+     E  +      Y   +     +    +      + +K    P      +
Sbjct: 19  INEAQRVKPSSPERDVERDVFLYRAYL----AQRKYGVVL----DEIKPSSAPELQAVRM 70

Query: 86  LIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILI-NGYCRCGNAKKAFSLHDEMIHK 144
               L    +       L     + +   + T+ ++  + Y    N   A       +H+
Sbjct: 71  FAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRT----LHQ 126

Query: 145 GIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFN---ALIDGHCTNGNI 201
           G           + +L K +R+  A +  +    +    D  +     A +        +
Sbjct: 127 GDSLEC--MAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKL 182

Query: 202 ERAFSLLKEMDRMKVHPDEV-TYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNP 260
           + A+ + +EM         +   N        QG+ E A  +L +         H     
Sbjct: 183 QDAYYIFQEM--ADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALD--KDSGHPE--- 235

Query: 261 TRLTYNALIQGLCKNQEGDLAEELLR 286
              T   L+  +     G   E   R
Sbjct: 236 ---TLINLV--VLSQHLGKPPEVTNR 256

>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 = 47.5 bits (112), Expect = 3e-06
 Identities = 57/359 (15%), Positives = 110/359 (30%), Gaps = 117/359 (32%)

Query: 26  LEEASRML--EQMKENGLVPTAVTYNTLI-DGYCNKGNLEMAFSF--------RDEMVKQ 74
           ++   R L   +  EN L         L+     N      AF+         R + V  
Sbjct: 230 IQAELRRLLKSKPYENCL---------LVLLNVQNAKAWN-AFNLSCKILLTTRFKQVTD 279

Query: 75  GIMPTASTYNLLIHEL--LMERKMVE---------ADDMLKEMGEKGIVPDSITYNILI- 122
            +    +T+  L H    L   ++             D+ +E+      P  ++   +I 
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV--LTTNPRRLS---IIA 334

Query: 123 ----NGYCRCGNAKK-AFSLHDEMIHKGI---QPTML--TYTSL-IF---------VLS- 161
               +G     N K         +I   +   +P      +  L +F         +LS 
Sbjct: 335 ESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSL 394

Query: 162 ------KQNRMIEADQLFENFLAKG-------MLPDI------------VMFNALIDGHC 196
                 K + M+  ++L +  L +         +P I             +  +++D + 
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY- 453

Query: 197 TNGNIERAFSLLKEMDRMKVHPDEVTYNTLMH--GRCRQG-KVEEARRL-LD----QMKR 248
              NI + F      D +  + D+  Y+ + H         ++   R + LD    + K 
Sbjct: 454 ---NIPKTFDS---DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK- 506

Query: 249 RGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGI 307
             I+ D  ++N +    N L           L      +     I  +D  Y  L+  I
Sbjct: 507 --IRHDSTAWNASGSILNTLQ---------QL------KFYKPYICDNDPKYERLVNAI 548

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens} Length = 311

 Score = 46.8 bits (112), Expect = 4e-06
 Identities = 50/271 (18%), Positives = 87/271 (32%), Gaps = 44/271 (16%)

Query: 24  GRLEEASRMLEQ---MKENGLVP----TAVTYNTLIDGYCNKGNLEMAFS-FRD--EMVK 73
           GR E A  + +Q     E          A   N L   Y ++   + A +   D   + +
Sbjct: 41  GRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIRE 100

Query: 74  QGIMP----TASTYNLLIHELLMERKMVEADDMLK---EMGEKGIVPD----SITYNILI 122
           + +       A+T N L        K  EA+ + K   E+ EK +  D    +   N L 
Sbjct: 101 KTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLA 160

Query: 123 NGYCRCGNAKKAFSLHDE--MIHKGIQ----P-TMLTYTSLIFVLSKQNRMIEADQLFEN 175
                 G  ++    +     I++       P    T  +L     KQ +  +A+ L++ 
Sbjct: 161 LLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKE 220

Query: 176 FLAKGML-------PDIVM-FNALIDGHCTNGNIERAFSLLKEMDRMKV----HPDEV-T 222
            L +           +    +    +     G  +   S  +     K      P    T
Sbjct: 221 ILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTT 280

Query: 223 YNTLMHGRCRQGKVEEARRLLDQ---MKRRG 250
              L     RQGK E A  L +     +++G
Sbjct: 281 LKNLGALYRRQGKFEAAETLEEAAMRSRKQG 311

>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 Length = 283

 Score = 40.2 bits (95), Expect = 4e-04
 Identities = 46/265 (17%), Positives = 80/265 (30%), Gaps = 45/265 (16%)

Query: 24  GRLEEASRMLEQ---MKENGLVP----TAVTYNTLIDGYCNKGNLEMAFSFRD---EMVK 73
                A  + +Q     E          A   N L   Y ++   + A    +    + +
Sbjct: 15  VPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIRE 74

Query: 74  QGIMP----TASTYNLLIHELLMERKMVEADDMLK---EMGEKGIVPD----SITYNILI 122
           + +       A+T N L        K  EA+ + K   E+ EK +       +   N L 
Sbjct: 75  KTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLA 134

Query: 123 NGYCRCGNAKKAFSLHDEMIHKGIQPTML---------TYTSLIFVLSKQNRMIEADQLF 173
                 G A++    +   +   I  T L         T  +L     KQ +  +A+ L+
Sbjct: 135 LLCQNQGKAEEVEYYYRRALE--IYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLY 192

Query: 174 ENFLAKGML-------PDIVM-FNALIDGHCTNGNIERAFSLLKEMDRMKV----HPDE- 220
           +  L +           D    +    +   +      +    +     K      P   
Sbjct: 193 KEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVN 252

Query: 221 VTYNTLMHGRCRQGKVEEARRLLDQ 245
            T  +L     RQGK+E A  L D 
Sbjct: 253 TTLRSLGALYRRQGKLEAAHTLEDC 277

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	319
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	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.95
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.94
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.91
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.91
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.91
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.91
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.9
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.9
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.9
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.9
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.9
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.88
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.88
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.88
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.83
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.83
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.83
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.82
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.82
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.82
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.8
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.79
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.79
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.79
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.79
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.78
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.78
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.78
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.78
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.78
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.78
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.77
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.77
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.77
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.77
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.76
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.76
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.76
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.76
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.75
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.73
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.72
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.71
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.7
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.7
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.69
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.69
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.68
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.67
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.67
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.67
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.67
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.66
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.66
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.63
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.62
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.62
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.61
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.61
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.59
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.57
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.57
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.57
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.57
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.56
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.56
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.56
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.53
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.51
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.5
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.5
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.5
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.5
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.46
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.4
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.38
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.38
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.38
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.37
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.36
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.36
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.35
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.35
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.34
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.33
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.33
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.32
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.31
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.31
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.29
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.29
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.28
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.27
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.26
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.26
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.26
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.24
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.24
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.24
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.24
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.17
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.16
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.13
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.12
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.1
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.09
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.08
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.07
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.06
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.04
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.04
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.04
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.04
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.03
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.03
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.01
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.0
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.99
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.99
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.98
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.98
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.97
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.97
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.96
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.96
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.95
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.95
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.95
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.94
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.94
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.94
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.94
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.94
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.93
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.89
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.88
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.86
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.83
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.81
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.81
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.81
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.8
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.8
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.8
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.8
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.79
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.78
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.78
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.77
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.77
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.77
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.77
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.76
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.76
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.75
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.73
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.73
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.72
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.71
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.69
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.69
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.67
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.67
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.66
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.59
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.59
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.58
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.57
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.56
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	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	98.54
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.52
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.5
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.49
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.47
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.46
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.46
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.42
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.38
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.38
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.37
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.36
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.33
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.33
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.32
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.3
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.28
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.19
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.12
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.1
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.05
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.04
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.02
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.0
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.99
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.87
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.74
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.71
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.64
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.61
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.5
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.49
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.47
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.36
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.33
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.27
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.24
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.23
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.08
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.08
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.04
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.99
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.91
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.74
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.69
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.67
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.67
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.46
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.44
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.33
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.28
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.23
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.17
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.91
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.69
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.87
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.66
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.62
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	94.21
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	93.67
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.66
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.54
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	93.23
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.06
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	92.66
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	92.65
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	92.43
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	91.76
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	91.2
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	90.52
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	90.37
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	90.15
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	89.87
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	89.81
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	89.67
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	87.43
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	86.22
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	85.14
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	84.8
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	83.66
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	82.68

>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=9.5e-35  Score=240.21  Aligned_cols=198  Identities=19%  Similarity=0.269  Sum_probs=177.2

Q ss_pred             CCCCCCCCCcc-cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC---------hHHHHHHHHH
Q 039029            1 MKSRGVQPDSY-TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN---------LEMAFSFRDE   70 (319)
Q Consensus         1 M~~~g~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~a~~~~~~   70 (319)
                      |+++++.+.+. .++.+|.+|++.|++++|+++|++|.+.|+.||..+|+.+|.+|++.+.         .+.|.++|++
T Consensus        16 ~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~   95 (501)
T 4g26_A           16 AKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQ   95 (501)
T ss_dssp             --------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHH
T ss_pred             HHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHH
Confidence            35566665544 5888999999999999999999999999999999999999999987664         6889999999


Q ss_pred             HHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH
Q 039029           71 MVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTM  150 (319)
Q Consensus        71 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  150 (319)
                      |...|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||.
T Consensus        96 M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~  175 (501)
T 4g26_A           96 MIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEE  175 (501)
T ss_dssp             HHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCH
T ss_pred             HHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC
Q 039029          151 LTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTN  198 (319)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (319)
                      .+|+.++.+|++.|++++|.+++++|.+.+..|+..||+.++..|+..
T Consensus       176 ~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          176 PELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999988753

>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=1.1e-34  Score=239.89  Aligned_cols=185  Identities=19%  Similarity=0.308  Sum_probs=93.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhc---------cHHHHHHHHHHHhhCCCCccHHHH
Q 039029          118 YNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQN---------RMIEADQLFENFLAKGMLPDIVMF  188 (319)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---------~~~~a~~~~~~~~~~~~~~~~~~~  188 (319)
                      ++.+|.+|++.|++++|+++|++|.+.|+.||..+|+.+|.+|++.+         .++.|.++|++|...|+.||..+|
T Consensus        29 l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~ty  108 (501)
T 4g26_A           29 LKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATF  108 (501)
T ss_dssp             HHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHH
Confidence            34444444444444444444444444444444444444444444322         244455555555555555555555


Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHH
Q 039029          189 NALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNAL  268 (319)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  268 (319)
                      +.++.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.|+.       .+|+.|
T Consensus       109 n~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~-------~ty~~L  181 (501)
T 4g26_A          109 TNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEE-------PELAAL  181 (501)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCH-------HHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCH-------HHHHHH
Confidence            5555555555555555555555555555555555555555555555555555555555555544333       455555


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhh
Q 039029          269 IQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIAS  309 (319)
Q Consensus       269 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  309 (319)
                      +.+|++.|++++|.+++++|.+.|..|+..||..++..|..
T Consensus       182 i~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          182 LKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             HHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            55555555555555555555555555555555555544443

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.8e-30  Score=222.47  Aligned_cols=303  Identities=10%  Similarity=-0.025  Sum_probs=261.3

Q ss_pred             CCCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCC-------------------------------------------
Q 039029            5 GVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGL-------------------------------------------   41 (319)
Q Consensus         5 g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-------------------------------------------   41 (319)
                      |.+++..+|+.++..|.+.|++++|+++|+++.+.++                                           
T Consensus       195 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  274 (597)
T 2xpi_A          195 GIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSL  274 (597)
T ss_dssp             SCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHH
T ss_pred             ccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHH
Confidence            5566788999999999999999999999998865432                                           


Q ss_pred             ---------------------------CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC
Q 039029           42 ---------------------------VPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMER   94 (319)
Q Consensus        42 ---------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (319)
                                                 +++..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..++..++.++.+.|
T Consensus       275 ~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g  353 (597)
T 2xpi_A          275 YMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESG  353 (597)
T ss_dssp             HHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhC
Confidence                                       1566778888888899999999999999988775 337788888999999999


Q ss_pred             chhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHH
Q 039029           95 KMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFE  174 (319)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  174 (319)
                      ++++|..+++++.+..+ .+..++..++..|.+.|++++|.++|+++.+.. +.+..++..++.+|.+.|++++|.++|+
T Consensus       354 ~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  431 (597)
T 2xpi_A          354 EKNKLYLISNDLVDRHP-EKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYT  431 (597)
T ss_dssp             CHHHHHHHHHHHHHHCT-TSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999886543 478899999999999999999999999998864 5578899999999999999999999999


Q ss_pred             HHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc----C
Q 039029          175 NFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR----G  250 (319)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~  250 (319)
                      ++.+.+. .+..+|..++.+|.+.|++++|.++|+++.+.. +.+..+|..++..|.+.|++++|.++|+++.+.    +
T Consensus       432 ~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  509 (597)
T 2xpi_A          432 TAARLFQ-GTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQ  509 (597)
T ss_dssp             HHHHTTT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHhCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccc
Confidence            9988754 378899999999999999999999999998764 457889999999999999999999999999876    3


Q ss_pred             CCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          251 IKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      ..|+.     ...+|..++.+|.+.|++++|.++++++.+.+ +.+..+|..+...|.+.|++++|..
T Consensus       510 ~~p~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~  571 (597)
T 2xpi_A          510 SNEKP-----WAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAIT  571 (597)
T ss_dssp             CCSGG-----GHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cchhh-----HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHH
Confidence            34431     14789999999999999999999999999874 4488999999999999999999863

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.9e-30  Score=219.71  Aligned_cols=300  Identities=12%  Similarity=0.064  Sum_probs=223.6

Q ss_pred             CCCCcccHHHHHHHHhccCChHHHHHHHHHHHhC---------------CCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 039029            6 VQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKEN---------------GLVPTAVTYNTLIDGYCNKGNLEMAFSFRDE   70 (319)
Q Consensus         6 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   70 (319)
                      .+++..+++.++.+|.+.|++++|+++|+++...               +.+++..+|+.++.+|.+.|++++|.++|++
T Consensus       146 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  225 (597)
T 2xpi_A          146 YNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKE  225 (597)
T ss_dssp             GGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4677888888999999999999999988853221               1233577899999999999999999999988


Q ss_pred             HHHcCCC----------------------------------------------------------------------cCh
Q 039029           71 MVKQGIM----------------------------------------------------------------------PTA   80 (319)
Q Consensus        71 ~~~~~~~----------------------------------------------------------------------~~~   80 (319)
                      +.+.+..                                                                      ++.
T Consensus       226 ~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~  305 (597)
T 2xpi_A          226 ALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSS  305 (597)
T ss_dssp             HHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCH
T ss_pred             HHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchH
Confidence            8765321                                                                      344


Q ss_pred             hhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 039029           81 STYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVL  160 (319)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (319)
                      .+++.++..+.+.|++++|.++|+++.+.++. +..++..++.++.+.|++++|..+++++.+.. +.+..++..++.+|
T Consensus       306 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  383 (597)
T 2xpi_A          306 DLLLCKADTLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYY  383 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHH
Confidence            45555666666666666666666666654433 55566666666666666666666666666543 45677788888888


Q ss_pred             hhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHH
Q 039029          161 SKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR  240 (319)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  240 (319)
                      .+.|++++|.++|+++.+... .+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|..++.+|.+.|++++|.
T Consensus       384 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  461 (597)
T 2xpi_A          384 LCVNKISEARRYFSKSSTMDP-QFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLAN  461 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHH
Confidence            888888888888888776532 257788888888888888888888888887654 446778888888888888888888


Q ss_pred             HHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC----CCCCC--hHHHHHHHHHhhhcchhh
Q 039029          241 RLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK----GITPD--DNTYFSLIEGIASVDKAA  314 (319)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~  314 (319)
                      ++|+++.+..  |+      +..+|..++..|.+.|++++|.++|+++.+.    +..|+  ..+|..+..+|.+.|+++
T Consensus       462 ~~~~~~~~~~--~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~  533 (597)
T 2xpi_A          462 EYLQSSYALF--QY------DPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYD  533 (597)
T ss_dssp             HHHHHHHHHC--CC------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHhC--CC------ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHH
Confidence            8888887753  22      3478889999999999999999999998876    66777  678888999999999998


Q ss_pred             hhc
Q 039029          315 ESS  317 (319)
Q Consensus       315 ~A~  317 (319)
                      +|.
T Consensus       534 ~A~  536 (597)
T 2xpi_A          534 AAI  536 (597)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            885

>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=99.96  E-value=1.9e-26  Score=187.25  Aligned_cols=294  Identities=15%  Similarity=0.052  Sum_probs=192.3

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      +..+|..+...+.+.|++++|+..|+++.+.. +.+..+|..+..++...|++++|.+.|+++.+.. +.+...+..+..
T Consensus        66 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  143 (388)
T 1w3b_A           66 LAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGN  143 (388)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            34455666666666666666666666655532 1234455666666666666666666666665543 123344555555


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIE  168 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (319)
                      .+...|++++|.+.|+++.+..+. +..+|..+...+...|++++|...|+++.+.+ +.+...+..+...+...|++++
T Consensus       144 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~  221 (388)
T 1w3b_A          144 LLKALGRLEEAKACYLKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDR  221 (388)
T ss_dssp             HHHTTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHH
Confidence            566666666666666666554332 45566666666666666666666666666653 3345566666666666666666


Q ss_pred             HHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 039029          169 ADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  248 (319)
                      |...+++.....+. +..++..+...+...|++++|...++++.+.. +.+..++..+...+.+.|++++|...|+++.+
T Consensus       222 A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  299 (388)
T 1w3b_A          222 AVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALR  299 (388)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            66666666655322 46677777777888888888888888877653 33456777778888888888888888888777


Q ss_pred             cCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          249 RGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      ..  |+      +..++..+...+...|++++|...++++.+. .+.+..++..+...+.+.|++++|.
T Consensus       300 ~~--p~------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~  359 (388)
T 1w3b_A          300 LC--PT------HADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEAL  359 (388)
T ss_dssp             HC--TT------CHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHH
T ss_pred             hC--cc------cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHH
Confidence            53  22      3367788888888888888888888888775 2345677888888888888888875

>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=99.96  E-value=2e-25  Score=181.15  Aligned_cols=293  Identities=14%  Similarity=0.034  Sum_probs=253.8

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      ...+..+...+.+.|++++|...++...+.. +.+..+|..+...+.+.|++++|+..|+++.+.. +.+...|..+..+
T Consensus        33 ~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  110 (388)
T 1w3b_A           33 TGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAA  110 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHH
Confidence            4556677788889999999999999888764 4478899999999999999999999999998874 3356788999999


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      +...|++++|.+.|+++.+..+. +...+..+...+...|++++|.+.|+++.... +.+..++..+...+...|++++|
T Consensus       111 ~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  188 (388)
T 1w3b_A          111 LVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLA  188 (388)
T ss_dssp             HHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999887544 66778888899999999999999999999874 55678999999999999999999


Q ss_pred             HHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          170 DQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      ...|+++.+..+. +...+..+...+...|++++|...+++..+.. +.+..++..+...+...|++++|...|+++.+.
T Consensus       189 ~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  266 (388)
T 1w3b_A          189 IHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL  266 (388)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            9999999987543 57888999999999999999999999988764 335778899999999999999999999999985


Q ss_pred             CCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          250 GIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                        .|+.      ..+|..+...+.+.|++++|.+.++++.+. .+.+..++..+...+.+.|++++|.
T Consensus       267 --~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~  325 (388)
T 1w3b_A          267 --QPHF------PDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAV  325 (388)
T ss_dssp             --CSSC------HHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHH
T ss_pred             --CCCC------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHcCCHHHHH
Confidence              3433      368999999999999999999999999986 3567889999999999999999986

>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=99.95  E-value=5.8e-25  Score=181.94  Aligned_cols=300  Identities=13%  Similarity=0.070  Sum_probs=252.3

Q ss_pred             CCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHH
Q 039029            8 PDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLI   87 (319)
Q Consensus         8 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (319)
                      .+...+..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...++++.+.+ +.+...+..+.
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            345678889999999999999999999998763 3478899999999999999999999999999875 34678899999


Q ss_pred             HHHHHcCchhHHHHHHHHHhhCCCCCCh---HHHHHH------------HHHHHhcCChHHHHHHHHHHHHcCCCccHHH
Q 039029           88 HELLMERKMVEADDMLKEMGEKGIVPDS---ITYNIL------------INGYCRCGNAKKAFSLHDEMIHKGIQPTMLT  152 (319)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  152 (319)
                      .++...|++++|...|+++.+..+. +.   ..+..+            ...+...|++++|...++++.... +.+..+
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            9999999999999999999987543 44   555555            445899999999999999999875 567889


Q ss_pred             HHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHH------
Q 039029          153 YTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTL------  226 (319)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------  226 (319)
                      +..+..++.+.|++++|...|+++.+... .+..++..+...|...|++++|...++++.+.. +.+...+..+      
T Consensus       180 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~~~~  257 (450)
T 2y4t_A          180 RELRAECFIKEGEPRKAISDLKAASKLKN-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKL  257 (450)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHHC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHHHHH
Confidence            99999999999999999999999987643 368899999999999999999999999998753 2334444444      


Q ss_pred             ------HHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHH
Q 039029          227 ------MHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY  300 (319)
Q Consensus       227 ------~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  300 (319)
                            ...+...|++++|..+|+++.+..  |+...  .....|..+...+.+.|++++|...++++.... +.+...|
T Consensus       258 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~  332 (450)
T 2y4t_A          258 NKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAE--YTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNAL  332 (450)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHH--HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHH
Confidence                  788999999999999999998853  43210  002478889999999999999999999998762 4468899


Q ss_pred             HHHHHHhhhcchhhhhcC
Q 039029          301 FSLIEGIASVDKAAESSN  318 (319)
Q Consensus       301 ~~l~~~~~~~g~~~~A~~  318 (319)
                      ..+..+|...|++++|..
T Consensus       333 ~~l~~~~~~~~~~~~A~~  350 (450)
T 2y4t_A          333 KDRAEAYLIEEMYDEAIQ  350 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHH
Confidence            999999999999999863

>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=99.94  E-value=6e-23  Score=162.77  Aligned_cols=296  Identities=14%  Similarity=0.006  Sum_probs=248.4

Q ss_pred             CCCCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHH
Q 039029            5 GVQPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYN   84 (319)
Q Consensus         5 g~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (319)
                      +++.+...+..++..+...|++++|+++|+++.+... .+...+..++.++...|++++|..+++++.+.. +.+...+.
T Consensus        17 ~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~   94 (330)
T 3hym_B           17 GLQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDP-FHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWF   94 (330)
T ss_dssp             ---CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHH
T ss_pred             hchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHH
Confidence            4567778888999999999999999999999988643 356677788889999999999999999999875 34678889


Q ss_pred             HHHHHHHHcC-chhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh
Q 039029           85 LLIHELLMER-KMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ  163 (319)
Q Consensus        85 ~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (319)
                      .+...+...| ++++|...+++..+..+. +...|..+...+...|++++|...++++.+.. +.+...+..+...+...
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 999999999999987544 67889999999999999999999999999875 44567778899999999


Q ss_pred             ccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC--------CCCChhhHHHHHHHHHcCCc
Q 039029          164 NRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMK--------VHPDEVTYNTLMHGRCRQGK  235 (319)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~g~  235 (319)
                      |++++|...++++.+.... +...+..+...+...|++++|...++++.+..        .+....++..+...+...|+
T Consensus       173 ~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  251 (330)
T 3hym_B          173 NNSKLAERFFSQALSIAPE-DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKK  251 (330)
T ss_dssp             TCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcC
Confidence            9999999999999987543 67889999999999999999999999986642        13345688999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHh-hhcchhh
Q 039029          236 VEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGI-ASVDKAA  314 (319)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~  314 (319)
                      +++|...++++.+..  |+.      ...+..+...+...|++++|.+.++++.+.. +.+...+..+..++ ...|+.+
T Consensus       252 ~~~A~~~~~~a~~~~--~~~------~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          252 YAEALDYHRQALVLI--PQN------ASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHHHHHS--TTC------SHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHHHHHhhC--ccc------hHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCchh
Confidence            999999999999864  332      3789999999999999999999999988752 33667777777777 5566554

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.93  E-value=2e-22  Score=161.53  Aligned_cols=300  Identities=12%  Similarity=0.057  Sum_probs=246.6

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      |+..+..+...+.+.|++++|+..|+++.+..+ .+..++..+..++...|++++|...++++.+.. +.+...+..+..
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            355678888999999999999999999988643 367889999999999999999999999999874 336788899999


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCC--CChHHHHHH------------HHHHHhcCChHHHHHHHHHHHHcCCCccHHHHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIV--PDSITYNIL------------INGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYT  154 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  154 (319)
                      ++...|++++|...+++..+..+.  .+...+..+            ...+...|++++|...++++.+.. +.+...+.
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            999999999999999999987430  144555544            578899999999999999999875 56788999


Q ss_pred             HHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHH----------
Q 039029          155 SLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYN----------  224 (319)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----------  224 (319)
                      .+..++...|++++|...++++..... .+..++..+...+...|++++|...+++..+.. +.+...+.          
T Consensus       159 ~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~  236 (359)
T 3ieg_A          159 LRAECFIKEGEPRKAISDLKAASKLKS-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNK  236 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCS-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHHH
Confidence            999999999999999999999988753 368889999999999999999999999998764 22333333          


Q ss_pred             --HHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHH
Q 039029          225 --TLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFS  302 (319)
Q Consensus       225 --~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  302 (319)
                        .+...+...|++++|...++++.+..  |+...  .....+..+...+...|++++|...+++..+.. +.+...+..
T Consensus       237 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~--~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  311 (359)
T 3ieg_A          237 LIESAEELIRDGRYTDATSKYESVMKTE--PSVAE--YTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKD  311 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHH--HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchH--HHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHH
Confidence              23667889999999999999998854  33210  011335567889999999999999999999862 447888999


Q ss_pred             HHHHhhhcchhhhhcC
Q 039029          303 LIEGIASVDKAAESSN  318 (319)
Q Consensus       303 l~~~~~~~g~~~~A~~  318 (319)
                      +...+...|++++|..
T Consensus       312 ~~~~~~~~g~~~~A~~  327 (359)
T 3ieg_A          312 RAEAYLIEEMYDEAIQ  327 (359)
T ss_dssp             HHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHcCCHHHHHH
Confidence            9999999999998863

>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=99.93  E-value=1.6e-22  Score=167.25  Aligned_cols=282  Identities=12%  Similarity=0.034  Sum_probs=235.9

Q ss_pred             CCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcCh---hhH
Q 039029            7 QPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTA---STY   83 (319)
Q Consensus         7 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~   83 (319)
                      +.+..+|..+...+.+.|++++|+..|+++.+.+. .+..++..+..++...|++++|.+.|+++.+... .+.   ..+
T Consensus        57 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~  134 (450)
T 2y4t_A           57 PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKM-DFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNP-SENEEKEAQ  134 (450)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCC-CHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CChhhHHHH
Confidence            34577889999999999999999999999998753 3678899999999999999999999999998742 233   455


Q ss_pred             HHH------------HHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHH
Q 039029           84 NLL------------IHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTML  151 (319)
Q Consensus        84 ~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  151 (319)
                      ..+            ...+...|++++|...++++.+..+. +...+..+..+|...|++++|...++++.+.. +.+..
T Consensus       135 ~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~  212 (450)
T 2y4t_A          135 SQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTE  212 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH
Confidence            444            44588999999999999999887543 78899999999999999999999999998874 56789


Q ss_pred             HHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHH------------HHHHhcCCcHHHHHHHHHHHHhCCCCCC
Q 039029          152 TYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNAL------------IDGHCTNGNIERAFSLLKEMDRMKVHPD  219 (319)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~  219 (319)
                      ++..+..++...|++++|...++++...... +...+..+            ...+...|++++|...|+++.+..  |+
T Consensus       213 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~  289 (450)
T 2y4t_A          213 AFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PS  289 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CS
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc
Confidence            9999999999999999999999999876433 44445444            788999999999999999998753  44


Q ss_pred             -----hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCC
Q 039029          220 -----EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGIT  294 (319)
Q Consensus       220 -----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  294 (319)
                           ...+..+...+.+.|++++|...++++.+..  |+      +..+|..+..+|...|++++|...++++.+.  .
T Consensus       290 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~--p~------~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~  359 (450)
T 2y4t_A          290 IAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME--PD------NVNALKDRAEAYLIEEMYDEAIQDYETAQEH--N  359 (450)
T ss_dssp             SHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TT------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--S
T ss_pred             chHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cc------cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--C
Confidence                 3477888999999999999999999998753  33      3378999999999999999999999999985  4


Q ss_pred             CC-hHHHHHHHH
Q 039029          295 PD-DNTYFSLIE  305 (319)
Q Consensus       295 ~~-~~~~~~l~~  305 (319)
                      |+ ...+..+..
T Consensus       360 p~~~~~~~~l~~  371 (450)
T 2y4t_A          360 ENDQQIREGLEK  371 (450)
T ss_dssp             SSCHHHHHHHHH
T ss_pred             cchHHHHHHHHH
Confidence            54 555555553

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=6.1e-22  Score=166.47  Aligned_cols=302  Identities=11%  Similarity=-0.017  Sum_probs=193.2

Q ss_pred             CCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC----------
Q 039029            8 PDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM----------   77 (319)
Q Consensus         8 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------   77 (319)
                      |+..+|..+..++.+.|++++|+..++++.+.++ .+..++..+..++...|++++|...|+.+...+..          
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            6677777777777777888888887777776542 35567777777777777777777777766554310          


Q ss_pred             --------------------------------------------------------------------------------
Q 039029           78 --------------------------------------------------------------------------------   77 (319)
Q Consensus        78 --------------------------------------------------------------------------------   77 (319)
                                                                                                      
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             ---------------------------------------cChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHH
Q 039029           78 ---------------------------------------PTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITY  118 (319)
Q Consensus        78 ---------------------------------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  118 (319)
                                                             .+...+..+...+...|++++|...++++.+..+.  ...+
T Consensus       196 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~  273 (514)
T 2gw1_A          196 NLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSY  273 (514)
T ss_dssp             HHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHH
T ss_pred             HHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHH
Confidence                                                   01122223333334444444444444444433222  4444


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC
Q 039029          119 NILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTN  198 (319)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (319)
                      ..+...+...|++++|...++++.... +.+...+..+..++...|++++|...++++.+.... +...+..+...+...
T Consensus       274 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~  351 (514)
T 2gw1_A          274 IYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRE  351 (514)
T ss_dssp             HHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHc
Confidence            444455555555555555555544432 334455556666666666666676666666655332 455666677777777


Q ss_pred             CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHh---c
Q 039029          199 GNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCK---N  275 (319)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~  275 (319)
                      |++++|...++++.+.. +.+...+..+...+...|++++|...++++.+..  |+.....-....+..+...+..   .
T Consensus       352 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~l~~~~~~~~~~  428 (514)
T 2gw1_A          352 NKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELE--NKLDGIYVGIAPLVGKATLLTRNPTV  428 (514)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HTSSSCSSCSHHHHHHHHHHHTSCCT
T ss_pred             CCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhh--hccchHHHHHHHHHHHHHHHhhhhhc
Confidence            77777777777776543 3345667777778888888888888888776642  2211000112488999999999   9


Q ss_pred             CchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          276 QEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       276 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      |++++|...++++.... +.+...+..+...+.+.|++++|..
T Consensus       429 ~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~  470 (514)
T 2gw1_A          429 ENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAIT  470 (514)
T ss_dssp             THHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHH
Confidence            99999999999999863 4467788899999999999999863

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.91  E-value=1.3e-21  Score=164.43  Aligned_cols=294  Identities=10%  Similarity=0.001  Sum_probs=245.8

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      ...+......+.+.|++++|+..|+++.+.+  |+..+|..+..++...|++++|+..++++++.+ +.+..++..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHH
Confidence            3456778889999999999999999999865  689999999999999999999999999999875 4467889999999


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCC--------------------------------------------------------
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVP--------------------------------------------------------  113 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~--------------------------------------------------------  113 (319)
                      +...|++++|...|+++...+...                                                        
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVT  162 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHH
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhH
Confidence            999999999999999987764311                                                        


Q ss_pred             ----------------------ChHHHHHHHHHHHh---cCChHHHHHHHHHHHH-----cC-C-------CccHHHHHH
Q 039029          114 ----------------------DSITYNILINGYCR---CGNAKKAFSLHDEMIH-----KG-I-------QPTMLTYTS  155 (319)
Q Consensus       114 ----------------------~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~-~-------~~~~~~~~~  155 (319)
                                            +...+......+..   .|++++|...++++..     .. .       +.+..++..
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (514)
T 2gw1_A          163 SMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEH  242 (514)
T ss_dssp             HHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHH
Confidence                                  12333333333443   8999999999999988     31 0       234567888


Q ss_pred             HHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCc
Q 039029          156 LIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGK  235 (319)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  235 (319)
                      +...+...|++++|...++++.+....  ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+
T Consensus       243 ~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  319 (514)
T 2gw1_A          243 TGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQN  319 (514)
T ss_dssp             HHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCC
Confidence            889999999999999999999887544  8888899999999999999999999998764 4467788999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhh
Q 039029          236 VEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAE  315 (319)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  315 (319)
                      +++|...++++.+..  |+.      ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++
T Consensus       320 ~~~A~~~~~~~~~~~--~~~------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  390 (514)
T 2gw1_A          320 YDQAGKDFDKAKELD--PEN------IFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDK  390 (514)
T ss_dssp             TTHHHHHHHHHHHTC--SSC------SHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhC--hhh------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHH
Confidence            999999999998853  332      2688899999999999999999999998862 4467788899999999999998


Q ss_pred             hcC
Q 039029          316 SSN  318 (319)
Q Consensus       316 A~~  318 (319)
                      |..
T Consensus       391 A~~  393 (514)
T 2gw1_A          391 ALK  393 (514)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            863

>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=99.91  E-value=5e-21  Score=151.66  Aligned_cols=272  Identities=9%  Similarity=-0.033  Sum_probs=228.9

Q ss_pred             CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHH
Q 039029           41 LVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI  120 (319)
Q Consensus        41 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  120 (319)
                      .+.+...+..+...+...|++++|.++++++.+.. +.+...+..++.++...|++++|...++++.+..+. +...+..
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~   95 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPS-NPVSWFA   95 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHH
Confidence            34566778889999999999999999999999875 346677778889999999999999999999987544 7888999


Q ss_pred             HHHHHHhcC-ChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCC
Q 039029          121 LINGYCRCG-NAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNG  199 (319)
Q Consensus       121 l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (319)
                      +...+...| ++++|...++++.... +.+...+..+..++...|++++|...++++.+.... +...+..+...|...|
T Consensus        96 l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~  173 (330)
T 3hym_B           96 VGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTN  173 (330)
T ss_dssp             HHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHh
Confidence            999999999 9999999999998874 456788999999999999999999999999887543 4566777999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCC-cccCcchhhHHHHHHHHHhcCch
Q 039029          200 NIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDH-ISFNPTRLTYNALIQGLCKNQEG  278 (319)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~  278 (319)
                      ++++|...++++.+.. +.+...+..+...+...|++++|...++++.+....... ...+....++..+...+...|++
T Consensus       174 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  252 (330)
T 3hym_B          174 NSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKY  252 (330)
T ss_dssp             CHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCH
Confidence            9999999999998864 456788999999999999999999999999875321111 11123347899999999999999


Q ss_pred             hHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          279 DLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       279 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      ++|...+++..+.. +.+...+..+...+.+.|++++|..
T Consensus       253 ~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~  291 (330)
T 3hym_B          253 AEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVD  291 (330)
T ss_dssp             HHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHH
Confidence            99999999999863 4467889999999999999999863

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.91  E-value=3e-20  Score=148.87  Aligned_cols=290  Identities=11%  Similarity=0.017  Sum_probs=236.4

Q ss_pred             CCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--cChhhHHH
Q 039029            8 PDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM--PTASTYNL   85 (319)
Q Consensus         8 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~   85 (319)
                      .+..++..+...+...|++++|+..++++.+... .+...+..+..++...|++++|...++++.+....  .+...+..
T Consensus        35 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~  113 (359)
T 3ieg_A           35 DNYIAYYRRATVFLAMGKSKAALPDLTKVIALKM-DFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQ  113 (359)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHH
Confidence            3467788899999999999999999999988643 36788999999999999999999999999987420  24444444


Q ss_pred             H------------HHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHH
Q 039029           86 L------------IHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTY  153 (319)
Q Consensus        86 l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (319)
                      +            ...+...|++++|...++++.+..+. +...+..+...+...|++++|...++++.... +.+..++
T Consensus       114 l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  191 (359)
T 3ieg_A          114 LVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAF  191 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHH
Confidence            4            57888999999999999999887544 78899999999999999999999999999874 5678899


Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHH------------HHHHHHhcCCcHHHHHHHHHHHHhCCCCCCh-
Q 039029          154 TSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFN------------ALIDGHCTNGNIERAFSLLKEMDRMKVHPDE-  220 (319)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-  220 (319)
                      ..+...+...|++++|...+++..+.... +...+.            .+...+...|++++|...++++.+... .+. 
T Consensus       192 ~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~  269 (359)
T 3ieg_A          192 YKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEP-SVAE  269 (359)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SSHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CchH
Confidence            99999999999999999999999876433 333332            236678899999999999999987642 222 


Q ss_pred             ---hhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCC-
Q 039029          221 ---VTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPD-  296 (319)
Q Consensus       221 ---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-  296 (319)
                         ..+..+...+...|++++|...++++.+..  |+      +..++..+...+...|++++|.+.++++.+.  .|+ 
T Consensus       270 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~------~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~--~p~~  339 (359)
T 3ieg_A          270 YTVRSKERICHCFSKDEKPVEAIRICSEVLQME--PD------NVNALKDRAEAYLIEEMYDEAIQDYEAAQEH--NEND  339 (359)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTC
T ss_pred             HHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cc------cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCC
Confidence               234557789999999999999999999863  33      3378999999999999999999999999985  454 


Q ss_pred             hHHHHHHHHHhhhcch
Q 039029          297 DNTYFSLIEGIASVDK  312 (319)
Q Consensus       297 ~~~~~~l~~~~~~~g~  312 (319)
                      ...+..+..+....++
T Consensus       340 ~~~~~~l~~~~~~~~~  355 (359)
T 3ieg_A          340 QQIREGLEKAQRLLKQ  355 (359)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHH
Confidence            5566666666555443

>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=99.91  E-value=9.7e-22  Score=158.28  Aligned_cols=286  Identities=12%  Similarity=0.006  Sum_probs=225.8

Q ss_pred             HhccCChHHHHH-HHHHHHhCCC---CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCc
Q 039029           20 MCKEGRLEEASR-MLEQMKENGL---VPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERK   95 (319)
Q Consensus        20 ~~~~~~~~~a~~-~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (319)
                      +.-.|++++|++ .|++......   ..+...+..+...+...|++++|...++++.+.. +.+...+..+..++...|+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC
Confidence            344577888888 7776554322   1135678889999999999999999999999875 4477889999999999999


Q ss_pred             hhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHH---------------HHHHH
Q 039029           96 MVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTS---------------LIFVL  160 (319)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l~~~~  160 (319)
                      +++|...++++.+..+. +..++..+...+...|++++|...++++.... +.+...+..               .+..+
T Consensus       114 ~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (368)
T 1fch_A          114 ELLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEGAGGAGLGPSKRILGSL  191 (368)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC---------------CTTHHH
T ss_pred             HHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHhhhhcccHHHHHHHHH
Confidence            99999999999987644 78899999999999999999999999999864 222222221               13334


Q ss_pred             hhhccHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHH
Q 039029          161 SKQNRMIEADQLFENFLAKGMLP-DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEA  239 (319)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  239 (319)
                      ...|++++|...++++.+..... +..++..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|
T Consensus       192 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A  270 (368)
T 1fch_A          192 LSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEA  270 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHH
Confidence            48999999999999998874332 57889999999999999999999999998764 44577899999999999999999


Q ss_pred             HHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCC----------CChHHHHHHHHHhhh
Q 039029          240 RRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGIT----------PDDNTYFSLIEGIAS  309 (319)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----------~~~~~~~~l~~~~~~  309 (319)
                      ...++++.+..  |+      +..++..+...|.+.|++++|...++++....-.          ....+|..+..++..
T Consensus       271 ~~~~~~al~~~--~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  342 (368)
T 1fch_A          271 VAAYRRALELQ--PG------YIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSM  342 (368)
T ss_dssp             HHHHHHHHHHC--TT------CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC--CC------cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHH
Confidence            99999998853  33      2378899999999999999999999999875211          126789999999999


Q ss_pred             cchhhhhc
Q 039029          310 VDKAAESS  317 (319)
Q Consensus       310 ~g~~~~A~  317 (319)
                      .|++++|.
T Consensus       343 ~g~~~~A~  350 (368)
T 1fch_A          343 LGQSDAYG  350 (368)
T ss_dssp             HTCGGGHH
T ss_pred             hCChHhHH
Confidence            99999885

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.90  E-value=1.8e-21  Score=156.62  Aligned_cols=274  Identities=13%  Similarity=-0.056  Sum_probs=220.7

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      +...+..+...+.+.|++++|+..|+++.+... .+..+|..+..++...|++++|+..|+++.+.. +.+..++..+..
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            455688899999999999999999999998653 478899999999999999999999999999875 346889999999


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCC---------ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc--cHHHHHHHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVP---------DSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQP--TMLTYTSLI  157 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~  157 (319)
                      ++...|++++|...++++.+..+..         ....+..+...+...|++++|...++++.+.. +.  +..++..+.
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l~  220 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHHH
Confidence            9999999999999999998753210         12233445788999999999999999999874 33  688999999


Q ss_pred             HHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHH
Q 039029          158 FVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVE  237 (319)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  237 (319)
                      ..+...|++++|...++++.+.... +..++..+..+|...|++++|...++++.+.. +.+..++..+...|...|+++
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVRPE-DYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            9999999999999999999887533 68899999999999999999999999998864 345788999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCCc----ccCcchhhHHHHHHHHHhcCchhHHHHHHHH
Q 039029          238 EARRLLDQMKRRGIKPDHI----SFNPTRLTYNALIQGLCKNQEGDLAEELLRE  287 (319)
Q Consensus       238 ~a~~~~~~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  287 (319)
                      +|...|+++.+........    ....+...|..+..++...|+.+.+..+.++
T Consensus       299 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          299 EAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999998753221110    0011347899999999999999988887665

>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=99.90  E-value=6.2e-21  Score=153.58  Aligned_cols=275  Identities=11%  Similarity=-0.033  Sum_probs=227.3

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      +...+..+...+.+.|++++|+..|+++.+... .+..++..+..++...|++++|...++++.+.. +.+..++..+..
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            356688899999999999999999999998753 477889999999999999999999999999875 447888999999


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHH---------------HHHHHHhcCChHHHHHHHHHHHHcCCCc--cHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNI---------------LINGYCRCGNAKKAFSLHDEMIHKGIQP--TML  151 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~  151 (319)
                      ++...|++++|...++++.+..+. +...+..               .+..+...|++++|...++++.... +.  +..
T Consensus       141 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~  218 (368)
T 1fch_A          141 SFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLD-PTSIDPD  218 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHS-TTSCCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhC-cCcccHH
Confidence            999999999999999999987543 3333321               2344448999999999999999874 33  578


Q ss_pred             HHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 039029          152 TYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRC  231 (319)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  231 (319)
                      ++..+..++...|++++|...++++..... .+..++..+...+...|++++|...++++.+.. +.+...+..+...|.
T Consensus       219 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~  296 (368)
T 1fch_A          219 VQCGLGVLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCI  296 (368)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            999999999999999999999999988743 367889999999999999999999999998764 446778999999999


Q ss_pred             cCCcHHHHHHHHHHHHHcCCCC---CCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHH
Q 039029          232 RQGKVEEARRLLDQMKRRGIKP---DHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMV  289 (319)
Q Consensus       232 ~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  289 (319)
                      ..|++++|...|+++.+.....   .....+....+|..+..+|...|++++|..++++.+
T Consensus       297 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          297 NLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCH
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHHH
Confidence            9999999999999998753211   000011124789999999999999999999877543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.90  E-value=2.7e-21  Score=155.59  Aligned_cols=262  Identities=12%  Similarity=-0.013  Sum_probs=215.5

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILIN  123 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (319)
                      +...+..+...+.+.|++++|+..|+++++.. +.+..++..+..++...|++++|...|+++.+..+. +..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPN-NLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHH
Confidence            44568889999999999999999999999875 447889999999999999999999999999987543 7889999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCccHH----------HHHHHHHHHhhhccHHHHHHHHHHHhhCCCC-ccHHHHHHHH
Q 039029          124 GYCRCGNAKKAFSLHDEMIHKGIQPTML----------TYTSLIFVLSKQNRMIEADQLFENFLAKGML-PDIVMFNALI  192 (319)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~----------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~  192 (319)
                      +|...|++++|...++++.+.. +.+..          .+..+...+...|++++|...++++.+.... ++..++..+.
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQN-PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhC-ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            9999999999999999998863 22222          2334578899999999999999999987433 2678899999


Q ss_pred             HHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHH
Q 039029          193 DGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGL  272 (319)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  272 (319)
                      ..|...|++++|...++++.+.. +.+..+|..+...|...|++++|...|+++.+..  |+.      ..++..+..+|
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~------~~~~~~l~~~~  291 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ--PGF------IRSRYNLGISC  291 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTC------HHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCc------hHHHHHHHHHH
Confidence            99999999999999999998864 4567899999999999999999999999999863  332      37899999999


Q ss_pred             HhcCchhHHHHHHHHHHhCCC---C--------CChHHHHHHHHHhhhcchhhhhc
Q 039029          273 CKNQEGDLAEELLREMVSKGI---T--------PDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       273 ~~~g~~~~A~~~~~~~~~~~~---~--------~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      .+.|++++|...++++.+..-   .        .+...|..+..++...|+.+.|.
T Consensus       292 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  347 (365)
T 4eqf_A          292 INLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQ  347 (365)
T ss_dssp             HHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHH
Confidence            999999999999999987520   0        13678889999999999888764

>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=99.90  E-value=1.5e-20  Score=158.89  Aligned_cols=301  Identities=12%  Similarity=0.035  Sum_probs=219.5

Q ss_pred             CCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc-------------
Q 039029            8 PDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ-------------   74 (319)
Q Consensus         8 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------------   74 (319)
                      .++.+|..+..++.+.|++++|++.|+++.+.++ .+..++..+..++...|++++|...|+.+...             
T Consensus        57 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  135 (537)
T 3fp2_A           57 NEPVFYSNISACYISTGDLEKVIEFTTKALEIKP-DHSKALLRRASANESLGNFTDAMFDLSVLSLNGDFDGASIEPMLE  135 (537)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHC-----------CHHH
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-chHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHH
Confidence            3566777788888888888888888888877643 36677778888888888888887766422100             


Q ss_pred             --------------------------------------------------------------------------------
Q 039029           75 --------------------------------------------------------------------------------   74 (319)
Q Consensus        75 --------------------------------------------------------------------------------   74 (319)
                                                                                                      
T Consensus       136 ~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~  215 (537)
T 3fp2_A          136 RNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVAN  215 (537)
T ss_dssp             HHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHH
Confidence                                                                                            


Q ss_pred             --------------CCCcC--------hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChH
Q 039029           75 --------------GIMPT--------ASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAK  132 (319)
Q Consensus        75 --------------~~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  132 (319)
                                    ...|+        ..++..+...+...|++++|...+++..+..  |+...+..+...+...|+++
T Consensus       216 ~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~  293 (537)
T 3fp2_A          216 DLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQ  293 (537)
T ss_dssp             HHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCH
T ss_pred             HHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHH
Confidence                          00111        1124444455666777777877777777653  34667777778888888888


Q ss_pred             HHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Q 039029          133 KAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMD  212 (319)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (319)
                      +|...++++.... +.+..++..+..++...|++++|...++++.+.... +...+..+...+...|++++|...++++.
T Consensus       294 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~  371 (537)
T 3fp2_A          294 EFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETK  371 (537)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            8888888887764 456778888888888888888888888888776433 45678888888888899999999888887


Q ss_pred             hCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhc----------CchhHHH
Q 039029          213 RMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKN----------QEGDLAE  282 (319)
Q Consensus       213 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------g~~~~A~  282 (319)
                      +.. +.+...+..+...+...|++++|...|+++.+..  |+..........+......+...          |++++|.
T Consensus       372 ~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~  448 (537)
T 3fp2_A          372 LKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE--EVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAI  448 (537)
T ss_dssp             HHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHH
T ss_pred             HhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC--CcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHH
Confidence            764 3456678888888899999999999998887753  22211112223345556777777          9999999


Q ss_pred             HHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          283 ELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       283 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      ..++++.+.. +.+...+..+...+.+.|++++|.
T Consensus       449 ~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~  482 (537)
T 3fp2_A          449 KLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAI  482 (537)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHH
Confidence            9999999863 446788899999999999999986

>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=99.90  E-value=6.8e-21  Score=150.70  Aligned_cols=276  Identities=11%  Similarity=-0.047  Sum_probs=226.3

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      +...+..+...+...|++++|+.+|+++.+... .+..++..+..++...|++++|...++++.+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            456677889999999999999999999988643 377889999999999999999999999999875 347788899999


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHH--------------HH-HHHhcCChHHHHHHHHHHHHcCCCccHHHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNIL--------------IN-GYCRCGNAKKAFSLHDEMIHKGIQPTMLTY  153 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (319)
                      ++...|++++|.+.++++.+..+. +...+..+              .. .+...|++++|...++++.+.. +.+...+
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            999999999999999999886443 33334333              22 3778899999999999999875 5578899


Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcC
Q 039029          154 TSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQ  233 (319)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  233 (319)
                      ..+...+...|++++|...++++.+... .+..++..+...+...|++++|...++++.+.. +.+...+..+...+...
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELRP-DDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999988743 367889999999999999999999999988764 44677889999999999


Q ss_pred             CcHHHHHHHHHHHHHcCCCCCCccc----CcchhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          234 GKVEEARRLLDQMKRRGIKPDHISF----NPTRLTYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       234 g~~~~a~~~~~~~~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      |++++|.+.++++.+..........    ..+...|..+..++.+.|++++|..++++..+
T Consensus       254 g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             TCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             ccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            9999999999999886432111000    00347889999999999999999998876543

>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=99.88  E-value=3.7e-20  Score=146.47  Aligned_cols=261  Identities=12%  Similarity=-0.040  Sum_probs=217.3

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILIN  123 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (319)
                      +...+......+...|++++|..+++++.+.. +.+...+..+..++...|++++|...++++.+..+. +...+..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcC-CHHHHHHHHH
Confidence            44567788889999999999999999999875 347788889999999999999999999999887543 7888999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCccHHHHHHH--------------HH-HHhhhccHHHHHHHHHHHhhCCCCccHHHH
Q 039029          124 GYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSL--------------IF-VLSKQNRMIEADQLFENFLAKGMLPDIVMF  188 (319)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  188 (319)
                      .+...|++++|...++++.... +.+...+..+              .. .+...|++++|...++++.+.... +...+
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN-DAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTT-CHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCC-CHHHH
Confidence            9999999999999999998863 2233333333              33 478899999999999999887543 68889


Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHH
Q 039029          189 NALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNAL  268 (319)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  268 (319)
                      ..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+..  |+      +..++..+
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~------~~~~~~~l  246 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN--PG------YVRVMYNM  246 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT------CHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CC------CHHHHHHH
Confidence            999999999999999999999998764 4467789999999999999999999999998853  33      23688999


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCC-----------ChHHHHHHHHHhhhcchhhhhc
Q 039029          269 IQGLCKNQEGDLAEELLREMVSKGITP-----------DDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       269 ~~~~~~~g~~~~A~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      ...+...|++++|.+.++++.......           +...+..+..++.+.|++++|.
T Consensus       247 ~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  306 (327)
T 3cv0_A          247 AVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVE  306 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHH
Confidence            999999999999999999998753111           3678888999999999999885

>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=99.88  E-value=1e-19  Score=153.86  Aligned_cols=293  Identities=12%  Similarity=0.038  Sum_probs=231.7

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      ...|..+...+.+.|++++|+..|+++....+ .++.++..+..++...|++++|++.++++.+.+ +.+...+..+..+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDP-NEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            35577888999999999999999999998753 478899999999999999999999999999875 3477889999999


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCC-------------------------------------ChH----------------
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVP-------------------------------------DSI----------------  116 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~-------------------------------------~~~----------------  116 (319)
                      +...|++++|...|+.+... +.+                                     +..                
T Consensus       103 ~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVLSLN-GDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVS  181 (537)
T ss_dssp             HHHHTCHHHHHHHHHHHC------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHhcC-CCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHH
Confidence            99999999999999644211 110                                     000                


Q ss_pred             --------------HHHHHHHHHH--------hcCChHHHHHHHHHHHHcCCCccH-------HHHHHHHHHHhhhccHH
Q 039029          117 --------------TYNILINGYC--------RCGNAKKAFSLHDEMIHKGIQPTM-------LTYTSLIFVLSKQNRMI  167 (319)
Q Consensus       117 --------------~~~~l~~~~~--------~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~  167 (319)
                                    ....+...+.        ..|++++|..+++++.+.. +.+.       .++..+...+...|+++
T Consensus       182 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~  260 (537)
T 3fp2_A          182 SVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN-TVDDPLRENAALALCYTGIFHFLKNNLL  260 (537)
T ss_dssp             TSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC-CCcchhhHHHHHHHHHHHHHHHhcccHH
Confidence                          1111111111        1247888999999888764 2232       34666677888899999


Q ss_pred             HHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHH
Q 039029          168 EADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMK  247 (319)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  247 (319)
                      +|...++++.+..  |+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.
T Consensus       261 ~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  337 (537)
T 3fp2_A          261 DAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQ  337 (537)
T ss_dssp             HHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            9999999998874  457888889999999999999999999998764 4467789999999999999999999999998


Q ss_pred             HcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          248 RRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      +..  |+.      ...|..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|..
T Consensus       338 ~~~--~~~------~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  399 (537)
T 3fp2_A          338 SLN--PEN------VYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIK  399 (537)
T ss_dssp             HHC--TTC------SHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhC--CCC------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHH
Confidence            854  332      2688899999999999999999999999863 4467788889999999999998863

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.88  E-value=9.6e-20  Score=141.28  Aligned_cols=275  Identities=12%  Similarity=0.075  Sum_probs=216.5

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      |+.....|++..|+..++................+.++|...|+++.|+..++.   . -+|+..++..+...+...++.
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcH
Confidence            455667899999999998765543222234556778999999999999986654   2 356778888899999999999


Q ss_pred             hHHHHHHHHHhhCCCCC-ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHH
Q 039029           97 VEADDMLKEMGEKGIVP-DSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFEN  175 (319)
Q Consensus        97 ~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (319)
                      ++|.+.++++...+..| +...+..+...+...|++++|++.+++      +.+...+..++.++.+.|++++|.+.+++
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            99999999998776434 566777788999999999999999987      46788999999999999999999999999


Q ss_pred             HhhCCCCccHH---HHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCC
Q 039029          176 FLAKGMLPDIV---MFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIK  252 (319)
Q Consensus       176 ~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  252 (319)
                      +.+..  |+..   ....++..+...|++++|..+|+++.+.. +.+...++.+..++...|++++|...|+++++..  
T Consensus       156 ~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~--  230 (291)
T 3mkr_A          156 MQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD--  230 (291)
T ss_dssp             HHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--
T ss_pred             HHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--
Confidence            98874  3322   11233455556799999999999998873 5678889999999999999999999999999853  


Q ss_pred             CCCcccCcchhhHHHHHHHHHhcCchhH-HHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          253 PDHISFNPTRLTYNALIQGLCKNQEGDL-AEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       253 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      |+.      ..++..++..+...|+.++ +.++++++.+.  .|+....   .....+.+.+++|.
T Consensus       231 p~~------~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~--~P~~~~~---~d~~~~~~~fd~~~  285 (291)
T 3mkr_A          231 SGH------PETLINLVVLSQHLGKPPEVTNRYLSQLKDA--HRSHPFI---KEYRAKENDFDRLV  285 (291)
T ss_dssp             TTC------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHH---HHHHHHHHHHHHHH
T ss_pred             CCC------HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh--CCCChHH---HHHHHHHHHHHHHH
Confidence            443      3788999999999999976 67899999875  5665432   33455566666553

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.83  E-value=1.2e-17  Score=129.47  Aligned_cols=247  Identities=13%  Similarity=0.076  Sum_probs=197.4

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc-ChhhHHHHHHHH
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMP-TASTYNLLIHEL   90 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~   90 (319)
                      ....+.+++...|+++.|+..++.    .-+|+..++..+...+...++.++|++.++++...+..| +...+..+...+
T Consensus        36 ~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~  111 (291)
T 3mkr_A           36 RDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIY  111 (291)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHH
Confidence            445578899999999999986644    245677888999999999999999999999999876434 566677778899


Q ss_pred             HHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHH-H--HHHHHHHHhhhccHH
Q 039029           91 LMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTML-T--YTSLIFVLSKQNRMI  167 (319)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~--~~~l~~~~~~~~~~~  167 (319)
                      ...|++++|++.+++      +.+...+..++..+.+.|++++|.+.++++.+..  |+.. .  ...++..+...|+++
T Consensus       112 ~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~  183 (291)
T 3mkr_A          112 FYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQ  183 (291)
T ss_dssp             HHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHH
T ss_pred             HHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHH
Confidence            999999999999987      3578899999999999999999999999999874  3322 1  122334445669999


Q ss_pred             HHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHH-HHHHHHHH
Q 039029          168 EADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEE-ARRLLDQM  246 (319)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~  246 (319)
                      +|..+|+++.+.. +.+...++.+..++.+.|++++|...++++.+.. +-+..++..++..+...|+.++ +.++++++
T Consensus       184 eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~  261 (291)
T 3mkr_A          184 DAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQL  261 (291)
T ss_dssp             HHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            9999999999874 4578999999999999999999999999998864 4467789999999999999876 67899999


Q ss_pred             HHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHH
Q 039029          247 KRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEEL  284 (319)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  284 (319)
                      .+.  .|+.          ..+.....+.+.++++..-
T Consensus       262 ~~~--~P~~----------~~~~d~~~~~~~fd~~~~~  287 (291)
T 3mkr_A          262 KDA--HRSH----------PFIKEYRAKENDFDRLVLQ  287 (291)
T ss_dssp             HHH--CTTC----------HHHHHHHHHHHHHHHHHHH
T ss_pred             HHh--CCCC----------hHHHHHHHHHHHHHHHHHH
Confidence            885  4554          2334445555566655543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.83  E-value=5e-18  Score=126.04  Aligned_cols=199  Identities=14%  Similarity=0.016  Sum_probs=115.5

Q ss_pred             CCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHH
Q 039029            7 QPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLL   86 (319)
Q Consensus         7 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (319)
                      +++...+..+...+.+.|++++|+..|++..+..+ .+...+..+..++.+.|++++|+..+++.++.. +.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENP-QDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            56677777777777778888888888877776543 366677777777777888888888777777764 2355666677


Q ss_pred             HHHHHHc-----------CchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHH
Q 039029           87 IHELLME-----------RKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTS  155 (319)
Q Consensus        87 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (319)
                      ..++...           |++++|...+++..+..+. +...+..+..++...|++++|+..|++..+..  .+...+..
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            7777666           6666666666665554332 45555555556666666666666666655554  45555555


Q ss_pred             HHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHH
Q 039029          156 LIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEM  211 (319)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (319)
                      +..++...|++++|...|+++.+..+. +...+..+...+...|++++|...+++.
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            555555566666666655555554322 3445555555555555555555555543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.83  E-value=1.6e-17  Score=126.75  Aligned_cols=225  Identities=14%  Similarity=0.038  Sum_probs=162.8

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCC--CC----hHHHH
Q 039029           46 VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIV--PD----SITYN  119 (319)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~  119 (319)
                      ..+..+...+...|++++|+..++++.+..  .+...+..+..++...|++++|...+++..+..+.  ++    ...+.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            455666666666677777777776666655  45666666666677777777777776666553211  11    46677


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCC
Q 039029          120 ILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNG  199 (319)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (319)
                      .+...+...|++++|...+++.....  |+.       ..+...|++++|...++.+..... .+...+..+...+...|
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  153 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVNP-EKAEEARLEGKEYFTKS  153 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCCH-HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcCc-chHHHHHHHHHHHHHhc
Confidence            77778888888888888888877753  332       345667788888888888777632 24567778888888888


Q ss_pred             cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchh
Q 039029          200 NIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGD  279 (319)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  279 (319)
                      ++++|...++++.+.. +.+...+..+...+...|++++|...++++.+..  |+      +...|..+...+...|+++
T Consensus       154 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~------~~~~~~~l~~~~~~~g~~~  224 (258)
T 3uq3_A          154 DWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PN------FVRAYIRKATAQIAVKEYA  224 (258)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT------CHHHHHHHHHHHHHTTCHH
T ss_pred             CHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--HH------HHHHHHHHHHHHHHHhhHH
Confidence            8999988888887754 3457778888888888999999999998888753  33      2367888888899999999


Q ss_pred             HHHHHHHHHHhC
Q 039029          280 LAEELLREMVSK  291 (319)
Q Consensus       280 ~A~~~~~~~~~~  291 (319)
                      +|...+++..+.
T Consensus       225 ~A~~~~~~a~~~  236 (258)
T 3uq3_A          225 SALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999988888764

>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=99.82  E-value=1.3e-19  Score=144.03  Aligned_cols=266  Identities=12%  Similarity=0.075  Sum_probs=128.9

Q ss_pred             CCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHH
Q 039029            8 PDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLI   87 (319)
Q Consensus         8 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (319)
                      +++.+|..++.++.+.|++++|++.|.+.      +|...|..++..+...|++++|+++++..++.  .+++.+.+.++
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      47778999999999999999999988877764  44577888999


Q ss_pred             HHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHH
Q 039029           88 HELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMI  167 (319)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (319)
                      .+|.+.|++.++.++++       .|+..+|..+...|...|.+++|...|..+         ..|..++.++.+.|+++
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            99999999999888774       267779999999999999999999999976         47999999999999999


Q ss_pred             HHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHH
Q 039029          168 EADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMK  247 (319)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  247 (319)
                      +|.+.+.++      .++.+|..++.+|...|+++.|......+.     ..+.-...++..|.+.|.+++|..+++..+
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-----VHADELEELINYYQDRGYFEELITMLEAAL  234 (449)
T ss_dssp             HHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            999999987      278999999999999999999966554422     233345578899999999999999999987


Q ss_pred             HcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC-CCCC------ChHHHHHHHHHhhhcchhhhhc
Q 039029          248 RRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK-GITP------DDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~------~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      ..  .+..      ...|+.+..+|.+- ++++..+.++...++ +++|      +...|..+.-.|.+.|+++.|.
T Consensus       235 ~l--e~ah------~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~  302 (449)
T 1b89_A          235 GL--ERAH------MGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  302 (449)
T ss_dssp             TS--TTCC------HHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHH
T ss_pred             CC--cHHH------HHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHH
Confidence            54  3332      25777777777654 333333333332222 3444      4667888888888888888775

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.82  E-value=6.1e-18  Score=125.59  Aligned_cols=199  Identities=11%  Similarity=-0.033  Sum_probs=121.4

Q ss_pred             cChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHH
Q 039029           78 PTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLI  157 (319)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  157 (319)
                      ++...+..+...+...|++++|...|++..+..+. +...+..+..++.+.|++++|+..+++..+.. |.+...+..+.
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            44555556666666666666666666666655433 55566666666666666666666666666653 34455666666


Q ss_pred             HHHhhh-----------ccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHH
Q 039029          158 FVLSKQ-----------NRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTL  226 (319)
Q Consensus       158 ~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  226 (319)
                      .++...           |++++|...+++..+..+. +...+..+...+...|++++|...|++..+..  .+...+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~l  157 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHH
Confidence            666666           7777777777777765433 46667777777777777777777777777665  566677777


Q ss_pred             HHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHH
Q 039029          227 MHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMV  289 (319)
Q Consensus       227 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  289 (319)
                      ..++...|++++|...|+++.+.  .|+.      ...+..+...+...|++++|...+++..
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~--~P~~------~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQ--APKD------LDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--STTC------HHHHHHHHHHHTC---------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCC------hHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            77777777777777777777764  2332      2566777777777777777777776543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.82  E-value=1.1e-17  Score=127.53  Aligned_cols=226  Identities=10%  Similarity=0.003  Sum_probs=196.0

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--cC----hhhH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM--PT----ASTY   83 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~   83 (319)
                      ...|..+...+...|++++|+..|+++.+..  .+..++..+..++...|++++|.+.++...+....  ++    ..++
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            4567888999999999999999999999877  68889999999999999999999999999875321  11    5788


Q ss_pred             HHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh
Q 039029           84 NLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ  163 (319)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (319)
                      ..+..++...|++++|...+++..+..  |+.       ..+...|++++|...++++.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            899999999999999999999998864  342       45667788999999999998864 44667888999999999


Q ss_pred             ccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHH
Q 039029          164 NRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLL  243 (319)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  243 (319)
                      |++++|...++++.+.... +..++..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...+
T Consensus       153 ~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             TCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            9999999999999887543 68889999999999999999999999998864 445778999999999999999999999


Q ss_pred             HHHHHc
Q 039029          244 DQMKRR  249 (319)
Q Consensus       244 ~~~~~~  249 (319)
                      +++.+.
T Consensus       231 ~~a~~~  236 (258)
T 3uq3_A          231 DAARTK  236 (258)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            998875

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.82  E-value=4.5e-20  Score=158.40  Aligned_cols=149  Identities=14%  Similarity=0.151  Sum_probs=114.7

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHh---CCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHH
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKE---NGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLI   87 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (319)
                      .+|+++|++|++.|++++|.++|+.|.+   .|+.||+.+||++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI  207 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL  207 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            4789999999999999999999987764   4688899999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCch-hHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc------HHHHHHHHHHH
Q 039029           88 HELLMERKM-VEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPT------MLTYTSLIFVL  160 (319)
Q Consensus        88 ~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~  160 (319)
                      .++++.|+. ++|.++|++|.+.|+.||..+|+.++....+.    .+++..+++ ..++.|+      ..+...+...|
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl~  282 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDVY  282 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHHH
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHHHH
Confidence            999888874 67888999999999999999998887665543    344444444 2233333      34455555666


Q ss_pred             hhhc
Q 039029          161 SKQN  164 (319)
Q Consensus       161 ~~~~  164 (319)
                      .+.+
T Consensus       283 s~d~  286 (1134)
T 3spa_A          283 AKDG  286 (1134)
T ss_dssp             CCCS
T ss_pred             ccCC
Confidence            6544

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.80  E-value=2.2e-19  Score=154.21  Aligned_cols=122  Identities=13%  Similarity=0.120  Sum_probs=111.8

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHH---cCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHH
Q 039029           45 AVTYNTLIDGYCNKGNLEMAFSFRDEMVK---QGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNIL  121 (319)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (319)
                      ..+|+++|.+|++.|+.++|.++|++|.+   .|+.||..+||.||.+|++.|++++|.++|++|.+.|+.||..||+++
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            34799999999999999999999988764   478999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCh-HHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccH
Q 039029          122 INGYCRCGNA-KKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRM  166 (319)
Q Consensus       122 ~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (319)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|+.++..+.+.+-+
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL  252 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVL  252 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHH
Confidence            9999999985 78999999999999999999999998766554433

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.79  E-value=6.1e-17  Score=124.63  Aligned_cols=238  Identities=9%  Similarity=0.003  Sum_probs=192.2

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC--hhhHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT--ASTYNLL   86 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l   86 (319)
                      |...+......+...|++++|+..|+++.+.... +..++..+..++...|++++|+..+++..+....++  ...|..+
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            3456667888999999999999999999987533 566899999999999999999999999998432222  2348889


Q ss_pred             HHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccH
Q 039029           87 IHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRM  166 (319)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (319)
                      ..++...|++++|.+.+++..+..+. +...+..+...+...|++++|...+++..+.. +.+...+..+...+...+++
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            99999999999999999999987554 77899999999999999999999999998773 55677788877344455699


Q ss_pred             HHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCc---HHHHHHHHHHHHhCC-CCCC------hhhHHHHHHHHHcCCcH
Q 039029          167 IEADQLFENFLAKGMLPDIVMFNALIDGHCTNGN---IERAFSLLKEMDRMK-VHPD------EVTYNTLMHGRCRQGKV  236 (319)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~------~~~~~~l~~~~~~~g~~  236 (319)
                      ++|...++++.+.... +...+..+...+...|+   +++|...++++.+.. ..|+      ...+..+...|...|++
T Consensus       159 ~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  237 (272)
T 3u4t_A          159 VKADSSFVKVLELKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDK  237 (272)
T ss_dssp             HHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCH
Confidence            9999999999887433 46777778888888887   778888888875532 1133      25778889999999999


Q ss_pred             HHHHHHHHHHHHcC
Q 039029          237 EEARRLLDQMKRRG  250 (319)
Q Consensus       237 ~~a~~~~~~~~~~~  250 (319)
                      ++|.+.|+++.+..
T Consensus       238 ~~A~~~~~~al~~~  251 (272)
T 3u4t_A          238 VKADAAWKNILALD  251 (272)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhcC
Confidence            99999999999853

>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=99.79  E-value=1.6e-16  Score=127.25  Aligned_cols=249  Identities=10%  Similarity=0.021  Sum_probs=206.5

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC-hHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN-LEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      ...|..+...+.+.|++++|+..++++.+.+.. +..+|+.+..++...|+ +++|+..++++++... -+...|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P-~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHH
Confidence            356788888999999999999999999987543 67889999999999997 9999999999999863 37889999999


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhh-hccHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSK-QNRMI  167 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~  167 (319)
                      ++...|++++|+..|+++.+..+. +...|..+..++...|++++|+..++++.+.. +.+...|+.+..++.. .|..+
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcch
Confidence            999999999999999999988665 88999999999999999999999999999986 5578899999999988 66657


Q ss_pred             HH-----HHHHHHHhhCCCCccHHHHHHHHHHHhcCC--cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCC------
Q 039029          168 EA-----DQLFENFLAKGMLPDIVMFNALIDGHCTNG--NIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQG------  234 (319)
Q Consensus       168 ~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g------  234 (319)
                      +|     +..+++.+..... +...|..+...+...|  ++++|.+.+.++ +.. +.+...+..++..|.+.|      
T Consensus       253 eA~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccc
Confidence            77     5888888886543 6788988888898888  689999999888 432 445677888889988864      


Q ss_pred             ---cHHHHHHHHHHH-HHcCCCCCCcccCcchhhHHHHHHHHH
Q 039029          235 ---KVEEARRLLDQM-KRRGIKPDHISFNPTRLTYNALIQGLC  273 (319)
Q Consensus       235 ---~~~~a~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~  273 (319)
                         ..++|.++++++ .+.  .|...      ..|..+...+.
T Consensus       330 ~~~~~~~A~~~~~~l~~~~--DP~r~------~~w~~~~~~l~  364 (382)
T 2h6f_A          330 KEDILNKALELCEILAKEK--DTIRK------EYWRYIGRSLQ  364 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHTT--CGGGH------HHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHh--CchhH------HHHHHHHHHHH
Confidence               358999999998 553  44332      45666655543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.79  E-value=8.8e-15  Score=122.21  Aligned_cols=279  Identities=15%  Similarity=0.070  Sum_probs=140.9

Q ss_pred             ccHHHHHHHHhc----cCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCcChhh
Q 039029           11 YTYGSFVSGMCK----EGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCN----KGNLEMAFSFRDEMVKQGIMPTAST   82 (319)
Q Consensus        11 ~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~   82 (319)
                      ..+..|...|..    .+++++|++.|++..+.+   ++..+..+...|..    .+++++|+.+|++..+.+   +...
T Consensus        76 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a  149 (490)
T 2xm6_A           76 PAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSG  149 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            344445555554    555555555555555432   33444444444544    445555555555554443   2334


Q ss_pred             HHHHHHHHHH----cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCC--------
Q 039029           83 YNLLIHELLM----ERKMVEADDMLKEMGEKGIVPDSITYNILINGYCR----CGNAKKAFSLHDEMIHKGI--------  146 (319)
Q Consensus        83 ~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~--------  146 (319)
                      +..+...|..    .++.++|.+.|++..+.+   +...+..+...|..    .+++++|.+.|++..+.+.        
T Consensus       150 ~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg  226 (490)
T 2xm6_A          150 QQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGDELGQLHLA  226 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4444444443    444555555555544432   33444444444444    4444444444444443320        


Q ss_pred             -------------------------CccHHHHHHHHHHHhh----hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhc
Q 039029          147 -------------------------QPTMLTYTSLIFVLSK----QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCT  197 (319)
Q Consensus       147 -------------------------~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (319)
                                               ..+...+..+...+..    .++.++|...|++..+.+   +...+..+...|..
T Consensus       227 ~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~  303 (490)
T 2xm6_A          227 DMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDK  303 (490)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHH
T ss_pred             HHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc
Confidence                                     0122333344444444    455555555555554432   23344444444444


Q ss_pred             C-----CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCC---cHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHH
Q 039029          198 N-----GNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQG---KVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALI  269 (319)
Q Consensus       198 ~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  269 (319)
                      .     +++++|...+++..+.+   +...+..+...|...|   ++++|.++|++..+.+          +...+..+.
T Consensus       304 ~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~----------~~~a~~~Lg  370 (490)
T 2xm6_A          304 GAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG----------EKAAQFNLG  370 (490)
T ss_dssp             CBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT----------CHHHHHHHH
T ss_pred             CCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC----------CHHHHHHHH
Confidence            4     55666666666555543   3344455555555444   5666666666665542          124566666


Q ss_pred             HHHHh----cCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhh----cchhhhhc
Q 039029          270 QGLCK----NQEGDLAEELLREMVSKGITPDDNTYFSLIEGIAS----VDKAAESS  317 (319)
Q Consensus       270 ~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~  317 (319)
                      ..|..    .+++++|.+.|++..+.|   +...+..+...|.+    .++.++|.
T Consensus       371 ~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~  423 (490)
T 2xm6_A          371 NALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAW  423 (490)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHH
Confidence            66666    677777777777776654   45555666666655    56666553

>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=99.79  E-value=2.7e-16  Score=125.99  Aligned_cols=248  Identities=11%  Similarity=0.058  Sum_probs=205.9

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCc-hhHHHHHHHHHhhCCCCCChHHHHHHHH
Q 039029           45 AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERK-MVEADDMLKEMGEKGIVPDSITYNILIN  123 (319)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (319)
                      ..+|..+...+...|++++|+..++++++.. +-+...|+.+..++...|+ +++|+..|++..+..+. +...|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHH
Confidence            4578888889999999999999999999885 3377889999999999997 99999999999998665 8899999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhc-CCcHH
Q 039029          124 GYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCT-NGNIE  202 (319)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~  202 (319)
                      ++...|++++|+..|+++.+.. +-+...|..+..++...|++++|+..++++++.... +...|+.+..++.. .|..+
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcch
Confidence            9999999999999999999985 568899999999999999999999999999998654 78889999999988 66657


Q ss_pred             HH-----HHHHHHHHhCCCCCChhhHHHHHHHHHcCC--cHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhc
Q 039029          203 RA-----FSLLKEMDRMKVHPDEVTYNTLMHGRCRQG--KVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKN  275 (319)
Q Consensus       203 ~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  275 (319)
                      +|     ...+++..+.. +-+...|..+...+...|  ++++|.+.+.++ +  ..|+.      ...+..+...|.+.
T Consensus       253 eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~--~~p~~------~~al~~La~~~~~~  322 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q--PSHSS------PYLIAFLVDIYEDM  322 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T--TTCCC------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-c--cCCCC------HHHHHHHHHHHHHH
Confidence            77     58888887764 345678888888898888  689999999887 3  34443      36788899999887


Q ss_pred             C--------c-hhHHHHHHHHH-HhCCCCCCh-HHHHHHHHHhh
Q 039029          276 Q--------E-GDLAEELLREM-VSKGITPDD-NTYFSLIEGIA  308 (319)
Q Consensus       276 g--------~-~~~A~~~~~~~-~~~~~~~~~-~~~~~l~~~~~  308 (319)
                      |        + .++|+++++++ .+.  .|.. ..|..+...+.
T Consensus       323 ~~~~~~~~~~~~~~A~~~~~~l~~~~--DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          323 LENQCDNKEDILNKALELCEILAKEK--DTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             HHTTCSSHHHHHHHHHHHHHHHHHTT--CGGGHHHHHHHHHHHH
T ss_pred             hcccccchHHHHHHHHHHHHHHHHHh--CchhHHHHHHHHHHHH
Confidence            4        3 58999999998 653  5654 44555555543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.78  E-value=2.1e-16  Score=121.58  Aligned_cols=252  Identities=12%  Similarity=0.011  Sum_probs=197.6

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCC--ChHHHHHHH
Q 039029           45 AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVP--DSITYNILI  122 (319)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~  122 (319)
                      ...+......+...|++++|+..++++.+... .+...+..+..++...|++++|...+++..+....+  ....|..+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            34566778889999999999999999998753 356688899999999999999999999998843222  234588999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHH
Q 039029          123 NGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIE  202 (319)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (319)
                      ..+...|++++|...+++..+.. +.+..++..+..++...|++++|...+++..+... .+...+..+...+...++++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTT-TDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSC-CCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCC-CcHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999875 45678999999999999999999999999988743 35777777773444456999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCc---HHHHHHHHHHHHHcCC-CCCCcccCcchhhHHHHHHHHHhcCch
Q 039029          203 RAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGK---VEEARRLLDQMKRRGI-KPDHISFNPTRLTYNALIQGLCKNQEG  278 (319)
Q Consensus       203 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~g~~  278 (319)
                      +|...++++.+.. +.+...+..+...+...|+   +++|...++++.+... .|+.. ......+|..+...|...|++
T Consensus       160 ~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~  237 (272)
T 3u4t_A          160 KADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKY-KDELIEANEYIAYYYTINRDK  237 (272)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGG-HHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccc-hHHHHHHHHHHHHHHHHcCCH
Confidence            9999999998864 3346777778888888888   8889999998877521 11110 000125788899999999999


Q ss_pred             hHHHHHHHHHHhCCCCCChH-HHHHH
Q 039029          279 DLAEELLREMVSKGITPDDN-TYFSL  303 (319)
Q Consensus       279 ~~A~~~~~~~~~~~~~~~~~-~~~~l  303 (319)
                      ++|.+.++++.+.  .|+.. .+..+
T Consensus       238 ~~A~~~~~~al~~--~p~~~~a~~~l  261 (272)
T 3u4t_A          238 VKADAAWKNILAL--DPTNKKAIDGL  261 (272)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhc--CccHHHHHHHh
Confidence            9999999999986  45544 44333

>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=99.78  E-value=2.1e-15  Score=116.14  Aligned_cols=224  Identities=13%  Similarity=-0.001  Sum_probs=198.1

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCcChhhHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCN----KGNLEMAFSFRDEMVKQGIMPTASTYN   84 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (319)
                      ++.++..+...+...|++++|++.|++..+.   .+...+..+...+..    .+++++|...|++..+.+   +...+.
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            4567788889999999999999999999984   356788889999999    999999999999999875   678888


Q ss_pred             HHHHHHHH----cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCccHHHHHHH
Q 039029           85 LLIHELLM----ERKMVEADDMLKEMGEKGIVPDSITYNILINGYCR----CGNAKKAFSLHDEMIHKGIQPTMLTYTSL  156 (319)
Q Consensus        85 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (319)
                      .+...+..    .+++++|...|++..+.+   +...+..+...|..    .+++++|+..+++..+.+   +...+..+
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   77889999999999    999999999999999875   56677888


Q ss_pred             HHHHhh----hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhc----CCcHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 039029          157 IFVLSK----QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCT----NGNIERAFSLLKEMDRMKVHPDEVTYNTLMH  228 (319)
Q Consensus       157 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (319)
                      ...+..    .+++++|...+++..+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..+..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~  226 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  226 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            888887    899999999999998874   46778888889998    999999999999998864   3667888889


Q ss_pred             HHHc----CCcHHHHHHHHHHHHHcC
Q 039029          229 GRCR----QGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       229 ~~~~----~g~~~~a~~~~~~~~~~~  250 (319)
                      .|..    .+++++|.+.|++..+.+
T Consensus       227 ~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          227 MQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            9998    999999999999998875

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.78  E-value=1.3e-14  Score=121.13  Aligned_cols=270  Identities=12%  Similarity=0.037  Sum_probs=203.7

Q ss_pred             CcccHHHHHHHHhc----cCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCcCh
Q 039029            9 DSYTYGSFVSGMCK----EGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCN----KGNLEMAFSFRDEMVKQGIMPTA   80 (319)
Q Consensus         9 ~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~   80 (319)
                      ++..+..+...|..    .+++++|+..|++..+.|   ++..+..+...|..    .+++++|.++|++..+.+   +.
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            56777788888888    899999999999998864   67788889999998    899999999999999875   56


Q ss_pred             hhHHHHHHHHHH----cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCccHHH
Q 039029           81 STYNLLIHELLM----ERKMVEADDMLKEMGEKGIVPDSITYNILINGYCR----CGNAKKAFSLHDEMIHKGIQPTMLT  152 (319)
Q Consensus        81 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  152 (319)
                      ..+..+...|..    .+++++|..+|++..+.+   +...+..+...|..    .+++++|.+.|++..+.+   +...
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            777788888888    789999999999998875   67788888888887    789999999999998875   6677


Q ss_pred             HHHHHHHHhh----hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhc----CCcHHHHHHHHHHHHhCCCCCChhhHH
Q 039029          153 YTSLIFVLSK----QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCT----NGNIERAFSLLKEMDRMKVHPDEVTYN  224 (319)
Q Consensus       153 ~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  224 (319)
                      +..+...|..    .++.++|.+.|++..+.+   +...+..+...|..    .+++++|..+|++..+.+   +...+.
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            8888888877    789999999999888764   45566666666665    677888888888776643   345556


Q ss_pred             HHHHHHHc----CCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhc-----CchhHHHHHHHHHHhCCCCC
Q 039029          225 TLMHGRCR----QGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKN-----QEGDLAEELLREMVSKGITP  295 (319)
Q Consensus       225 ~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~~~~~~  295 (319)
                      .+...|..    .+++++|..+|++..+.+.          ...+..+...|...     +++++|...+++..+.|   
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~----------~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---  326 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQGN----------SDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---  326 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTTC----------HHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcCC----------HHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---
Confidence            66666666    6777777777777765431          13445555555555     56666666666665543   


Q ss_pred             ChHHHHHHHHHhhh
Q 039029          296 DDNTYFSLIEGIAS  309 (319)
Q Consensus       296 ~~~~~~~l~~~~~~  309 (319)
                      +...+..+...+..
T Consensus       327 ~~~a~~~lg~~y~~  340 (490)
T 2xm6_A          327 DATAQANLGAIYFR  340 (490)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHh
Confidence            23344444444443

>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=99.78  E-value=2.7e-15  Score=115.49  Aligned_cols=224  Identities=13%  Similarity=-0.026  Sum_probs=197.8

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHH----cCchhHHHHHHHHHhhCCCCCChHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLM----ERKMVEADDMLKEMGEKGIVPDSITYN  119 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  119 (319)
                      ++.++..+...+...|++++|+..|++..+.+   +...+..+...+..    .+++++|...|++..+.+   +...+.
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            56778889999999999999999999999843   55778888899999    999999999999999875   788899


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhh----hccHHHHHHHHHHHhhCCCCccHHHHHHH
Q 039029          120 ILINGYCR----CGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSK----QNRMIEADQLFENFLAKGMLPDIVMFNAL  191 (319)
Q Consensus       120 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  191 (319)
                      .+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+
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    999999999999999875   67888899999998    999999999999999875   56677788


Q ss_pred             HHHHhc----CCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----CCcHHHHHHHHHHHHHcCCCCCCcccCcchh
Q 039029          192 IDGHCT----NGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCR----QGKVEEARRLLDQMKRRGIKPDHISFNPTRL  263 (319)
Q Consensus       192 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  263 (319)
                      ...|..    .+++++|...+++..+.+   +...+..+...|..    .+++++|...|++..+.+.          ..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~----------~~  219 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN----------GG  219 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC----------HH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC----------HH
Confidence            888887    899999999999998864   56778889999999    9999999999999998642          25


Q ss_pred             hHHHHHHHHHh----cCchhHHHHHHHHHHhCC
Q 039029          264 TYNALIQGLCK----NQEGDLAEELLREMVSKG  292 (319)
Q Consensus       264 ~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  292 (319)
                      .+..+...|..    .+++++|.+.+++..+.|
T Consensus       220 a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          220 GCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            77888999998    999999999999999875

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.78  E-value=1.6e-17  Score=128.02  Aligned_cols=223  Identities=12%  Similarity=-0.043  Sum_probs=132.7

Q ss_pred             HhccCChHHHHHHHHHHHhCCC---CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           20 MCKEGRLEEASRMLEQMKENGL---VPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      +...|++++|+..|+++.+...   +.+..++..+...+...|++++|...|+++.+.. +.+...+..+..++...|++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCH
Confidence            3455677777777777776532   1234566777777777777777777777777664 23566677777777777777


Q ss_pred             hHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHH
Q 039029           97 VEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENF  176 (319)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (319)
                      ++|...+++..+..+. +...+..+...+...|++++|...++++.+..  |+.......+..+...|++++|...+.+.
T Consensus        94 ~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           94 DAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            7777777777665433 56667777777777777777777777776653  22223333333445556666666666555


Q ss_pred             hhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCC---ChhhHHHHHHHHHcCCcHHHHHHHHHHHHH
Q 039029          177 LAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHP---DEVTYNTLMHGRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       177 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  248 (319)
                      ..... ++...+. ++..+...++.++|...+.+..+.....   +...+..+...|...|++++|...|+++.+
T Consensus       171 ~~~~~-~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  243 (275)
T 1xnf_A          171 FEKSD-KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA  243 (275)
T ss_dssp             HHHSC-CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HhcCC-cchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            54422 2222222 4444555555666666666554432100   134455555555666666666666666554

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.78  E-value=5.1e-17  Score=125.20  Aligned_cols=224  Identities=10%  Similarity=-0.078  Sum_probs=108.0

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      ..++..+...+...|++++|+..|+++.+... .+..++..+...+...|++++|.+.++++++.. +.+...+..+..+
T Consensus        43 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~  120 (275)
T 1xnf_A           43 AQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIA  120 (275)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHH
Confidence            34455555555555666666666655555422 244555555555555666666666665555543 2234555555555


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      +...|++++|...++++.+..  |+.......+..+...|++++|...+++..... +++...+ .++..+...++.++|
T Consensus       121 ~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a  196 (275)
T 1xnf_A          121 LYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTL  196 (275)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHH
Confidence            555666666666665555442  222222233333344455566665555554442 2222222 244444455555555


Q ss_pred             HHHHHHHhhCCCCc---cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHH
Q 039029          170 DQLFENFLAKGMLP---DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLL  243 (319)
Q Consensus       170 ~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  243 (319)
                      ...+..........   +..++..+...|...|++++|...++++.+..  |+.  +.....++...|++++|.+.+
T Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          197 MERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CTT--CHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--chh--HHHHHHHHHHHHHHHhhHHHH
Confidence            55555554432110   13445555555555566666666665555432  221  122233444445555554443

>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=99.78  E-value=8.6e-16  Score=116.80  Aligned_cols=210  Identities=14%  Similarity=-0.002  Sum_probs=160.3

Q ss_pred             hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 039029           80 ASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFV  159 (319)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (319)
                      ...+..+...+...|++++|...++++.+.... +...+..+...+...|++++|.+.++++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPS-SADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            456677777788888888888888888776433 67778888888888888888888888887764 4467778888888


Q ss_pred             HhhhccHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHH
Q 039029          160 LSKQNRMIEADQLFENFLAKGMLP-DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEE  238 (319)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  238 (319)
                      +...|++++|.+.++++...+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++
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            888888888888888887732233 46677778888888889999998888887754 3356778888888888999999


Q ss_pred             HHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHH
Q 039029          239 ARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFS  302 (319)
Q Consensus       239 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  302 (319)
                      |..+++++.+..  |+      +...+..+...+...|++++|.+.++++.+.  .|+...+..
T Consensus       194 A~~~~~~~~~~~--~~------~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~  247 (252)
T 2ho1_A          194 ARQYYDLFAQGG--GQ------NARSLLLGIRLAKVFEDRDTAASYGLQLKRL--YPGSLEYQE  247 (252)
T ss_dssp             HHHHHHHHHTTS--CC------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSHHHHH
T ss_pred             HHHHHHHHHHhC--cC------cHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCCHHHHH
Confidence            999998887642  32      2356778888888889999999999888875  455444433

>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=99.77  E-value=6e-19  Score=140.30  Aligned_cols=245  Identities=13%  Similarity=0.070  Sum_probs=105.4

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHH
Q 039029           22 KEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADD  101 (319)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (319)
                      +.|++++|.+.++++.      ++.+|..++.++.+.|++++|++.|.+.      ++..+|..++..+...|++++|+.
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            5688999999999883      2348999999999999999999999653      477799999999999999999999


Q ss_pred             HHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCC
Q 039029          102 MLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGM  181 (319)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (319)
                      +++..++.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..++..|...|.+++|...|..+     
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence            88877764  3467888999999999999999988884       367789999999999999999999999976     


Q ss_pred             CccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcc
Q 039029          182 LPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPT  261 (319)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  261 (319)
                          ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......+.   ..|        
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~---~~a--------  207 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHA--------  207 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT---TCH--------
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH---hCH--------
Confidence                36899999999999999999999988      268899999999999999999965544321   222        


Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhh--hcchhhh
Q 039029          262 RLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIA--SVDKAAE  315 (319)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g~~~~  315 (319)
                       .-...++..|.+.|.+++|..+++..+... +-....|..+..+++  +-|+..+
T Consensus       208 -d~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~e  261 (449)
T 1b89_A          208 -DELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMRE  261 (449)
T ss_dssp             -HHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHH
T ss_pred             -hhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHH
Confidence             334568899999999999999999988653 334555666655554  3444443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.77  E-value=1.3e-16  Score=120.64  Aligned_cols=201  Identities=16%  Similarity=0.153  Sum_probs=130.5

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      ....|..+...+...|++++|+..|+++.+... .+...+..+...+...|++++|+..++++.+.. +.+...+..+..
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            345566677777778888888888887776532 356677777777788888888888888777664 235667777777


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIE  168 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (319)
                      .+...|++++|.+.++++.+.... +...+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++
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            777788888888888777765433 66677777777777888888888887777663 4456677777777777777777


Q ss_pred             HHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC
Q 039029          169 ADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (319)
                      |...++++.+... .+..++..+..+|...|++++|...++++.+.
T Consensus       178 A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          178 ALSQFAAVTEQDP-GHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            7777777766533 24666777777777777777777777777664

>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=99.77  E-value=1.2e-15  Score=115.95  Aligned_cols=200  Identities=14%  Similarity=0.000  Sum_probs=103.7

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHH
Q 039029           46 VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGY  125 (319)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (319)
                      ..+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|.+.++++.+.... +...+..+...+
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~  115 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSR-NARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHHH
Confidence            344555555555555555555555555442 223445555555555555555555555555544322 444555555555


Q ss_pred             HhcCChHHHHHHHHHHHHcCC-CccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHH
Q 039029          126 CRCGNAKKAFSLHDEMIHKGI-QPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERA  204 (319)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (319)
                      ...|++++|.+.++++...+. +.+...+..+..++...|++++|...++++.+.... +...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHHH
Confidence            555555555555555544111 223344555555555555555555555555544321 344555555555555555555


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          205 FSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      ...++++.+.. +.+...+..+...+...|++++|.++++++.+.
T Consensus       195 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          195 RQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            55555555432 233444555555555555666665555555543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.77  E-value=2.1e-17  Score=134.60  Aligned_cols=307  Identities=13%  Similarity=0.032  Sum_probs=229.3

Q ss_pred             CCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCC----HHhHHHHHHHHHhcCChHHHHHHHHHHHHc----CCC-
Q 039029            7 QPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPT----AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ----GIM-   77 (319)
Q Consensus         7 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-   77 (319)
                      .+....+......+...|++++|+..|+++.+.+.. +    ..++..+...+...|++++|...+++....    +.. 
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            344556677888999999999999999999886432 3    357888999999999999999999987653    211 


Q ss_pred             cChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCC-----CCChHHHHHHHHHHHhcCC--------------------hH
Q 039029           78 PTASTYNLLIHELLMERKMVEADDMLKEMGEKGI-----VPDSITYNILINGYCRCGN--------------------AK  132 (319)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~--------------------~~  132 (319)
                      ....++..+...+...|++++|...+++..+...     .....++..+...+...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence            2355778888999999999999999998765311     1124578888999999999                    99


Q ss_pred             HHHHHHHHHHHc----CC-CccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC----CCc-cHHHHHHHHHHHhcCCcHH
Q 039029          133 KAFSLHDEMIHK----GI-QPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG----MLP-DIVMFNALIDGHCTNGNIE  202 (319)
Q Consensus       133 ~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~  202 (319)
                      +|...+++....    +. +....++..+...+...|++++|...+++..+..    ..+ ...++..+...|...|+++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            999999887653    11 1223578888899999999999999999887541    111 1347888899999999999


Q ss_pred             HHHHHHHHHHhCCCC-CC----hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCc
Q 039029          203 RAFSLLKEMDRMKVH-PD----EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQE  277 (319)
Q Consensus       203 ~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  277 (319)
                      +|...+++..+.... ++    ..++..+...|...|++++|...++++.+.......  ......++..+...|...|+
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~--~~~~~~~~~~la~~~~~~g~  322 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELND--RIGEGRACWSLGNAYTALGN  322 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCC--cHHHHHHHHHHHHHHHHcCC
Confidence            999999987643111 11    457788899999999999999999998764211111  01113578889999999999


Q ss_pred             hhHHHHHHHHHHhC----CCCC-ChHHHHHHHHHhhhcchhhhh
Q 039029          278 GDLAEELLREMVSK----GITP-DDNTYFSLIEGIASVDKAAES  316 (319)
Q Consensus       278 ~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~A  316 (319)
                      +++|.+.+++..+.    +..+ ...++..+...+...|+...+
T Consensus       323 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~  366 (406)
T 3sf4_A          323 HDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYST  366 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSCC
T ss_pred             HHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHHH
Confidence            99999999998764    2122 345677778888888877543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.76  E-value=6.1e-15  Score=122.63  Aligned_cols=298  Identities=13%  Similarity=0.003  Sum_probs=214.0

Q ss_pred             CCcccHHHHHHHHhccCChHHHHHHHHHHHhC--------CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcC----
Q 039029            8 PDSYTYGSFVSGMCKEGRLEEASRMLEQMKEN--------GLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQG----   75 (319)
Q Consensus         8 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----   75 (319)
                      .....|+.+...+...|++++|++.|++..+.        ..+....+|+.+..+|...|++++|...+++..+..    
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            34567899999999999999999999987542        122345689999999999999999999999886531    


Q ss_pred             ---CCcChhhHHHHHHHHHHc--CchhHHHHHHHHHhhCCCCCChHHHHHHHHH---HHhcCChHHHHHHHHHHHHcCCC
Q 039029           76 ---IMPTASTYNLLIHELLME--RKMVEADDMLKEMGEKGIVPDSITYNILING---YCRCGNAKKAFSLHDEMIHKGIQ  147 (319)
Q Consensus        76 ---~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~  147 (319)
                         ......++..+..++...  +++++|...|++..+..+. ++..+..+..+   +...++.++|++.+++..+.+ +
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p  206 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-P  206 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-S
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-C
Confidence               111345566655555554  5789999999999887544 56666655554   445678889999999988875 4


Q ss_pred             ccHHHHHHHHHHHhh----hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhH
Q 039029          148 PTMLTYTSLIFVLSK----QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTY  223 (319)
Q Consensus       148 ~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  223 (319)
                      .+..++..+...+..    .+++++|.+.+++....... +..++..+...|...|++++|...++++.+.. +.+..++
T Consensus       207 ~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~  284 (472)
T 4g1t_A          207 DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLH  284 (472)
T ss_dssp             SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHH
Confidence            566666666655543    56788999999998876543 67888999999999999999999999998764 3345666


Q ss_pred             HHHHHHHHcC-------------------CcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHH
Q 039029          224 NTLMHGRCRQ-------------------GKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEEL  284 (319)
Q Consensus       224 ~~l~~~~~~~-------------------g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  284 (319)
                      ..+...|...                   +.+++|...++++.+..  |+.      ..++..+...+...|++++|.+.
T Consensus       285 ~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~------~~~~~~lg~~~~~~~~~~~A~~~  356 (472)
T 4g1t_A          285 CQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN--DNL------FRVCSILASLHALADQYEEAEYY  356 (472)
T ss_dssp             HHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC--TTT------CCCHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC--Cch------hhhhhhHHHHHHHhccHHHHHHH
Confidence            6666655432                   34677888888887753  332      25788999999999999999999


Q ss_pred             HHHHHhCCCCCChH--HHHHHHH-Hhhhcchhhhhc
Q 039029          285 LREMVSKGITPDDN--TYFSLIE-GIASVDKAAESS  317 (319)
Q Consensus       285 ~~~~~~~~~~~~~~--~~~~l~~-~~~~~g~~~~A~  317 (319)
                      |++.++....+...  .+..+.. .....|++++|+
T Consensus       357 ~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai  392 (472)
T 4g1t_A          357 FQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAI  392 (472)
T ss_dssp             HHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHH
T ss_pred             HHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHH
Confidence            99999864333221  1222222 234677777775

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.76  E-value=1.5e-15  Score=113.18  Aligned_cols=209  Identities=12%  Similarity=0.035  Sum_probs=126.0

Q ss_pred             hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 039029           80 ASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFV  159 (319)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (319)
                      ...+..+...+...|++++|.+.++++.+..+. +...+..+...+...|++++|...++++.... +.+..++..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSDPK-NELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            344555555556666666666666665554322 45556666666666666666666666666553 3355566666666


Q ss_pred             Hhhh-ccHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHH
Q 039029          160 LSKQ-NRMIEADQLFENFLAKGMLP-DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVE  237 (319)
Q Consensus       160 ~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  237 (319)
                      +... |++++|...++++.+.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+++
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 66666666666666521222 24556666667777777777777777766543 234556666777777777777


Q ss_pred             HHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHH
Q 039029          238 EARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY  300 (319)
Q Consensus       238 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  300 (319)
                      +|...++++.+.... +      +...+..+...+...|+.+.|..+++.+...  .|+....
T Consensus       165 ~A~~~~~~~~~~~~~-~------~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~  218 (225)
T 2vq2_A          165 DADYYFKKYQSRVEV-L------QADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEEL  218 (225)
T ss_dssp             HHHHHHHHHHHHHCS-C------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             HHHHHHHHHHHhCCC-C------CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHH
Confidence            777777777664210 1      2245566666667777777777777776653  3444433

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.76  E-value=1.6e-15  Score=113.14  Aligned_cols=203  Identities=10%  Similarity=-0.041  Sum_probs=140.0

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      +...+..+...+...|++++|++.|+.+.+... .+..++..+...+...|++++|.+.++++.+.. +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDP-KNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            345567777777778888888888877776532 356677777777777888888888887777654 335666777777


Q ss_pred             HHHHc-CchhHHHHHHHHHhhCCCCC-ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccH
Q 039029           89 ELLME-RKMVEADDMLKEMGEKGIVP-DSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRM  166 (319)
Q Consensus        89 ~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (319)
                      ++... |++++|...++++.+.+..| +...+..+..++...|++++|...++++.+.. +.+...+..+..++...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCH
Confidence            77777 77777777777777622122 35666777777777777777777777777653 34566777777777777777


Q ss_pred             HHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC
Q 039029          167 IEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (319)
                      ++|...++++.+.....+...+..+...+...|+.+.+..+++.+.+.
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            777777777766543135555666666667777777777777776543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.76  E-value=3.8e-15  Score=123.89  Aligned_cols=299  Identities=13%  Similarity=-0.016  Sum_probs=212.8

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhC-----C--CCCCHHhHHHHHHHHHhc--CChHHHHHHHHHHHHcCCCcCh
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKEN-----G--LVPTAVTYNTLIDGYCNK--GNLEMAFSFRDEMVKQGIMPTA   80 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~   80 (319)
                      ..+|+.+...|...|++++|+..+++..+.     +  ......++.....++...  +++++|+..|++.++..+ -+.
T Consensus        94 ~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p-~~~  172 (472)
T 4g1t_A           94 LVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKP-KNP  172 (472)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHST-TCH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCC-CCH
Confidence            457889999999999999999999887642     1  112345666666565554  569999999999998752 245


Q ss_pred             hhHHHHHHHH---HHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCccHHHH
Q 039029           81 STYNLLIHEL---LMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCR----CGNAKKAFSLHDEMIHKGIQPTMLTY  153 (319)
Q Consensus        81 ~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  153 (319)
                      ..+..+..++   ...++.++|++.+++..+..+. +...+..+...+..    .|++++|.+.+++..... +.+..++
T Consensus       173 ~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~  250 (472)
T 4g1t_A          173 EFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVL  250 (472)
T ss_dssp             HHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHH
T ss_pred             HHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHH
Confidence            5555555443   4457778899999998876543 66666666655544    467889999999998875 5678889


Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC-------------------CcHHHHHHHHHHHHhC
Q 039029          154 TSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTN-------------------GNIERAFSLLKEMDRM  214 (319)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~  214 (319)
                      ..+...+...|++++|...++++.+..+. +..++..+..+|...                   +..+.|...+++..+.
T Consensus       251 ~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  329 (472)
T 4g1t_A          251 RSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEA  329 (472)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhc
Confidence            99999999999999999999999887543 566676666655322                   2356788888887765


Q ss_pred             CCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHH-HHHhcCchhHHHHHHHHHHhCC-
Q 039029          215 KVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQ-GLCKNQEGDLAEELLREMVSKG-  292 (319)
Q Consensus       215 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~g~~~~A~~~~~~~~~~~-  292 (319)
                      . +.+...+..+...+...|++++|...|+++++....+...     ...+..+.. .....|++++|+..+++.++.. 
T Consensus       330 ~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~  403 (472)
T 4g1t_A          330 N-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAK-----QLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQ  403 (472)
T ss_dssp             C-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHH-----HHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCC
T ss_pred             C-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHH-----HHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc
Confidence            4 4456788899999999999999999999998864332210     012333332 3457799999999988876532 


Q ss_pred             ----------------------CCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          293 ----------------------ITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       293 ----------------------~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                                            -+.+..+|..+...+...|++++|+.
T Consensus       404 ~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~  451 (472)
T 4g1t_A          404 KSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADE  451 (472)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC----
T ss_pred             ccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence                                  13356788889999999999999975

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.75  E-value=3.4e-16  Score=118.27  Aligned_cols=200  Identities=15%  Similarity=0.114  Sum_probs=118.9

Q ss_pred             hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 039029           80 ASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFV  159 (319)
Q Consensus        80 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (319)
                      ...+..+...+...|++++|...|+++.+..+. +...+..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKE-DAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             -------------------CCTTHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            344555555566666666666666666654332 55666666666666667777766666666653 3355666666666


Q ss_pred             HhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHH
Q 039029          160 LSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEA  239 (319)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  239 (319)
                      +...|++++|...++++.+... .+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAGM-ENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHTC-CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHH
Confidence            6667777777777766665532 245566666777777777777777777766543 33456666777777777777777


Q ss_pred             HHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          240 RRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      ...++++.+..  |+      +..++..+...|...|++++|.+.++++.+.
T Consensus       179 ~~~~~~~~~~~--~~------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          179 LSQFAAVTEQD--PG------HADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHC--TT------CHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC--cc------cHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            77777776643  22      2256777777777777777777777777764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.73  E-value=1.4e-16  Score=130.03  Aligned_cols=277  Identities=13%  Similarity=0.026  Sum_probs=210.9

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCH----HhHHHHHHHHHhcCChHHHHHHHHHHHHc----C-CCcChhh
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTA----VTYNTLIDGYCNKGNLEMAFSFRDEMVKQ----G-IMPTAST   82 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~   82 (319)
                      .+..+...+...|++++|+..|+++.+.... +.    .++..+...+...|++++|...+++..+.    + .+....+
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            3455677889999999999999999886433 33    47888999999999999999999988764    1 1234567


Q ss_pred             HHHHHHHHHHcCchhHHHHHHHHHhhCC-----CCCChHHHHHHHHHHHhcCC-----------------hHHHHHHHHH
Q 039029           83 YNLLIHELLMERKMVEADDMLKEMGEKG-----IVPDSITYNILINGYCRCGN-----------------AKKAFSLHDE  140 (319)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~  140 (319)
                      +..+...+...|++++|...+++..+..     ......++..+...|...|+                 +++|...+++
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~  208 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQE  208 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            8888899999999999999999876541     11235578888999999999                 9999999888


Q ss_pred             HHHc----CC-CccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCC-cc----HHHHHHHHHHHhcCCcHHHHHHHHHH
Q 039029          141 MIHK----GI-QPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGML-PD----IVMFNALIDGHCTNGNIERAFSLLKE  210 (319)
Q Consensus       141 ~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (319)
                      ..+.    +. +....++..+...+...|++++|...+++..+.... ++    ...+..+...|...|++++|...+++
T Consensus       209 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  288 (411)
T 4a1s_A          209 NLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKR  288 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            7653    11 122357888889999999999999999988764111 11    23778889999999999999999998


Q ss_pred             HHhCCCC-----CChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHH
Q 039029          211 MDRMKVH-----PDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELL  285 (319)
Q Consensus       211 ~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  285 (319)
                      ..+....     ....++..+...+...|++++|..++++..+.......  ......++..+...|...|++++|.+.+
T Consensus       289 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~  366 (411)
T 4a1s_A          289 TLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGD--RIGEARACWSLGNAHSAIGGHERALKYA  366 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCC--hHHHHHHHHHHHHHHHHhccHHHHHHHH
Confidence            7653211     11456788889999999999999999998764211100  0012257888999999999999999999


Q ss_pred             HHHHhC
Q 039029          286 REMVSK  291 (319)
Q Consensus       286 ~~~~~~  291 (319)
                      ++..+.
T Consensus       367 ~~al~~  372 (411)
T 4a1s_A          367 EQHLQL  372 (411)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998764

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.72  E-value=3e-16  Score=124.27  Aligned_cols=278  Identities=14%  Similarity=0.033  Sum_probs=209.5

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCC----HHhHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CcChh
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPT----AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ----GI-MPTAS   81 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~   81 (319)
                      ..+......+...|++++|+..|+++.+.... +    ...+..+...+...|++++|.+.+++....    +. +....
T Consensus         6 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   84 (338)
T 3ro2_A            6 LELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAK   84 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHH
Confidence            34556677889999999999999999886432 3    367888999999999999999999887653    21 12356


Q ss_pred             hHHHHHHHHHHcCchhHHHHHHHHHhhCCCC-CC----hHHHHHHHHHHHhcCC--------------------hHHHHH
Q 039029           82 TYNLLIHELLMERKMVEADDMLKEMGEKGIV-PD----SITYNILINGYCRCGN--------------------AKKAFS  136 (319)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~--------------------~~~a~~  136 (319)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+...+...|+                    +++|..
T Consensus        85 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~  164 (338)
T 3ro2_A           85 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVD  164 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHH
Confidence            7788889999999999999999987653111 12    3477888899999999                    999999


Q ss_pred             HHHHHHHc----CC-CccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC----CC-ccHHHHHHHHHHHhcCCcHHHHHH
Q 039029          137 LHDEMIHK----GI-QPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG----ML-PDIVMFNALIDGHCTNGNIERAFS  206 (319)
Q Consensus       137 ~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~-~~~~~~~~l~~~~~~~~~~~~a~~  206 (319)
                      .+++....    +. +....++..+...+...|++++|...+++..+..    .. ....++..+...+...|++++|..
T Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  244 (338)
T 3ro2_A          165 LYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASE  244 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            99887543    11 1223577888889999999999999999877541    11 113477888899999999999999


Q ss_pred             HHHHHHhCCCC-CC----hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHH
Q 039029          207 LLKEMDRMKVH-PD----EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLA  281 (319)
Q Consensus       207 ~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  281 (319)
                      .+++..+.... .+    ..++..+...+...|++++|...++++.+.......  ......++..+...|...|++++|
T Consensus       245 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A  322 (338)
T 3ro2_A          245 YYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKD--RIGEGRACWSLGNAYTALGNHDQA  322 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC--HHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCC--cHHHHHHHHHHHHHHHHcCChHHH
Confidence            99987543111 11    456778889999999999999999998764211110  011235778899999999999999


Q ss_pred             HHHHHHHHhC
Q 039029          282 EELLREMVSK  291 (319)
Q Consensus       282 ~~~~~~~~~~  291 (319)
                      ...+++..+.
T Consensus       323 ~~~~~~a~~~  332 (338)
T 3ro2_A          323 MHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHHH
Confidence            9999999874

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.71  E-value=1e-13  Score=116.88  Aligned_cols=292  Identities=8%  Similarity=0.080  Sum_probs=163.6

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      |...|..++.. .+.|++++|..+|+++.+.. +.+...|..++..+.+.|++++|..+|++++...  |+...|..++.
T Consensus        12 ~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~   87 (530)
T 2ooe_A           12 DLDAWSILIRE-AQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLS   87 (530)
T ss_dssp             CHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHH
T ss_pred             CHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHH
Confidence            45667777774 67788888888888888753 3467778888888888888888888888877653  35444433332


Q ss_pred             ------------------------------------------HHHH---------cCchhHHHHHHHHHhhCCCCCChHH
Q 039029           89 ------------------------------------------ELLM---------ERKMVEADDMLKEMGEKGIVPDSIT  117 (319)
Q Consensus        89 ------------------------------------------~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~  117 (319)
                                                                ....         .|+++.|..+|++..+.........
T Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~  167 (530)
T 2ooe_A           88 YVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQL  167 (530)
T ss_dssp             HHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHH
T ss_pred             HHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHH
Confidence                                                      1111         3556666666666665211111122


Q ss_pred             HHHHHHHH-------------HhcCChH----------------------------------------------------
Q 039029          118 YNILINGY-------------CRCGNAK----------------------------------------------------  132 (319)
Q Consensus       118 ~~~l~~~~-------------~~~~~~~----------------------------------------------------  132 (319)
                      |.......             ...+++.                                                    
T Consensus       168 ~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~  247 (530)
T 2ooe_A          168 WRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRT  247 (530)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCC
T ss_pred             HHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccC
Confidence            22111100             0001111                                                    


Q ss_pred             --------HHHHHHHHHHHcCCCccHHHHHHHHHHHhh-------hccHH-------HHHHHHHHHhhCCCCccHHHHHH
Q 039029          133 --------KAFSLHDEMIHKGIQPTMLTYTSLIFVLSK-------QNRMI-------EADQLFENFLAKGMLPDIVMFNA  190 (319)
Q Consensus       133 --------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~  190 (319)
                              ++..+|++..... +.+...|...+..+.+       .|+++       +|..++++..+.-.+.+...|..
T Consensus       248 ~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~  326 (530)
T 2ooe_A          248 EDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFA  326 (530)
T ss_dssp             SCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHH
T ss_pred             CcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHH
Confidence                    2233333333331 2344455555555543       56665       77788877775222335677777


Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHhCCCCCC-h-hhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHH
Q 039029          191 LIDGHCTNGNIERAFSLLKEMDRMKVHPD-E-VTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNAL  268 (319)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  268 (319)
                      ++..+.+.|++++|..+|+++.+.  .|+ . ..|..++..+.+.|++++|..+|+++.+.  .|..      ...|...
T Consensus       327 ~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~------~~~~~~~  396 (530)
T 2ooe_A          327 YADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTR------HHVYVTA  396 (530)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCC------THHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCc------hHHHHHH
Confidence            777777888888888888887774  343 2 36777777777777777777777777653  2221      0122111


Q ss_pred             HHH-HHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhh
Q 039029          269 IQG-LCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAES  316 (319)
Q Consensus       269 ~~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  316 (319)
                      +.. +...|+.++|..+|++.++.. +-+...|..++..+.+.|+.++|
T Consensus       397 a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~A  444 (530)
T 2ooe_A          397 ALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNT  444 (530)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHH
T ss_pred             HHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhH
Confidence            111 223555566666665555431 22345555555555555555544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.70  E-value=5.8e-16  Score=126.42  Aligned_cols=270  Identities=13%  Similarity=0.069  Sum_probs=205.1

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcCh----hhHHHHHHHHHHcCchhHHHHHHHHHhhC----C-CCCCh
Q 039029           45 AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTA----STYNLLIHELLMERKMVEADDMLKEMGEK----G-IVPDS  115 (319)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~  115 (319)
                      ...+..+...+...|++++|+..|+++++.... +.    ..+..+..++...|++++|...+++..+.    + .....
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            344556777889999999999999999987432 32    46888889999999999999999987653    1 12245


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc----C-CCccHHHHHHHHHHHhhhcc-----------------HHHHHHHH
Q 039029          116 ITYNILINGYCRCGNAKKAFSLHDEMIHK----G-IQPTMLTYTSLIFVLSKQNR-----------------MIEADQLF  173 (319)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~  173 (319)
                      ..+..+...|...|++++|...+++....    + .+....++..+...+...|+                 +++|...+
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            67888899999999999999999988764    1 12234578888899999999                 99999998


Q ss_pred             HHHhhC----CCCc-cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCC-CC----hhhHHHHHHHHHcCCcHHHHHHHH
Q 039029          174 ENFLAK----GMLP-DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVH-PD----EVTYNTLMHGRCRQGKVEEARRLL  243 (319)
Q Consensus       174 ~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~a~~~~  243 (319)
                      ++..+.    +..+ ...++..+...|...|++++|...+++..+.... ++    ...+..+...|...|++++|...+
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            877553    1111 2457788889999999999999999988653211 11    237788899999999999999999


Q ss_pred             HHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC----CCC-CChHHHHHHHHHhhhcchhhhhc
Q 039029          244 DQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK----GIT-PDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      +++.+.......  ......++..+...+...|++++|...+++....    +.. ....++..+...+.+.|++++|.
T Consensus       287 ~~al~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  363 (411)
T 4a1s_A          287 KRTLALAVELGE--REVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERAL  363 (411)
T ss_dssp             HHHHHHHHHTTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHcCC--HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHH
Confidence            998764211110  0112367888999999999999999999998764    111 12447788888999999999985

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.70  E-value=6.3e-14  Score=109.76  Aligned_cols=236  Identities=10%  Similarity=-0.024  Sum_probs=187.0

Q ss_pred             ccHHHHHHHHhcc----CCh----HHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh-------cCCh-------HHHHHHH
Q 039029           11 YTYGSFVSGMCKE----GRL----EEASRMLEQMKENGLVPTAVTYNTLIDGYCN-------KGNL-------EMAFSFR   68 (319)
Q Consensus        11 ~~~~~li~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~   68 (319)
                      ..|...+..-.+.    ++.    ++|..+|+++.... +.++..|..++..+..       .|++       ++|..+|
T Consensus         9 ~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~   87 (308)
T 2ond_A            9 DMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIY   87 (308)
T ss_dssp             HHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHH
Confidence            4466666655443    233    68889999998864 3477888888887763       5886       8999999


Q ss_pred             HHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChH-HHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 039029           69 DEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSI-TYNILINGYCRCGNAKKAFSLHDEMIHKGIQ  147 (319)
Q Consensus        69 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  147 (319)
                      ++.++.-.+-+...|..++..+...|++++|..+|++..+..+. +.. .|..++..+.+.|++++|..+|++..+.. +
T Consensus        88 ~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p  165 (308)
T 2ond_A           88 ERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-R  165 (308)
T ss_dssp             HHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-T
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-C
Confidence            99998312336678999999999999999999999999986433 344 89999999999999999999999999864 3


Q ss_pred             ccHHHHHHHHHHHh-hhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC-CCC--ChhhH
Q 039029          148 PTMLTYTSLIFVLS-KQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMK-VHP--DEVTY  223 (319)
Q Consensus       148 ~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~  223 (319)
                      .+...|........ ..|++++|..+|++..+..+. +...|..++..+.+.|++++|..+|++..... .+|  ....|
T Consensus       166 ~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~  244 (308)
T 2ond_A          166 TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIW  244 (308)
T ss_dssp             CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHH
T ss_pred             CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHH
Confidence            44555554443322 369999999999999886433 68889999999999999999999999998863 344  35688


Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          224 NTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       224 ~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      ..++......|+.+.|..+++++.+..
T Consensus       245 ~~~~~~~~~~g~~~~a~~~~~~a~~~~  271 (308)
T 2ond_A          245 ARFLAFESNIGDLASILKVEKRRFTAF  271 (308)
T ss_dssp             HHHHHHHHHHSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHc
Confidence            888999999999999999999998853

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.69  E-value=1.8e-13  Score=107.20  Aligned_cols=220  Identities=7%  Similarity=-0.007  Sum_probs=177.2

Q ss_pred             HHHHHHHHHHHHcCCCcChhhHHHHHHHHHH-------cCch-------hHHHHHHHHHhhC-CCCCChHHHHHHHHHHH
Q 039029           62 EMAFSFRDEMVKQGIMPTASTYNLLIHELLM-------ERKM-------VEADDMLKEMGEK-GIVPDSITYNILINGYC  126 (319)
Q Consensus        62 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~  126 (319)
                      ++|...|++++... +.+...|..++..+..       .|++       ++|..+|++..+. .+ -+...|..++..+.
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p-~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLK-KNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHH
Confidence            68889999998864 4477788888777753       5776       8999999999983 43 36778999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCccHH-HHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHH-hcCCcHHHH
Q 039029          127 RCGNAKKAFSLHDEMIHKGIQPTML-TYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGH-CTNGNIERA  204 (319)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a  204 (319)
                      +.|++++|..+|+++.+.. +.+.. +|..++..+.+.|++++|..+|++..+... ++...|....... ...|++++|
T Consensus       111 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSS-SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             hcCCHHHHHHHHHHHHhcc-ccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999999853 22343 899999999999999999999999998753 3455555444332 237999999


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC-CCCCCcccCcchhhHHHHHHHHHhcCchhHHHH
Q 039029          205 FSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRG-IKPDHISFNPTRLTYNALIQGLCKNQEGDLAEE  283 (319)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  283 (319)
                      ..+|++..+.. +.+...|..++..+.+.|++++|..+|++++... +.|+.     ....|..++....+.|+.+.|..
T Consensus       189 ~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~-----~~~l~~~~~~~~~~~g~~~~a~~  262 (308)
T 2ond_A          189 FKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEK-----SGEIWARFLAFESNIGDLASILK  262 (308)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGG-----CHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHH-----HHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999987753 3467889999999999999999999999999863 34431     23678889999999999999999


Q ss_pred             HHHHHHhC
Q 039029          284 LLREMVSK  291 (319)
Q Consensus       284 ~~~~~~~~  291 (319)
                      +++++.+.
T Consensus       263 ~~~~a~~~  270 (308)
T 2ond_A          263 VEKRRFTA  270 (308)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99999885

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.69  E-value=1.5e-15  Score=123.56  Aligned_cols=274  Identities=14%  Similarity=0.076  Sum_probs=206.7

Q ss_pred             CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC----hhhHHHHHHHHHHcCchhHHHHHHHHHhhC----CCC-
Q 039029           42 VPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT----ASTYNLLIHELLMERKMVEADDMLKEMGEK----GIV-  112 (319)
Q Consensus        42 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-  112 (319)
                      ......+......+...|++++|...|+++.+.... +    ..++..+...+...|++++|...+++....    +.. 
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            345667778888999999999999999999987422 3    357788889999999999999999987543    111 


Q ss_pred             CChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC----C-CccHHHHHHHHHHHhhhcc--------------------HH
Q 039029          113 PDSITYNILINGYCRCGNAKKAFSLHDEMIHKG----I-QPTMLTYTSLIFVLSKQNR--------------------MI  167 (319)
Q Consensus       113 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~l~~~~~~~~~--------------------~~  167 (319)
                      ....++..+...+...|++++|...+++.....    . .....++..+...+...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence            135677888999999999999999999887641    1 1114478888899999999                    99


Q ss_pred             HHHHHHHHHhhC----CCCc-cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-CCC----hhhHHHHHHHHHcCCcHH
Q 039029          168 EADQLFENFLAK----GMLP-DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKV-HPD----EVTYNTLMHGRCRQGKVE  237 (319)
Q Consensus       168 ~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~~~  237 (319)
                      +|...+.+....    +..| ...++..+...|...|++++|...+++..+... .++    ..++..+...+...|+++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            999998876543    1111 245678888999999999999999998765311 111    237788899999999999


Q ss_pred             HHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC----CCCC-ChHHHHHHHHHhhhcch
Q 039029          238 EARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK----GITP-DDNTYFSLIEGIASVDK  312 (319)
Q Consensus       238 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~  312 (319)
                      +|...+++..+.......  ......++..+...|...|++++|...+++....    +..+ ...++..+...+...|+
T Consensus       245 ~A~~~~~~al~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  322 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKD--RAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGN  322 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHhCcC--chHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            999999998764211111  0111357888999999999999999999998764    1111 15577788889999999


Q ss_pred             hhhhcC
Q 039029          313 AAESSN  318 (319)
Q Consensus       313 ~~~A~~  318 (319)
                      +++|..
T Consensus       323 ~~~A~~  328 (406)
T 3sf4_A          323 HDQAMH  328 (406)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999863

>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=3.7e-14  Score=102.35  Aligned_cols=166  Identities=13%  Similarity=0.005  Sum_probs=86.8

Q ss_pred             ChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHH
Q 039029           79 TASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIF  158 (319)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  158 (319)
                      +..+|..+...+...|++++|++.|++..+..+. +...+..+..++.+.|++++|...+....... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            3344555555555555555555555555544332 44455555555555555555555555554442 233444444455


Q ss_pred             HHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHH
Q 039029          159 VLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEE  238 (319)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  238 (319)
                      .+...++++.+...+.+....... +...+..+...+...|++++|...|++..+.. +.+..++..+..+|...|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            555555555555555555544222 34455555555555566666665555555443 2344455555566666666666


Q ss_pred             HHHHHHHHHH
Q 039029          239 ARRLLDQMKR  248 (319)
Q Consensus       239 a~~~~~~~~~  248 (319)
                      |.+.|+++++
T Consensus       160 A~~~~~~al~  169 (184)
T 3vtx_A          160 AVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            6666665554

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.67  E-value=3.8e-14  Score=102.29  Aligned_cols=165  Identities=19%  Similarity=0.123  Sum_probs=84.6

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      +..|..+...+.+.|++++|++.|++..+..+. +..++..+..++...|++++|...+....... +.+...+..+...
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            344555555555555555555555555544322 44455555555555555555555555555443 1233444444455


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      +...++++.+...+.+..+..+. +...+..+..++.+.|++++|++.|++..+.. +.+..++..+..++.+.|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHH
Confidence            55555555555555555444322 44455555555555555555555555555443 33444555555555555555555


Q ss_pred             HHHHHHHhh
Q 039029          170 DQLFENFLA  178 (319)
Q Consensus       170 ~~~~~~~~~  178 (319)
                      ...|++.++
T Consensus       161 ~~~~~~al~  169 (184)
T 3vtx_A          161 VKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            555555544

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.67  E-value=1.2e-14  Score=120.64  Aligned_cols=214  Identities=9%  Similarity=-0.057  Sum_probs=180.0

Q ss_pred             CchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHH
Q 039029           94 RKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNA-KKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQL  172 (319)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (319)
                      +.++++...+++...... .+...+..+...+...|++ ++|++.|++..+.. +.+...+..+..+|...|++++|...
T Consensus        82 ~~~~~al~~l~~~~~~~~-~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           82 EEMEKTLQQMEEVLGSAQ-VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHHHTTCC-CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCc-hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            345667777777665533 4788999999999999999 99999999999875 55688999999999999999999999


Q ss_pred             HHHHhhCCCCccHHHHHHHHHHHhcC---------CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcC--------Cc
Q 039029          173 FENFLAKGMLPDIVMFNALIDGHCTN---------GNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQ--------GK  235 (319)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~  235 (319)
                      |+++.+..  |+...+..+...+...         |++++|...+++..+.. +.+...|..+..+|...        |+
T Consensus       160 ~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          160 FSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccch
Confidence            99999875  5678889999999999         99999999999998864 44677899999999988        99


Q ss_pred             HHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhh
Q 039029          236 VEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAE  315 (319)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  315 (319)
                      +++|...|+++.+..  |..   ..+...|..+..+|...|++++|.+.|++..+.. +-+...+..+...+...|++++
T Consensus       237 ~~~A~~~~~~al~~~--p~~---~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~e  310 (474)
T 4abn_A          237 SQQALSAYAQAEKVD--RKA---SSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTS  310 (474)
T ss_dssp             HHHHHHHHHHHHHHC--GGG---GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--CCc---ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHH
Confidence            999999999999853  310   0134789999999999999999999999999863 3356678888899999999998


Q ss_pred             hcC
Q 039029          316 SSN  318 (319)
Q Consensus       316 A~~  318 (319)
                      |+.
T Consensus       311 Ai~  313 (474)
T 4abn_A          311 LLE  313 (474)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            863

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.67  E-value=8.7e-13  Score=111.30  Aligned_cols=206  Identities=11%  Similarity=0.067  Sum_probs=152.7

Q ss_pred             HHHHHHhhCCCCCChHHHHHHHHHHHh-------cCChH-------HHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccH
Q 039029          101 DMLKEMGEKGIVPDSITYNILINGYCR-------CGNAK-------KAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRM  166 (319)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (319)
                      .+|++.....+ .+...|..++..+.+       .|+++       +|..++++..+.-.+.+...+..++..+.+.|++
T Consensus       259 ~~y~~al~~~p-~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~  337 (530)
T 2ooe_A          259 FAYEQCLLVLG-HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKY  337 (530)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHhCC-CCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCH
Confidence            34444443322 255666666666665       68887       8999999998632355688999999999999999


Q ss_pred             HHHHHHHHHHhhCCCCcc-HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHH-HHcCCcHHHHHHHHH
Q 039029          167 IEADQLFENFLAKGMLPD-IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHG-RCRQGKVEEARRLLD  244 (319)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~  244 (319)
                      ++|..+|+++.+.... + ...|..++..+.+.|++++|..+|++..+.. +.+...+...+.. +...|++++|..+|+
T Consensus       338 ~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e  415 (530)
T 2ooe_A          338 EKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFE  415 (530)
T ss_dssp             HHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHH
Confidence            9999999999986332 3 3588889998899999999999999998753 2223333332222 336899999999999


Q ss_pred             HHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCC-CCCC--hHHHHHHHHHhhhcchhhhhc
Q 039029          245 QMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKG-ITPD--DNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      +.++..  |+.      ...|..++..+.+.|+.++|..+|++.+..+ ..|+  ...|...+......|+.+.+.
T Consensus       416 ~al~~~--p~~------~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~  483 (530)
T 2ooe_A          416 LGLKKY--GDI------PEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASIL  483 (530)
T ss_dssp             HHHHHH--TTC------HHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHH
T ss_pred             HHHHHC--CCC------HHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            998853  332      3788999999999999999999999999863 2332  336777777777888877664

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.67  E-value=1.6e-14  Score=119.81  Aligned_cols=214  Identities=7%  Similarity=-0.093  Sum_probs=176.7

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHH
Q 039029           26 LEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNL-EMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLK  104 (319)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  104 (319)
                      +++++..++...... +.+...+..+...+...|++ ++|++.|++.++.. +.+...|..+..+|...|++++|...|+
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            556666777665543 34778888999999999999 99999999998875 3367889999999999999999999999


Q ss_pred             HHhhCCCCCChHHHHHHHHHHHhc---------CChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh--------ccHH
Q 039029          105 EMGEKGIVPDSITYNILINGYCRC---------GNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ--------NRMI  167 (319)
Q Consensus       105 ~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~  167 (319)
                      +..+..  |+...+..+...+...         |++++|+..+++..+.. +.+...+..+..+|...        |+++
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            998874  5578888899999998         99999999999998875 55688899999999888        9999


Q ss_pred             HHHHHHHHHhhCCCC--ccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHH
Q 039029          168 EADQLFENFLAKGML--PDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQ  245 (319)
Q Consensus       168 ~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  245 (319)
                      +|...|++..+....  .+...|..+..+|...|++++|...|++..+.. +.+...+..+...+...|++++|.+.+.+
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999999999886431  367889999999999999999999999988764 33566788888888888888888876544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.66  E-value=2.5e-15  Score=118.94  Aligned_cols=269  Identities=14%  Similarity=0.084  Sum_probs=201.3

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC----hhhHHHHHHHHHHcCchhHHHHHHHHHhhC----CC-CCChH
Q 039029           46 VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT----ASTYNLLIHELLMERKMVEADDMLKEMGEK----GI-VPDSI  116 (319)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~  116 (319)
                      ..+......+...|++++|...++++.+.... +    ...+..+...+...|++++|.+.+++..+.    +. +....
T Consensus         6 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   84 (338)
T 3ro2_A            6 LELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAK   84 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHH
Confidence            34556677888999999999999999987422 3    367788889999999999999999887543    11 12356


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCC-Ccc----HHHHHHHHHHHhhhcc--------------------HHHHHH
Q 039029          117 TYNILINGYCRCGNAKKAFSLHDEMIHKGI-QPT----MLTYTSLIFVLSKQNR--------------------MIEADQ  171 (319)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~~a~~  171 (319)
                      .+..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    +++|..
T Consensus        85 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~  164 (338)
T 3ro2_A           85 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVD  164 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHH
Confidence            788889999999999999999998776410 111    3478888889999999                    999999


Q ss_pred             HHHHHhhC----CCCc-cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCC-CC----hhhHHHHHHHHHcCCcHHHHHH
Q 039029          172 LFENFLAK----GMLP-DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVH-PD----EVTYNTLMHGRCRQGKVEEARR  241 (319)
Q Consensus       172 ~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~a~~  241 (319)
                      .+++....    +..+ ...++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|..
T Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  244 (338)
T 3ro2_A          165 LYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASE  244 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            98876543    1111 2456788888999999999999999987553111 11    2367888899999999999999


Q ss_pred             HHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC----CCC-CChHHHHHHHHHhhhcchhhhh
Q 039029          242 LLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK----GIT-PDDNTYFSLIEGIASVDKAAES  316 (319)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~A  316 (319)
                      .+++..+.......  ......++..+...+...|++++|...+++....    +-. ....++..+...+.+.|++++|
T Consensus       245 ~~~~al~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  322 (338)
T 3ro2_A          245 YYKKTLLLARQLKD--RAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQA  322 (338)
T ss_dssp             HHHHHHHHHHHTTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHhhcc--hhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHH
Confidence            99998764211111  0111357788899999999999999999998764    111 1244677888899999999988


Q ss_pred             c
Q 039029          317 S  317 (319)
Q Consensus       317 ~  317 (319)
                      .
T Consensus       323 ~  323 (338)
T 3ro2_A          323 M  323 (338)
T ss_dssp             H
T ss_pred             H
Confidence            5

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.66  E-value=1.3e-15  Score=119.35  Aligned_cols=240  Identities=18%  Similarity=0.066  Sum_probs=171.7

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhC-------CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc------C
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKEN-------GLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ------G   75 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~   75 (319)
                      +..++..+...+...|++++|+.+++++.+.       ..+....++..+...+...|++++|...+++....      +
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            3566888999999999999999999998873       23335667888999999999999999999998764      2


Q ss_pred             -CCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhC------C-CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc---
Q 039029           76 -IMPTASTYNLLIHELLMERKMVEADDMLKEMGEK------G-IVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK---  144 (319)
Q Consensus        76 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  144 (319)
                       .+....++..+...+...|++++|...+++..+.      + .+.....+..+...+...|++++|..+++++...   
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             2334567888899999999999999999988764      1 1224567888899999999999999999998775   


Q ss_pred             ---C-CCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC-------CCcc-------HHHHHHHHHHHhcCCcHHHHHH
Q 039029          145 ---G-IQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG-------MLPD-------IVMFNALIDGHCTNGNIERAFS  206 (319)
Q Consensus       145 ---~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~-------~~~~~~l~~~~~~~~~~~~a~~  206 (319)
                         + .+....++..+..++...|++++|...++++.+..       ..+.       ...+..+...+...+.+.++..
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  265 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGG  265 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC-
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence               2 12234678888999999999999999999887631       1111       1122222333334445555555


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          207 LLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      .+....... +....++..+...|...|++++|.++|+++.+.
T Consensus       266 ~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          266 WYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             --------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            666554432 334567888999999999999999999998764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.63  E-value=3e-14  Score=115.18  Aligned_cols=292  Identities=10%  Similarity=-0.020  Sum_probs=200.9

Q ss_pred             HhccCChHHHHHHHHHHHhC--CCCCC--HHhHHHHHHH--HHhcCChHHHH-----------HHHHHHHHcCCCcC---
Q 039029           20 MCKEGRLEEASRMLEQMKEN--GLVPT--AVTYNTLIDG--YCNKGNLEMAF-----------SFRDEMVKQGIMPT---   79 (319)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~--~~~~~--~~~~~~l~~~--~~~~~~~~~a~-----------~~~~~~~~~~~~~~---   79 (319)
                      +.+.+++++|..+++++.+.  .+..+  ...|-.++..  ....++.+.+.           +.++.+.....+.+   
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~~~~~~~l  101 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQARLTGLL  101 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHTHHHHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcCCCchhHH
Confidence            46789999999999998764  22223  3333333332  11223333333           55555544311111   


Q ss_pred             -hhhHHHHHHHHHHcCchhHHHHHHHHHhhC----CCCC-ChHHHHHHHHHHHhcCChHHHHHHHHHHHHc--CC----C
Q 039029           80 -ASTYNLLIHELLMERKMVEADDMLKEMGEK----GIVP-DSITYNILINGYCRCGNAKKAFSLHDEMIHK--GI----Q  147 (319)
Q Consensus        80 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~----~  147 (319)
                       ...+......+...|++++|...+++..+.    +..+ ...++..+...|...|++++|...+++..+.  ..    +
T Consensus       102 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  181 (383)
T 3ulq_A          102 EYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNI  181 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchH
Confidence             111223556778899999999999998764    1111 3467888999999999999999999988764  11    1


Q ss_pred             ccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC----CCCc-cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC----CC-C
Q 039029          148 PTMLTYTSLIFVLSKQNRMIEADQLFENFLAK----GMLP-DIVMFNALIDGHCTNGNIERAFSLLKEMDRM----KV-H  217 (319)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~  217 (319)
                      ....++..+..+|...|++++|...+++..+.    +..+ ...++..+...|...|++++|...+++..+.    +. +
T Consensus       182 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~  261 (383)
T 3ulq_A          182 RLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILP  261 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGG
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccch
Confidence            12357888889999999999999999988754    1111 1357888999999999999999999998662    22 3


Q ss_pred             CChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCc---hhHHHHHHHHHHhCCCC
Q 039029          218 PDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQE---GDLAEELLREMVSKGIT  294 (319)
Q Consensus       218 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~  294 (319)
                      ....++..+...+...|++++|...+++..+.....+..   .....+..+...+...|+   +++|+.++++.   +..
T Consensus       262 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~  335 (383)
T 3ulq_A          262 SLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDV---IYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLY  335 (383)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH---HHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCH
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCH---HHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCH
Confidence            335678889999999999999999999987642111110   111335678888888898   77777777765   223


Q ss_pred             C-ChHHHHHHHHHhhhcchhhhhc
Q 039029          295 P-DDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       295 ~-~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      | ....+..+...|...|++++|.
T Consensus       336 ~~~~~~~~~la~~y~~~g~~~~A~  359 (383)
T 3ulq_A          336 ADLEDFAIDVAKYYHERKNFQKAS  359 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHH
Confidence            3 3456777888999999999986

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.62  E-value=4.5e-15  Score=116.30  Aligned_cols=240  Identities=17%  Similarity=0.124  Sum_probs=171.0

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHc-------CCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhC------C
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ-------GIMPTASTYNLLIHELLMERKMVEADDMLKEMGEK------G  110 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~  110 (319)
                      ...++..+...+...|++++|..+++++.+.       ..+.....+..+..++...|++++|...+++..+.      +
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            4567888999999999999999999999873       23445677888999999999999999999988754      1


Q ss_pred             -CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc------CC-CccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC---
Q 039029          111 -IVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK------GI-QPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK---  179 (319)
Q Consensus       111 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  179 (319)
                       .+....++..+...+...|++++|...++++.+.      +. +.....+..+...+...|++++|...++++...   
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             2234667888999999999999999999998864      22 223467888889999999999999999988764   


Q ss_pred             ---CCCc-cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-------CCCCChh-hHHH------HHHHHHcCCcHHHHHH
Q 039029          180 ---GMLP-DIVMFNALIDGHCTNGNIERAFSLLKEMDRM-------KVHPDEV-TYNT------LMHGRCRQGKVEEARR  241 (319)
Q Consensus       180 ---~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~-~~~~------l~~~~~~~g~~~~a~~  241 (319)
                         +..| ...++..+...|...|++++|...++++.+.       ...+... .+..      +...+...+.+.++..
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  265 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGG  265 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC-
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence               2223 3467888899999999999999999988653       1122222 2222      2222233444555555


Q ss_pred             HHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          242 LLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      .+......  .|      ....++..+...|.+.|++++|.+.+++..+.
T Consensus       266 ~~~~~~~~--~~------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          266 WYKACKVD--SP------TVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             ----------CH------HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhcCCC--Cc------hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            55555432  11      23367889999999999999999999998763

>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=99.62  E-value=4.6e-13  Score=119.38  Aligned_cols=194  Identities=19%  Similarity=0.225  Sum_probs=104.7

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC
Q 039029           15 SFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMER   94 (319)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (319)
                      .+...+...|.+++|..+|++...     .....+.++.   ..+++++|.++.++..      +..+|..+..++...|
T Consensus      1054 eIA~Iai~lglyEEAf~IYkKa~~-----~~~A~~VLie---~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G 1119 (1630)
T 1xi4_A         1054 DIANIAISNELFEEAFAIFRKFDV-----NTSAVQVLIE---HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKG 1119 (1630)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHHHH---HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCC
Confidence            345666677777777777766421     1112222221   4455666666655431      3455666666666666


Q ss_pred             chhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHH
Q 039029           95 KMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFE  174 (319)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  174 (319)
                      ++++|.+.|.+.      -|...|..++.++.+.|++++|.+.+....+..  +++...+.++.+|.+.+++++...+. 
T Consensus      1120 ~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI- 1190 (1630)
T 1xi4_A         1120 MVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI- 1190 (1630)
T ss_pred             CHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH-
Confidence            666666666442      255556666666666666666666666555442  22222333555566655555432221 


Q ss_pred             HHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHH
Q 039029          175 NFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQM  246 (319)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  246 (319)
                         .   .++...|..+...|...|++++|..+|..+         ..|..++..+.+.|++++|.+.+++.
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   123344445555566666666666666553         24555555555556666655555554

>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=99.61  E-value=3e-12  Score=114.32  Aligned_cols=263  Identities=13%  Similarity=0.080  Sum_probs=155.6

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      ..+|..+..++.+.|++++|++.|.+.      .+...|..++.++.+.|++++|.+++...++..  ++....+.++.+
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            345555666666666666666666332      244555556666666666666666666555442  222222335555


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      |++.+++++...++    +   .++...|..+...|...|++++|..+|...         ..|..+..++.+.|++++|
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            66655555433221    1   124445555666666666666666666653         2566666666666666666


Q ss_pred             HHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          170 DQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      .+.+++.      .+..+|..+..+|...|++..|......+     ..+...+..++..|.+.|.+++|..+++..+..
T Consensus      1241 IEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~L 1309 (1630)
T 1xi4_A         1241 VDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALGL 1309 (1630)
T ss_pred             HHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            6666654      14466666666666666666666554432     234556678888899999999999999887653


Q ss_pred             CCCCCCcccCcchhhHHHHHHHHHhc--CchhHHHHHHHHHHhCCCCC------ChHHHHHHHHHhhhcchhhhhc
Q 039029          250 GIKPDHISFNPTRLTYNALIQGLCKN--QEGDLAEELLREMVSKGITP------DDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~A~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                        .+...      ..|+.+...|.+.  ++..++.+.|..-.  +++|      +...|..+.-.|.+.|+++.|.
T Consensus      1310 --eraH~------gmftELaiLyaKy~peklmEhlk~f~~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1310 --ERAHM------GMFTELAILYSKFKPQKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             --ChhHh------HHHHHHHHHHHhCCHHHHHHHHHHHHHhc--ccchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence              33322      4666666666553  44444555544322  2333      4567888888999999999886

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.61  E-value=1.5e-12  Score=104.78  Aligned_cols=299  Identities=10%  Similarity=0.013  Sum_probs=208.1

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHhCCCCCCHH----hHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-cC----hhhHH
Q 039029           14 GSFVSGMCKEGRLEEASRMLEQMKENGLVPTAV----TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM-PT----ASTYN   84 (319)
Q Consensus        14 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~   84 (319)
                      ......+...|++++|...+++........+..    ++..+...+...|++++|...+++....... .+    ..++.
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   97 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   97 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            344556778999999999999988764332322    4667778888999999999999988764211 11    23356


Q ss_pred             HHHHHHHHcCchhHHHHHHHHHhhC----CCC--C-ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC----ccHHHH
Q 039029           85 LLIHELLMERKMVEADDMLKEMGEK----GIV--P-DSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQ----PTMLTY  153 (319)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~  153 (319)
                      .+...+...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++.......    ....++
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  177 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  177 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHH
Confidence            6778889999999999999887653    221  2 3456677888999999999999999998875321    123567


Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHhhCCCCcc--HHHHH----HHHHHHhcCCcHHHHHHHHHHHHhCCCCCC---hhhHH
Q 039029          154 TSLIFVLSKQNRMIEADQLFENFLAKGMLPD--IVMFN----ALIDGHCTNGNIERAFSLLKEMDRMKVHPD---EVTYN  224 (319)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~  224 (319)
                      ..+...+...|++++|...+++.......++  .....    ..+..+...|++++|...+++.......+.   ...+.
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  257 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  257 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHH
Confidence            7888889999999999999998865411111  11111    233457789999999999999876432211   22456


Q ss_pred             HHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcch-hhHHHHHHHHHhcCchhHHHHHHHHHHhC----CCC----C
Q 039029          225 TLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTR-LTYNALIQGLCKNQEGDLAEELLREMVSK----GIT----P  295 (319)
Q Consensus       225 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~----~  295 (319)
                      .+...+...|++++|...++++.........   .+.. ..+..+..++...|+.++|...+++....    |..    .
T Consensus       258 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~---~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~~~  334 (373)
T 1hz4_A          258 NIARAQILLGEFEPAEIVLEELNENARSLRL---MSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVI  334 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCcc---hhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccccHHHHHHH
Confidence            7788899999999999999988654211110   0111 36667788899999999999999987653    221    1


Q ss_pred             ChHHHHHHHHHhhhcchhhh
Q 039029          296 DDNTYFSLIEGIASVDKAAE  315 (319)
Q Consensus       296 ~~~~~~~l~~~~~~~g~~~~  315 (319)
                      .......+++.+...+..++
T Consensus       335 ~g~~~~~ll~~~~~~~~~~~  354 (373)
T 1hz4_A          335 EGEAMAQQLRQLIQLNTLPE  354 (373)
T ss_dssp             THHHHHHHHHHHHHTTCSCH
T ss_pred             ccHHHHHHHHHHHhCCCCch
Confidence            22345566677766666543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.59  E-value=3.1e-13  Score=109.26  Aligned_cols=232  Identities=9%  Similarity=-0.019  Sum_probs=178.8

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhC----CCCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcC--C----CcChhhHH
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKEN----GLVP-TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQG--I----MPTASTYN   84 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~----~~~~~~~~   84 (319)
                      ....+...|++++|+..|++..+.    +..+ ...++..+...+...|+++.|...+++..+..  .    +....+++
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            556678899999999999998864    1111 34678899999999999999999999987641  1    11245788


Q ss_pred             HHHHHHHHcCchhHHHHHHHHHhhCCCC-----CChHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CccHHHHH
Q 039029           85 LLIHELLMERKMVEADDMLKEMGEKGIV-----PDSITYNILINGYCRCGNAKKAFSLHDEMIHK----GI-QPTMLTYT  154 (319)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~  154 (319)
                      .+..++...|++++|...+++..+....     ....++..+..+|...|++++|...+++..+.    +. +....++.
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            8889999999999999999988653111     11247888999999999999999999998872    23 44567889


Q ss_pred             HHHHHHhhhccHHHHHHHHHHHhhCC----CCccHHHHHHHHHHHhcCCc---HHHHHHHHHHHHhCCCCCChhhHHHHH
Q 039029          155 SLIFVLSKQNRMIEADQLFENFLAKG----MLPDIVMFNALIDGHCTNGN---IERAFSLLKEMDRMKVHPDEVTYNTLM  227 (319)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~  227 (319)
                      .+..++...|++++|...+++.....    .+.....+..+...+...|+   .++|..++++...  .+.....+..+.
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~--~~~~~~~~~~la  346 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKML--YADLEDFAIDVA  346 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcC--HHHHHHHHHHHH
Confidence            99999999999999999999877541    11123345678888889998   7777777776622  122344677889


Q ss_pred             HHHHcCCcHHHHHHHHHHHHHc
Q 039029          228 HGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       228 ~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      ..|...|++++|...+++..+.
T Consensus       347 ~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          347 KYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHH
Confidence            9999999999999999998764

>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=99.57  E-value=3.5e-13  Score=116.34  Aligned_cols=166  Identities=16%  Similarity=0.087  Sum_probs=105.0

Q ss_pred             ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHH
Q 039029          114 DSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALID  193 (319)
Q Consensus       114 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (319)
                      +...++.|...+.+.|++++|++.|++..+.. +-+..++..+..+|.+.|++++|+..|++.++.... +...|..+..
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            34556666666666666666666666666653 334566666666666666666666666666665332 4566666666


Q ss_pred             HHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHH
Q 039029          194 GHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLC  273 (319)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  273 (319)
                      ++...|++++|.+.|++..+.. +-+...+..+...|...|++++|.+.|+++++.  .|+.      ...|..+..++.
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~------~~a~~~L~~~l~  156 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDF------PDAYCNLAHCLQ  156 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCC------HHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCC------hHHHhhhhhHHH
Confidence            6666777777777776666543 234556666677777777777777777776663  3332      256666677777


Q ss_pred             hcCchhHHHHHHHHHHh
Q 039029          274 KNQEGDLAEELLREMVS  290 (319)
Q Consensus       274 ~~g~~~~A~~~~~~~~~  290 (319)
                      ..|++++|.+.++++++
T Consensus       157 ~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          157 IVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HTTCCTTHHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHHH
Confidence            77777777666666543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.57  E-value=8.9e-13  Score=106.37  Aligned_cols=305  Identities=9%  Similarity=-0.026  Sum_probs=205.7

Q ss_pred             CCCCcccHHHHHHHH--hccCChHHHHHHHHHHHhC--CCCCC--HHhHHHHHHHH--HhcCChHHHH---------HHH
Q 039029            6 VQPDSYTYGSFVSGM--CKEGRLEEASRMLEQMKEN--GLVPT--AVTYNTLIDGY--CNKGNLEMAF---------SFR   68 (319)
Q Consensus         6 ~~p~~~~~~~li~~~--~~~~~~~~a~~~~~~~~~~--~~~~~--~~~~~~l~~~~--~~~~~~~~a~---------~~~   68 (319)
                      +.|+..+-+.+-..|  .+.+++++|.++++++.+.  .+..+  ...|-.++..-  ...+......         +.+
T Consensus         6 ~~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l   85 (378)
T 3q15_A            6 AIPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELL   85 (378)
T ss_dssp             CBCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHH
Confidence            345555555566666  7899999999999988663  22223  33334333321  1112222222         555


Q ss_pred             HHHHHcCCCcCh----hhHHHHHHHHHHcCchhHHHHHHHHHhhCCC--C---CChHHHHHHHHHHHhcCChHHHHHHHH
Q 039029           69 DEMVKQGIMPTA----STYNLLIHELLMERKMVEADDMLKEMGEKGI--V---PDSITYNILINGYCRCGNAKKAFSLHD  139 (319)
Q Consensus        69 ~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~---~~~~~~~~l~~~~~~~~~~~~a~~~~~  139 (319)
                      +.+.....+.+.    ..+......+...|++++|...+++..+...  .   ....++..+...|...|+++.|...++
T Consensus        86 ~~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~  165 (378)
T 3q15_A           86 ETIETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHIL  165 (378)
T ss_dssp             HHHHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            555432111111    1233345567789999999999999876421  1   134578888999999999999999999


Q ss_pred             HHHHc--CC---C-ccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC----CCC-ccHHHHHHHHHHHhcCCcHHHHHHHH
Q 039029          140 EMIHK--GI---Q-PTMLTYTSLIFVLSKQNRMIEADQLFENFLAK----GML-PDIVMFNALIDGHCTNGNIERAFSLL  208 (319)
Q Consensus       140 ~~~~~--~~---~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (319)
                      +..+.  ..   . ....++..+..+|...|++++|...+++..+.    +.. ....++..+..+|...|++++|...+
T Consensus       166 ~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~  245 (378)
T 3q15_A          166 QALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHF  245 (378)
T ss_dssp             HHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            88763  11   1 12457888899999999999999999987763    111 12456788899999999999999999


Q ss_pred             HHHHh-----CCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCc---hhH
Q 039029          209 KEMDR-----MKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQE---GDL  280 (319)
Q Consensus       209 ~~~~~-----~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~  280 (319)
                      ++..+     .. +....++..+...+...|++++|...+++..+.....+..   .....+..+...+...|+   +.+
T Consensus       246 ~~al~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~---~~~~~~~~l~~ly~~~~~~~~~~~  321 (378)
T 3q15_A          246 QKAAKVSREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHK---FYKELFLFLQAVYKETVDERKIHD  321 (378)
T ss_dssp             HHHHHHHHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCS---CHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHHHHHHHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCH---HHHHHHHHHHHHHhCCCcHHHHHH
Confidence            99866     32 2336678889999999999999999999998864332221   112345666667777788   777


Q ss_pred             HHHHHHHHHhCCCCC-ChHHHHHHHHHhhhcchhhhhc
Q 039029          281 AEELLREMVSKGITP-DDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       281 A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      |+..+++   .+..| ....+..+...|...|++++|.
T Consensus       322 al~~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~  356 (378)
T 3q15_A          322 LLSYFEK---KNLHAYIEACARSAAAVFESSCHFEQAA  356 (378)
T ss_dssp             HHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHh---CCChhHHHHHHHHHHHHHHHCCCHHHHH
Confidence            7777766   22223 3345667888899999999986

>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=99.57  E-value=1.2e-12  Score=94.15  Aligned_cols=165  Identities=12%  Similarity=0.028  Sum_probs=110.2

Q ss_pred             hhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 039029           81 STYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVL  160 (319)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (319)
                      ..+..+...+...|++++|...++++.+.... +...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADAF-DVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            34455556666666677776666666554332 55666666677777777777777777766653 34566666667777


Q ss_pred             hhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHH
Q 039029          161 SKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEAR  240 (319)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  240 (319)
                      ...|++++|...++++..... .+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEANP-INFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcCc-HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHH
Confidence            777777777777777666532 255666677777777777777777777776653 334566777777777778888888


Q ss_pred             HHHHHHHHc
Q 039029          241 RLLDQMKRR  249 (319)
Q Consensus       241 ~~~~~~~~~  249 (319)
                      ..++++.+.
T Consensus       165 ~~~~~~~~~  173 (186)
T 3as5_A          165 PHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHc
Confidence            877777664

>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=1.8e-12  Score=96.90  Aligned_cols=197  Identities=12%  Similarity=-0.034  Sum_probs=153.0

Q ss_pred             CCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHH
Q 039029            8 PDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLI   87 (319)
Q Consensus         8 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (319)
                      .|+..+......+.+.|++++|+..|++..+...+++...+..+..++...|++++|++.+++..+... .+...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY-NLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-SHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc-chHHHHHHHH
Confidence            345778888999999999999999999999876546777888899999999999999999999998753 3667888999


Q ss_pred             HHHHHcCchhHHHHHHHHHhhCCCCCCh-------HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc--cHHHHHHHHH
Q 039029           88 HELLMERKMVEADDMLKEMGEKGIVPDS-------ITYNILINGYCRCGNAKKAFSLHDEMIHKGIQP--TMLTYTSLIF  158 (319)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~  158 (319)
                      .++...|++++|...+++..+..+. +.       ..|..+...+...|++++|...|++..+.. +.  +...+..+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~  161 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT-SKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS-CHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC-CCcccHHHHHHHHH
Confidence            9999999999999999999886543 45       557888889999999999999999998763 33  3567777777


Q ss_pred             HHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC
Q 039029          159 VLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMK  215 (319)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (319)
                      ++...|+     ..++.+...+.. +...+.....  ...+.+++|...+++..+..
T Consensus       162 ~~~~~~~-----~~~~~a~~~~~~-~~~~~~~~~~--~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          162 LFYNNGA-----DVLRKATPLASS-NKEKYASEKA--KADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHH-----HHHHHHGGGTTT-CHHHHHHHHH--HHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHH-----HHHHHHHhcccC-CHHHHHHHHH--HHHHHHHHHHHHHHHHhhcC
Confidence            7766554     334554444322 3444443332  34566899999999998864

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.56  E-value=2.9e-12  Score=103.16  Aligned_cols=266  Identities=11%  Similarity=0.019  Sum_probs=188.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCcCh----hhHHHHHHHHHHcCchhHHHHHHHHHhhCCCC-CC----hHHH
Q 039029           48 YNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTA----STYNLLIHELLMERKMVEADDMLKEMGEKGIV-PD----SITY  118 (319)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~  118 (319)
                      .......+...|++++|...+++........+.    ..+..+...+...|++++|...+++....... .+    ..++
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            344555677899999999999998876422222    24566677888899999999999987653111 11    2345


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHc----CCC--c-cHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCC----ccHHH
Q 039029          119 NILINGYCRCGNAKKAFSLHDEMIHK----GIQ--P-TMLTYTSLIFVLSKQNRMIEADQLFENFLAKGML----PDIVM  187 (319)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~  187 (319)
                      ..+...+...|++++|...+++....    +.+  | ....+..+...+...|++++|...+++.......    ....+
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            67788899999999999999988764    211  2 2456677888899999999999999988764221    12456


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCCh-hhHH-----HHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcc
Q 039029          188 FNALIDGHCTNGNIERAFSLLKEMDRMKVHPDE-VTYN-----TLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPT  261 (319)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~-----~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  261 (319)
                      +..+...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...+++.....  +...  ...
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~--~~~~--~~~  252 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPE--FANN--HFL  252 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCC--CTTC--GGG
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCC--CCcc--hhh
Confidence            778888999999999999999988654212221 1222     23344779999999999999876532  2110  011


Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhC----CCCCCh-HHHHHHHHHhhhcchhhhhc
Q 039029          262 RLTYNALIQGLCKNQEGDLAEELLREMVSK----GITPDD-NTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~g~~~~A~  317 (319)
                      ...+..+...+...|++++|...+++....    |..++. ..+..+..++...|+.++|.
T Consensus       253 ~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  313 (373)
T 1hz4_A          253 QGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQ  313 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHH
Confidence            235677888999999999999999988653    222222 35666777888999998875

>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=99.56  E-value=3.1e-13  Score=116.72  Aligned_cols=166  Identities=14%  Similarity=0.076  Sum_probs=140.1

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      +..+|+.+...+.+.|++++|++.|++..+.... +..+|..+..++.+.|++++|+..|++.++.. +-+...|..+..
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            3677888999999999999999999998886433 67788899999999999999999999988875 336778888999


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIE  168 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (319)
                      ++...|++++|++.|++..+..+. +...|..+..++...|++++|++.|++..+.. +.+...+..+..++...|++++
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            999999999999999998887554 77888999999999999999999999988874 4567888888999999999988


Q ss_pred             HHHHHHHHhh
Q 039029          169 ADQLFENFLA  178 (319)
Q Consensus       169 a~~~~~~~~~  178 (319)
                      |.+.++++.+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8888877654

>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=1.3e-12  Score=94.05  Aligned_cols=162  Identities=13%  Similarity=0.026  Sum_probs=76.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHh
Q 039029           48 YNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCR  127 (319)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (319)
                      +..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+..+. +...+..+...+..
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~   88 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPD-NVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHH
Confidence            3334444444444444444444444332 123344444444444444555555444444443221 34444444555555


Q ss_pred             cCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHH
Q 039029          128 CGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSL  207 (319)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  207 (319)
                      .|++++|.+.++++.... +.+...+..+..++...|++++|...++++.+... .+...+..+...+...|++++|...
T Consensus        89 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~  166 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP-NEGKVHRAIAFSYEQMGRHEEALPH  166 (186)
T ss_dssp             HTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCHHHHHHH
Confidence            555555555555554442 23444455555555555555555555555544422 2344555555555555555555555


Q ss_pred             HHHHHh
Q 039029          208 LKEMDR  213 (319)
Q Consensus       208 ~~~~~~  213 (319)
                      ++++.+
T Consensus       167 ~~~~~~  172 (186)
T 3as5_A          167 FKKANE  172 (186)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555443

>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=99.53  E-value=7.3e-12  Score=93.54  Aligned_cols=199  Identities=13%  Similarity=0.025  Sum_probs=157.1

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHH
Q 039029           43 PTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILI  122 (319)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (319)
                      .++..+......+...|++++|+..|+..++...+++...+..+..++...|++++|...+++..+..+. +...+..+.
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            3567888899999999999999999999998865467788888999999999999999999999987654 778899999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCccH-------HHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCcc---HHHHHHHH
Q 039029          123 NGYCRCGNAKKAFSLHDEMIHKGIQPTM-------LTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPD---IVMFNALI  192 (319)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  192 (319)
                      .++...|++++|...+++..+.. +.+.       ..+..+...+...|++++|...|+++.+.  .|+   ...+..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            99999999999999999999874 4445       45778888889999999999999999886  344   46677777


Q ss_pred             HHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCC
Q 039029          193 DGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDH  255 (319)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  255 (319)
                      .+|...     +..+++++...+ ..+...+....  ....+.+++|...+++..+.  .|+.
T Consensus       161 ~~~~~~-----~~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~  213 (228)
T 4i17_A          161 VLFYNN-----GADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNR  213 (228)
T ss_dssp             HHHHHH-----HHHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHH-----HHHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCC
Confidence            777543     444556665543 23344443333  33457799999999999885  4544

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.51  E-value=4.7e-12  Score=102.13  Aligned_cols=231  Identities=12%  Similarity=-0.042  Sum_probs=175.9

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCC-C----CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcC-----CC-cChhhHH
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLV-P----TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQG-----IM-PTASTYN   84 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~-~~~~~~~   84 (319)
                      ....+...|++++|+..|++..+.... +    ...++..+...+...|+++.|...+++..+..     .. ....+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            445567899999999999998764211 1    24578889999999999999999999887641     11 1245778


Q ss_pred             HHHHHHHHcCchhHHHHHHHHHhhC----CCC-CChHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCccHHHHHH
Q 039029           85 LLIHELLMERKMVEADDMLKEMGEK----GIV-PDSITYNILINGYCRCGNAKKAFSLHDEMIHK----GIQPTMLTYTS  155 (319)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~  155 (319)
                      .+..++...|++++|.+.+++..+.    +.. ....++..+..+|...|++++|...+++....    +.+....++..
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  266 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHH
Confidence            8899999999999999999987653    111 12457788899999999999999999998872    23344678889


Q ss_pred             HHHHHhhhccHHHHHHHHHHHhhCC----CCccHHHHHHHHHHHhcCCc---HHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 039029          156 LIFVLSKQNRMIEADQLFENFLAKG----MLPDIVMFNALIDGHCTNGN---IERAFSLLKEMDRMKVHPDEVTYNTLMH  228 (319)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (319)
                      +..++.+.|++++|...+++..+..    .+.....+..+...|...++   ..+|...+++...  .+.....+..+..
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~--~~~~~~~~~~la~  344 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNL--HAYIEACARSAAA  344 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCC--hhHHHHHHHHHHH
Confidence            9999999999999999999887642    22224456667777888888   7777777776321  1122346677889


Q ss_pred             HHHcCCcHHHHHHHHHHHHH
Q 039029          229 GRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       229 ~~~~~g~~~~a~~~~~~~~~  248 (319)
                      .|...|++++|...|+++.+
T Consensus       345 ~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          345 VFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999875

>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=99.50  E-value=8.3e-13  Score=101.82  Aligned_cols=228  Identities=18%  Similarity=0.056  Sum_probs=159.3

Q ss_pred             hccCChHHHHHHHHHHHhC-------CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc------C-CCcChhhHHHH
Q 039029           21 CKEGRLEEASRMLEQMKEN-------GLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ------G-IMPTASTYNLL   86 (319)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l   86 (319)
                      ...|++++|+..|++..+.       ..+....++..+...+...|++++|+..++++.+.      + .+....++..+
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            4567777777777776552       22335668889999999999999999999998765      2 13345678889


Q ss_pred             HHHHHHcCchhHHHHHHHHHhhC------C-CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc------C-CCccHHH
Q 039029           87 IHELLMERKMVEADDMLKEMGEK------G-IVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK------G-IQPTMLT  152 (319)
Q Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~  152 (319)
                      ..++...|++++|...+++..+.      . .+....++..+...+...|++++|...+++..+.      + .+....+
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            99999999999999999988764      1 1234677888999999999999999999998875      1 1223567


Q ss_pred             HHHHHHHHhhhccHHHHHHHHHHHhhC-------CCCc-cHHHHHHHHHHHhcCCc------HHHHHHHHHHHHhCCCCC
Q 039029          153 YTSLIFVLSKQNRMIEADQLFENFLAK-------GMLP-DIVMFNALIDGHCTNGN------IERAFSLLKEMDRMKVHP  218 (319)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~-~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~~  218 (319)
                      +..+..++...|++++|...++++.+.       ...+ ....+..+...+...+.      +..+...+...... .+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVD-SPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCC-CHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCC-CHH
Confidence            888999999999999999999988763       1111 12233333333333222      23333333322211 122


Q ss_pred             ChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          219 DEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       219 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      ...++..+...|...|++++|..+++++++.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3457888999999999999999999998763

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.50  E-value=2.9e-12  Score=105.62  Aligned_cols=169  Identities=15%  Similarity=0.084  Sum_probs=97.4

Q ss_pred             HHHHHHHHHHhcC---ChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh----ccHHHHHHHHHHHhhCCCCccHHHHH
Q 039029          117 TYNILINGYCRCG---NAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ----NRMIEADQLFENFLAKGMLPDIVMFN  189 (319)
Q Consensus       117 ~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~  189 (319)
                      .+..|...|...|   +.++|+..|++..+.| +++...+..+...|...    +++++|...|++.. .+   +...+.
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   6666777776666665 34444445555555443    56667777776665 22   334444


Q ss_pred             HHHHH-H--hcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCC-----cHHHHHHHHHHHHHcCCCCCCcccCcc
Q 039029          190 ALIDG-H--CTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQG-----KVEEARRLLDQMKRRGIKPDHISFNPT  261 (319)
Q Consensus       190 ~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~~~~  261 (319)
                      .+... +  ...+++++|...|++..+.|   +...+..+...|. .|     ++++|..+|++.. .|          +
T Consensus       253 ~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g----------~  317 (452)
T 3e4b_A          253 SLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR----------E  317 (452)
T ss_dssp             HHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT----------C
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC----------C
Confidence            45444 3  34667777777777766654   4555566666665 33     6777777776655 22          1


Q ss_pred             hhhHHHHHHHHHh----cCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhh
Q 039029          262 RLTYNALIQGLCK----NQEGDLAEELLREMVSKGITPDDNTYFSLIEGIA  308 (319)
Q Consensus       262 ~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  308 (319)
                      ...+..+...|..    ..++++|...|++..+.|.   ......|...|.
T Consensus       318 ~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~  365 (452)
T 3e4b_A          318 VAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFS  365 (452)
T ss_dssp             HHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHH
Confidence            1455556655554    3367777777777776552   233344444443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.50  E-value=1.6e-11  Score=101.28  Aligned_cols=255  Identities=14%  Similarity=0.017  Sum_probs=181.4

Q ss_pred             CcccHHHHHHHHhccC-----ChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhc-------------------------
Q 039029            9 DSYTYGSFVSGMCKEG-----RLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNK-------------------------   58 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------------------------   58 (319)
                      ++..+..+...+...+     ++++|+..|++..+.|..   ..+..+...|...                         
T Consensus        68 ~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~  144 (452)
T 3e4b_A           68 SPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAG  144 (452)
T ss_dssp             ---CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHH
T ss_pred             CHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHH
Confidence            5566666777555544     778888888888776532   2344444444433                         


Q ss_pred             ----------CCh----HHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC---chhHHHHHHHHHhhCCCCCChHHHHHH
Q 039029           59 ----------GNL----EMAFSFRDEMVKQGIMPTASTYNLLIHELLMER---KMVEADDMLKEMGEKGIVPDSITYNIL  121 (319)
Q Consensus        59 ----------~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (319)
                                +.+    +.+..+++...    ..+...+..+...|...|   +.++|.+.|++..+.|.. +...+..+
T Consensus       145 ~~Lg~~y~~~~~~~~~~~~a~~~~~~a~----~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~L  219 (452)
T 3e4b_A          145 LAQVLLYRTQGTYDQHLDDVERICKAAL----NTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSV  219 (452)
T ss_dssp             HHHHHHHHHHTCGGGGHHHHHHHHHHHT----TTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHH
T ss_pred             HHHHHHHHcCCCcccCHHHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHH
Confidence                      222    22222222222    223447788888888899   999999999999998754 66666677


Q ss_pred             HHHHHhc----CChHHHHHHHHHHHHcCCCccHHHHHHHHHH-H--hhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 039029          122 INGYCRC----GNAKKAFSLHDEMIHKGIQPTMLTYTSLIFV-L--SKQNRMIEADQLFENFLAKGMLPDIVMFNALIDG  194 (319)
Q Consensus       122 ~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  194 (319)
                      ...|...    +++++|+..|++.. .|   +...+..+... +  ...+++++|...|++..+.|   +...+..+...
T Consensus       220 g~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~  292 (452)
T 3e4b_A          220 ARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKL  292 (452)
T ss_dssp             HHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHH
Confidence            7777655    79999999999987 43   45666666666 4  56899999999999999876   56677777777


Q ss_pred             HhcCC-----cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----CCcHHHHHHHHHHHHHcCCCCCCcccCcchhhH
Q 039029          195 HCTNG-----NIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCR----QGKVEEARRLLDQMKRRGIKPDHISFNPTRLTY  265 (319)
Q Consensus       195 ~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (319)
                      |. .|     ++++|...|++.. .   -+...+..+...|..    ..++++|..+|++..+.|..          ...
T Consensus       293 y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~----------~A~  357 (452)
T 3e4b_A          293 YY-EGKWVPADAKAAEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQN----------SAD  357 (452)
T ss_dssp             HH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCT----------THH
T ss_pred             HH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChH----------HHH
Confidence            76 45     9999999999887 3   366777788887776    44899999999999886632          456


Q ss_pred             HHHHHHHHh----cCchhHHHHHHHHHHhCCC
Q 039029          266 NALIQGLCK----NQEGDLAEELLREMVSKGI  293 (319)
Q Consensus       266 ~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  293 (319)
                      ..+...|..    ..+.++|...++...+.|.
T Consensus       358 ~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~  389 (452)
T 3e4b_A          358 FAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT  389 (452)
T ss_dssp             HHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC
Confidence            677777764    4688999999999988763

>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=99.50  E-value=8.5e-13  Score=101.75  Aligned_cols=232  Identities=16%  Similarity=0.071  Sum_probs=159.1

Q ss_pred             HhcCChHHHHHHHHHHHHc-------CCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhC------C-CCCChHHHHHH
Q 039029           56 CNKGNLEMAFSFRDEMVKQ-------GIMPTASTYNLLIHELLMERKMVEADDMLKEMGEK------G-IVPDSITYNIL  121 (319)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l  121 (319)
                      ...|++++|+..+++.++.       ..+....++..+..++...|++++|...+++..+.      + .+....++..+
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            3456666666666666542       22335677888999999999999999999988754      1 12246678889


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHc------C-CCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC------CCCc-cHHH
Q 039029          122 INGYCRCGNAKKAFSLHDEMIHK------G-IQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK------GMLP-DIVM  187 (319)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~  187 (319)
                      ...+...|++++|...+++....      . .+....++..+...+...|++++|...++++.+.      ...| ...+
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            99999999999999999998765      1 1334577888899999999999999999988765      1122 3567


Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHhC-------CCCCC-hhhHHHHHHHHHcCCcHHHHHHHHHHHHHc--CCCCCCcc
Q 039029          188 FNALIDGHCTNGNIERAFSLLKEMDRM-------KVHPD-EVTYNTLMHGRCRQGKVEEARRLLDQMKRR--GIKPDHIS  257 (319)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~  257 (319)
                      +..+...|...|++++|...++++.+.       ...+. ...+..+...+...+....+.. +..+...  ...++.  
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~--  248 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAP-YGEYGSWYKACKVDS--  248 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC-------------CCCCCC--
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHH-HHHHHHHHHhcCCCC--
Confidence            888999999999999999999988653       11222 2334444444443333222222 1111111  011111  


Q ss_pred             cCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          258 FNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       258 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                       +....++..+...|...|++++|...+++.++.
T Consensus       249 -~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          249 -PTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             -HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             -HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             123467888999999999999999999988753

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.46  E-value=3.1e-11  Score=92.06  Aligned_cols=213  Identities=13%  Similarity=-0.006  Sum_probs=142.3

Q ss_pred             cChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCC---hHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CccHHH
Q 039029           78 PTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPD---SITYNILINGYCRCGNAKKAFSLHDEMIHKGI--QPTMLT  152 (319)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~  152 (319)
                      .+...+..+...+.+.|++++|...|+++.+..+. +   ...+..+..++...|++++|...|++..+...  +.....
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            35566667777788888888888888888776433 3   56777778888888888888888888877631  122455


Q ss_pred             HHHHHHHHhh--------hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHH
Q 039029          153 YTSLIFVLSK--------QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYN  224 (319)
Q Consensus       153 ~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  224 (319)
                      +..+..++..        .|++++|...|+++++..+. +......+..              +..+...    -...+.
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~--------------~~~~~~~----~~~~~~  152 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQK--------------IRELRAK----LARKQY  152 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHH--------------HHHHHHH----HHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHH--------------HHHHHHH----HHHHHH
Confidence            6666777777        78888888888877765322 1111111111              1111000    011246


Q ss_pred             HHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhc----------CchhHHHHHHHHHHhCCCC
Q 039029          225 TLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKN----------QEGDLAEELLREMVSKGIT  294 (319)
Q Consensus       225 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~  294 (319)
                      .+...|...|++++|...|+++++..  |+..   .....+..+..+|...          |++++|...++++++.  .
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~--p~~~---~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~  225 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAY--PDTP---WADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--F  225 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--TTST---THHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--C
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHC--CCCc---hHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--C
Confidence            67888999999999999999998854  3321   1235677888888866          8999999999999986  3


Q ss_pred             CCh----HHHHHHHHHhhhcchhhhhc
Q 039029          295 PDD----NTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       295 ~~~----~~~~~l~~~~~~~g~~~~A~  317 (319)
                      |+.    .....+...+.+.++++++.
T Consensus       226 p~~~~~~~a~~~l~~~~~~~~~~~~~~  252 (261)
T 3qky_A          226 PDSPLLRTAEELYTRARQRLTELEGDA  252 (261)
T ss_dssp             TTCTHHHHHHHHHHHHHHHHHHHHTCT
T ss_pred             CCChHHHHHHHHHHHHHHHHHHhhhhh
Confidence            544    34445555667777777654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.40  E-value=9.7e-11  Score=89.33  Aligned_cols=100  Identities=9%  Similarity=-0.005  Sum_probs=70.9

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCC---HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--cChhhHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPT---AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM--PTASTYN   84 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~   84 (319)
                      ...+-.+...+.+.|++++|+..|+.+.+..+. +   ...+..+..++...|++++|+..|+..++..+.  .....+.
T Consensus        15 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           15 PQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            445556677777888888888888888775422 2   556777778888888888888888888776321  1234566


Q ss_pred             HHHHHHHH--------cCchhHHHHHHHHHhhCC
Q 039029           85 LLIHELLM--------ERKMVEADDMLKEMGEKG  110 (319)
Q Consensus        85 ~l~~~~~~--------~~~~~~a~~~~~~~~~~~  110 (319)
                      .+..++..        .|++++|...|+++.+..
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~  127 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY  127 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHC
Confidence            66777777        788888888888877654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.38  E-value=1.7e-10  Score=84.73  Aligned_cols=131  Identities=11%  Similarity=-0.035  Sum_probs=82.1

Q ss_pred             HHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhcc
Q 039029           86 LIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNR  165 (319)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (319)
                      +..++...|++++|...|++..+..+. +...+..+..++...|++++|...|++..+.. |.+..++..+..++...|.
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhH
Confidence            667777777777777777777776544 66777777777777788888888887777764 4456677777766655543


Q ss_pred             --HHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhh
Q 039029          166 --MIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVT  222 (319)
Q Consensus       166 --~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  222 (319)
                        ...+...+.....  ..|....+.....++...|++++|...|++..+.  .|+...
T Consensus       138 ~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~  192 (208)
T 3urz_A          138 QEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEA  192 (208)
T ss_dssp             HHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHH
T ss_pred             HHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHH
Confidence              2334444444332  2222233334455556667777888888777764  455443

>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=99.38  E-value=4.5e-11  Score=103.59  Aligned_cols=174  Identities=7%  Similarity=-0.094  Sum_probs=132.3

Q ss_pred             hccCChHHHHHHHHHHH--------hCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHH
Q 039029           21 CKEGRLEEASRMLEQMK--------ENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLM   92 (319)
Q Consensus        21 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (319)
                      ...|++++|++.+++..        +.. +.+...+..+..++...|++++|+..++++.+.+ +.+...+..+..++..
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            67788888888888887        332 3356678888888888888888888888888764 3366778888888888


Q ss_pred             cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHH
Q 039029           93 ERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQL  172 (319)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (319)
                      .|++++|...|++..+..+. +...+..+..++.+.|++++ .+.|++..+.+ +.+...+..+..++.+.|++++|...
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            88888888888888876544 67788888888888888888 88888888774 45677888888888888888888888


Q ss_pred             HHHHhhCCCCccHHHHHHHHHHHhcCCc
Q 039029          173 FENFLAKGMLPDIVMFNALIDGHCTNGN  200 (319)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (319)
                      |+++.+.... +...+..+..++...++
T Consensus       557 ~~~al~l~P~-~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTSRH-FTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTSTT-HHHHHHHHHHHTC----
T ss_pred             HHhhcccCcc-cHHHHHHHHHHHHccCC
Confidence            8887776432 35666667777655444

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.38  E-value=4.5e-11  Score=92.74  Aligned_cols=207  Identities=14%  Similarity=0.017  Sum_probs=150.7

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCc-ChhhHHHHHHHHHHcCchhHH
Q 039029           25 RLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ----GIMP-TASTYNLLIHELLMERKMVEA   99 (319)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a   99 (319)
                      ++++|...|++.               ...|...|++++|...|.+....    +.++ ...+|+.+..+|...|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            467777777665               45677889999999999888764    2222 256788899999999999999


Q ss_pred             HHHHHHHhhCCCC---C--ChHHHHHHHHHHHhc-CChHHHHHHHHHHHHcCC---Cc--cHHHHHHHHHHHhhhccHHH
Q 039029          100 DDMLKEMGEKGIV---P--DSITYNILINGYCRC-GNAKKAFSLHDEMIHKGI---QP--TMLTYTSLIFVLSKQNRMIE  168 (319)
Q Consensus       100 ~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~  168 (319)
                      +..+++..+....   +  ...++..+..+|... |++++|+..|++..+...   .+  ...++..+...+.+.|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            9999887653211   1  145788889999996 999999999999876421   01  13568888999999999999


Q ss_pred             HHHHHHHHhhCCCCccH------HHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChh------hHHHHHHHHH--cCC
Q 039029          169 ADQLFENFLAKGMLPDI------VMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEV------TYNTLMHGRC--RQG  234 (319)
Q Consensus       169 a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~--~~g  234 (319)
                      |...|++..+.......      ..+..+..++...|++++|...+++..+..  |+..      .+..++.++.  ..+
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~l~~l~~~~~~~~~~  254 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED--PNFADSRESNFLKSLIDAVNEGDSE  254 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCCCcHHHHHHHHHHHHHHcCCHH
Confidence            99999999886433221      256778888999999999999999987643  3311      2344556664  456


Q ss_pred             cHHHHHHHHHHHHH
Q 039029          235 KVEEARRLLDQMKR  248 (319)
Q Consensus       235 ~~~~a~~~~~~~~~  248 (319)
                      ++++|...|+.+..
T Consensus       255 ~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          255 QLSEHCKEFDNFMR  268 (292)
T ss_dssp             THHHHHHHHTTSSC
T ss_pred             HHHHHHHHhccCCc
Confidence            78888888876543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.37  E-value=3.9e-10  Score=86.22  Aligned_cols=250  Identities=13%  Similarity=0.089  Sum_probs=170.9

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      |+...-.|++..++.-.   .+...........-+.+++...|++...         ....|....+..+...+ ..+  
T Consensus        20 ikn~fy~G~yq~~i~e~---~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~--   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEI---EKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK--   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHH---HTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT--
T ss_pred             HHHHHHhhHHHHHHHHH---HhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc--
Confidence            44455679999888733   3222222223344456778888876632         11233333444443333 322  


Q ss_pred             hHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CccHHHHHHHHHHHhhhccHHHHHHHHHH
Q 039029           97 VEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGI-QPTMLTYTSLIFVLSKQNRMIEADQLFEN  175 (319)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (319)
                        +...+++..+.+ .++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.+++
T Consensus        85 --a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~  161 (310)
T 3mv2_B           85 --NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDN  161 (310)
T ss_dssp             --CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             --HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence              778888887765 34666667889999999999999999999877652 24677888999999999999999999999


Q ss_pred             HhhCCCCc-----cHHHHHHHHHHHh--c--CCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHH
Q 039029          176 FLAKGMLP-----DIVMFNALIDGHC--T--NGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQM  246 (319)
Q Consensus       176 ~~~~~~~~-----~~~~~~~l~~~~~--~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  246 (319)
                      |.+.  .|     +..+...+..++.  .  .++..+|..+|+++.+.  .|+..+...++.++.+.|++++|.+.++.+
T Consensus       162 ~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l  237 (310)
T 3mv2_B          162 YTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELL  237 (310)
T ss_dssp             HHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9876  44     3555566665533  2  34899999999998764  355333444555889999999999999977


Q ss_pred             HHcC-----C---CCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChH
Q 039029          247 KRRG-----I---KPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDN  298 (319)
Q Consensus       247 ~~~~-----~---~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  298 (319)
                      .+..     .   .|+      +..++..++......|+  +|.++++++.+.  .|+..
T Consensus       238 ~~~~p~~~~k~~~~p~------~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~hp  287 (310)
T 3mv2_B          238 LSDYYSVEQKENAVLY------KPTFLANQITLALMQGL--DTEDLTNQLVKL--DHEHA  287 (310)
T ss_dssp             HSHHHHTTTCHHHHSS------HHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--TCCCH
T ss_pred             HHhcccccccccCCCC------CHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--CCCCh
Confidence            6531     0   133      33677666666667786  889999999985  56554

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.36  E-value=2.6e-09  Score=82.43  Aligned_cols=223  Identities=14%  Similarity=0.052  Sum_probs=178.6

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC--ChHHHHHHHHHHHHcCCCcChhhHHHHHHHH----HHc-
Q 039029           21 CKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKG--NLEMAFSFRDEMVKQGIMPTASTYNLLIHEL----LME-   93 (319)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~-   93 (319)
                      .+....++|+.+++.+...++. ...+|+.--.++...+  ++++++++++.++..+++ +..+|+.-...+    ... 
T Consensus        44 ~~~e~s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~  121 (306)
T 3dra_A           44 KAEEYSERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNN  121 (306)
T ss_dssp             HTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTT
T ss_pred             HcCCCCHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhcc
Confidence            3444557999999999987544 6677888888888888  999999999999988643 556666555544    455 


Q ss_pred             --CchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChH--HHHHHHHHHHHcCCCccHHHHHHHHHHHhhhcc----
Q 039029           94 --RKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAK--KAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNR----  165 (319)
Q Consensus        94 --~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----  165 (319)
                        +++++++.+++.+.+..++ +..+|+.-.-++.+.|.++  ++++.++++.+.+ +-|...|+.-...+...+.    
T Consensus       122 ~~~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~  199 (306)
T 3dra_A          122 NDFDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATD  199 (306)
T ss_dssp             TCCCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCH
T ss_pred             ccCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchh
Confidence              7899999999999988766 8889998888888899988  9999999999986 4577888877777777776    


Q ss_pred             --HHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcH-HHHHHHHHHHHhCC--CCCChhhHHHHHHHHHcCCcHHHHH
Q 039029          166 --MIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNI-ERAFSLLKEMDRMK--VHPDEVTYNTLMHGRCRQGKVEEAR  240 (319)
Q Consensus       166 --~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~  240 (319)
                        ++++++.+++++...+. |...|+.+...+.+.|+. +.+..+..++.+.+  -..+...+..++..|.+.|+.++|.
T Consensus       200 ~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~  278 (306)
T 3dra_A          200 NTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESR  278 (306)
T ss_dssp             HHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHH
Confidence              88999999999887655 788898888888787774 44556777665432  1346778889999999999999999


Q ss_pred             HHHHHHHH
Q 039029          241 RLLDQMKR  248 (319)
Q Consensus       241 ~~~~~~~~  248 (319)
                      ++++.+.+
T Consensus       279 ~~~~~l~~  286 (306)
T 3dra_A          279 TVYDLLKS  286 (306)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99999986

>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=99.36  E-value=2e-10  Score=77.77  Aligned_cols=130  Identities=15%  Similarity=0.159  Sum_probs=78.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHh
Q 039029          117 TYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHC  196 (319)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  196 (319)
                      .|..+...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|...++++..... .+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCC-CchHHHHHHHHHHH
Confidence            34455556666666666666666665543 33455555566666666666666666666655432 24555666666666


Q ss_pred             cCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          197 TNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      ..|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            6677777777766665543 234555666666677777777777777766653

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.35  E-value=1.2e-10  Score=85.56  Aligned_cols=173  Identities=13%  Similarity=0.058  Sum_probs=131.6

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHH----------------HHHHHHhcCChHHHHHHHHHHHHcC
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNT----------------LIDGYCNKGNLEMAFSFRDEMVKQG   75 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~~   75 (319)
                      .+-.....+.+.|++++|+..|++..+..+. +...|..                +..++...|++++|+..|++.++..
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   84 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIALNID-RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA   84 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            3445566788999999999999999885422 4556666                8899999999999999999999885


Q ss_pred             CCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCC--hHHHHHHHHHHHHcCCCccHHHH
Q 039029           76 IMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGN--AKKAFSLHDEMIHKGIQPTMLTY  153 (319)
Q Consensus        76 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~  153 (319)
                       +-+...+..+..++...|++++|...|++..+..+. +...+..+..+|...|+  .+.+...+.....  ..|....+
T Consensus        85 -p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~  160 (208)
T 3urz_A           85 -PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYAR  160 (208)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHH
Confidence             337888999999999999999999999999987654 78889888888876654  3445555555532  23333445


Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHH
Q 039029          154 TSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNAL  191 (319)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  191 (319)
                      .....++...|++++|...|++.++.  .|+......+
T Consensus       161 ~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l  196 (208)
T 3urz_A          161 YRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence            55566777889999999999999886  4565544433

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.35  E-value=5.7e-11  Score=92.16  Aligned_cols=203  Identities=12%  Similarity=-0.005  Sum_probs=150.7

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhC----CCCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC---c--Ch
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKEN----GLVP-TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM---P--TA   80 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~   80 (319)
                      ..|......+...|++++|++.|.+....    +.++ ...+|+.+..+|...|++++|+..+++.++....   +  ..
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            35777788899999999999999987653    2221 2568999999999999999999999998764211   1  14


Q ss_pred             hhHHHHHHHHHHc-CchhHHHHHHHHHhhCCCCC-C----hHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH----
Q 039029           81 STYNLLIHELLME-RKMVEADDMLKEMGEKGIVP-D----SITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTM----  150 (319)
Q Consensus        81 ~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----  150 (319)
                      .++..+...|... |++++|+..|++..+..... +    ..++..+...+...|++++|+..|++..........    
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            5788888999996 99999999999987642111 1    356888999999999999999999999986422211    


Q ss_pred             --HHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCc-c---HHHHHHHHHHHh--cCCcHHHHHHHHHHHHh
Q 039029          151 --LTYTSLIFVLSKQNRMIEADQLFENFLAKGMLP-D---IVMFNALIDGHC--TNGNIERAFSLLKEMDR  213 (319)
Q Consensus       151 --~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~---~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~  213 (319)
                        ..+..+..++...|++++|...+++.....+.. +   ...+..++.++.  ..+++++|...|+.+..
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              256778888999999999999999988753211 1   123445566664  45678888888877654

>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=99.34  E-value=2.4e-10  Score=77.37  Aligned_cols=21  Identities=19%  Similarity=0.322  Sum_probs=8.2

Q ss_pred             HHHHHhccCChHHHHHHHHHH
Q 039029           16 FVSGMCKEGRLEEASRMLEQM   36 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~   36 (319)
                      +...+...|++++|+.+++++
T Consensus         7 l~~~~~~~~~~~~A~~~~~~~   27 (136)
T 2fo7_A            7 LGNAYYKQGDYDEAIEYYQKA   27 (136)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCcHHHHHHHHHHH
Confidence            333333333444444433333

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.33  E-value=7.3e-10  Score=84.76  Aligned_cols=183  Identities=13%  Similarity=0.042  Sum_probs=137.8

Q ss_pred             HHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCC-CCChHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 039029           64 AFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGI-VPDSITYNILINGYCRCGNAKKAFSLHDEMI  142 (319)
Q Consensus        64 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (319)
                      ++..+++....+ .++...+..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.+++|.
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            778888877665 45566667888999999999999999999877654 2367788889999999999999999999998


Q ss_pred             HcCCCc-----cHHHHHHHHHHH--hhhc--cHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHh
Q 039029          143 HKGIQP-----TMLTYTSLIFVL--SKQN--RMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDR  213 (319)
Q Consensus       143 ~~~~~~-----~~~~~~~l~~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (319)
                      +.  .|     +..+...++.++  ...|  +..+|..+|+++...  .|+..+-..++.++.+.|++++|...++.+.+
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            76  45     355666666553  3334  899999999998765  34433334445588999999999999997755


Q ss_pred             CC---------CCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCC
Q 039029          214 MK---------VHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDH  255 (319)
Q Consensus       214 ~~---------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  255 (319)
                      ..         -+.+..+...++......|+  +|.+++.++.+.  .|+.
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            31         13356666566666666777  889999999884  5665

>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=99.33  E-value=1.1e-09  Score=80.69  Aligned_cols=176  Identities=15%  Similarity=0.047  Sum_probs=112.8

Q ss_pred             HHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhc----cHHHHHHHH
Q 039029           98 EADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQN----RMIEADQLF  173 (319)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~  173 (319)
                      +|.+.|++..+.|   ++..+..+...|...+++++|+..|++..+.|   +...+..+...|.. +    ++++|...|
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            3555666666553   55666666666767777777777777776654   44556666666665 5    677777777


Q ss_pred             HHHhhCCCCccHHHHHHHHHHHhc----CCcHHHHHHHHHHHHhCCCC-CChhhHHHHHHHHHc----CCcHHHHHHHHH
Q 039029          174 ENFLAKGMLPDIVMFNALIDGHCT----NGNIERAFSLLKEMDRMKVH-PDEVTYNTLMHGRCR----QGKVEEARRLLD  244 (319)
Q Consensus       174 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~g~~~~a~~~~~  244 (319)
                      ++..+.+   +...+..|...|..    .+++++|...|++..+.+.. .....+..|...|..    .+++++|..+|+
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   45556666666665    66777777777777665411 015566667777766    667788888887


Q ss_pred             HHHHcCCCCCCcccCcchhhHHHHHHHHHhc-C-----chhHHHHHHHHHHhCC
Q 039029          245 QMKRRGIKPDHISFNPTRLTYNALIQGLCKN-Q-----EGDLAEELLREMVSKG  292 (319)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~~~~~~  292 (319)
                      +..+.+  .+       ...+..|...|... |     ++++|...|++..+.|
T Consensus       154 ~A~~~~--~~-------~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          154 GSSSLS--RT-------GYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHTS--CT-------THHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHcC--CC-------HHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            777641  11       14556666666543 2     6778888887777765

>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=99.32  E-value=5.6e-11  Score=102.96  Aligned_cols=173  Identities=10%  Similarity=-0.054  Sum_probs=146.1

Q ss_pred             HhcCChHHHHHHHHHHH--------HcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHh
Q 039029           56 CNKGNLEMAFSFRDEMV--------KQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCR  127 (319)
Q Consensus        56 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (319)
                      ...|++++|++.+++..        +.. +.+...+..+..++...|++++|...|++..+..+. +...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHH
Confidence            67899999999999998        443 346678888999999999999999999999987554 78899999999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHH
Q 039029          128 CGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSL  207 (319)
Q Consensus       128 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  207 (319)
                      .|++++|...|++..+.. +.+...+..+..++.+.|++++ ...|+++.+.... +...+..+..++...|++++|...
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999999875 4567889999999999999999 9999999987544 678899999999999999999999


Q ss_pred             HHHHHhCCCCCC-hhhHHHHHHHHHcCCc
Q 039029          208 LKEMDRMKVHPD-EVTYNTLMHGRCRQGK  235 (319)
Q Consensus       208 ~~~~~~~~~~~~-~~~~~~l~~~~~~~g~  235 (319)
                      |+++.+.+  |+ ...+..+..++...++
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            99988753  44 5677777777766554

>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=99.31  E-value=3e-11  Score=83.73  Aligned_cols=145  Identities=8%  Similarity=-0.040  Sum_probs=86.6

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCc
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERK   95 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (319)
                      |...+...|++++|+..++...... +-+...+..+...|.+.|++++|++.|++.++.. +-+..+|..+..++...|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCc
Confidence            3444556667777777776665432 1133445566667777777777777777776664 2256666777777777777


Q ss_pred             hhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHH-HHHHHHcCCCccHHHHHHHHHHHhhhc
Q 039029           96 MVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSL-HDEMIHKGIQPTMLTYTSLIFVLSKQN  164 (319)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (319)
                      +++|...|++..+..+. +...+..+...+.+.|+++++.+. +++..+.. |.++.+|......+...|
T Consensus        81 ~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             hHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            77777777777665433 566666677777777776654443 45665553 334555555555554444

>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=99.31  E-value=1.1e-09  Score=80.63  Aligned_cols=176  Identities=13%  Similarity=0.010  Sum_probs=122.2

Q ss_pred             HHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcC----ChHHHHHHH
Q 039029           63 MAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCG----NAKKAFSLH  138 (319)
Q Consensus        63 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~  138 (319)
                      +|++.|++..+.|   +...+..+...+...+++++|.++|++..+.+   ++..+..|...|.. +    ++++|...|
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            3555666666553   55566666667777777777777777776654   55666666666666 5    778888888


Q ss_pred             HHHHHcCCCccHHHHHHHHHHHhh----hccHHHHHHHHHHHhhCCCC-ccHHHHHHHHHHHhc----CCcHHHHHHHHH
Q 039029          139 DEMIHKGIQPTMLTYTSLIFVLSK----QNRMIEADQLFENFLAKGML-PDIVMFNALIDGHCT----NGNIERAFSLLK  209 (319)
Q Consensus       139 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~  209 (319)
                      ++..+.+   +...+..+...|..    .+++++|..+|++..+.+.. .....+..|...|..    .+++++|...|+
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            8776654   55666677777766    67888888888887776532 125667777777777    778888888888


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHcC-C-----cHHHHHHHHHHHHHcC
Q 039029          210 EMDRMKVHPDEVTYNTLMHGRCRQ-G-----KVEEARRLLDQMKRRG  250 (319)
Q Consensus       210 ~~~~~~~~~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~~  250 (319)
                      +..+.  ..+...+..|...|... |     ++++|..+|++..+.|
T Consensus       154 ~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          154 GSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            88775  23455667777777643 2     7888998888888776

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.29  E-value=1.5e-09  Score=80.69  Aligned_cols=187  Identities=10%  Similarity=-0.023  Sum_probs=122.8

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCC--CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcCh--hhHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVP--TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTA--STYNL   85 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~   85 (319)
                      ...+..+...+.+.|++++|+..|+++.+..+..  ....+..+..++.+.|++++|+..|+++++..+....  ..+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            3455667778889999999999999988754321  1357788889999999999999999999887432111  23444


Q ss_pred             HHHHHHH------------------cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 039029           86 LIHELLM------------------ERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQ  147 (319)
Q Consensus        86 l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  147 (319)
                      +..++..                  .|++++|...|+++.+..+. +...+......          ..+...+      
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~-~~~a~~a~~~l----------~~~~~~~------  146 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN-SQYTTDATKRL----------VFLKDRL------  146 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTT-CTTHHHHHHHH----------HHHHHHH------
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcC-ChhHHHHHHHH----------HHHHHHH------
Confidence            4455543                  45677777777777665322 22222211110          0000000      


Q ss_pred             ccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCcc--HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC
Q 039029          148 PTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPD--IVMFNALIDGHCTNGNIERAFSLLKEMDRMK  215 (319)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (319)
                        ......+...+.+.|++++|...|+++++..+...  ...+..+..+|.+.|+.++|...++.+...+
T Consensus       147 --~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 --AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             --HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             --HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence              01123456778889999999999998887643211  3567788889999999999999999887764

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.29  E-value=7.3e-09  Score=79.96  Aligned_cols=231  Identities=9%  Similarity=0.031  Sum_probs=179.9

Q ss_pred             cCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC--chhHHHHHHHHHhhCCCCCChHHHHHHHHHH----Hhc---
Q 039029           58 KGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMER--KMVEADDMLKEMGEKGIVPDSITYNILINGY----CRC---  128 (319)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---  128 (319)
                      ....++|+++++.++..++ -+..+|+.--.++...+  +++++++.++.+....++ +..+|+.-...+    ...   
T Consensus        46 ~e~s~~aL~~t~~~L~~nP-~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~  123 (306)
T 3dra_A           46 EEYSERALHITELGINELA-SHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNND  123 (306)
T ss_dssp             TCCSHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCCCHHHHHHHHHHHHHCc-HHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhcccc
Confidence            3445789999999998853 36677888878888888  999999999999988766 777777665555    555   


Q ss_pred             CChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHH--HHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCc------
Q 039029          129 GNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMI--EADQLFENFLAKGMLPDIVMFNALIDGHCTNGN------  200 (319)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------  200 (319)
                      +++++++.+++++.+.. +-+..+|+.-..++.+.|.++  ++++.++++++..+. +...|+.-.......+.      
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhh
Confidence            78999999999999985 568888888888888888888  999999999988665 77888877666667776      


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHH-HHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchh
Q 039029          201 IERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVE-EARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGD  279 (319)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~-~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  279 (319)
                      ++++++.++++.... +-|...|+.+...+.+.|+.. .+..+..++.+.+ ..    .+.+...+..++..|.+.|+.+
T Consensus       202 ~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~-~~----~~~s~~al~~la~~~~~~~~~~  275 (306)
T 3dra_A          202 IDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLE-KD----QVTSSFALETLAKIYTQQKKYN  275 (306)
T ss_dssp             HHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGG-GT----EESCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhcc-CC----CCCCHHHHHHHHHHHHccCCHH
Confidence            889999999988765 457888988888888888744 4555666665433 00    1234578899999999999999


Q ss_pred             HHHHHHHHHHhCCCCCChHH
Q 039029          280 LAEELLREMVSKGITPDDNT  299 (319)
Q Consensus       280 ~A~~~~~~~~~~~~~~~~~~  299 (319)
                      +|.++++.+.+. +.|-..-
T Consensus       276 ~A~~~~~~l~~~-~Dpir~~  294 (306)
T 3dra_A          276 ESRTVYDLLKSK-YNPIRSN  294 (306)
T ss_dssp             HHHHHHHHHHHT-TCGGGHH
T ss_pred             HHHHHHHHHHhc-cChHHHH
Confidence            999999999863 3454333

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.28  E-value=3.7e-10  Score=87.29  Aligned_cols=169  Identities=14%  Similarity=-0.002  Sum_probs=135.8

Q ss_pred             CCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHH-HH
Q 039029          112 VPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMF-NA  190 (319)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~  190 (319)
                      +.+...+..+...+...|++++|...|++..... +.+...+..+..++...|++++|...++++....  |+.... ..
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            3466777888889999999999999999999875 5578889999999999999999999999887764  343322 22


Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHH
Q 039029          191 LIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQ  270 (319)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  270 (319)
                      ....+...++.+.|...+++..... +.+...+..+...+...|++++|...|.++++..  |+.    .+...+..++.
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~--p~~----~~~~a~~~l~~  263 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXD--LTA----ADGQTRXTFQE  263 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTG----GGGHHHHHHHH
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc--ccc----ccchHHHHHHH
Confidence            3334566677788888999887764 4567788999999999999999999999999864  332    12368899999


Q ss_pred             HHHhcCchhHHHHHHHHHHh
Q 039029          271 GLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       271 ~~~~~g~~~~A~~~~~~~~~  290 (319)
                      .+...|+.++|...+++.+.
T Consensus       264 ~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          264 ILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHcCCCCcHHHHHHHHHH
Confidence            99999999999999887654

>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=99.27  E-value=5.9e-11  Score=82.24  Aligned_cols=142  Identities=9%  Similarity=-0.110  Sum_probs=77.5

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHH
Q 039029           54 GYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKK  133 (319)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  133 (319)
                      .+...|++++|+..++...... +-+...+..+..+|.+.|++++|.+.|++..+..+. +..+|..+..++...|++++
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            3344555666666666555431 112334455566666666666666666666655433 55666666666666666666


Q ss_pred             HHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHH-HHHHhhCCCCccHHHHHHHHHHHhcCC
Q 039029          134 AFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQL-FENFLAKGMLPDIVMFNALIDGHCTNG  199 (319)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (319)
                      |+..|++..+.. +.+...+..+..++.+.|+.+++.+. +++..+..+. ++.+|......+...|
T Consensus        84 A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           84 AVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhC
Confidence            666666666653 33455666666666666665544433 3555554322 3444544444444433

>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=99.26  E-value=1.6e-10  Score=82.46  Aligned_cols=162  Identities=12%  Similarity=0.039  Sum_probs=87.6

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH-H
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE-L   90 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~   90 (319)
                      .+..+...+.+.|++++|+..|++..+..+ .+...+..+..++...|++++|+..++......  |+...+..+... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQ-SRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHH-TSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHH
Confidence            344555666667777777777766555322 245566666667777777777777776665542  233222221111 1


Q ss_pred             HHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc-cHHHHHHHHHHHhhhccHHHH
Q 039029           91 LMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQP-TMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      ...+....+...+++..+..+. +...+..+..++...|++++|...|+++.+....+ +...+..+..++...|+.++|
T Consensus        85 ~~~~~~~~a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HhhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            1222233355556655554332 45556666666666666666666666665543211 233555556666666666666


Q ss_pred             HHHHHHHh
Q 039029          170 DQLFENFL  177 (319)
Q Consensus       170 ~~~~~~~~  177 (319)
                      ...|++.+
T Consensus       164 ~~~y~~al  171 (176)
T 2r5s_A          164 ASKYRRQL  171 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66655443

>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=3.1e-10  Score=87.69  Aligned_cols=167  Identities=11%  Similarity=0.010  Sum_probs=132.5

Q ss_pred             CCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHH-HH
Q 039029           42 VPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITY-NI  120 (319)
Q Consensus        42 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~  120 (319)
                      +.+...+..+...+...|++++|...|++..+.. +-+...+..+...+...|++++|...++++....+  +.... ..
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p--~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQ--DTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGC--SHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhc--chHHHHHH
Confidence            3456677788888899999999999999998875 33677888889999999999999999998877643  43332 23


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHhcCC
Q 039029          121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLP-DIVMFNALIDGHCTNG  199 (319)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~  199 (319)
                      ....+...++.+.|...+++..... +.+...+..+..++...|++++|...|.++.+..... +...+..++..+...|
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            3344667788888899999888875 5678889999999999999999999999998875432 2677888999999999


Q ss_pred             cHHHHHHHHHHHH
Q 039029          200 NIERAFSLLKEMD  212 (319)
Q Consensus       200 ~~~~a~~~~~~~~  212 (319)
                      +.+++...+++..
T Consensus       270 ~~~~a~~~~r~al  282 (287)
T 3qou_A          270 TGDALASXYRRQL  282 (287)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            9888888887754

>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=99.26  E-value=1.6e-10  Score=82.51  Aligned_cols=162  Identities=11%  Similarity=0.008  Sum_probs=89.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHH-Hhc
Q 039029          119 NILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDG-HCT  197 (319)
Q Consensus       119 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~  197 (319)
                      ..+...+...|++++|...+++..+.. |.+...+..+..++...|++++|...++++.....  +...+..+... +..
T Consensus        10 ~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A           10 LKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHHHHh
Confidence            344455555666666666665555442 33445555555666666666666666665544422  22222211111 111


Q ss_pred             CCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCc
Q 039029          198 NGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQE  277 (319)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  277 (319)
                      .+....+...+++..+.. +.+...+..+...+...|++++|...|+++++....+.      +...+..+...+...|+
T Consensus        87 ~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~------~~~a~~~l~~~~~~~g~  159 (176)
T 2r5s_A           87 QAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQ------DGEVKKTFMDILSALGQ  159 (176)
T ss_dssp             HHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTT------TTHHHHHHHHHHHHHCS
T ss_pred             hcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccC------hHHHHHHHHHHHHHhCC
Confidence            111223566666665543 23456667777777777777777777777766432211      12466677777777777


Q ss_pred             hhHHHHHHHHHHh
Q 039029          278 GDLAEELLREMVS  290 (319)
Q Consensus       278 ~~~A~~~~~~~~~  290 (319)
                      .++|...|++.+.
T Consensus       160 ~~~A~~~y~~al~  172 (176)
T 2r5s_A          160 GNAIASKYRRQLY  172 (176)
T ss_dssp             SCHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHH
Confidence            7777777776553

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.24  E-value=2.6e-09  Score=79.45  Aligned_cols=186  Identities=10%  Similarity=0.012  Sum_probs=122.6

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-c-ChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCCh--HHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM-P-TASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDS--ITYN  119 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  119 (319)
                      +...+..+...+...|++++|+..|+++++..+. + ....+..+..++.+.|++++|...|+++.+..+....  ..+.
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            3455666777888899999999999998876322 1 1356777888899999999999999998876443111  2444


Q ss_pred             HHHHHHHh------------------cCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCC
Q 039029          120 ILINGYCR------------------CGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGM  181 (319)
Q Consensus       120 ~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (319)
                      .+..++..                  .|++++|...|+++.+.. |-+...........    ..      ...+     
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l~----~~------~~~~-----  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRLV----FL------KDRL-----  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHHH----HH------HHHH-----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHHH----HH------HHHH-----
Confidence            44445443                  345666666666665542 21222221111100    00      0000     


Q ss_pred             CccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCC----hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          182 LPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPD----EVTYNTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                         ......+...|.+.|++++|...|+++.+..  |+    ...+..+..++.+.|++++|.+.++.+...+
T Consensus       147 ---~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 ---AKYEYSVAEYYTERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ---HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ---HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence               0112346678889999999999999998753  33    2468889999999999999999999988864

>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=99.24  E-value=3.1e-10  Score=88.68  Aligned_cols=232  Identities=9%  Similarity=0.021  Sum_probs=144.3

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHH
Q 039029           22 KEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADD  101 (319)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  101 (319)
                      ..|++++|.+++++..+.... .      +   +...++++.|...|...               ...|...|++++|..
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~-~------~---~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKT-S------F---MKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCC-C------S---SSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccc-c------c---cCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            357788899988877653211 1      0   11146677777766654               345666777777777


Q ss_pred             HHHHHhhCC----CC-CChHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCc-cHHHHHHHHHHHhhhccHHHHHH
Q 039029          102 MLKEMGEKG----IV-PDSITYNILINGYCRCGNAKKAFSLHDEMIHK----GIQP-TMLTYTSLIFVLSKQNRMIEADQ  171 (319)
Q Consensus       102 ~~~~~~~~~----~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~  171 (319)
                      .|.+..+..    .. .-..+|+.+...|...|++++|+..|++....    |-+. ...++..+..+|.. |++++|+.
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            777665421    10 01346777778888888888888888876653    2111 13567777777877 88888888


Q ss_pred             HHHHHhhCCCC---c--cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC----CCCC-hhhHHHHHHHHHcCCcHHHHHH
Q 039029          172 LFENFLAKGML---P--DIVMFNALIDGHCTNGNIERAFSLLKEMDRMK----VHPD-EVTYNTLMHGRCRQGKVEEARR  241 (319)
Q Consensus       172 ~~~~~~~~~~~---~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~-~~~~~~l~~~~~~~g~~~~a~~  241 (319)
                      .|++.......   +  ...++..+...|...|++++|...|++..+..    ..+. ...+..++..+...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            88877653111   1  14567778888888899999998888876531    1111 2255666677778899999999


Q ss_pred             HHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHH
Q 039029          242 LLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEEL  284 (319)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  284 (319)
                      .|++.. .  .|+... .........++.++ ..|+.+.+.++
T Consensus       217 ~~~~al-~--~p~~~~-~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          217 CVRESY-S--IPGFSG-SEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHT-T--STTSTT-SHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHh-C--CCCCCC-CHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            998887 3  333210 01112344455554 56676655553

>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=99.24  E-value=6.9e-10  Score=94.43  Aligned_cols=155  Identities=10%  Similarity=-0.037  Sum_probs=105.8

Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHH
Q 039029           23 EGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDM  102 (319)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  102 (319)
                      .|++++|++.|++..+... .+...+..+...+...|++++|.+.+++..+.. +.+...+..+..++...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRP-QDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4678888888888776532 256778888888888888888888888888764 33567777888888888888888888


Q ss_pred             HHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh---ccHHHHHHHHHHHhhC
Q 039029          103 LKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ---NRMIEADQLFENFLAK  179 (319)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~  179 (319)
                      +++..+.... +...+..+..++...|++++|.+.+++..+.. +.+...+..+..++...   |+.++|.+.+++..+.
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            8888776543 67778888888888888888888888887764 44667777788888888   8888888888887776


Q ss_pred             CC
Q 039029          180 GM  181 (319)
Q Consensus       180 ~~  181 (319)
                      +.
T Consensus       158 ~p  159 (568)
T 2vsy_A          158 GV  159 (568)
T ss_dssp             TC
T ss_pred             CC
Confidence            43

>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=99.24  E-value=6.2e-10  Score=94.70  Aligned_cols=152  Identities=7%  Similarity=-0.130  Sum_probs=69.5

Q ss_pred             CChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHH
Q 039029           59 GNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLH  138 (319)
Q Consensus        59 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  138 (319)
                      |++++|++.+++..+.. +.+...+..+...+...|++++|.+.+++..+.... +...+..+..++...|++++|.+.+
T Consensus         3 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            44555555555554432 123445555555555555555555555555554322 4455555555555555555555555


Q ss_pred             HHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC---CcHHHHHHHHHHHHhC
Q 039029          139 DEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTN---GNIERAFSLLKEMDRM  214 (319)
Q Consensus       139 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~  214 (319)
                      ++..+.. +.+...+..+..++...|++++|.+.+++..+.... +...+..+...+...   |+.++|.+.+++..+.
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            5555543 334445555555555555555555555555544322 344455555555555   5555555555555443

>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=99.17  E-value=1.7e-08  Score=86.59  Aligned_cols=236  Identities=8%  Similarity=-0.035  Sum_probs=173.8

Q ss_pred             HHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHH-HHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHH
Q 039029           62 EMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEAD-DMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDE  140 (319)
Q Consensus        62 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  140 (319)
                      +.+..+|++++... +-....|...+..+...|+.++|. .+|++..... +.+...|...+...-+.|++++|.++|+.
T Consensus       326 ~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek  403 (679)
T 4e6h_A          326 ARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILS  403 (679)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            34556777777653 446778888888888899999997 9999998753 34666778888889999999999999999


Q ss_pred             HHHcC---------CCc------------cHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC-
Q 039029          141 MIHKG---------IQP------------TMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTN-  198 (319)
Q Consensus       141 ~~~~~---------~~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  198 (319)
                      +....         ..|            ...+|...+....+.|+.+.|..+|..+.+....+....|...+..-.+. 
T Consensus       404 ~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~  483 (679)
T 4e6h_A          404 CIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHIS  483 (679)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhC
Confidence            88641         013            13467777777788899999999999998761112234444333333344 


Q ss_pred             CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCch
Q 039029          199 GNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEG  278 (319)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  278 (319)
                      ++.+.|..+|+...+. .+.+...|...+......|+.+.|..+|++++.....+..     ....|...+.--.+.|+.
T Consensus       484 ~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~-----~~~lw~~~~~fE~~~G~~  557 (679)
T 4e6h_A          484 KDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHL-----LKMIFQKVIFFESKVGSL  557 (679)
T ss_dssp             SCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTH-----HHHHHHHHHHHHHHTCCS
T ss_pred             CCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHH-----HHHHHHHHHHHHHHcCCH
Confidence            4589999999998775 3446667778888888899999999999999876432211     236788888888899999


Q ss_pred             hHHHHHHHHHHhCCCCCChHHHHHHHHHh
Q 039029          279 DLAEELLREMVSKGITPDDNTYFSLIEGI  307 (319)
Q Consensus       279 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  307 (319)
                      +.+..+.+++.+.  .|+......+..-|
T Consensus       558 ~~~~~v~~R~~~~--~P~~~~~~~f~~ry  584 (679)
T 4e6h_A          558 NSVRTLEKRFFEK--FPEVNKLEEFTNKY  584 (679)
T ss_dssp             HHHHHHHHHHHHH--STTCCHHHHHHHHT
T ss_pred             HHHHHHHHHHHHh--CCCCcHHHHHHHHh
Confidence            9999999999986  45555555555444

>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=99.16  E-value=7.9e-08  Score=75.08  Aligned_cols=229  Identities=11%  Similarity=0.034  Sum_probs=171.8

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc-
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKG-NLEMAFSFRDEMVKQGIMPTASTYNLLIHELLME-   93 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-   93 (319)
                      +-....+.+..++|+++++.+...+.. +..+|+.--.++...+ .+++++++++.++....+ +..+|+.-..++... 
T Consensus        60 ~r~~~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~  137 (349)
T 3q7a_A           60 FRAIAAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRIS  137 (349)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhc
Confidence            333445556678999999999987644 6677888888888888 599999999999988644 777888777777776 


Q ss_pred             C-chhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChH--------HHHHHHHHHHHcCCCccHHHHHHHHHHHhhhc
Q 039029           94 R-KMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAK--------KAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQN  164 (319)
Q Consensus        94 ~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (319)
                      + ++++++++++++.+..++ +..+|+.-.-++.+.|.++        ++++.++++.+.. +-|...|+.....+.+.+
T Consensus       138 ~~~~~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~  215 (349)
T 3q7a_A          138 PQDPVSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRP  215 (349)
T ss_dssp             CSCCHHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTST
T ss_pred             CCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcc
Confidence            6 889999999999988765 8888887766666666666        8999999999986 457888888888887777


Q ss_pred             c-------HHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcH--------------------HHHHHHHHHHHhCC--
Q 039029          165 R-------MIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNI--------------------ERAFSLLKEMDRMK--  215 (319)
Q Consensus       165 ~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~~~~--  215 (319)
                      .       ++++++.+.+++...+. |...|+-+-..+.+.|..                    .........+...+  
T Consensus       216 ~~~~~~~~~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  294 (349)
T 3q7a_A          216 GAETSSRSLQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLP  294 (349)
T ss_dssp             TCCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCC
T ss_pred             ccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccc
Confidence            5       68888999888887554 777887766666655543                    33333333333321  


Q ss_pred             ---CCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          216 ---VHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       216 ---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                         -.++...+..++..|...|+.++|.++++.+.+.
T Consensus       295 ~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          295 EDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             SSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             cccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence               1356778888999999999999999999998754

>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=99.13  E-value=1.3e-08  Score=79.54  Aligned_cols=199  Identities=13%  Similarity=0.021  Sum_probs=139.7

Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCC----C-cChhhHHHHHHHHHHcCchh
Q 039029           23 EGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGI----M-PTASTYNLLIHELLMERKMV   97 (319)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~-~~~~~~~~l~~~~~~~~~~~   97 (319)
                      .++++.|...|.+.               ...|...|++++|...|.+......    . .-..+|+.+..+|...|+++
T Consensus        29 ~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~   93 (307)
T 2ifu_A           29 KPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMP   93 (307)
T ss_dssp             SCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGG
T ss_pred             CCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHH
Confidence            45666666666654               4567788999999999888765421    1 11457788888899999999


Q ss_pred             HHHHHHHHHhhC----CCC-CChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---Cc--cHHHHHHHHHHHhhhccHH
Q 039029           98 EADDMLKEMGEK----GIV-PDSITYNILINGYCRCGNAKKAFSLHDEMIHKGI---QP--TMLTYTSLIFVLSKQNRMI  167 (319)
Q Consensus        98 ~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~  167 (319)
                      +|...|++..+.    |-. ....++..+..+|.. |++++|+..|++......   .+  ...++..+..++.+.|+++
T Consensus        94 ~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~  172 (307)
T 2ifu_A           94 EAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFD  172 (307)
T ss_dssp             GGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHH
Confidence            999999887543    211 124577788888888 999999999998876411   11  1467888889999999999


Q ss_pred             HHHHHHHHHhhC----CCCcc-HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCCh------hhHHHHHHHHHcCCcH
Q 039029          168 EADQLFENFLAK----GMLPD-IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDE------VTYNTLMHGRCRQGKV  236 (319)
Q Consensus       168 ~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~  236 (319)
                      +|...|++....    +..+. ...+..+..++...|++++|...|++.. ..  |+.      .....++.++ ..|+.
T Consensus       173 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~--p~~~~~~e~~~l~~l~~~~-~~~d~  248 (307)
T 2ifu_A          173 EAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SI--PGFSGSEDCAALEDLLQAY-DEQDE  248 (307)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TS--TTSTTSHHHHHHHHHHHHH-HTTCH
T ss_pred             HHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CC--CCCCCCHHHHHHHHHHHHH-HhcCH
Confidence            999999988764    21111 2356667778888899999999999987 42  321      1234445555 56776


Q ss_pred             HHHHH
Q 039029          237 EEARR  241 (319)
Q Consensus       237 ~~a~~  241 (319)
                      +.+..
T Consensus       249 ~~~~~  253 (307)
T 2ifu_A          249 EQLLR  253 (307)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65555

>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=2.3e-08  Score=77.53  Aligned_cols=169  Identities=11%  Similarity=0.043  Sum_probs=123.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCC-CccH----HHHHHHHHHHhhhccHHHHHHHHHHHhhCCCC-cc----HHHHH
Q 039029          120 ILINGYCRCGNAKKAFSLHDEMIHKGI-QPTM----LTYTSLIFVLSKQNRMIEADQLFENFLAKGML-PD----IVMFN  189 (319)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~  189 (319)
                      ..+..+...|++++|..++++...... .|+.    ..+..+...+...+++++|...++++...... ++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346778889999999999999887421 2221    13334666777888999999999998874222 22    34688


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHh----C-CCCCC-hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchh
Q 039029          190 ALIDGHCTNGNIERAFSLLKEMDR----M-KVHPD-EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRL  263 (319)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  263 (319)
                      .+...|...|++++|...++++.+    . +..+. ..++..+...|...|++++|...+++.++.....+.  ...-..
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~--~~~~~~  237 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINS--MALIGQ  237 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTB--CTTHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCc--HHHHHH
Confidence            899999999999999999998863    1 11122 337788999999999999999999998764221111  111236


Q ss_pred             hHHHHHHHHHhcCc-hhHHHHHHHHHHh
Q 039029          264 TYNALIQGLCKNQE-GDLAEELLREMVS  290 (319)
Q Consensus       264 ~~~~l~~~~~~~g~-~~~A~~~~~~~~~  290 (319)
                      +|..+..++.+.|+ +++|.+.+++...
T Consensus       238 ~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          238 LYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            78899999999995 6999999998865

>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=99.10  E-value=3.4e-07  Score=71.53  Aligned_cols=244  Identities=9%  Similarity=0.031  Sum_probs=175.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC-chhHHHHHHHHHhhCCCCCChHHHHHHHHHHHh
Q 039029           49 NTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMER-KMVEADDMLKEMGEKGIVPDSITYNILINGYCR  127 (319)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (319)
                      +.+..........++|+++++.++..+.. +..+|+.--..+...+ .+++++.+++.+....++ +..+|+.-..++.+
T Consensus        58 ~~~r~~~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~  135 (349)
T 3q7a_A           58 DYFRAIAAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDR  135 (349)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHH
Confidence            33333444455668899999999988633 6677887777777788 599999999999998776 88889888777777


Q ss_pred             c-C-ChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHH--------HHHHHHHHHhhCCCCccHHHHHHHHHHHhc
Q 039029          128 C-G-NAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMI--------EADQLFENFLAKGMLPDIVMFNALIDGHCT  197 (319)
Q Consensus       128 ~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (319)
                      . + ++++++++++++.+.. +-+..+|+.-..++.+.|.++        ++++.++++++..+. +...|+.......+
T Consensus       136 l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~  213 (349)
T 3q7a_A          136 ISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVS  213 (349)
T ss_dssp             HCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTT
T ss_pred             hcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHh
Confidence            6 7 8999999999999875 557788877777777777776        899999999987655 78888888777777


Q ss_pred             CCc-------HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcH--------------------HHHHHHHHHHHHcC
Q 039029          198 NGN-------IERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKV--------------------EEARRLLDQMKRRG  250 (319)
Q Consensus       198 ~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--------------------~~a~~~~~~~~~~~  250 (319)
                      .+.       ++++++.++++.... +-|...|+.+-..+.+.|+.                    .........+....
T Consensus       214 l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  292 (349)
T 3q7a_A          214 RPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDP  292 (349)
T ss_dssp             STTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-C
T ss_pred             ccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcc
Confidence            775       688888988887764 45677787776666666553                    22222222222211


Q ss_pred             CCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHH
Q 039029          251 IKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTY  300 (319)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  300 (319)
                       .+. ....++...+..++..|...|+.++|.++++.+.+. ..|-..-|
T Consensus       293 -~~~-~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~-~dpir~~y  339 (349)
T 3q7a_A          293 -LPE-DTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE-YDQMRAGY  339 (349)
T ss_dssp             -CCS-SCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCGGGHHH
T ss_pred             -ccc-ccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh-hChHHHHH
Confidence             000 011356678899999999999999999999998754 44544333

>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=99.09  E-value=1.9e-08  Score=73.91  Aligned_cols=129  Identities=12%  Similarity=-0.129  Sum_probs=99.8

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHH
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELL   91 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (319)
                      .+..+...+...|++++|+..|++..    .|+..++..+..++...|++++|+..+++..+.. +.+...+..+..++.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            34556777788888999988887763    4577788888888888889999988888888764 346677888888888


Q ss_pred             HcCchhHHHHHHHHHhhCCCCC---------------ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 039029           92 MERKMVEADDMLKEMGEKGIVP---------------DSITYNILINGYCRCGNAKKAFSLHDEMIHKG  145 (319)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~---------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (319)
                      ..|++++|...|++..+.....               ....+..+..++...|++++|...+++..+..
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            8888888888888887753321               12677778888888888888888888887753

>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=99.08  E-value=1.2e-07  Score=73.48  Aligned_cols=164  Identities=7%  Similarity=-0.031  Sum_probs=123.9

Q ss_pred             HHHHHHHHcCchhHHHHHHHHHhhCCCC-CCh----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-cc----HHHHH
Q 039029           85 LLIHELLMERKMVEADDMLKEMGEKGIV-PDS----ITYNILINGYCRCGNAKKAFSLHDEMIHKGIQ-PT----MLTYT  154 (319)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~  154 (319)
                      ..+..+...|++++|...+++..+.... |+.    ..+..+...+...|++++|+..+++....... ++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            3467788899999999999998875322 221    13334667777888999999999999884221 22    33688


Q ss_pred             HHHHHHhhhccHHHHHHHHHHHhhC-----CCCcc-HHHHHHHHHHHhcCCcHHHHHHHHHHHHhC----CCCCC-hhhH
Q 039029          155 SLIFVLSKQNRMIEADQLFENFLAK-----GMLPD-IVMFNALIDGHCTNGNIERAFSLLKEMDRM----KVHPD-EVTY  223 (319)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~  223 (319)
                      .+..+|...|++++|...++++.+.     +..+. ..++..+...|...|++++|...+++..+.    +..+. ..++
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            9999999999999999999988741     11222 347888999999999999999999987543    22222 5678


Q ss_pred             HHHHHHHHcCCc-HHHHHHHHHHHHH
Q 039029          224 NTLMHGRCRQGK-VEEARRLLDQMKR  248 (319)
Q Consensus       224 ~~l~~~~~~~g~-~~~a~~~~~~~~~  248 (319)
                      ..+..+|...|+ +++|.+.++++..
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            889999999994 6999999998765

>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=99.07  E-value=2.4e-08  Score=73.42  Aligned_cols=129  Identities=10%  Similarity=-0.028  Sum_probs=93.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYC  126 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (319)
                      .+..+...+...|++++|+..|++..    .|+...+..+..++...|++++|...+++..+..+. +...+..+..++.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHH
Confidence            34556667777888888888887663    456777888888888888888888888887776433 6677778888888


Q ss_pred             hcCChHHHHHHHHHHHHcCCC--------------c-cHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC
Q 039029          127 RCGNAKKAFSLHDEMIHKGIQ--------------P-TMLTYTSLIFVLSKQNRMIEADQLFENFLAKG  180 (319)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~--------------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (319)
                      ..|++++|...+++..+....              | ....+..+..++...|++++|...|+...+..
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            888888888888888774211              1 12566777777777777777777777777654

>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=3.1e-09  Score=81.83  Aligned_cols=195  Identities=9%  Similarity=-0.014  Sum_probs=117.5

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILIN  123 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (319)
                      +...+..+...+...|++++|+..|++.++.. +.+...+..+..++...|++++|...+++..+..+. +...+..+..
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            45566777777788888888888888877764 236677777888888888888888888888776543 6777788888


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHH
Q 039029          124 GYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIER  203 (319)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (319)
                      ++...|++++|...|++..+.+ +.+...+...+....+..   .... +..........+......+...  ..|+.++
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~i~~~l~~l--~~~~~~~  153 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA-KEQRLNFGDDIPSALRIA---KKKR-WNSIEERRIHQESELHSYLTRL--IAAERER  153 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH-HHTTCCCCSHHHHHHHHH---HHHH-HHHHHHTCCCCCCHHHHHHHHH--HHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHHH---HHHH-HHHHHHHHHhhhHHHHHHHHHH--HHHHHHH
Confidence            8888888888888888877642 111111111111111111   1111 1112222233344433333222  2578888


Q ss_pred             HHHHHHHHHhCCCCCCh-hhHHHHHHHHHcC-CcHHHHHHHHHHHHHc
Q 039029          204 AFSLLKEMDRMKVHPDE-VTYNTLMHGRCRQ-GKVEEARRLLDQMKRR  249 (319)
Q Consensus       204 a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~  249 (319)
                      |.+.++...+.  .|+. .....+...+.+. +.+++|.++|.++.+.
T Consensus       154 A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          154 ELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            88888877664  3443 3333333334443 5678888888877653

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.04  E-value=1.8e-08  Score=67.30  Aligned_cols=96  Identities=16%  Similarity=-0.000  Sum_probs=47.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYC  126 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (319)
                      .+......+.+.|++++|++.|++.++.. +.+...|..+..++...|++++|+..+++..+..+. +...|..+..++.
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            34444455555555555555555554443 224444445555555555555555555555444322 4444555555555


Q ss_pred             hcCChHHHHHHHHHHHHc
Q 039029          127 RCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~  144 (319)
                      ..|++++|.+.|++..+.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            555555555555555544

>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=99.04  E-value=4.1e-08  Score=68.87  Aligned_cols=127  Identities=13%  Similarity=-0.039  Sum_probs=69.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYC  126 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  126 (319)
                      .+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+..+. +...+..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHH
Confidence            44555555666666666666666665543 224555555666666666666666666666554322 4555666666666


Q ss_pred             hcCChHHHHHHHHHHHHcCCCccHHHHH--HHHHHHhhhccHHHHHHHHHHH
Q 039029          127 RCGNAKKAFSLHDEMIHKGIQPTMLTYT--SLIFVLSKQNRMIEADQLFENF  176 (319)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~  176 (319)
                      ..|++++|...+++..... +.+...+.  ..+..+...|++++|...+...
T Consensus        93 ~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            6666666666666665543 22333332  2222244555666665555543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.04  E-value=8.4e-08  Score=74.34  Aligned_cols=173  Identities=10%  Similarity=0.030  Sum_probs=124.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc-H----HHHHHHHHHHhhhccHHHHHHHHHHHhhCCC---Ccc--H
Q 039029          116 ITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPT-M----LTYTSLIFVLSKQNRMIEADQLFENFLAKGM---LPD--I  185 (319)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~  185 (319)
                      ..+...+..+...|++++|.+.+.+..+...... .    ..+..+...+...|++++|...+++......   .+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            3455567788889999999999988877532211 1    2234455667788899999999998875421   111  4


Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCCCC-----hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccC
Q 039029          186 VMFNALIDGHCTNGNIERAFSLLKEMDRM-KVHPD-----EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFN  259 (319)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  259 (319)
                      .+++.+...|...|++++|...++++.+. ...|+     ..++..+...|...|++++|...+++..+.....+.  ..
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~--~~  233 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINS--MA  233 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTB--CS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCc--HH
Confidence            57888999999999999999999987631 01122     257888999999999999999999998764311111  01


Q ss_pred             cchhhHHHHHHHHHhcCchhHH-HHHHHHHHh
Q 039029          260 PTRLTYNALIQGLCKNQEGDLA-EELLREMVS  290 (319)
Q Consensus       260 ~~~~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  290 (319)
                      ....+|..+...|.+.|++++| ...+++...
T Consensus       234 ~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             SHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            1236788999999999999999 777887654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.04  E-value=1.9e-08  Score=67.15  Aligned_cols=96  Identities=14%  Similarity=0.058  Sum_probs=47.7

Q ss_pred             hHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 039029           82 TYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLS  161 (319)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (319)
                      .+......+.+.|++++|++.|++..+..+. +...|..+..++.+.|++++|+..+++..+.+ +.+...+..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            3344444555555555555555555444322 44455555555555555555555555555443 233444555555555


Q ss_pred             hhccHHHHHHHHHHHhhC
Q 039029          162 KQNRMIEADQLFENFLAK  179 (319)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~  179 (319)
                      ..|++++|.+.|++.++.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            555555555555555443

>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=99.03  E-value=2.7e-09  Score=82.18  Aligned_cols=197  Identities=11%  Similarity=-0.036  Sum_probs=134.5

Q ss_pred             CCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHH
Q 039029            8 PDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLI   87 (319)
Q Consensus         8 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (319)
                      .+...+..+...+.+.|++++|+..|++...... .+...|..+..++...|++++|+..+++.++.. +.+...+..+.
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            3456788889999999999999999999988643 378889999999999999999999999999875 34678889999


Q ss_pred             HHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHH
Q 039029           88 HELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMI  167 (319)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (319)
                      .++...|++++|...|++..+..+. +...+...+....+.   .+... +........+.+......+...  ..|+.+
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~~l~~l--~~~~~~  152 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHSYLTRL--IAAERE  152 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHHHHHHH--HHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHHHHHHH--HHHHHH
Confidence            9999999999999999998764321 111111111111111   11111 1222233334444444444332  368999


Q ss_pred             HHHHHHHHHhhCCCCccHHHHHHHHHHHhcC-CcHHHHHHHHHHHHhC
Q 039029          168 EADQLFENFLAKGMLPDIVMFNALIDGHCTN-GNIERAFSLLKEMDRM  214 (319)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~  214 (319)
                      +|.+.++...+... .+......+...+.+. +.++++.++|..+.+.
T Consensus       153 ~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          153 RELEECQRNHEGHE-DDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHTTTSGGGTTTS-CHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHhhhcccc-chhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            99999988877632 2344444444445554 6688899999887653

>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=99.03  E-value=3e-08  Score=69.60  Aligned_cols=130  Identities=11%  Similarity=0.025  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 039029          116 ITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGH  195 (319)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (319)
                      ..+..+...+...|++++|...+++..... +.+..++..+..++...|++++|...+++..+... .+...+..+..++
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHH
Confidence            445566667777777777777777777653 44566777777777777777777777777776533 2566777777777


Q ss_pred             hcCCcHHHHHHHHHHHHhCCCCCChhhHHH--HHHHHHcCCcHHHHHHHHHHHHH
Q 039029          196 CTNGNIERAFSLLKEMDRMKVHPDEVTYNT--LMHGRCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~~a~~~~~~~~~  248 (319)
                      ...|++++|...++++.+.. +.+...+..  .+..+...|++++|...+.....
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            78888888888887776653 223334433  33336667788888887776543

>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=99.01  E-value=9e-08  Score=82.13  Aligned_cols=218  Identities=11%  Similarity=0.037  Sum_probs=120.8

Q ss_pred             HHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHH-HHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHH
Q 039029           28 EASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAF-SFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEM  106 (319)
Q Consensus        28 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  106 (319)
                      .+..+|+++... .+-....|...+..+...|+.+.|. ++|++.... .+.+...|..++....+.|+++.|.++|+.+
T Consensus       327 Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~  404 (679)
T 4e6h_A          327 RMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSC  404 (679)
T ss_dssp             HHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            445556665554 2335566666666666666666665 666666654 2334444555666666666666666666666


Q ss_pred             hhCCC---------CC------------ChHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCccHHHHHHHHHHHhhh-
Q 039029          107 GEKGI---------VP------------DSITYNILINGYCRCGNAKKAFSLHDEMIHK-GIQPTMLTYTSLIFVLSKQ-  163 (319)
Q Consensus       107 ~~~~~---------~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~-  163 (319)
                      .+...         .|            ....|...+....+.|+.+.|..+|....+. + ......|...+..-.+. 
T Consensus       405 l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~  483 (679)
T 4e6h_A          405 IDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHIS  483 (679)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhC
Confidence            54210         02            1234666666666666666777777666654 1 11222333222222222 


Q ss_pred             ccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHcCCcHHHHHH
Q 039029          164 NRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHP--DEVTYNTLMHGRCRQGKVEEARR  241 (319)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~  241 (319)
                      ++.+.|.++|+..++. .+-+...+...+......|+.+.|..+|++.......+  ....|...+..-.+.|+.+.+.+
T Consensus       484 ~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~  562 (679)
T 4e6h_A          484 KDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRT  562 (679)
T ss_dssp             SCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHH
T ss_pred             CCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            3466666776666655 22244555566665566666777777777666543211  23455666666666677767777


Q ss_pred             HHHHHHHc
Q 039029          242 LLDQMKRR  249 (319)
Q Consensus       242 ~~~~~~~~  249 (319)
                      +.+++.+.
T Consensus       563 v~~R~~~~  570 (679)
T 4e6h_A          563 LEKRFFEK  570 (679)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            76666654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.00  E-value=2.9e-09  Score=73.42  Aligned_cols=103  Identities=11%  Similarity=-0.035  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhh
Q 039029          185 IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLT  264 (319)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  264 (319)
                      ...+..+...+.+.|++++|...|+++.... +.+...|..+..+|...|++++|...|+++.+.  .|+..      ..
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l--~P~~~------~~  106 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFAL--GKNDY------TP  106 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SSSCC------HH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CCCCc------HH
Confidence            4566677777888888888888888887764 345677788888888888888888888888774  34432      67


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChH
Q 039029          265 YNALIQGLCKNQEGDLAEELLREMVSKGITPDDN  298 (319)
Q Consensus       265 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  298 (319)
                      |..+..+|...|++++|...|++.++.  .|+..
T Consensus       107 ~~~lg~~~~~lg~~~eA~~~~~~al~l--~~~~~  138 (151)
T 3gyz_A          107 VFHTGQCQLRLKAPLKAKECFELVIQH--SNDEK  138 (151)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCHH
Confidence            778888888888888888888888875  35543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.99  E-value=1.4e-08  Score=73.96  Aligned_cols=156  Identities=12%  Similarity=-0.017  Sum_probs=87.0

Q ss_pred             hccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CcChhhHHHHHHHHHHcCc
Q 039029           21 CKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ----GI-MPTASTYNLLIHELLMERK   95 (319)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~   95 (319)
                      ...|++++|.++++.+.. .......++..+...+...|++++|...+++....    +. +....++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            456788888885554443 22235567777777788888888888887777652    11 1223455666666777777


Q ss_pred             hhHHHHHHHHHhhC----CCCC--ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC---CCcc--HHHHHHHHHHHhhhc
Q 039029           96 MVEADDMLKEMGEK----GIVP--DSITYNILINGYCRCGNAKKAFSLHDEMIHKG---IQPT--MLTYTSLIFVLSKQN  164 (319)
Q Consensus        96 ~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~--~~~~~~l~~~~~~~~  164 (319)
                      +++|.+.+++..+.    +..+  ....+..+...+...|++++|...+++.....   -.+.  ..++..+..++...|
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            77777776665432    1111  23345556666666677777766666655320   0111  123345555555566


Q ss_pred             cHHHHHHHHHHHh
Q 039029          165 RMIEADQLFENFL  177 (319)
Q Consensus       165 ~~~~a~~~~~~~~  177 (319)
                      ++++|...+++..
T Consensus       162 ~~~~A~~~~~~al  174 (203)
T 3gw4_A          162 NLLEAQQHWLRAR  174 (203)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            6666655555443

>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=98.99  E-value=9.2e-09  Score=73.29  Aligned_cols=123  Identities=10%  Similarity=0.069  Sum_probs=91.3

Q ss_pred             HhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH-HHHcCch--
Q 039029           20 MCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE-LLMERKM--   96 (319)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--   96 (319)
                      +...|++++|+..++...+... .+...|..+...+...|++++|...|++..+.. +.+...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            3566788888888888776543 366788888888888889999988888888764 2356667777777 6678887  


Q ss_pred             hHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 039029           97 VEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKG  145 (319)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  145 (319)
                      ++|...+++..+..+. +...+..+...+...|++++|...++++....
T Consensus        98 ~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           98 AQTRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            8888888888876543 66777888888888888888888888887763

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.98  E-value=1.4e-08  Score=73.96  Aligned_cols=156  Identities=10%  Similarity=-0.040  Sum_probs=89.8

Q ss_pred             HcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CccHHHHHHHHHHHhhhccH
Q 039029           92 MERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK----GI-QPTMLTYTSLIFVLSKQNRM  166 (319)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~  166 (319)
                      ..|++++|.+.++.+... .......+..+...+...|++++|...+++....    +. +....++..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            345666666644333321 2224555666666666667777766666666542    11 11234566666666777777


Q ss_pred             HHHHHHHHHHhhC----CCCc--cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-CCC----hhhHHHHHHHHHcCCc
Q 039029          167 IEADQLFENFLAK----GMLP--DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKV-HPD----EVTYNTLMHGRCRQGK  235 (319)
Q Consensus       167 ~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~  235 (319)
                      ++|...+++....    +..+  ....+..+...+...|++++|...+++..+... ..+    ..++..+...+...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            7777776665543    1111  134456666777777777777777776643210 011    2235667777888888


Q ss_pred             HHHHHHHHHHHHH
Q 039029          236 VEEARRLLDQMKR  248 (319)
Q Consensus       236 ~~~a~~~~~~~~~  248 (319)
                      +++|...+++..+
T Consensus       163 ~~~A~~~~~~al~  175 (203)
T 3gw4_A          163 LLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            8888888877665

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.98  E-value=6.6e-08  Score=64.08  Aligned_cols=97  Identities=14%  Similarity=0.189  Sum_probs=47.9

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHH
Q 039029           46 VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGY  125 (319)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (319)
                      ..+..+...+...|++++|.+.++++.+.. +.+...+..+..++...|++++|...++++.+..+. +...+..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHH
Confidence            344444555555555555555555554432 123344444555555555555555555555443222 444455555555


Q ss_pred             HhcCChHHHHHHHHHHHHc
Q 039029          126 CRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~  144 (319)
                      ...|++++|...++++.+.
T Consensus        88 ~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHh
Confidence            5555555555555555444

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.97  E-value=2.7e-08  Score=66.90  Aligned_cols=96  Identities=11%  Similarity=0.081  Sum_probs=45.4

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHH
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHEL   90 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   90 (319)
                      ..|..+...+.+.|++++|+..|++..+... .+..++..+..++...|++++|+..+++..+.. +.+...+..+..++
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~   94 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHH
Confidence            3344455555555555555555555544321 134444445555555555555555555544432 12334444444444


Q ss_pred             HHcCchhHHHHHHHHHhh
Q 039029           91 LMERKMVEADDMLKEMGE  108 (319)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~  108 (319)
                      ...|++++|.+.+++..+
T Consensus        95 ~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHH
Confidence            444444444444444443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.97  E-value=1.7e-07  Score=72.57  Aligned_cols=170  Identities=10%  Similarity=0.004  Sum_probs=127.0

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC-----hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCC---CC-
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT-----ASTYNLLIHELLMERKMVEADDMLKEMGEKGIV---PD-  114 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~-  114 (319)
                      ....+...+..+...|++++|.+.+....+......     ...+..+...+...|++++|...+++..+....   +. 
T Consensus        74 ~~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  153 (293)
T 2qfc_A           74 RKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHH
Confidence            456777788888999999999999988877632211     123445666777888999999999988754221   11 


Q ss_pred             -hHHHHHHHHHHHhcCChHHHHHHHHHHHHc--CCCc----cHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC----CCc
Q 039029          115 -SITYNILINGYCRCGNAKKAFSLHDEMIHK--GIQP----TMLTYTSLIFVLSKQNRMIEADQLFENFLAKG----MLP  183 (319)
Q Consensus       115 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~  183 (319)
                       ..+++.+...|...|++++|...+++..+.  ..+.    ...++..+..+|...|++++|...+++..+..    ...
T Consensus       154 ~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~  233 (293)
T 2qfc_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHH
Confidence             458889999999999999999999988732  1111    12588888999999999999999999876541    111


Q ss_pred             -cHHHHHHHHHHHhcCCcHHHH-HHHHHHHHh
Q 039029          184 -DIVMFNALIDGHCTNGNIERA-FSLLKEMDR  213 (319)
Q Consensus       184 -~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~~  213 (319)
                       -..++..+..+|...|++++| ...+++...
T Consensus       234 ~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             SHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence             167788899999999999999 777777643

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.96  E-value=1.8e-08  Score=67.56  Aligned_cols=117  Identities=10%  Similarity=-0.057  Sum_probs=63.4

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHH
Q 039029           46 VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGY  125 (319)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (319)
                      ..+..+...+...|++++|...+++..... +.+...+..+..++...|++++|...+++..+..+. +...+..+...+
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~   90 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPA-YSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCcc-CHHHHHHHHHHH
Confidence            344555555555555555555555555442 224445555555555566666666666555554322 455555556666


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhcc
Q 039029          126 CRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNR  165 (319)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (319)
                      ...|++++|...+++..... +.+...+..+..++...|+
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            66666666666666655543 3344555555555555443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.96  E-value=2.6e-08  Score=75.22  Aligned_cols=129  Identities=11%  Similarity=-0.034  Sum_probs=71.4

Q ss_pred             HHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHc
Q 039029          155 SLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPD--EVTYNTLMHGRCR  232 (319)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~  232 (319)
                      .....+...|++++|.++|..+...+  |+......+...+.+.+++++|+..|+...... .|.  ...+..+..++..
T Consensus       107 ayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~  183 (282)
T 4f3v_A          107 GFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAAN  183 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHH
Confidence            34455566666666666666655433  222244444445666667777776666444321 111  2245556666667


Q ss_pred             CCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          233 QGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       233 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      .|++++|+..|++.......|..     ..........++.+.|+.++|..+|+++...
T Consensus       184 LG~~~eAl~~l~~a~~g~~~P~~-----~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          184 LALFTEAERRLTEANDSPAGEAC-----ARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             TTCHHHHHHHHHHHHTSTTTTTT-----HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCCccc-----cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            77777777777766532211321     1134455556666677777777777777664

>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=98.95  E-value=6.5e-08  Score=76.45  Aligned_cols=124  Identities=10%  Similarity=-0.051  Sum_probs=74.0

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC--------------hhhHHHHHHHHHHcCchhHHHHHHHHHhhC
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT--------------ASTYNLLIHELLMERKMVEADDMLKEMGEK  109 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (319)
                      +...+..+...+.+.|++++|+..|++.++......              ...|..+..++.+.|++++|+..+++..+.
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            345666777777777777777777777776532211              345555666666666666666666666555


Q ss_pred             CCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029          110 GIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus       110 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      .+. +...+..+..+|...|++++|...|++..+.. +.+...+..+..++...|+.+++
T Consensus       226 ~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          226 DSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             CTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            332 55555666666666666666666666665553 33455555555555555555555

>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=4.4e-08  Score=65.87  Aligned_cols=115  Identities=11%  Similarity=-0.034  Sum_probs=64.6

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILIN  123 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (319)
                      +...+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+.... +...+..+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHHHHHH
Confidence            34455666666666666666666666666543 224555556666666666666666666666554322 4555566666


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 039029          124 GYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLS  161 (319)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (319)
                      ++...|++++|...+++..+.. +.+...+..+..++.
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~  129 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMM  129 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHH
Confidence            6666666666666666665542 223334444444443

>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=98.95  E-value=4.9e-06  Score=64.75  Aligned_cols=222  Identities=10%  Similarity=0.047  Sum_probs=162.9

Q ss_pred             hccCChH-HHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCCcChhhHHHHHHH
Q 039029           21 CKEGRLE-EASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN----------LEMAFSFRDEMVKQGIMPTASTYNLLIHE   89 (319)
Q Consensus        21 ~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   89 (319)
                      .+.|.+. +|+.+++.+...++. +..+|+.--..+...+.          +++++.+++.+....++ +..+|+.-..+
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~wl  117 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWL  117 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            4556654 899999999987544 55667654444444333          67889999999887643 77888877777


Q ss_pred             HHHcCc--hhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCC-hHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh---
Q 039029           90 LLMERK--MVEADDMLKEMGEKGIVPDSITYNILINGYCRCGN-AKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ---  163 (319)
Q Consensus        90 ~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---  163 (319)
                      +...++  +++++.+++.+.+..+. |..+|+.-.-++...|. ++++++.++++.+.. +-|...|+.....+...   
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~~  195 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQ  195 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSCC
T ss_pred             HhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhhc
Confidence            777774  88999999999998766 88899888888888888 589999999999986 55777887776666555   


Q ss_pred             -----------ccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC-----------CcHHHHHHHHHHHHhCCCCCChh
Q 039029          164 -----------NRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTN-----------GNIERAFSLLKEMDRMKVHPDEV  221 (319)
Q Consensus       164 -----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~  221 (319)
                                 +.++++++.+...+...+. |...|+-+-..+.+.           +.++++.+.++++.+.  .|+. 
T Consensus       196 ~~~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~-  271 (331)
T 3dss_A          196 PDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPEN-  271 (331)
T ss_dssp             C------CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC-
T ss_pred             cccccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Cccc-
Confidence                       5688899999998887544 677777554444444           4578888999998875  4554 


Q ss_pred             hHHHHHHH-----HHcCCcHHHHHHHHHHHHHcC
Q 039029          222 TYNTLMHG-----RCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       222 ~~~~l~~~-----~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      .|+.+..+     ....|..+++..++.++++.+
T Consensus       272 ~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~D  305 (331)
T 3dss_A          272 KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  305 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHC
T ss_pred             chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhC
Confidence            34432222     224677888889999988743

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.94  E-value=8.2e-08  Score=63.62  Aligned_cols=95  Identities=16%  Similarity=0.115  Sum_probs=44.1

Q ss_pred             hHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 039029           82 TYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLS  161 (319)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (319)
                      .+..+...+...|++++|.+.++++.+... .+...+..+...+...|++++|...++++.... +.+..++..+..++.
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~   88 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            344444445555555555555555444322 134444444445555555555555555444432 223444444444444


Q ss_pred             hhccHHHHHHHHHHHhh
Q 039029          162 KQNRMIEADQLFENFLA  178 (319)
Q Consensus       162 ~~~~~~~a~~~~~~~~~  178 (319)
                      ..|++++|...++++..
T Consensus        89 ~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHH
Confidence            44444444444444443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.94  E-value=6.4e-08  Score=64.75  Aligned_cols=115  Identities=17%  Similarity=0.022  Sum_probs=50.3

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHH
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELL   91 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (319)
                      .+..+...+...|++++|+..|++...... .+...+..+..++...|++++|...++...+.. +.+...+..+..++.
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIELNP-ANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHH
Confidence            344444444444455555554444443321 133444444444444455555554444444432 123334444444444


Q ss_pred             HcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcC
Q 039029           92 MERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCG  129 (319)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  129 (319)
                      ..|++++|...+++..+..+. +...+..+..++...|
T Consensus        92 ~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELDPD-NETYKSNLKIAELKLR  128 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHT
T ss_pred             HhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHh
Confidence            445555555544444443221 3334444444444333

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.94  E-value=2.5e-08  Score=68.74  Aligned_cols=96  Identities=10%  Similarity=-0.015  Sum_probs=50.4

Q ss_pred             hHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHh
Q 039029           82 TYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLS  161 (319)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (319)
                      .+..+...+.+.|++++|...|++.....+. +...|..+..++...|++++|+..|++..... |.+...+..+..++.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHH
Confidence            4444445555555555555555555554332 45555555555555555555555555555543 333445555555555


Q ss_pred             hhccHHHHHHHHHHHhhC
Q 039029          162 KQNRMIEADQLFENFLAK  179 (319)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~  179 (319)
                      ..|++++|...|++..+.
T Consensus       116 ~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            555555555555555544

>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=98.94  E-value=8.5e-09  Score=71.08  Aligned_cols=98  Identities=15%  Similarity=-0.004  Sum_probs=58.1

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhh
Q 039029          185 IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLT  264 (319)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  264 (319)
                      ...+..+...+...|++++|...|+++.... +.+...|..+..+|...|++++|...|++++...  |+.      ...
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~------~~~   91 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD--IXE------PRF   91 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTC------THH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCC------chH
Confidence            3445555556666666666666666665543 3345556666666666666666666666666532  222      145


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          265 YNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       265 ~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      +..+..+|...|++++|...|++.++.
T Consensus        92 ~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           92 PFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            566666666666666666666666553

>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=98.94  E-value=2.9e-08  Score=70.65  Aligned_cols=120  Identities=12%  Similarity=0.107  Sum_probs=68.9

Q ss_pred             HcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHH-HhhhccH--HH
Q 039029           92 MERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFV-LSKQNRM--IE  168 (319)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~~  168 (319)
                      ..|++++|...+++..+..+. +...+..+...+...|++++|...|++..... +.+...+..+..+ +...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHHCCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHH
Confidence            345566666666665554332 55566666666666666666666666666553 3345555555555 5566665  66


Q ss_pred             HHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC
Q 039029          169 ADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (319)
                      |...++++.+.... +...+..+...|...|++++|...++++.+.
T Consensus       100 A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          100 TRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            66666666655322 4555666666666666666666666666554

>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=98.93  E-value=2.9e-08  Score=78.46  Aligned_cols=132  Identities=10%  Similarity=-0.084  Sum_probs=112.8

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCC--------------HHhHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPT--------------AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQG   75 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   75 (319)
                      ...+..+...+.+.|++++|+..|++.........              ..+|..+..++.+.|++++|+..+++.++..
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            45677888999999999999999999988653322              5789999999999999999999999999885


Q ss_pred             CCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHH-HHHHHHHHH
Q 039029           76 IMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKA-FSLHDEMIH  143 (319)
Q Consensus        76 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~~  143 (319)
                       +.+...+..+..++...|++++|...|++..+..+. +...+..+..++...|+++++ ...+..|..
T Consensus       227 -p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          227 -SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             347888999999999999999999999999987554 778889999999999999888 456666654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.89  E-value=1.8e-08  Score=76.07  Aligned_cols=187  Identities=7%  Similarity=-0.085  Sum_probs=118.3

Q ss_pred             ccCChHHHHHHHHHHHhCCCCCCHHhHHHH-------HHHHHhcCChHHHHHHHHHHHHcCCCcC---------------
Q 039029           22 KEGRLEEASRMLEQMKENGLVPTAVTYNTL-------IDGYCNKGNLEMAFSFRDEMVKQGIMPT---------------   79 (319)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------   79 (319)
                      ..++...|.+.|.++....+. ....|..+       ...+...++..+++..+......  .|+               
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-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQI--SMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTC--CGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcC--ChhhhhhhhccCCccccc
Confidence            578888888888888876433 55667666       34444444444454444444331  111               


Q ss_pred             -------hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc--H
Q 039029           80 -------ASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPT--M  150 (319)
Q Consensus        80 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  150 (319)
                             ......+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
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                   1123345566777888888888888777654  332255555667778888888888887544321 111  2


Q ss_pred             HHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCc--cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC
Q 039029          151 LTYTSLIFVLSKQNRMIEADQLFENFLAKGMLP--DIVMFNALIDGHCTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (319)
                      ..+..+..++...|++++|+..|++.......|  ..........++.+.|+.++|..+|+++...
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            356677777888888888888888776443213  2345556666777788888888888887765

>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=98.88  E-value=6.7e-09  Score=75.52  Aligned_cols=151  Identities=12%  Similarity=-0.046  Sum_probs=73.7

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC---------------h
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT---------------A   80 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~   80 (319)
                      .+......|+++++.+.|+.-... .......+..+...+...|++++|+..|++.++......               .
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~   88 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEE-KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEI   88 (198)
T ss_dssp             ------------CCCSGGGCCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhccccCchhhCCHHH-HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHH
Confidence            334444455666666555432221 011344566677777778888888888887776531111               1


Q ss_pred             hhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 039029           81 STYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVL  160 (319)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (319)
                      ..+..+..++...|++++|...+++..+..+. +...+..+..++...|++++|...|++..... +.+...+..+..++
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  166 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCV  166 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHH
Confidence            44555555555555666665555555554322 44555555555555555555555555555542 23444444444444


Q ss_pred             hhhccHHHH
Q 039029          161 SKQNRMIEA  169 (319)
Q Consensus       161 ~~~~~~~~a  169 (319)
                      ...++..++
T Consensus       167 ~~~~~~~~~  175 (198)
T 2fbn_A          167 NKLKEARKK  175 (198)
T ss_dssp             HHHHHHHC-
T ss_pred             HHHHHHHHH
Confidence            444444433

>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=98.86  E-value=2.2e-08  Score=68.98  Aligned_cols=95  Identities=16%  Similarity=0.063  Sum_probs=42.3

Q ss_pred             HHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 039029          152 TYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRC  231 (319)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  231 (319)
                      .+..+...+...|++++|...|+.+...... +...|..+..+|...|++++|...|++..... +.+...+..+..+|.
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~  100 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            3333444444444444444444444443221 34444444444444444444444444444432 223334444444445


Q ss_pred             cCCcHHHHHHHHHHHHH
Q 039029          232 RQGKVEEARRLLDQMKR  248 (319)
Q Consensus       232 ~~g~~~~a~~~~~~~~~  248 (319)
                      ..|++++|...|+++++
T Consensus       101 ~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          101 QXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555554444

>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=98.83  E-value=2e-07  Score=62.15  Aligned_cols=94  Identities=17%  Similarity=-0.008  Sum_probs=40.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHh
Q 039029           48 YNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCR  127 (319)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (319)
                      +......+...|++++|+..|++.++.. +.+...+..+..++...|++++|...+++..+..+. +...|..+..++..
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~   84 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQIA   84 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHH
Confidence            3444444444444444444444444432 113344444444444444444444444444443222 33344444444444


Q ss_pred             cCChHHHHHHHHHHHH
Q 039029          128 CGNAKKAFSLHDEMIH  143 (319)
Q Consensus       128 ~~~~~~a~~~~~~~~~  143 (319)
                      .|++++|...+++..+
T Consensus        85 ~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           85 VKEYASALETLDAART  100 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             HhCHHHHHHHHHHHHH
Confidence            4444444444444433

>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=98.81  E-value=4.7e-07  Score=59.19  Aligned_cols=91  Identities=11%  Similarity=-0.076  Sum_probs=34.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcC
Q 039029           50 TLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCG  129 (319)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  129 (319)
                      .+...+...|++++|...++...... +.+...+..+..++...|++++|...+++..+..+. +...+..+..++...|
T Consensus         9 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~   86 (118)
T 1elw_A            9 EKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLN   86 (118)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHh
Confidence            33333334444444444444433332 112333333333333444444444444433333211 2333333334444444


Q ss_pred             ChHHHHHHHHHHH
Q 039029          130 NAKKAFSLHDEMI  142 (319)
Q Consensus       130 ~~~~a~~~~~~~~  142 (319)
                      ++++|...+++..
T Consensus        87 ~~~~A~~~~~~~~   99 (118)
T 1elw_A           87 RFEEAKRTYEEGL   99 (118)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHH
Confidence            4444444444433

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.81  E-value=1e-06  Score=72.14  Aligned_cols=197  Identities=11%  Similarity=-0.008  Sum_probs=133.6

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCH----------------HhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-cC
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTA----------------VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM-PT   79 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~   79 (319)
                      ...+.+.|++++|++.|..+.+.......                .++..+...|...|++++|.+.+..+...-.. ++
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            45678889999999999998876433211                23677888999999999999988887653111 11


Q ss_pred             h----hhHHHHHHHHHHcCchhHHHHHHHHHhhC----CCC-CChHHHHHHHHHHHhcCChHHHHHHHHHHHHc--C---
Q 039029           80 A----STYNLLIHELLMERKMVEADDMLKEMGEK----GIV-PDSITYNILINGYCRCGNAKKAFSLHDEMIHK--G---  145 (319)
Q Consensus        80 ~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~---  145 (319)
                      .    .+.+.+...+...|+.+.+..+++.....    +.. .-..++..+...+...|++++|..+++++...  +   
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            1    12222333344567888888888876532    222 23456778888889999999999988887653  1   


Q ss_pred             CCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC----CCCcc--HHHHHHHHHHHhcCCcHHHHHHHHHHHHh
Q 039029          146 IQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK----GMLPD--IVMFNALIDGHCTNGNIERAFSLLKEMDR  213 (319)
Q Consensus       146 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (319)
                      .+....++..++..|...|+++.|..++++....    ..++.  ...+..+...+...+++++|...|.+..+
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            1122457778888888899999998888876643    11212  24556667777888888888887777643

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.81  E-value=2.6e-07  Score=64.78  Aligned_cols=99  Identities=10%  Similarity=0.011  Sum_probs=64.4

Q ss_pred             cHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 039029          149 TMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMH  228 (319)
Q Consensus       149 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (319)
                      +...+..+...+...|++++|...|++.++.... +...|..+..+|...|++++|...+++..+.. +.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            3455666666667777777777777776665332 55666666667777777777777777766653 234556666666


Q ss_pred             HHHcCCcHHHHHHHHHHHHHc
Q 039029          229 GRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       229 ~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      +|...|++++|...|+++++.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            777777777777777766664

>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=98.80  E-value=1.1e-07  Score=63.62  Aligned_cols=114  Identities=11%  Similarity=0.099  Sum_probs=86.4

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcc-cCcchh
Q 039029          185 IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHIS-FNPTRL  263 (319)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~~~  263 (319)
                      ...+..+...+.+.|++++|...|++..+.. +.+...|..+..+|...|++++|.+.+++.++..  |+... ...-..
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~a~   84 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVG--RETRADYKLIAK   84 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhC--cccchhhHHHHH
Confidence            3456778888899999999999999988764 3457788889999999999999999999988743  22110 000124


Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHH
Q 039029          264 TYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSL  303 (319)
Q Consensus       264 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  303 (319)
                      +|..+..++...|++++|++.|++.+..  .||+.+...+
T Consensus        85 ~~~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~l  122 (127)
T 4gcn_A           85 AMSRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVKKV  122 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHHH
Confidence            6778888999999999999999998874  5777665443

>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=98.80  E-value=3.5e-07  Score=60.91  Aligned_cols=94  Identities=9%  Similarity=0.009  Sum_probs=44.6

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHH
Q 039029           13 YGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLM   92 (319)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (319)
                      |..+...+.+.|++++|+..|++..+... .+...|..+..++...|++++|+..+++.++.. +.+...+..+..++..
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~   84 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIA   84 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHH
Confidence            34444444555555555555555444321 134444455555555555555555555554442 1234444444455555


Q ss_pred             cCchhHHHHHHHHHhh
Q 039029           93 ERKMVEADDMLKEMGE  108 (319)
Q Consensus        93 ~~~~~~a~~~~~~~~~  108 (319)
                      .|++++|...|++..+
T Consensus        85 ~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           85 VKEYASALETLDAART  100 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             HhCHHHHHHHHHHHHH
Confidence            5555555555554443

>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=7e-07  Score=58.33  Aligned_cols=97  Identities=12%  Similarity=-0.095  Sum_probs=50.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 039029          116 ITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGH  195 (319)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (319)
                      ..+..+...+...|++++|...+++..... +.+...+..+..++...|++++|...+++..+.... +...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHHHH
Confidence            344445555555555555555555555442 234445555555555555555555555555544221 344555555555


Q ss_pred             hcCCcHHHHHHHHHHHHhC
Q 039029          196 CTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~  214 (319)
                      ...|++++|...+++..+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            5555555555555555543

>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=2.2e-05  Score=61.11  Aligned_cols=234  Identities=9%  Similarity=0.009  Sum_probs=166.0

Q ss_pred             HhcCCh-HHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCc----------hhHHHHHHHHHhhCCCCCChHHHHHHHHH
Q 039029           56 CNKGNL-EMAFSFRDEMVKQGIMPTASTYNLLIHELLMERK----------MVEADDMLKEMGEKGIVPDSITYNILING  124 (319)
Q Consensus        56 ~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  124 (319)
                      .+.|.+ ++|+++++.++..++. +..+|+.--.++...+.          +++++.+++.+....++ +..+|+.-..+
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~wl  117 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWL  117 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            345554 5899999999987532 55556554444443333          67889999999887666 88899888888


Q ss_pred             HHhcC--ChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhcc-HHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC---
Q 039029          125 YCRCG--NAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNR-MIEADQLFENFLAKGMLPDIVMFNALIDGHCTN---  198 (319)
Q Consensus       125 ~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---  198 (319)
                      +.+.+  .+++++.+++++.+.. +-+..+|+.-..++...|. ++++++.+..+++..+. |...|+.........   
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~  195 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQ  195 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCC
T ss_pred             HhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhc
Confidence            88888  4899999999999986 5578888888777888888 58999999999988655 777777665555443   


Q ss_pred             -----------CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcC-----------CcHHHHHHHHHHHHHcCCCCCCc
Q 039029          199 -----------GNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQ-----------GKVEEARRLLDQMKRRGIKPDHI  256 (319)
Q Consensus       199 -----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~~~~~~~~~  256 (319)
                                 +.++++.+.+....... +-|...|+.+-..+.+.           +.++++++.++++.+.  .|+. 
T Consensus       196 ~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~-  271 (331)
T 3dss_A          196 PDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPEN-  271 (331)
T ss_dssp             C------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC-
T ss_pred             cccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Cccc-
Confidence                       45788899999887764 45677777665555554           4588999999999985  4543 


Q ss_pred             ccCcchhhHHHHHH-----HHHhcCchhHHHHHHHHHHhCCCCCChH-HHHHHHHH
Q 039029          257 SFNPTRLTYNALIQ-----GLCKNQEGDLAEELLREMVSKGITPDDN-TYFSLIEG  306 (319)
Q Consensus       257 ~~~~~~~~~~~l~~-----~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~  306 (319)
                             .|..+..     .....|..+++...+.++.+.  .|-.. -|..+...
T Consensus       272 -------~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~--Dp~r~~~y~d~~~~  318 (331)
T 3dss_A          272 -------KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSK  318 (331)
T ss_dssp             -------HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH--CGGGHHHHHHHHHH
T ss_pred             -------chHHHHHHHHHHhhcccccHHHHHHHHHHHHHh--CcchhhHHHHHHHH
Confidence                   3432222     222457778889999999874  45433 34444333

>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=2.5e-07  Score=63.19  Aligned_cols=97  Identities=10%  Similarity=-0.198  Sum_probs=63.4

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHH
Q 039029           46 VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGY  125 (319)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (319)
                      ..+..+...+...|++++|...|+.....+ +.+...|..+..++...|++++|...|++.....+. +...+..+..++
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHH
Confidence            345555666666777777777777766654 235566666666777777777777777776665433 556666666777


Q ss_pred             HhcCChHHHHHHHHHHHHc
Q 039029          126 CRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~  144 (319)
                      ...|++++|...|++....
T Consensus        97 ~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            7777777777777766654

>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=98.78  E-value=5.4e-07  Score=60.90  Aligned_cols=98  Identities=11%  Similarity=-0.122  Sum_probs=56.1

Q ss_pred             cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchh
Q 039029          184 DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRL  263 (319)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  263 (319)
                      +...+..+...+...|++++|...|++..... +.+...+..+...+...|++++|...++++.+..  |+      +..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~------~~~   78 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQ------SVK   78 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT------CHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--ch------hHH
Confidence            34555555556666666666666666655543 2234555556666666666666666666665532  22      124


Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          264 TYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       264 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      .|..+..++...|++++|...+++...
T Consensus        79 ~~~~l~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           79 AHFFLGQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            555666666666666666666666554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.78  E-value=7.7e-08  Score=65.75  Aligned_cols=94  Identities=11%  Similarity=-0.057  Sum_probs=46.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhc
Q 039029          118 YNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCT  197 (319)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (319)
                      +..+...+.+.|++++|...|++....+ +.+...+..+..++...|++++|...|++.....+. +...+..+..++..
T Consensus        21 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           21 LYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHH
Confidence            3344444555555555555555555442 334444555555555555555555555555444322 33444445555555


Q ss_pred             CCcHHHHHHHHHHHHh
Q 039029          198 NGNIERAFSLLKEMDR  213 (319)
Q Consensus       198 ~~~~~~a~~~~~~~~~  213 (319)
                      .|++++|...|+...+
T Consensus        99 ~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           99 LGDLDGAESGFYSARA  114 (142)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555555443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.77  E-value=1.7e-05  Score=66.01  Aligned_cols=95  Identities=5%  Similarity=-0.091  Sum_probs=56.1

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC-hHHHHHHHHHHHHc-CC-CcChhhHHHHH
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN-LEMAFSFRDEMVKQ-GI-MPTASTYNLLI   87 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~-~~-~~~~~~~~~l~   87 (319)
                      .+|...+..+-. |+++.+..+|+.....  .|+...|...+....+.+. .+....+|+..+.. |. +.+...|...+
T Consensus        16 ~vyer~l~~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi   92 (493)
T 2uy1_A           16 AIMEHARRLYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYI   92 (493)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHH
Confidence            445555555544 6777888888777763  3577777777776666553 34455666666553 32 23455666655


Q ss_pred             HHHH----HcCchhHHHHHHHHHhh
Q 039029           88 HELL----MERKMVEADDMLKEMGE  108 (319)
Q Consensus        88 ~~~~----~~~~~~~a~~~~~~~~~  108 (319)
                      ..+.    ..++.+.+.++|++...
T Consensus        93 ~f~~~~~~~~~~~~~vR~iy~rAL~  117 (493)
T 2uy1_A           93 EEEGKIEDEQTRIEKIRNGYMRALQ  117 (493)
T ss_dssp             HHTSSCSSHHHHHHHHHHHHHHHHT
T ss_pred             HHHHhchhhhHHHHHHHHHHHHHHh
Confidence            5433    23456667777777665

>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=98.77  E-value=3.2e-07  Score=61.23  Aligned_cols=95  Identities=15%  Similarity=0.130  Sum_probs=40.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCC--CC----hHHHHHH
Q 039029           48 YNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIV--PD----SITYNIL  121 (319)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~~l  121 (319)
                      +..+...+.+.|++++|+..|++.++.. +.+...|..+..+|...|++++|++.+++..+..+.  ++    ..+|..+
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            3344444444444444444444444432 113334444444444444444444444444332110  00    1233444


Q ss_pred             HHHHHhcCChHHHHHHHHHHHH
Q 039029          122 INGYCRCGNAKKAFSLHDEMIH  143 (319)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~  143 (319)
                      ..++...|++++|++.|++...
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            4445555555555555555444

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.77  E-value=2e-07  Score=60.41  Aligned_cols=99  Identities=12%  Similarity=-0.033  Sum_probs=57.7

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCc--ChhhHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMP--TASTYNLLI   87 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~   87 (319)
                      ...+..+...+.+.|++++|+..|++..+... .+...+..+..++...|++++|...+++..+.. +.  +...+..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~   83 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDP-EESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKA   83 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHH
Confidence            44455566666666666666666666655432 244555666666666666666666666666542 22  345555555


Q ss_pred             HHHHHc-CchhHHHHHHHHHhhCC
Q 039029           88 HELLME-RKMVEADDMLKEMGEKG  110 (319)
Q Consensus        88 ~~~~~~-~~~~~a~~~~~~~~~~~  110 (319)
                      .++... |++++|.+.++......
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhcc
Confidence            666666 66666666666665543

>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=98.77  E-value=2.2e-07  Score=67.39  Aligned_cols=131  Identities=11%  Similarity=-0.013  Sum_probs=100.4

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCC---------------HHhHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPT---------------AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQG   75 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   75 (319)
                      ..+..+...+.+.|++++|+..|++.........               ..++..+..++...|++++|+..++..++..
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            3466778888999999999999999987543211               2688889999999999999999999999874


Q ss_pred             CCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHH-HHHHHHHH
Q 039029           76 IMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAF-SLHDEMIH  143 (319)
Q Consensus        76 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~  143 (319)
                       +.+...+..+..++...|++++|...|++..+..+. +...+..+..++...++.+++. ..+..+..
T Consensus       119 -p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          119 -KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             -cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence             346788899999999999999999999999887544 6777888888877777766665 44555544

>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=98.76  E-value=4.9e-07  Score=61.10  Aligned_cols=99  Identities=9%  Similarity=-0.131  Sum_probs=59.9

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILIN  123 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (319)
                      +...+..+...+...|++++|...|+..+... +.+...+..+..++...|++++|...+++..+..+. +...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHHHH
Confidence            44555666666666666666666666665553 224555666666666666666666666666655433 5556666666


Q ss_pred             HHHhcCChHHHHHHHHHHHHc
Q 039029          124 GYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      ++...|++++|...|++....
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHH
Confidence            666666666666666666543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.76  E-value=1.5e-06  Score=71.17  Aligned_cols=192  Identities=7%  Similarity=-0.064  Sum_probs=94.9

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCcC----------------hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCC-CCCh---
Q 039029           56 CNKGNLEMAFSFRDEMVKQGIMPT----------------ASTYNLLIHELLMERKMVEADDMLKEMGEKGI-VPDS---  115 (319)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~---  115 (319)
                      ...|++++|++.|..+.+......                ...+..+...|...|++++|.+.+..+...-. .++.   
T Consensus        15 ~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   94 (434)
T 4b4t_Q           15 VNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTV   94 (434)
T ss_dssp             HHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHH
Confidence            445666666666666655421110                01245556666666666666666655543210 0111   


Q ss_pred             -HHHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC----CCCc-c
Q 039029          116 -ITYNILINGYCRCGNAKKAFSLHDEMIHK----GI-QPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK----GMLP-D  184 (319)
Q Consensus       116 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~  184 (319)
                       .+.+.+...+...|+++.+..++......    +. ..-..++..+...+...|++++|..+++++...    +..+ .
T Consensus        95 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~  174 (434)
T 4b4t_Q           95 KVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSL  174 (434)
T ss_dssp             HHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhH
Confidence             12222333334455666666666555432    11 112345555666666666666666666655432    1111 2


Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHhC----CCCCC--hhhHHHHHHHHHcCCcHHHHHHHHHHHH
Q 039029          185 IVMFNALIDGHCTNGNIERAFSLLKEMDRM----KVHPD--EVTYNTLMHGRCRQGKVEEARRLLDQMK  247 (319)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~  247 (319)
                      ..++..++..|...|++++|..++++....    ..++.  ...+..+...+...|++++|...|.+..
T Consensus       175 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          175 VDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            345555666666666666666666654321    11111  1234445555556666666666555544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.75  E-value=8.4e-07  Score=62.15  Aligned_cols=99  Identities=7%  Similarity=-0.097  Sum_probs=64.8

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHH
Q 039029           44 TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILIN  123 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  123 (319)
                      +...+..+...+...|++++|+..|++.++.. +.+...+..+..++...|++++|+..+++..+..+. +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            34456666666666777777777776666653 225566666666677777777777777776665433 5666667777


Q ss_pred             HHHhcCChHHHHHHHHHHHHc
Q 039029          124 GYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       124 ~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      ++...|++++|...|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            777777777777777776664

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.73  E-value=3.2e-07  Score=59.40  Aligned_cols=91  Identities=13%  Similarity=-0.056  Sum_probs=34.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCC-ccHHHHHHHHHHHhcC-
Q 039029          121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGML-PDIVMFNALIDGHCTN-  198 (319)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~-  198 (319)
                      +...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+.... .+...+..+..++... 
T Consensus        12 ~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~~~~~~   90 (112)
T 2kck_A           12 EGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADALRYIE   90 (112)
T ss_dssp             HHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHHHHHHh
Confidence            3333334444444444444433332 223333333334444444444444444443333110 0233333344444444 


Q ss_pred             CcHHHHHHHHHHHH
Q 039029          199 GNIERAFSLLKEMD  212 (319)
Q Consensus       199 ~~~~~a~~~~~~~~  212 (319)
                      |++++|.+.+++..
T Consensus        91 ~~~~~A~~~~~~~~  104 (112)
T 2kck_A           91 GKEVEAEIAEARAK  104 (112)
T ss_dssp             SCSHHHHHHHHHHG
T ss_pred             CCHHHHHHHHHHHh
Confidence            44444444444443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.73  E-value=1.2e-06  Score=59.86  Aligned_cols=97  Identities=11%  Similarity=-0.071  Sum_probs=47.1

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC----hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHH
Q 039029           45 AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT----ASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNI  120 (319)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  120 (319)
                      ...+..+...+...|++++|.+.|++..+..  |+    ...+..+..++...|++++|...+++..+..+. +...+..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~  104 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALYR  104 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHHH
Confidence            3444445555555555555555555555432  22    334444444455555555555555554443222 3444444


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHc
Q 039029          121 LINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      +..++...|++++|...+++....
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc
Confidence            555555555555555555555443

>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=3.9e-07  Score=60.88  Aligned_cols=124  Identities=7%  Similarity=0.083  Sum_probs=92.4

Q ss_pred             HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhh
Q 039029          185 IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLT  264 (319)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  264 (319)
                      ...+..+...+...|++++|...+.+..+.. +.+...+..+...+...|++++|...++++.+....... .......+
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~~~   81 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENRE-DYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTT-CHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccch-hHHHHHHH
Confidence            4567778888888999999999999887764 446677888888999999999999999998775321000 00000467


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcch
Q 039029          265 YNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDK  312 (319)
Q Consensus       265 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  312 (319)
                      +..+...+...|++++|.+.+++....  .|+......+.......++
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~  127 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQAEKILKE  127 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHHHH
Confidence            888999999999999999999999985  4677666666665554443

>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=98.71  E-value=4.8e-07  Score=60.40  Aligned_cols=97  Identities=12%  Similarity=0.119  Sum_probs=46.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCC--CC----hHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIV--PD----SITYNI  120 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~~  120 (319)
                      .+..+...+...|++++|...+++..... +.+...+..+..++...|++++|...+++..+....  ++    ...+..
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            34444444445555555555555544432 223344444444455555555555555544432111  11    344555


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHc
Q 039029          121 LINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      +..++...|++++|...+++..+.
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHh
Confidence            555555555566665555555554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.69  E-value=1.9e-06  Score=58.91  Aligned_cols=99  Identities=11%  Similarity=-0.062  Sum_probs=61.7

Q ss_pred             ChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCC---hHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHH
Q 039029           79 TASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPD---SITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTS  155 (319)
Q Consensus        79 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (319)
                      +...+..+...+...|++++|...|++..+.... +   ...+..+..++...|++++|...+++..... +.+...+..
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  104 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDAT-PQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYR  104 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHccc-chHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHH
Confidence            4455566666666677777777777776655322 2   4556666666666677777777666666553 334556666


Q ss_pred             HHHHHhhhccHHHHHHHHHHHhhC
Q 039029          156 LIFVLSKQNRMIEADQLFENFLAK  179 (319)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~  179 (319)
                      +..++...|++++|...|++..+.
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc
Confidence            666666666666666666666554

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.69  E-value=5e-07  Score=59.71  Aligned_cols=96  Identities=13%  Similarity=-0.076  Sum_probs=59.8

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHH
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELL   91 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (319)
                      .+..+...+.+.|++++|+..|++..+.... +...|..+..++...|++++|+..+++.++... .+...+..+..++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            3445556666667777777777666664322 555666666666667777777777766666542 24556666666666


Q ss_pred             HcCchhHHHHHHHHHhhC
Q 039029           92 MERKMVEADDMLKEMGEK  109 (319)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~  109 (319)
                      ..|++++|...+++..+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC-
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            666666666666666554

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.67  E-value=7.2e-07  Score=58.94  Aligned_cols=94  Identities=10%  Similarity=-0.045  Sum_probs=51.1

Q ss_pred             HHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh
Q 039029           84 NLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ  163 (319)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (319)
                      ..+...+.+.|++++|...+++..+..+. +...|..+..++...|++++|+..+++..+.. +.+...+..+..++...
T Consensus        21 ~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           21 MEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            33444555555566666555555554332 45555555555555666666666665555543 33445555555555556


Q ss_pred             ccHHHHHHHHHHHhhC
Q 039029          164 NRMIEADQLFENFLAK  179 (319)
Q Consensus       164 ~~~~~a~~~~~~~~~~  179 (319)
                      |++++|...++++++.
T Consensus        99 g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           99 HNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            6666666655555543

>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=98.67  E-value=3.3e-07  Score=75.98  Aligned_cols=117  Identities=11%  Similarity=0.023  Sum_probs=57.6

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHH
Q 039029          125 YCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERA  204 (319)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (319)
                      +.+.|++++|.+.+++..+.. +.+...+..+..++.+.|++++|...+++..+.... +...+..+..+|...|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHH
Confidence            344555555555555555542 334555555555555555555555555555554322 345555555555555666666


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHH--HHcCCcHHHHHHHHH
Q 039029          205 FSLLKEMDRMKVHPDEVTYNTLMHG--RCRQGKVEEARRLLD  244 (319)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~  244 (319)
                      ...+++..+.. +.+...+..+..+  +.+.|++++|.+.++
T Consensus        94 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            66655555432 1122333333333  455556666665555

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.66  E-value=2.2e-05  Score=65.26  Aligned_cols=124  Identities=13%  Similarity=0.085  Sum_probs=77.9

Q ss_pred             HHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhc-CCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 039029          152 TYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCT-NGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGR  230 (319)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  230 (319)
                      .|...+....+.++.+.|..+|+.+ .. ...+...|......-.. .++.+.|..+|+...+.- +.+...+...+...
T Consensus       288 lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e  364 (493)
T 2uy1_A          288 LRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFL  364 (493)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            3444445555567788888888887 32 12244444432222222 235888888888876642 22344455566666


Q ss_pred             HcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          231 CRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       231 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      ...|+.+.|..+|+++.+            ....|...+.--...|+.+.+..+++++..
T Consensus       365 ~~~~~~~~aR~l~er~~k------------~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          365 LRIGDEENARALFKRLEK------------TSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHTCHHHHHHHHHHSCC------------BHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH------------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            777888888888888621            125677777766777888888888887764

>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=98.59  E-value=1.9e-06  Score=71.12  Aligned_cols=123  Identities=11%  Similarity=-0.047  Sum_probs=61.6

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC--------------hhhHHHHHHHHHHcCchhHHHHHHHHHhhCC
Q 039029           45 AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT--------------ASTYNLLIHELLMERKMVEADDMLKEMGEKG  110 (319)
Q Consensus        45 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  110 (319)
                      ...+..+...+.+.|++++|+..|++.++......              ...|..+..++.+.|++++|+..+++..+..
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            34566677777778888888888877776521111              2344444444555555555555555544433


Q ss_pred             CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029          111 IVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus       111 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      +. +...|..+..+|...|++++|...|++..+.. +.+...+..+..++.+.++.+++
T Consensus       348 p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          348 SA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             TT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHH
T ss_pred             Cc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            22 34444444445555555555555555444432 22333444444444444444433

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.59  E-value=8.4e-07  Score=61.64  Aligned_cols=96  Identities=15%  Similarity=0.071  Sum_probs=42.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-cC----hhhHHHHHHHHHHcCchhHHHHHHHHHhhCC----CC-CChH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM-PT----ASTYNLLIHELLMERKMVEADDMLKEMGEKG----IV-PDSI  116 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~-~~~~  116 (319)
                      ++..+...+...|++++|...+++..+.... .+    ..++..+...+...|++++|.+.+++..+..    .. ....
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            3444455555555555555555554432100 00    1234444444555555555555554443210    00 0123


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH
Q 039029          117 TYNILINGYCRCGNAKKAFSLHDEMI  142 (319)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (319)
                      .+..+...+...|++++|...+++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~  116 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHL  116 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            34444555555555555555555444

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.58  E-value=4.5e-06  Score=55.55  Aligned_cols=91  Identities=9%  Similarity=-0.043  Sum_probs=40.8

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCcCh---hhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCC---hHHHHHHHHHH
Q 039029           52 IDGYCNKGNLEMAFSFRDEMVKQGIMPTA---STYNLLIHELLMERKMVEADDMLKEMGEKGIVPD---SITYNILINGY  125 (319)
Q Consensus        52 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~  125 (319)
                      ...+...|++++|...|+.+.+.... +.   ..+..+..++...|++++|...+++..+..+. +   ...+..+..++
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~~   86 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHH
Confidence            33444444555555555444443211 11   23344444444455555555555544443221 2   33344444555


Q ss_pred             HhcCChHHHHHHHHHHHHc
Q 039029          126 CRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~  144 (319)
                      ...|++++|...|+++...
T Consensus        87 ~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            5555555555555555443

>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=98.57  E-value=2.7e-06  Score=68.00  Aligned_cols=122  Identities=12%  Similarity=-0.020  Sum_probs=75.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHc---------------CCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCC
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQ---------------GIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGI  111 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  111 (319)
                      .+..+...+.+.|++++|+..|++.++.               ..+.+..+|..+..++.+.|++++|+..+++..+..+
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p  304 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP  304 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc
Confidence            4666777788888888888888877752               0112344556666666666666666666666666543


Q ss_pred             CCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHH
Q 039029          112 VPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEAD  170 (319)
Q Consensus       112 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (319)
                      . +...+..+..+|...|++++|+..|++..+.. +.+...+..+..++...++.+++.
T Consensus       305 ~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          305 S-NTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             T-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             h-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            2 55666666666666666666666666666653 334555555555555555554443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.56  E-value=2.9e-07  Score=64.03  Aligned_cols=103  Identities=11%  Similarity=-0.054  Sum_probs=64.0

Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHhCC----CCC-ChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcc
Q 039029          187 MFNALIDGHCTNGNIERAFSLLKEMDRMK----VHP-DEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPT  261 (319)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  261 (319)
                      ++..+...+...|++++|...+++..+..    ..+ ....+..+...+...|++++|...+++..+.......  ....
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~--~~~~  128 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKD--RIGE  128 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC--HHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccc--hHhH
Confidence            45555566666666666666666553321    000 1335566777778888888888888777653111110  0012


Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          262 RLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      ..++..+...+...|++++|.+.+++..+.
T Consensus       129 ~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A          129 GRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            256777888889999999999999887653

>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=98.56  E-value=3.8e-07  Score=75.60  Aligned_cols=124  Identities=11%  Similarity=-0.010  Sum_probs=95.6

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHH
Q 039029           13 YGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLM   92 (319)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   92 (319)
                      +..+...+.+.|++++|++.|++..+... .+..+|..+..++.+.|++++|++.+++.++.. +.+...+..+..++..
T Consensus         9 ~~~lg~~~~~~g~~~~A~~~~~~Al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~   86 (477)
T 1wao_1            9 LKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   86 (477)
T ss_dssp             SSSSSSSTTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            33444566788999999999999888643 367889999999999999999999999999875 3367788889999999


Q ss_pred             cCchhHHHHHHHHHhhCCCCCChHHHHHHHHH--HHhcCChHHHHHHHH
Q 039029           93 ERKMVEADDMLKEMGEKGIVPDSITYNILING--YCRCGNAKKAFSLHD  139 (319)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  139 (319)
                      .|++++|.+.+++..+..+. +...+..+..+  +.+.|++++|++.++
T Consensus        87 ~g~~~eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           87 LGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             cCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999998876543 44556555555  788899999999887

>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=1.3e-06  Score=72.03  Aligned_cols=130  Identities=8%  Similarity=-0.051  Sum_probs=105.6

Q ss_pred             ccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCC--------------HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 039029           11 YTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPT--------------AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGI   76 (319)
Q Consensus        11 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   76 (319)
                      ..|..+...+.+.|++++|+..|++..+......              ..+|..+..++.+.|++++|+..+++.++.. 
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  347 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-  347 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-
Confidence            3577788899999999999999999987533221              5789999999999999999999999999875 


Q ss_pred             CcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHH-HHHHHH
Q 039029           77 MPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFS-LHDEMI  142 (319)
Q Consensus        77 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~  142 (319)
                      +.+...|..+..++...|++++|...|++..+..+. +...+..+..++.+.++++++.+ .+..|.
T Consensus       348 p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          348 SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            347888999999999999999999999999987544 66788888888888888877653 444444

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.54  E-value=7.1e-06  Score=54.59  Aligned_cols=94  Identities=13%  Similarity=0.034  Sum_probs=57.1

Q ss_pred             HHHHHHHHHcCchhHHHHHHHHHhhCCCCCCh---HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcc---HHHHHHHH
Q 039029           84 NLLIHELLMERKMVEADDMLKEMGEKGIVPDS---ITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPT---MLTYTSLI  157 (319)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  157 (319)
                      ..+...+...|++++|...|+++.+..+. +.   ..+..+..++...|++++|...+++..... +.+   ...+..+.
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la   83 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHH
Confidence            34455566667777777777766654322 22   455566666667777777777776666653 222   44555666


Q ss_pred             HHHhhhccHHHHHHHHHHHhhC
Q 039029          158 FVLSKQNRMIEADQLFENFLAK  179 (319)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~  179 (319)
                      .++...|++++|...|+.+.+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            6666666666666666666654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.52  E-value=3.1e-06  Score=59.05  Aligned_cols=97  Identities=7%  Similarity=-0.033  Sum_probs=59.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHc--------C---------CCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhC
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQ--------G---------IMPTASTYNLLIHELLMERKMVEADDMLKEMGEK  109 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (319)
                      .+......+.+.|++++|+..|...+..        .         .+.+...|..+..++.+.|++++|+..+++..+.
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~   92 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR   92 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            4455555566666666666666665543        0         0112345666666666777777777777666665


Q ss_pred             CCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029          110 GIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       110 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      .+. +...|..+..++...|++++|...|++....
T Consensus        93 ~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           93 EET-NEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             STT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            433 5666666667777777777777777766665

>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=3.2e-06  Score=67.60  Aligned_cols=124  Identities=10%  Similarity=0.006  Sum_probs=91.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc---------------CCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC
Q 039029          116 ITYNILINGYCRCGNAKKAFSLHDEMIHK---------------GIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG  180 (319)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (319)
                      ..+..+...+.+.|++++|+..|++..+.               ..+.+..++..+..++.+.|++++|...++++++..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            34666777888888888888888887761               112345677888888888899999999998888764


Q ss_pred             CCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHH
Q 039029          181 MLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARR  241 (319)
Q Consensus       181 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  241 (319)
                      .. +...+..+..+|...|++++|...|+++.+.. +.+...+..+...+...++.+++.+
T Consensus       304 p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          304 PS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             TT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            33 57788888888888999999999998887764 2355566666666666666665543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.49  E-value=4.8e-07  Score=59.41  Aligned_cols=86  Identities=16%  Similarity=0.030  Sum_probs=50.9

Q ss_pred             cCChHHHHHHHHHHHhCC--CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHH
Q 039029           23 EGRLEEASRMLEQMKENG--LVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEAD  100 (319)
Q Consensus        23 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (319)
                      .|++++|+..|++..+.+  -+.+..++..+..++...|++++|+..+++.++..+ -+...+..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP-NHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHcCCHHHHH
Confidence            466667777777766643  122345566666666667777777777766666542 24556666666666666666666


Q ss_pred             HHHHHHhhC
Q 039029          101 DMLKEMGEK  109 (319)
Q Consensus       101 ~~~~~~~~~  109 (319)
                      ..+++..+.
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666666554

>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=98.47  E-value=4.9e-05  Score=64.33  Aligned_cols=175  Identities=9%  Similarity=-0.024  Sum_probs=131.1

Q ss_pred             CChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCc----------hhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhc
Q 039029           59 GNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERK----------MVEADDMLKEMGEKGIVPDSITYNILINGYCRC  128 (319)
Q Consensus        59 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  128 (319)
                      ...++|++.++.++..++. +..+|+.--.++...++          ++++++.++.+.+..++ +..+|+.-..++.+.
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-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            3456778888888877533 55666666666666666          88888999998887766 788888888888888


Q ss_pred             C--ChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhc-cHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC-------
Q 039029          129 G--NAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQN-RMIEADQLFENFLAKGMLPDIVMFNALIDGHCTN-------  198 (319)
Q Consensus       129 ~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------  198 (319)
                      +  +++++++.++++.+.+ +-+..+|+.-..++.+.| .++++.+.++++++..+. +...|+.....+.+.       
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 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccccccc
Confidence            8  6699999999998886 457788888777777888 788888888888887654 677777666555442       


Q ss_pred             -------CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHH
Q 039029          199 -------GNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEE  238 (319)
Q Consensus       199 -------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  238 (319)
                             +.++++.+.+.++.... +-+...|..+...+.+.++.++
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                   55788999998887764 4467788887777777766443

>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=98.46  E-value=3.3e-05  Score=65.38  Aligned_cols=174  Identities=9%  Similarity=-0.008  Sum_probs=140.5

Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHc
Q 039029           24 GRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN----------LEMAFSFRDEMVKQGIMPTASTYNLLIHELLME   93 (319)
Q Consensus        24 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   93 (319)
                      ...++|++.++.+...++. +..+|+.--.++...++          ++++++.++.+.+...+ +..+|+.-..++.+.
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-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            4456889999999987544 66778877777777777          89999999999998644 778888888888888


Q ss_pred             C--chhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh-------
Q 039029           94 R--KMVEADDMLKEMGEKGIVPDSITYNILINGYCRCG-NAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ-------  163 (319)
Q Consensus        94 ~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------  163 (319)
                      +  +++++++.++++.+..+. +..+|+.-..++.+.| .++++++.++++.+.. +-+...|+....++.+.       
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            9  679999999999998766 8889998888888889 8999999999998875 45778888777776653       


Q ss_pred             -------ccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHH
Q 039029          164 -------NRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIE  202 (319)
Q Consensus       164 -------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (319)
                             +.++++.+.+.+++...+. +...|..+...+.+.+..+
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCCS
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCcc
Confidence                   6788999999998887544 6778887777777766633

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.46  E-value=1.3e-06  Score=57.24  Aligned_cols=86  Identities=14%  Similarity=0.013  Sum_probs=44.7

Q ss_pred             cCchhHHHHHHHHHhhCC--CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHH
Q 039029           93 ERKMVEADDMLKEMGEKG--IVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEAD  170 (319)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (319)
                      .|++++|+..|++..+.+  .+.+...+..+..++...|++++|+..+++..+.. +.+...+..+..++...|++++|.
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            355555555555555542  11134455555555666666666666666655553 334555555555566666666666


Q ss_pred             HHHHHHhhC
Q 039029          171 QLFENFLAK  179 (319)
Q Consensus       171 ~~~~~~~~~  179 (319)
                      ..+++....
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666555543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.42  E-value=9.1e-06  Score=56.66  Aligned_cols=97  Identities=11%  Similarity=0.028  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHc--------C---------CCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC
Q 039029          117 TYNILINGYCRCGNAKKAFSLHDEMIHK--------G---------IQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK  179 (319)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (319)
                      .+......+.+.|++++|+..|.+....        .         .+.+...+..+..++.+.|++++|...+++++..
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~   92 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR   92 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            3444455555555555555555555443        0         0112345555566666666666666666666555


Q ss_pred             CCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC
Q 039029          180 GMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       180 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (319)
                      .+. +...|..+..+|...|++++|...|++..+.
T Consensus        93 ~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           93 EET-NEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             STT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            322 4555666666666666666666666666554

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.38  E-value=4.4e-06  Score=69.05  Aligned_cols=123  Identities=7%  Similarity=-0.038  Sum_probs=57.5

Q ss_pred             HHhcCChHHHHHHHHHHHHc-----C--CCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhC-----CC--CCChHHHHH
Q 039029           55 YCNKGNLEMAFSFRDEMVKQ-----G--IMPTASTYNLLIHELLMERKMVEADDMLKEMGEK-----GI--VPDSITYNI  120 (319)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~--~~~~~~~~~  120 (319)
                      +...|++++|+.++++.++.     |  .+....+++.|...|...|++++|..++++..+.     |.  +....+++.
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            33456666666666555442     1  1112344555555565666666665555554321     11  112334555


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHc-----C--CCccHHHHHHHHHHHhhhccHHHHHHHHHHHh
Q 039029          121 LINGYCRCGNAKKAFSLHDEMIHK-----G--IQPTMLTYTSLIFVLSKQNRMIEADQLFENFL  177 (319)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (319)
                      |...|...|++++|..++++....     |  .+....+...+..++...+.+.+|+.++..+.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~  462 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMR  462 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555554431     1  11112233333444444555555555554443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.38  E-value=1.2e-06  Score=72.40  Aligned_cols=130  Identities=12%  Similarity=-0.018  Sum_probs=98.6

Q ss_pred             HHhhhccHHHHHHHHHHHhhC-----CC-Ccc-HHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-----CC-CCC-hhhHH
Q 039029          159 VLSKQNRMIEADQLFENFLAK-----GM-LPD-IVMFNALIDGHCTNGNIERAFSLLKEMDRM-----KV-HPD-EVTYN  224 (319)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~  224 (319)
                      .+...|++++|+.++++.++.     |. .|+ ..+++.|...|...|++++|..++++..+.     |. .|+ ..+++
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            355789999999999887653     11 222 567899999999999999999999987442     21 122 45788


Q ss_pred             HHHHHHHcCCcHHHHHHHHHHHHHc---CCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          225 TLMHGRCRQGKVEEARRLLDQMKRR---GIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       225 ~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      .|...|...|++++|..+++++++.   -.-|+.   +....+...+..++...+.++.|..+++++++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~H---p~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSH---PITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTS---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC---hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999987653   233443   123355677778888999999999999999764

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.37  E-value=2.1e-06  Score=67.87  Aligned_cols=147  Identities=10%  Similarity=-0.049  Sum_probs=71.8

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHH
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELL   91 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (319)
                      .+..+...+.+.|++++|+..|++.....  |+...       +...++.+++...+          ....|..+..++.
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~~~~  241 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAV----------KNPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHH----------HHHHHHHHHHHHH
Confidence            45667777888889999999888877642  33221       11222222222211          1125666777777


Q ss_pred             HcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHH-HhhhccHHHHH
Q 039029           92 MERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFV-LSKQNRMIEAD  170 (319)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  170 (319)
                      +.|++++|+..+++..+.... +...|..+..+|...|++++|...|++..+.. +.+...+..+... ....+..+.+.
T Consensus       242 ~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             TTTCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------
T ss_pred             HcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777777765433 66777777777777778887777777776542 2234444444444 22345556666


Q ss_pred             HHHHHHhhC
Q 039029          171 QLFENFLAK  179 (319)
Q Consensus       171 ~~~~~~~~~  179 (319)
                      ..|..+...
T Consensus       320 ~~~~~~l~~  328 (338)
T 2if4_A          320 EMYKGIFKG  328 (338)
T ss_dssp             ---------
T ss_pred             HHHHHhhCC
Confidence            777766654

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.36  E-value=3.1e-06  Score=66.86  Aligned_cols=130  Identities=10%  Similarity=-0.015  Sum_probs=70.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH------------------HHHHHHHHHHhhhccHHHHHHHHHHHh
Q 039029          116 ITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTM------------------LTYTSLIFVLSKQNRMIEADQLFENFL  177 (319)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------------------~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (319)
                      ..+..+...+.+.|++++|...|++.....  |+.                  ..+..+..++.+.|++++|...+++.+
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al  257 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVL  257 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344555566666677777777776666542  222                  267788888889999999999999888


Q ss_pred             hCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHH-HHcCCcHHHHHHHHHHHHHc
Q 039029          178 AKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHG-RCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       178 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~  249 (319)
                      +.... +...+..+..+|...|++++|...|+++.+.. +.+...+..+... ....+..+.+...|.++...
T Consensus       258 ~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          258 TEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             HHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------------------
T ss_pred             HhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence            76432 67788888889999999999999999887653 2234444444444 23455677778888887664

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.33  E-value=5.6e-06  Score=53.39  Aligned_cols=88  Identities=17%  Similarity=0.101  Sum_probs=51.1

Q ss_pred             hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCC---
Q 039029          220 EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPD---  296 (319)
Q Consensus       220 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---  296 (319)
                      ...+..+...+...|++++|...|+++++..  |+      +...|..+..++...|++++|++.+++.+..  .|+   
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~------~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~   73 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ--PQ------NPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEH   73 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TT------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CC------CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccH
Confidence            3445556666666666666666666666542  22      2245666666666666666666666666653  333   


Q ss_pred             ----hHHHHHHHHHhhhcchhhhhc
Q 039029          297 ----DNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       297 ----~~~~~~l~~~~~~~g~~~~A~  317 (319)
                          ...+..+..++...|+.++|.
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~a~   98 (111)
T 2l6j_A           74 VAIRSKLQYRLELAQGAVGSVQIPV   98 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCCCCS
T ss_pred             HHHHHHHHHHHHHHHHHHHhHhhhH
Confidence                344555555566666655554

>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=98.33  E-value=1.6e-05  Score=54.35  Aligned_cols=96  Identities=11%  Similarity=-0.046  Sum_probs=45.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-c-----C-----hhhHHHHHHHHHHcCchhHHHHHHHHHhhC------
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM-P-----T-----ASTYNLLIHELLMERKMVEADDMLKEMGEK------  109 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-----~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------  109 (319)
                      .+......+...|++++|+..|++.++.... |     +     ...|..+..++.+.|++++|+..+++.++.      
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            3444555556666666666666666654211 0     0     114444444444444444444444444432      


Q ss_pred             -CCCCChHHH----HHHHHHHHhcCChHHHHHHHHHHHH
Q 039029          110 -GIVPDSITY----NILINGYCRCGNAKKAFSLHDEMIH  143 (319)
Q Consensus       110 -~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~  143 (319)
                       .+. +...|    .....++...|++++|+..|++..+
T Consensus        93 ~~pd-~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           93 LNQD-EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             TTST-HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCc-hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence             221 33344    4444555555555555555554443

>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=98.32  E-value=4.5e-05  Score=51.48  Aligned_cols=110  Identities=14%  Similarity=-0.016  Sum_probs=68.1

Q ss_pred             ChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhc----CCcHHHHH
Q 039029          130 NAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCT----NGNIERAF  205 (319)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  205 (319)
                      ++++|++.|++..+.| .+...    +...|...+.++.|.+.|++..+.+   +...+..|...|..    .+++++|.
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            4566666666666655 22222    5555555556666666666666653   44555556666655    56777777


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHc----CCcHHHHHHHHHHHHHcC
Q 039029          206 SLLKEMDRMKVHPDEVTYNTLMHGRCR----QGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  250 (319)
                      ..|++..+.+   +...+..|...|..    .+++++|..+|++..+.|
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            7777766653   45556666666666    667777777777776654

>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=98.30  E-value=4.2e-05  Score=51.63  Aligned_cols=113  Identities=10%  Similarity=-0.060  Sum_probs=95.1

Q ss_pred             hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----CCcHHH
Q 039029          163 QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCR----QGKVEE  238 (319)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  238 (319)
                      .+++++|.+.|++..+.+.. +..    +...|...+..++|...|++..+.+   +...+..+...|..    .+++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g~~-~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNEM-FGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTCT-THH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHcCCCH-hhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            46788999999999988733 333    7777888888999999999998864   67788888888988    899999


Q ss_pred             HHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHh----cCchhHHHHHHHHHHhCCC
Q 039029          239 ARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCK----NQEGDLAEELLREMVSKGI  293 (319)
Q Consensus       239 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  293 (319)
                      |.++|++..+.|.          ...+..|...|..    .+++++|.+.|++..+.|.
T Consensus        80 A~~~~~~Aa~~g~----------~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLND----------QDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTTC----------HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCC----------HHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            9999999998753          2677888889988    8999999999999998863

>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=98.28  E-value=2.6e-05  Score=53.35  Aligned_cols=95  Identities=17%  Similarity=0.051  Sum_probs=50.8

Q ss_pred             hHHHHHHHHHHcCchhHHHHHHHHHhhCCCCC------C-----hHHHHHHHHHHHhcCChHHHHHHHHHHHHc------
Q 039029           82 TYNLLIHELLMERKMVEADDMLKEMGEKGIVP------D-----SITYNILINGYCRCGNAKKAFSLHDEMIHK------  144 (319)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------  144 (319)
                      .+......+.+.|++++|+..|++..+..+..      +     ...|..+..++.+.|++++|+..+++..+.      
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            34445556667777777777777776543221      1     125555556666666666666666555543      


Q ss_pred             -CCCccHHHH----HHHHHHHhhhccHHHHHHHHHHHh
Q 039029          145 -GIQPTMLTY----TSLIFVLSKQNRMIEADQLFENFL  177 (319)
Q Consensus       145 -~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~  177 (319)
                       + +.+...|    .....++...|++++|+..|++.+
T Consensus        93 ~~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           93 LN-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             TT-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CC-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence             2 1223344    444444444555555555544443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.19  E-value=1.8e-06  Score=55.77  Aligned_cols=92  Identities=11%  Similarity=-0.018  Sum_probs=55.5

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC------hhh
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT------AST   82 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~   82 (319)
                      +...+..+...+.+.|++++|++.|++..+... .+...+..+..++...|++++|++.+++.++.... +      ...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQP-QNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTST-AEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSS-TTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ccHHHHHHHH
Confidence            345566666777777777777777777766532 25566677777777777777777777777665321 2      333


Q ss_pred             HHHHHHHHHHcCchhHHHHH
Q 039029           83 YNLLIHELLMERKMVEADDM  102 (319)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~  102 (319)
                      +..+..++...|+.+.+...
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~  100 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVE  100 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSS
T ss_pred             HHHHHHHHHHHHhHhhhHhH
Confidence            44444455555554444433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.12  E-value=5.5e-05  Score=49.12  Aligned_cols=78  Identities=18%  Similarity=0.099  Sum_probs=37.4

Q ss_pred             HHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhh
Q 039029           99 ADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLA  178 (319)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (319)
                      +...|++..+..+. +...+..+...+...|++++|...+++..... +.+...+..+..++...|++++|...|++...
T Consensus         4 a~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQGTD-NMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTTCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34444444443322 44445555555555555555555555555442 23344444455555555555555555554443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.10  E-value=6.3e-05  Score=46.26  Aligned_cols=27  Identities=19%  Similarity=0.325  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039029          117 TYNILINGYCRCGNAKKAFSLHDEMIH  143 (319)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (319)
                      .+..+..++...|++++|...+++..+
T Consensus        45 ~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           45 AWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            333334444444444444444444333

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.05  E-value=7.3e-05  Score=45.99  Aligned_cols=78  Identities=14%  Similarity=0.123  Sum_probs=38.5

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHH
Q 039029           46 VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGY  125 (319)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (319)
                      ..+..+...+...|++++|+..+++..+.. +.+...+..+..++...|++++|...+++..+..+. +...+..+..++
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~   87 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CHHHHHHHHHHH
Confidence            344445555555555555555555555442 223444555555555555555555555555544322 344444444333

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.04  E-value=0.00011  Score=47.67  Aligned_cols=78  Identities=13%  Similarity=-0.014  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039029           64 AFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIH  143 (319)
Q Consensus        64 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (319)
                      ++..|++..+.. +.+...+..+..++...|++++|...+++..+..+. +...|..+..++...|++++|...|++...
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            334444444432 223444445555555555555555555555444322 344555555555555555555555555544

>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=98.02  E-value=3.3e-05  Score=52.71  Aligned_cols=83  Identities=14%  Similarity=-0.020  Sum_probs=39.2

Q ss_pred             ChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch----------hHHHHHHHHHhhCCCCCChHHHHHHHHHHHhc-
Q 039029           60 NLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM----------VEADDMLKEMGEKGIVPDSITYNILINGYCRC-  128 (319)
Q Consensus        60 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  128 (319)
                      .+++|.+.++...+.. +.+...|..+..++...+++          ++|+..|++..+..+. +...|..+..+|... 
T Consensus        17 ~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay~~lg   94 (158)
T 1zu2_A           17 LFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYTSFA   94 (158)
T ss_dssp             HHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHhc
Confidence            3444444444444443 12344444444444444332          3555555555544333 444455555555444 


Q ss_pred             ----------CChHHHHHHHHHHHHc
Q 039029          129 ----------GNAKKAFSLHDEMIHK  144 (319)
Q Consensus       129 ----------~~~~~a~~~~~~~~~~  144 (319)
                                |++++|++.|++..+.
T Consensus        95 ~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           95 FLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccCcchhhhhccHHHHHHHHHHHHHh
Confidence                      3566666666666554

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.00  E-value=4.2e-05  Score=48.34  Aligned_cols=85  Identities=15%  Similarity=0.121  Sum_probs=42.9

Q ss_pred             ChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCC-CCCCh
Q 039029          219 DEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKG-ITPDD  297 (319)
Q Consensus       219 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~  297 (319)
                      +...+..+...|...|++++|...|+++++..  |+.      ...|..+..+|...|++++|.+.+++.++.. -.++.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~------~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~   77 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD--PDY------VGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQ   77 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTC------THHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCc------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCch
Confidence            34445555555566666666666666655532  222      1455555566666666666666665555431 12344


Q ss_pred             HHHHHHHHHhhhcc
Q 039029          298 NTYFSLIEGIASVD  311 (319)
Q Consensus       298 ~~~~~l~~~~~~~g  311 (319)
                      .....+...+...+
T Consensus        78 ~~~~~l~~~l~~~~   91 (100)
T 3ma5_A           78 KDLSELQDAKLKAE   91 (100)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHcc
Confidence            44444444444433

>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=97.99  E-value=6.6e-05  Score=51.24  Aligned_cols=87  Identities=7%  Similarity=-0.085  Sum_probs=59.6

Q ss_pred             HHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCCh----------HHHHHHHHHHHHcCCCccHHHHHHHHHHH
Q 039029           91 LMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNA----------KKAFSLHDEMIHKGIQPTMLTYTSLIFVL  160 (319)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (319)
                      .+.+.+++|.+.++...+..+. +...|..+..++...+++          ++|+..|++..+.+ +.+...|..+..+|
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            3456678888888888776554 777777777777777654          47777777777764 44566777777777


Q ss_pred             hhhc-----------cHHHHHHHHHHHhhC
Q 039029          161 SKQN-----------RMIEADQLFENFLAK  179 (319)
Q Consensus       161 ~~~~-----------~~~~a~~~~~~~~~~  179 (319)
                      ...|           ++++|.+.|++.++.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            6654           566666666666654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.87  E-value=0.00014  Score=45.91  Aligned_cols=61  Identities=23%  Similarity=0.088  Sum_probs=27.9

Q ss_pred             hhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 039029           81 STYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMI  142 (319)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (319)
                      ..+..+..++...|++++|...|++..+..+. +...|..+..+|...|++++|...+++..
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33444444444444444444444444443322 33444444444444555555544444443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.74  E-value=0.0023  Score=56.90  Aligned_cols=45  Identities=18%  Similarity=0.140  Sum_probs=23.9

Q ss_pred             hhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHH
Q 039029          161 SKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEM  211 (319)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (319)
                      ...|+++.|.++.+.+      .+...|..+...+.+.++++.|.+.|.++
T Consensus       663 l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          663 LKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            3455555555553321      24455555666666666666666655554

>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=97.71  E-value=5.5e-05  Score=61.53  Aligned_cols=91  Identities=7%  Similarity=-0.090  Sum_probs=70.7

Q ss_pred             cCCcHHHHHHHHHHHHhC---CCCCC----hhhHHHHHHHHHcCCcHHHHHHHHHHHHHc---CCCCCCcccCcchhhHH
Q 039029          197 TNGNIERAFSLLKEMDRM---KVHPD----EVTYNTLMHGRCRQGKVEEARRLLDQMKRR---GIKPDHISFNPTRLTYN  266 (319)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~~~~~~~  266 (319)
                      ..|++++|..++++..+.   -+.|+    ..+++.+..+|...|++++|..+++++++.   -..|+.   +....+++
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~H---p~~a~~l~  386 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYS---LNVASMWL  386 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSC---HHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCC---hHHHHHHH
Confidence            467899999999887542   12222    357889999999999999999999998653   223333   23447899


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHh
Q 039029          267 ALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       267 ~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      .|...|...|++++|..++++.++
T Consensus       387 nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          387 KLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999999998875

>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=97.64  E-value=0.0043  Score=48.73  Aligned_cols=64  Identities=9%  Similarity=-0.100  Sum_probs=32.5

Q ss_pred             ccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHh
Q 039029          148 PTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDR  213 (319)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (319)
                      .+..++..+...+...|++++|...+++++..+  |+...|..+...+.-.|++++|.+.+.+...
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr  338 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN  338 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            344444444444444455555555555555543  3444444445555555555555555555544

>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=97.61  E-value=0.00018  Score=58.54  Aligned_cols=96  Identities=11%  Similarity=-0.047  Sum_probs=74.4

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHhCC---CCCC----hhhHHHHHHHHHcCCcHHHHHHHHHHHHHc---CCCCCCcccCcc
Q 039029          192 IDGHCTNGNIERAFSLLKEMDRMK---VHPD----EVTYNTLMHGRCRQGKVEEARRLLDQMKRR---GIKPDHISFNPT  261 (319)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~---~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~~  261 (319)
                      +..+...|++++|..++++..+..   +.|+    ..+++.++.+|...|++++|+.++++++..   -..|+.   +..
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~H---p~~  370 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSH---PVR  370 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSC---HHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCC---hHH
Confidence            445667899999999999886532   1222    347888999999999999999999987653   222333   234


Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          262 RLTYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      ..+++.|...|...|++++|..++++..+
T Consensus       371 a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          371 GVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            47889999999999999999999998865

>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=97.50  E-value=0.0012  Score=53.81  Aligned_cols=61  Identities=8%  Similarity=0.019  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHc-----C-CCc-cHHHHHHHHHHHhhhccHHHHHHHHHHHh
Q 039029          117 TYNILINGYCRCGNAKKAFSLHDEMIHK-----G-IQP-TMLTYTSLIFVLSKQNRMIEADQLFENFL  177 (319)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (319)
                      +++.+..+|...|++++|+.++++....     | ..| ...+++.+...|...|++++|..+++++.
T Consensus       331 ~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          331 VLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            4444444555555555555544444321     1 011 12344444455555555555555444443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.49  E-value=0.00077  Score=42.10  Aligned_cols=54  Identities=22%  Similarity=0.261  Sum_probs=23.2

Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChH-HHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSI-TYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      +...|++++|...+++..+..+. +.. .+..+..++...|++++|...|++..+.
T Consensus        10 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A           10 LINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            33444444444444444433221 333 4444444444444444444444444443

>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=97.47  E-value=0.00056  Score=55.64  Aligned_cols=85  Identities=11%  Similarity=-0.062  Sum_probs=54.8

Q ss_pred             ccHHHHHHHHHHHhhC-----CC-Ccc-HHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-----CC-CCC-hhhHHHHHHH
Q 039029          164 NRMIEADQLFENFLAK-----GM-LPD-IVMFNALIDGHCTNGNIERAFSLLKEMDRM-----KV-HPD-EVTYNTLMHG  229 (319)
Q Consensus       164 ~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~~~  229 (319)
                      |++++|..++++.++.     |. .|+ ..+++.+...|...|++++|..++++..+.     |. .|+ ..+++.|...
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            4666666666655442     11 122 356777777888888888888777776432     21 122 3467778888


Q ss_pred             HHcCCcHHHHHHHHHHHHH
Q 039029          230 RCRQGKVEEARRLLDQMKR  248 (319)
Q Consensus       230 ~~~~g~~~~a~~~~~~~~~  248 (319)
                      |..+|++++|..+++++.+
T Consensus       392 ~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHH
Confidence            8888888888888877654

>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=97.36  E-value=0.034  Score=43.75  Aligned_cols=144  Identities=13%  Similarity=0.080  Sum_probs=96.7

Q ss_pred             CCCCHHhHHHHHHHHHh--cC---ChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHH---cC-----chhHHHHHHHHHh
Q 039029           41 LVPTAVTYNTLIDGYCN--KG---NLEMAFSFRDEMVKQGIMPTASTYNLLIHELLM---ER-----KMVEADDMLKEMG  107 (319)
Q Consensus        41 ~~~~~~~~~~l~~~~~~--~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~-----~~~~a~~~~~~~~  107 (319)
                      .+.+...|...+++...  .+   +..+|..+|++.++..+. ....+..+..++..   .+     ........++...
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~-~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPE-FTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            34567778777765443  33   357899999999987422 34555544444431   11     1111111222211


Q ss_pred             h-CCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHH
Q 039029          108 E-KGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIV  186 (319)
Q Consensus       108 ~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  186 (319)
                      . ...+.++.+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.+++....+  |...
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 1224578888888877888899999999999999985  677788888889999999999999999998874  4555


Q ss_pred             HHH
Q 039029          187 MFN  189 (319)
Q Consensus       187 ~~~  189 (319)
                      +|.
T Consensus       345 t~~  347 (372)
T 3ly7_A          345 TLY  347 (372)
T ss_dssp             HHH
T ss_pred             hHH
Confidence            554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.33  E-value=0.0016  Score=40.55  Aligned_cols=58  Identities=12%  Similarity=0.101  Sum_probs=37.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCccHH-HHHHHHHHHhhhccHHHHHHHHHHHhhCC
Q 039029          122 INGYCRCGNAKKAFSLHDEMIHKGIQPTML-TYTSLIFVLSKQNRMIEADQLFENFLAKG  180 (319)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (319)
                      ...+...|++++|...+++..+.. +.+.. .+..+..++...|++++|...|++..+..
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            445566677777777777776653 33455 66666666777777777777777666653

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.27  E-value=0.0031  Score=38.94  Aligned_cols=65  Identities=11%  Similarity=0.017  Sum_probs=32.9

Q ss_pred             ChhhHHHHHHHHHcCCc---HHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          219 DEVTYNTLMHGRCRQGK---VEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       219 ~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      +...+..+..++...++   .++|..++++.++.  .|+.      ......+...+.+.|++++|+..|+++.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~--dp~~------~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQL--EPYN------EAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH--CTTC------HHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--CcCC------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            44444445544433332   45555555555553  2222      244555555555566666666666665554

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.24  E-value=0.019  Score=39.87  Aligned_cols=130  Identities=12%  Similarity=0.133  Sum_probs=89.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcH
Q 039029          122 INGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNI  201 (319)
Q Consensus       122 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (319)
                      .......|+++.|.++.+++      .+...|..+.......|+++-|.+.|.+...         +..+.-.|.-.|+.
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            45567789999999887665      3678899999999999999999999987543         33445556667887


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHH
Q 039029          202 ERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLA  281 (319)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  281 (319)
                      ++...+-+.....|      -++.-...+...|+++++.++|.+.-+                |..........|-.+.|
T Consensus        77 e~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r----------------~~eA~~~A~t~g~~~~a  134 (177)
T 3mkq_B           77 NKLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGS----------------LPLAYAVAKANGDEAAA  134 (177)
T ss_dssp             HHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC----------------HHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCC----------------hHHHHHHHHHcCcHHHH
Confidence            77666665555433      245566667788999999998865321                22222223346667778


Q ss_pred             HHHHHHH
Q 039029          282 EELLREM  288 (319)
Q Consensus       282 ~~~~~~~  288 (319)
                      .++.+++
T Consensus       135 ~~~~~~~  141 (177)
T 3mkq_B          135 SAFLEQA  141 (177)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHh
Confidence            8877665

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.23  E-value=0.031  Score=49.68  Aligned_cols=76  Identities=13%  Similarity=0.008  Sum_probs=45.8

Q ss_pred             HHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh
Q 039029           84 NLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ  163 (319)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (319)
                      ..++..+.+.|..+.|.++.+.         .   ..-.......|+++.|+++.+.+      .+...|..+...+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~---------~---~~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD---------Q---DQKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC---------H---HHHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCC---------c---chheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHc
Confidence            5555666666666666654421         1   11123345567777777664332      3556777777777777


Q ss_pred             ccHHHHHHHHHHHh
Q 039029          164 NRMIEADQLFENFL  177 (319)
Q Consensus       164 ~~~~~a~~~~~~~~  177 (319)
                      ++++.|.+.|.++.
T Consensus       695 ~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          695 FNFKLAIEAFTNAH  708 (814)
T ss_dssp             TCHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHcc
Confidence            77777777777653

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.08  E-value=0.011  Score=36.42  Aligned_cols=48  Identities=13%  Similarity=0.043  Sum_probs=23.9

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           26 LEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQ   74 (319)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   74 (319)
                      .++|..++++..+.... ++.....+...+.+.|++++|+..|+.+.+.
T Consensus        25 ~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A           25 TDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            45555555555544322 4444444555555555555555555555544

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.08  E-value=0.0041  Score=42.03  Aligned_cols=83  Identities=14%  Similarity=0.097  Sum_probs=54.0

Q ss_pred             cHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCC---cHHHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHcCCcHHHH
Q 039029          165 RMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNG---NIERAFSLLKEMDRMKVHP--DEVTYNTLMHGRCRQGKVEEA  239 (319)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a  239 (319)
                      ....+.+.|.+....+. ++..+...+..++++++   +.+++..+|+.+.+.+ .|  ....+-.+.-+|.+.|++++|
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            34455555665555444 46666666777777776   5567777777776653 23  244555566777788888888


Q ss_pred             HHHHHHHHHc
Q 039029          240 RRLLDQMKRR  249 (319)
Q Consensus       240 ~~~~~~~~~~  249 (319)
                      .++++.+++.
T Consensus        91 ~~y~~~lL~i  100 (152)
T 1pc2_A           91 LKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            8888887774

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.04  E-value=0.012  Score=37.13  Aligned_cols=30  Identities=17%  Similarity=0.228  Sum_probs=14.9

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029          115 SITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      ...+..+..++.+.|+++.|...++++...
T Consensus        46 ~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A           46 VSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            344444555555555555555555555443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.99  E-value=0.012  Score=37.07  Aligned_cols=62  Identities=11%  Similarity=0.018  Sum_probs=28.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcC------CCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhC
Q 039029           48 YNTLIDGYCNKGNLEMAFSFRDEMVKQG------IMPTASTYNLLIHELLMERKMVEADDMLKEMGEK  109 (319)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  109 (319)
                      +..+...+...+++..|..+|+...+..      ..+....+..+..++.+.|+++.|...+++..+.
T Consensus         8 c~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            8 CFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            3344444444555555555544444320      0122334445555555555555555555555443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.91  E-value=0.014  Score=39.41  Aligned_cols=67  Identities=18%  Similarity=0.096  Sum_probs=31.5

Q ss_pred             cChhhHHHHHHHHHHcC---chhHHHHHHHHHhhCC-CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           78 PTASTYNLLIHELLMER---KMVEADDMLKEMGEKG-IVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus        78 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      ++..+...+..++++.+   +.++++.+++++.+.. +.-+...+-.+.-++.+.|++++|.+.++.+.+.
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~i  100 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  100 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            34444444444555544   3445555555554432 1012333344444455555555555555555554

>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=96.74  E-value=0.032  Score=37.35  Aligned_cols=113  Identities=11%  Similarity=0.034  Sum_probs=62.3

Q ss_pred             CHHhHHHHHHHHHhcCCh------HHHHHHHHHHHHcCCCcChh-hHHHHHH------HHHHcCchhHHHHHHHHHhhCC
Q 039029           44 TAVTYNTLIDGYCNKGNL------EMAFSFRDEMVKQGIMPTAS-TYNLLIH------ELLMERKMVEADDMLKEMGEKG  110 (319)
Q Consensus        44 ~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~l~~------~~~~~~~~~~a~~~~~~~~~~~  110 (319)
                      |..+|-..+...-+.|++      ++..++|++.... ++|+.. .+...+.      .+...++.++|.++|+.+.+.+
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            444454455444444555      5555666655553 233221 1111111      1123467777888887776543


Q ss_pred             CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHH
Q 039029          111 IVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFV  159 (319)
Q Consensus       111 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  159 (319)
                      -.- ...|......-.+.|+...|.+++......+.. +...+...+.-
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k-~~~~le~a~~n  137 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV-PLEMLEIALRN  137 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB-CHHHHHHHHHH
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC-cHHHHHHHHHh
Confidence            332 666666667777788888888888887776643 34444444443

>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=96.69  E-value=0.029  Score=42.38  Aligned_cols=88  Identities=15%  Similarity=0.090  Sum_probs=67.2

Q ss_pred             cHHHHHHHHHHHhhCCCC-ccHHHHHHHHHHHhcC-----CcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcC-CcHH
Q 039029          165 RMIEADQLFENFLAKGML-PDIVMFNALIDGHCTN-----GNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQ-GKVE  237 (319)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~  237 (319)
                      ....|...+++.++.... .+...|..+...|...     |+.++|.+.|++..+.+..-+..++..+...++.. |+.+
T Consensus       178 ~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          178 TVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            356777788888776322 1256788888888884     99999999999998865222477778888888874 9999


Q ss_pred             HHHHHHHHHHHcCCC
Q 039029          238 EARRLLDQMKRRGIK  252 (319)
Q Consensus       238 ~a~~~~~~~~~~~~~  252 (319)
                      ++.+.+++.+.....
T Consensus       258 ~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          258 GFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHcCCCC
Confidence            999999999986544

>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=96.67  E-value=0.071  Score=35.72  Aligned_cols=65  Identities=12%  Similarity=0.152  Sum_probs=47.2

Q ss_pred             hcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHH
Q 039029          127 RCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALID  193 (319)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (319)
                      ..++.++|.++|+.+.+.. +--...|......-.++|++..|.+++...+..+..| ...+...+.
T Consensus        72 ei~D~d~aR~vy~~a~~~h-KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~-~~~le~a~~  136 (161)
T 4h7y_A           72 AIQEPDDARDYFQMARANC-KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP-LEMLEIALR  136 (161)
T ss_dssp             HHHCGGGCHHHHHHHHHHC-TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC-HHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHHh-HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc-HHHHHHHHH
Confidence            3478899999999887763 2236666666666778899999999999998887664 444544444

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.67  E-value=2.7e-06  Score=68.19  Aligned_cols=252  Identities=14%  Similarity=0.122  Sum_probs=157.7

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      .+..|..|..+..+.++..+|++-|-   +.   -|+..|..++..+.+.|.+++..+++...++..  .+...=+.|+-
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyI---kA---~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~  124 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYI---KA---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIF  124 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSC---CC---SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHH---hC---CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHH
Confidence            35567778888888888888877662   21   355678888999999999999888887776653  24445567888


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc--------------------CCCc
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK--------------------GIQP  148 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------------------~~~~  148 (319)
                      +|++.++..+..+++.       .||......+..-|...|.++.|.-+|..+...                    .-..
T Consensus       125 ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAn  197 (624)
T 3lvg_A          125 ALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKAN  197 (624)
T ss_dssp             HHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCC
T ss_pred             HHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            8988888776544332       245555666677777777777766666544211                    0123


Q ss_pred             cHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 039029          149 TMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMH  228 (319)
Q Consensus       149 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (319)
                      ++.||..+-.+|...+.+.-|.-.--.++-.   +|  -...++..|...|.+++.+.+++.-.... +.....|+-|.-
T Consensus       198 s~ktWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaI  271 (624)
T 3lvg_A          198 STRTWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAI  271 (624)
T ss_dssp             SSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHH
T ss_pred             ChhHHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHH
Confidence            5678888888888877776654443333322   11  12346667778888888888887765432 456677888877


Q ss_pred             HHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHH
Q 039029          229 GRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAE  282 (319)
Q Consensus       229 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  282 (319)
                      .|++- ++++..+.++..-..---|.....--....|..++-.|.+-.+++.|.
T Consensus       272 LYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          272 LYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            77765 455555544432221111111111123356777777777777777665

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.46  E-value=0.092  Score=34.46  Aligned_cols=61  Identities=15%  Similarity=0.105  Sum_probs=25.0

Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC
Q 039029          154 TSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMK  215 (319)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (319)
                      ...+..+...|..++..+++..+.. +.+|++...-.+..+|.+.|+..++.+++.++-+.|
T Consensus        95 d~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           95 NKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            3333444444444444444444322 122334444444444444444444444444444433

>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=96.44  E-value=0.062  Score=40.65  Aligned_cols=106  Identities=16%  Similarity=0.111  Sum_probs=78.3

Q ss_pred             hHHHHHHHHHHHHcCCCcc---HHHHHHHHHHHhh-----hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcC-CcH
Q 039029          131 AKKAFSLHDEMIHKGIQPT---MLTYTSLIFVLSK-----QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTN-GNI  201 (319)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~  201 (319)
                      ...|...+++..+.  .|+   ...+..+...|.+     .|+.+.|.+.|++.++.+..-+..++......++.. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            45777778888776  344   5688889988988     499999999999999976543467777788888885 999


Q ss_pred             HHHHHHHHHHHhCCCC--CChhhHHHHHHHHHcCCcHHHHHHHHHHH
Q 039029          202 ERAFSLLKEMDRMKVH--PDEVTYNTLMHGRCRQGKVEEARRLLDQM  246 (319)
Q Consensus       202 ~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  246 (319)
                      +.+.+.+++.......  |+....+.+        .-++|..++.++
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~lan~~--------~q~eA~~LL~~~  295 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLLVIL--------SQKRARWLKAHV  295 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHHHHH--------HHHHHHHHHHTH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHHHHH--------HHHHHHHHHHHh
Confidence            9999999999987655  554433332        234555555544

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.33  E-value=0.11  Score=34.07  Aligned_cols=141  Identities=12%  Similarity=0.080  Sum_probs=90.2

Q ss_pred             HhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHH
Q 039029           20 MCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEA   99 (319)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   99 (319)
                      +.-.|..++..++..+....   .+..-+|-++--....-+-+-..++++.+-+.   .|.          ..+|+....
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrV   80 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSV   80 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHH
Confidence            34567888888888877764   35555666666666666666666666665432   121          123333333


Q ss_pred             HHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC
Q 039029          100 DDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK  179 (319)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (319)
                      ...+-.+-     .+.......+......|.-++..+++..+... .+|++.....+..+|.+.|+..++.+++.++-+.
T Consensus        81 i~C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k  154 (172)
T 1wy6_A           81 VECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKK  154 (172)
T ss_dssp             HHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            33333221     24455666677778888888888888875443 3677788888888888888888888888888777


Q ss_pred             CCC
Q 039029          180 GML  182 (319)
Q Consensus       180 ~~~  182 (319)
                      |.+
T Consensus       155 G~k  157 (172)
T 1wy6_A          155 GEK  157 (172)
T ss_dssp             TCH
T ss_pred             hhH
Confidence            754

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.28  E-value=0.16  Score=35.31  Aligned_cols=45  Identities=22%  Similarity=0.292  Sum_probs=20.3

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHH
Q 039029           56 CNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEM  106 (319)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  106 (319)
                      ...|+++.|.++.+.+      .+...|..|.......|+++-|.+.|.+.
T Consensus        16 L~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHh
Confidence            3444444444444332      13344444444444444444444444443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.23  E-value=0.17  Score=44.12  Aligned_cols=128  Identities=16%  Similarity=0.060  Sum_probs=74.0

Q ss_pred             HHHHHHHHhhhcc-HHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCc-HHHHHHHHHHHHhC------CCCCCh----
Q 039029          153 YTSLIFVLSKQNR-MIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGN-IERAFSLLKEMDRM------KVHPDE----  220 (319)
Q Consensus       153 ~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~------~~~~~~----  220 (319)
                      ...++..+...++ .+.|..+++++......-+......++......++ --+|..++.+..+.      ..++..    
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~  330 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSA  330 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccc
Confidence            3445555555555 46677778777765322222222233333333322 22344444333210      111111    


Q ss_pred             -------hhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHH
Q 039029          221 -------VTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREM  288 (319)
Q Consensus       221 -------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  288 (319)
                             .....-...+...|+++.|+++.++...  ..|+.+      .+|..|..+|...|+++.|+-.++-+
T Consensus       331 ~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~--~aPseF------~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          331 RLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTE--LALDSF------ESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSCH------HHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             cccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHh--cCchhh------HHHHHHHHHHHHhccHHHHHHHHhcC
Confidence                   1222224556778999999999999877  456665      78999999999999999999888765

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.17  E-value=0.082  Score=34.34  Aligned_cols=84  Identities=13%  Similarity=0.055  Sum_probs=49.4

Q ss_pred             ccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHH---HHHHHHHHHhCCCCC--ChhhHHHHHHHHHcCCcHHH
Q 039029          164 NRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIER---AFSLLKEMDRMKVHP--DEVTYNTLMHGRCRQGKVEE  238 (319)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~  238 (319)
                      .....+.+.|......+. ++..+-..+..++.++.+...   ++.+++.+.+.+ .|  .....-.+.-++.+.|++++
T Consensus        15 ~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHH
Confidence            334444555554444333 455555556666666665444   667777766543 12  23344456667777788888


Q ss_pred             HHHHHHHHHHc
Q 039029          239 ARRLLDQMKRR  249 (319)
Q Consensus       239 a~~~~~~~~~~  249 (319)
                      |.++++.+++.
T Consensus        93 A~~~~~~lL~~  103 (126)
T 1nzn_A           93 ALKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            88888777774

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.91  E-value=0.081  Score=34.38  Aligned_cols=81  Identities=17%  Similarity=0.011  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhH---HHHHHHHHhhCCCC-CChHHHHHHHHHHHhcCChHHHHHHH
Q 039029           63 MAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVE---ADDMLKEMGEKGIV-PDSITYNILINGYCRCGNAKKAFSLH  138 (319)
Q Consensus        63 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~  138 (319)
                      .+.+-|......|. ++..+-..+..++.+......   ++.+++.+...+.+ -.....-.|.-++.+.|++++|.+.+
T Consensus        19 ~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~   97 (126)
T 1nzn_A           19 KFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYV   97 (126)
T ss_dssp             HHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            33444444433332 444444455555555544333   55555555544311 12233334445556666666666666


Q ss_pred             HHHHHc
Q 039029          139 DEMIHK  144 (319)
Q Consensus       139 ~~~~~~  144 (319)
                      +.+.+.
T Consensus        98 ~~lL~~  103 (126)
T 1nzn_A           98 RGLLQT  103 (126)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            666554

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.69  E-value=0.087  Score=45.90  Aligned_cols=128  Identities=13%  Similarity=0.013  Sum_probs=81.1

Q ss_pred             HHHHHHHhccCC-hHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCC-hHHHHHHHHHHHHc------CCCcC-h----
Q 039029           14 GSFVSGMCKEGR-LEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGN-LEMAFSFRDEMVKQ------GIMPT-A----   80 (319)
Q Consensus        14 ~~li~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~------~~~~~-~----   80 (319)
                      ..++..+...++ .+.|+.+|+.+.......+......++..+...++ --+|.+++.+.++.      ..++. .    
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            345555555666 58899999999886422222222233333333332 23455555554421      11111 1    


Q ss_pred             ------hhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 039029           81 ------STYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMI  142 (319)
Q Consensus        81 ------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  142 (319)
                            .....-...+...|+++-|+++-++.....+. +-.+|..|..+|...|+++.|+-.++.+.
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                  12222244567789999999999999887443 78899999999999999999999998873

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.87  E-value=2.1  Score=38.51  Aligned_cols=257  Identities=13%  Similarity=0.029  Sum_probs=128.7

Q ss_pred             HhccCChHHHHHHHHHHHhCCCCCCH--HhHHHHHHHHHhcCChHHHHHHHHHHHHcCC-------CcChhhHHHHHHHH
Q 039029           20 MCKEGRLEEASRMLEQMKENGLVPTA--VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGI-------MPTASTYNLLIHEL   90 (319)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~l~~~~   90 (319)
                      ....|+.++++.++......+...+.  ..-..+.-+....|..+++..++...+...-       .+....-..+.-++
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            44566667776666554432101122  2223333445566666667777766655321       01111112222223


Q ss_pred             HHcCc-hhHHHHHHHHHhhCCCCCChHHHH--HHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHH--HHHhhhcc
Q 039029           91 LMERK-MVEADDMLKEMGEKGIVPDSITYN--ILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLI--FVLSKQNR  165 (319)
Q Consensus        91 ~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~  165 (319)
                      +-.|. -+++.+.+..+....- +......  .+...+...|+.+.+..++..+.+..   +..+...+.  -++...|+
T Consensus       464 a~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~  539 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGR  539 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTC
T ss_pred             HhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCC
Confidence            32332 2355555555554311 1111112  23344556677777777777766542   223333333  33446678


Q ss_pred             HHHHHHHHHHHhhCCCCccHHHH--HHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHH
Q 039029          166 MIEADQLFENFLAKGMLPDIVMF--NALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLL  243 (319)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  243 (319)
                      .+.+..+.+.+... ..|....-  .++.-+|+..|+......++..+.+.. ..+......+.-++...|+.+.+.+++
T Consensus       540 ~e~~~~li~~L~~~-~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          540 QELADDLITKMLAS-DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             hHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            78888787777654 22222221  234456778888887777888877632 223333333334444566666666666


Q ss_pred             HHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCch-hHHHHHHHHHHh
Q 039029          244 DQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEG-DLAEELLREMVS  290 (319)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~  290 (319)
                      ..+.+.+        .|.+..-..+.-+....|.. .+|.+++..+..
T Consensus       618 ~~L~~~~--------d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          618 QLLSKSH--------NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             TTGGGCS--------CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHhcC--------CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            6554432        12223333344444445554 567777777764

>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=94.66  E-value=0.27  Score=39.41  Aligned_cols=70  Identities=10%  Similarity=0.025  Sum_probs=42.8

Q ss_pred             HHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHH-----hCCCCCChhhH
Q 039029          153 YTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMD-----RMKVHPDEVTY  223 (319)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~  223 (319)
                      ...++..+...|+++++...+..+.... +.+...+..++.++.+.|+..+|.+.|+.+.     +.|+.|+..+-
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            3344555566677777766666665543 2356666777777777777777777666652     34666665543

>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=94.62  E-value=0.25  Score=39.66  Aligned_cols=73  Identities=14%  Similarity=0.131  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhh-----CCCCccHHHHHH
Q 039029          117 TYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLA-----KGMLPDIVMFNA  190 (319)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~  190 (319)
                      ....++..+...|++.++...+..+.... +.+...+..++.++.+.|+..+|.+.|+.+.+     .|+.|+..+-..
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l  250 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  250 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            34556777788888888888888887764 66778888888888888888888888887654     378887765443

>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=94.21  E-value=0.54  Score=28.95  Aligned_cols=63  Identities=11%  Similarity=0.230  Sum_probs=40.7

Q ss_pred             cHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 039029          165 RMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMH  228 (319)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (319)
                      +.-+..+-++.+......|++.+..+.+++|.+.+++.-|.++|+.++..- .+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            344566666777777777777777777777777777777777777765432 223344555543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.67  E-value=2.5  Score=34.64  Aligned_cols=187  Identities=10%  Similarity=0.058  Sum_probs=85.6

Q ss_pred             CChHHHHHHHHHHHhC-----CCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHH----HHcC
Q 039029           24 GRLEEASRMLEQMKEN-----GLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHEL----LMER   94 (319)
Q Consensus        24 ~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~   94 (319)
                      |+++.|++.+-.+.+.     +..........++..|...++++...+.+.-+.+.... .......+++.+    ....
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~q-lk~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQ-LKLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTT-SHHHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHhcCC
Confidence            6677777776655532     23334556777778888888888777766655443211 111222222222    1122


Q ss_pred             chhHH--HHHHHHHhh---CCCCC---ChHHHHHHHHHHHhcCChHHHHHHHHHHHHc--CCCcc---HHHHHHHHHHHh
Q 039029           95 KMVEA--DDMLKEMGE---KGIVP---DSITYNILINGYCRCGNAKKAFSLHDEMIHK--GIQPT---MLTYTSLIFVLS  161 (319)
Q Consensus        95 ~~~~a--~~~~~~~~~---~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~  161 (319)
                      ..+..  ..+.+.+..   ..+..   .......|...+...|++.+|..++..+...  +....   ...+...++.|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            21111  111111110   00111   0112234556666666666666666665432  11111   134444455566


Q ss_pred             hhccHHHHHHHHHHHhh----CCCCcc--HHHHHHHHHHHhcCCcHHHHHHHHHHH
Q 039029          162 KQNRMIEADQLFENFLA----KGMLPD--IVMFNALIDGHCTNGNIERAFSLLKEM  211 (319)
Q Consensus       162 ~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (319)
                      ..+++..|..++.++..    ....|+  ...+...+..+...+++.+|...|.++
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            66666666666555431    111222  123334444445555555555544444

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.66  E-value=2.6  Score=39.27  Aligned_cols=62  Identities=6%  Similarity=-0.119  Sum_probs=29.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH----HHHHHHHHHHhhhccHHHHHHHHHHHhhC
Q 039029          118 YNILINGYCRCGNAKKAFSLHDEMIHKGIQPTM----LTYTSLIFVLSKQNRMIEADQLFENFLAK  179 (319)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (319)
                      |..++..+-+.+.++.+.+.-....+...+.+.    ..|..+.+.+...|++++|...+-.+...
T Consensus       902 Y~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~  967 (1139)
T 4fhn_B          902 YLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTT  967 (1139)
T ss_dssp             HHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCH
Confidence            444555555555555555555444433111111    13445555555555555555555444443

>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=93.54  E-value=0.97  Score=29.58  Aligned_cols=73  Identities=12%  Similarity=0.079  Sum_probs=43.1

Q ss_pred             CCccHHHHHHHHHHHhcCCc---HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCC
Q 039029          181 MLPDIVMFNALIDGHCTNGN---IERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDH  255 (319)
Q Consensus       181 ~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  255 (319)
                      ..|+..+--.+..++.++.+   ..+++.+++.+.+.+..-....+-.+.-++.+.|++++|.++.+.+++  +.|+.
T Consensus        36 ~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~N  111 (134)
T 3o48_A           36 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  111 (134)
T ss_dssp             GGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTTC
T ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCCC
Confidence            34455555555555555543   345677777766544111234455566777777788888877777776  34443

>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=93.23  E-value=1.1  Score=29.31  Aligned_cols=63  Identities=11%  Similarity=0.230  Sum_probs=41.8

Q ss_pred             cHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 039029          165 RMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMH  228 (319)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (319)
                      +.-+..+-++.+......|++.+..+.+++|.+.+|+.-|.++|+-++..- .+...+|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHH
Confidence            334556666677777777777778888888888888888888777765532 333445655554

>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=93.06  E-value=1.2  Score=29.18  Aligned_cols=46  Identities=13%  Similarity=0.094  Sum_probs=19.8

Q ss_pred             HHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039029           98 EADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIH  143 (319)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  143 (319)
                      +++.+++.+.+.+..-....+-.|.-++.+.|++++|.+..+.+.+
T Consensus        61 ~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           61 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             HHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            3444444444333211233333444444555555555555554444

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=92.66  E-value=1  Score=30.77  Aligned_cols=68  Identities=7%  Similarity=-0.054  Sum_probs=38.8

Q ss_pred             hHHHHHHHHHcCCcHHHHHHHHHHHHHcC-----------------CCCCCcccCcchhhHHHHHHHHHhcCchhHHHHH
Q 039029          222 TYNTLMHGRCRQGKVEEARRLLDQMKRRG-----------------IKPDHISFNPTRLTYNALIQGLCKNQEGDLAEEL  284 (319)
Q Consensus       222 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-----------------~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  284 (319)
                      ++..+..++...|++..|...|+++++..                 ..|+.....++...--.+..+|.+.|++++|+.+
T Consensus        65 ~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~  144 (167)
T 3ffl_A           65 LLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAI  144 (167)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHH
Confidence            34445566666666666666666643210                 0111111112234445588899999999999998


Q ss_pred             HHHHH
Q 039029          285 LREMV  289 (319)
Q Consensus       285 ~~~~~  289 (319)
                      ++.+-
T Consensus       145 Le~Ip  149 (167)
T 3ffl_A          145 LDGIP  149 (167)
T ss_dssp             HHTSC
T ss_pred             HhcCC
Confidence            87653

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=92.65  E-value=1.1  Score=30.61  Aligned_cols=128  Identities=13%  Similarity=0.043  Sum_probs=67.2

Q ss_pred             CCCCCCcc--cHHHHHHHHhccCChHHHHHHHHHHHhCC-CCCCH-------HhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 039029            4 RGVQPDSY--TYGSFVSGMCKEGRLEEASRMLEQMKENG-LVPTA-------VTYNTLIDGYCNKGNLEMAFSFRDEMVK   73 (319)
Q Consensus         4 ~g~~p~~~--~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~   73 (319)
                      .|+-|-..  .+-.-+..+...|.++.|+-+.+.+.... ..|++       .++..+..++...+++.+|...|++.++
T Consensus        12 ~~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           12 SGLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            45555433  34556778889999999998888765431 12221       2566778889999999999999999754


Q ss_pred             cC--CCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           74 QG--IMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus        74 ~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      ..  +.-+......+.   . ......         ......+...--.+..+|.+.+++++|+.+++.+..+
T Consensus        92 ~~k~l~k~~s~~~~~~---~-~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A           92 QKKALSKTSKVRPSTG---N-SASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             HHHCC---------------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             HHHHHhcCCCcccccc---c-cCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            31  111111111110   0 000000         0011223444445667777777777777777665443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=92.43  E-value=0.0063  Score=49.45  Aligned_cols=187  Identities=14%  Similarity=0.079  Sum_probs=131.0

Q ss_pred             CCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHH
Q 039029            8 PDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLI   87 (319)
Q Consensus         8 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (319)
                      -|+..|..+|..+.+.|.+++-+..+...++..  .++.+=+.++-+|++.++..+..+++.       .|+..-...+.
T Consensus        81 ~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~iq~VG  151 (624)
T 3lvg_A           81 DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVG  151 (624)
T ss_dssp             SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHH
Confidence            356778899999999999999999887766542  355667789999999998766544432       35666666777


Q ss_pred             HHHHHcCchhHHHHHHHHHhhCC--------------------CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 039029           88 HELLMERKMVEADDMLKEMGEKG--------------------IVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQ  147 (319)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  147 (319)
                      .-|...|.++.|.-+|..+....                    -..++.||..+-.+|...+++.-|.-.--.+.-.   
T Consensus       152 Drcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvh---  228 (624)
T 3lvg_A          152 DRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH---  228 (624)
T ss_dssp             HHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---
T ss_pred             HHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhccc---
Confidence            77777777777776665542210                    1236788999999999999988776544443321   


Q ss_pred             ccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHH
Q 039029          148 PTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKE  210 (319)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (319)
                        ..-...++..|...|.+++.+.+++.-.... ......|+.|.-.|++- ++++..+.++.
T Consensus       229 --adeL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeKlmEHlkl  287 (624)
T 3lvg_A          229 --ADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLEL  287 (624)
T ss_dssp             --SSCCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTHHHHHHTT
T ss_pred             --HHHHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHHHHHHHHH
Confidence              1223445677888999999999999877542 23678888888888776 44555544443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=91.76  E-value=8.4  Score=35.97  Aligned_cols=193  Identities=17%  Similarity=0.158  Sum_probs=110.5

Q ss_pred             HHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHH--------------------Hc
Q 039029           85 LLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMI--------------------HK  144 (319)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------------------~~  144 (319)
                      .++..+...+..+.+.++..-..     .++..--.+..++...|++++|...|.+..                    ..
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~~-----~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWLN-----SDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHSC-----CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcc-----CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            44555566666666555443322     133333445666677777777777765431                    11


Q ss_pred             C--CCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCcc----HHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCC
Q 039029          145 G--IQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPD----IVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHP  218 (319)
Q Consensus       145 ~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  218 (319)
                      .  ...-..-|..++..+.+.+.++.+.++-...++.....+    ...|..+.+.+...|++++|...+..+.....  
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--  969 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--  969 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--
Confidence            0  122345678888888889999888888776665422212    23678888999999999999988888766543  


Q ss_pred             ChhhHHHHHHHHHcCCc------------HHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHH-H
Q 039029          219 DEVTYNTLMHGRCRQGK------------VEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEEL-L  285 (319)
Q Consensus       219 ~~~~~~~l~~~~~~~g~------------~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~-~  285 (319)
                      -......|+...+..|.            .++..+++..-.+....+..     .+.-|..|=.-+...|++.+|-.+ |
T Consensus       970 r~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~-----~p~Yy~iLYs~ri~r~dyR~AA~vmY 1044 (1139)
T 4fhn_B          970 KKSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVES-----QPCWYNILFSWRYKHQNYRDAAAIIY 1044 (1139)
T ss_dssp             CHHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCC-----STHHHHHHHHHHHHHHTTSCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCcccc-----CCCHHHHhHhhhhccCChHHHHHHHH
Confidence            34455666665555544            44444444332221101111     012345555555677888776554 5


Q ss_pred             HHHH
Q 039029          286 REMV  289 (319)
Q Consensus       286 ~~~~  289 (319)
                      +.+.
T Consensus      1045 e~~~ 1048 (1139)
T 4fhn_B         1045 EKLS 1048 (1139)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5443

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.20  E-value=3.9  Score=33.30  Aligned_cols=99  Identities=11%  Similarity=-0.125  Sum_probs=69.7

Q ss_pred             hhHHHHHHHHHHcCchhHHHHHHHHHhhC--CCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc---CCCccHHH--H
Q 039029           81 STYNLLIHELLMERKMVEADDMLKEMGEK--GIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK---GIQPTMLT--Y  153 (319)
Q Consensus        81 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~  153 (319)
                      .+...+...|.+.|+.+.|.+.+.++...  +...-...+-.+++.+...+++..+...+.+....   +-.++...  .
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            36678889999999999999999999864  23334567778889999999999999999888653   22222211  1


Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHhhC
Q 039029          154 TSLIFVLSKQNRMIEADQLFENFLAK  179 (319)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (319)
                      ..-+..+...+++..|...|-+....
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            11122344678888888877766543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.52  E-value=6.3  Score=32.26  Aligned_cols=171  Identities=14%  Similarity=0.134  Sum_probs=97.1

Q ss_pred             CCCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHH----HhcCChHHH--HHHHHHHHHc--C-CC
Q 039029            7 QPDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGY----CNKGNLEMA--FSFRDEMVKQ--G-IM   77 (319)
Q Consensus         7 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~a--~~~~~~~~~~--~-~~   77 (319)
                      .-.......++..|...|+|+...+.+..+.+.-.. .......+++.+    ......+..  ..+.+.....  | +-
T Consensus        53 ~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~q-lk~ai~~~V~~~~~~l~~~~~~d~~~~~~~i~~l~~vte~kif  131 (445)
T 4b4t_P           53 ASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQ-LKLSIQYMIQKVMEYLKSSKSLDLNTRISVIETIRVVTENKIF  131 (445)
T ss_dssp             TTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTT-SHHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHCCSSSSSCCCC
T ss_pred             hhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHhccchH
Confidence            334555677888888888888887777766543222 122223333332    223332221  1111111110  1 11


Q ss_pred             cC---hhhHHHHHHHHHHcCchhHHHHHHHHHhhC--CCCCC---hHHHHHHHHHHHhcCChHHHHHHHHHHHHc----C
Q 039029           78 PT---ASTYNLLIHELLMERKMVEADDMLKEMGEK--GIVPD---SITYNILINGYCRCGNAKKAFSLHDEMIHK----G  145 (319)
Q Consensus        78 ~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~  145 (319)
                      ..   ......|...+...|++.+|.+++..+...  +....   ...+...++.|...+++.+|..++.++...    .
T Consensus       132 lE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~  211 (445)
T 4b4t_P          132 VEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNP  211 (445)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccC
Confidence            10   112245677788889999999988888643  22111   345666678888889999998888876432    1


Q ss_pred             CCcc--HHHHHHHHHHHhhhccHHHHHHHHHHHhh
Q 039029          146 IQPT--MLTYTSLIFVLSKQNRMIEADQLFENFLA  178 (319)
Q Consensus       146 ~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (319)
                      .+|+  ...+...+..+...+++.+|.+.|.++..
T Consensus       212 ~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          212 KYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            1222  13455666667777888887777766654

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=90.37  E-value=2.7  Score=27.88  Aligned_cols=72  Identities=13%  Similarity=0.091  Sum_probs=45.5

Q ss_pred             CccHHHHHHHHHHHhcCCc---HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCC
Q 039029          182 LPDIVMFNALIDGHCTNGN---IERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDH  255 (319)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  255 (319)
                      .|+..+--.+..++.++.+   ..++..+++.+.+.+..-.....-.+.-++.+.|++++|.++.+.+++  +.|+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~--~eP~n  110 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  110 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH--TCCCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCCc
Confidence            4566655556666666654   446777777776643222334445566777888888888888888887  34543

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.15  E-value=5.1  Score=32.61  Aligned_cols=98  Identities=12%  Similarity=-0.052  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc--CCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhC---CCCccHHH--H
Q 039029          116 ITYNILINGYCRCGNAKKAFSLHDEMIHK--GIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAK---GMLPDIVM--F  188 (319)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~  188 (319)
                      .+...+...|.+.|++++|.+.+.++...  +..--...+..+++.+...+++..+...+.++...   +..|+...  .
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            36678899999999999999999999875  22334567888889999999999999999887543   33333321  1


Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHh
Q 039029          189 NALIDGHCTNGNIERAFSLLKEMDR  213 (319)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~  213 (319)
                      ..-+..+...+++..|...|-+...
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhc
Confidence            1122334567889988888877644

>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=89.87  E-value=2.3  Score=26.25  Aligned_cols=58  Identities=10%  Similarity=0.104  Sum_probs=48.3

Q ss_pred             HHHhcCC-cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          193 DGHCTNG-NIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       193 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      ..+-+.. |.-+..+-++.+...++.|++.+..+.+++|.+.+++.-|.++|+.++.+.
T Consensus        17 ~~F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~   75 (109)
T 1v54_E           17 TYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA   75 (109)
T ss_dssp             HHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT
T ss_pred             HHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            3333444 556677888888888999999999999999999999999999999988763

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=89.81  E-value=3.1  Score=27.64  Aligned_cols=67  Identities=12%  Similarity=0.045  Sum_probs=29.0

Q ss_pred             cChhhHHHHHHHHHHcCc---hhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           78 PTASTYNLLIHELLMERK---MVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      |+..+--.+..++.+...   ..+++.+++.+...+..-.....-.|.-++.+.|++++|.+..+.+.+.
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            344443344444444332   2334444444444332222233333444555555555555555555543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=89.67  E-value=5.1  Score=29.97  Aligned_cols=117  Identities=16%  Similarity=0.129  Sum_probs=72.1

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--cChhhHHHHHHHHHHcC
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM--PTASTYNLLIHELLMER   94 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~   94 (319)
                      +..+.+.|++++++.....-.+..+ .|...-..+++.+|-.|++++|.+-++...+....  |....|..+|.+     
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 WKNALSEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA-----   77 (273)
T ss_dssp             HHHHTTTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH-----
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHH-----
Confidence            3456788999999988888777643 37777888999999999999999888888776321  122233333332     


Q ss_pred             chhHHHHHHHHHhhCCCC-----CChHHHHHHHHHH--HhcCChHHHHHHHHHHHHc
Q 039029           95 KMVEADDMLKEMGEKGIV-----PDSITYNILINGY--CRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~  144 (319)
                           +..=.++..-+-.     ....-...++.+.  ...|+.++|..+-.++.+.
T Consensus        78 -----E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           78 -----AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             -----HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence                 2222222222111     1222333444443  3458888888888877664

>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=87.43  E-value=6.1  Score=28.07  Aligned_cols=57  Identities=16%  Similarity=0.111  Sum_probs=42.3

Q ss_pred             CCcHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCC
Q 039029          198 NGNIERAFSLLKEMDRMKVHPD-EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPD  254 (319)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  254 (319)
                      .+......++|..|...|+-.. ...|......+...|++.+|.++|+.-++.+..|-
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~  149 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPY  149 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            4446678888888877665433 44677788888888888888888888888776653

>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=86.22  E-value=5.4  Score=26.21  Aligned_cols=63  Identities=14%  Similarity=0.161  Sum_probs=50.4

Q ss_pred             cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHH
Q 039029          200 NIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQ  270 (319)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  270 (319)
                      |.-+..+-++.+...++.|++.+....+++|.+.+++..|.++|+-++.+--. ..       ..|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~-~~-------~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP-HK-------EIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT-CT-------THHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCC-ch-------hhHHHHHH
Confidence            44556777788888889999999999999999999999999999998876322 22       45766664

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=85.14  E-value=9.5  Score=28.36  Aligned_cols=209  Identities=11%  Similarity=0.025  Sum_probs=90.0

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHhCCCCCCHH---hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhh--HHHHHH
Q 039029           14 GSFVSGMCKEGRLEEASRMLEQMKENGLVPTAV---TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTAST--YNLLIH   88 (319)
Q Consensus        14 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~   88 (319)
                      ++.+...++.|+.+....+++    .|..++..   .-...+...+..|+.+-+.    .+.+.|..++...  -...+.
T Consensus         6 ~~~L~~A~~~g~~~~v~~Ll~----~g~~~~~~~~~~g~t~L~~A~~~g~~~~v~----~Ll~~g~~~~~~~~~g~t~L~   77 (285)
T 1wdy_A            6 NHLLIKAVQNEDVDLVQQLLE----GGANVNFQEEEGGWTPLHNAVQMSREDIVE----LLLRHGADPVLRKKNGATPFL   77 (285)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHH----TTCCTTCCCTTTCCCHHHHHHHTTCHHHHH----HHHHTTCCTTCCCTTCCCHHH
T ss_pred             chHHHHHHHcCCHHHHHHHHH----cCCCcccccCCCCCcHHHHHHHcCCHHHHH----HHHHcCCCCcccCCCCCCHHH
Confidence            345666778888876665554    34333221   1123444556677765444    4444554433211  112233


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHH--HHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHH------------HHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSIT--YNILINGYCRCGNAKKAFSLHDEMIHKGIQPTML------------TYT  154 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------------~~~  154 (319)
                      ..+..|+.+-+    +.+.+.|..++...  -.+.+...+..|+.+-+    +.+.+.|..++..            .-.
T Consensus        78 ~A~~~~~~~~v----~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~~----~~Ll~~g~~~~~~~~~~~~~~~~~~~g~  149 (285)
T 1wdy_A           78 LAAIAGSVKLL----KLFLSKGADVNECDFYGFTAFMEAAVYGKVKAL----KFLYKRGANVNLRRKTKEDQERLRKGGA  149 (285)
T ss_dssp             HHHHHTCHHHH----HHHHHTTCCTTCBCTTCCBHHHHHHHTTCHHHH----HHHHHTTCCTTCCCCCCHHHHHTTCCCC
T ss_pred             HHHHcCCHHHH----HHHHHcCCCCCccCcccCCHHHHHHHhCCHHHH----HHHHHhCCCcccccccHHHHHhhccCCC
Confidence            44455665443    44444454433211  11223344556665443    4444444333211            001


Q ss_pred             HHHHHHhhhccHHHHHHHHHHHhhCCCCc---cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhh--HHHHHHH
Q 039029          155 SLIFVLSKQNRMIEADQLFENFLAKGMLP---DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVT--YNTLMHG  229 (319)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~  229 (319)
                      ..+......|+.+-+..+++..   +..+   +....+.+.. .+..++.....++++.+.+.|..++...  -...+..
T Consensus       150 t~L~~A~~~~~~~~v~~Ll~~~---~~~~~~~~~~g~t~l~~-a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~  225 (285)
T 1wdy_A          150 TALMDAAEKGHVEVLKILLDEM---GADVNACDNMGRNALIH-ALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLIL  225 (285)
T ss_dssp             CHHHHHHHHTCHHHHHHHHHTS---CCCTTCCCTTSCCHHHH-HHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHH
T ss_pred             cHHHHHHHcCCHHHHHHHHHhc---CCCCCccCCCCCCHHHH-HHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHH
Confidence            2233334556665554444321   2222   1111222222 2334444444555556666655444321  1123334


Q ss_pred             HHcCCcHHHHHHH
Q 039029          230 RCRQGKVEEARRL  242 (319)
Q Consensus       230 ~~~~g~~~~a~~~  242 (319)
                      .+..|+.+-+..+
T Consensus       226 A~~~~~~~~v~~L  238 (285)
T 1wdy_A          226 AVEKKHLGLVQRL  238 (285)
T ss_dssp             HHHTTCHHHHHHH
T ss_pred             HHHcCCHHHHHHH
Confidence            4456666544333

>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=84.80  E-value=14  Score=29.67  Aligned_cols=165  Identities=12%  Similarity=0.015  Sum_probs=90.7

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCc---ChhhHHHHHHHHHHcC-chhHHHHHHHHHhhCCCCCChHHH--
Q 039029           46 VTYNTLIDGYCNKGNLEMAFSFRDEMVKQ-GIMP---TASTYNLLIHELLMER-KMVEADDMLKEMGEKGIVPDSITY--  118 (319)
Q Consensus        46 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~--  118 (319)
                      .....+...|.+.|+.++..+++.....- +..+   .......++..+.... ..+.-.++..+..+..-. +-.+|  
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~r~flr   98 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQ-EKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH-TTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence            45667888888889988888888776532 1011   2234455666665532 233333333333321100 11222  


Q ss_pred             ----HHHHHHHHhcCChHHHHHHHHHHHHc--CCCcc---HHHHHHHHHHHhhhccHHHHHHHHHHHhhC--CCCccHHH
Q 039029          119 ----NILINGYCRCGNAKKAFSLHDEMIHK--GIQPT---MLTYTSLIFVLSKQNRMIEADQLFENFLAK--GMLPDIVM  187 (319)
Q Consensus       119 ----~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~  187 (319)
                          ..++..|...|++.+|.+++..+.+.  .....   ..++..-+..|...+++..+...+......  .+.+++..
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                24677788888888888888777664  11111   134455556677777888877777766543  12123322


Q ss_pred             HHH----HHHHHh-cCCcHHHHHHHHHHH
Q 039029          188 FNA----LIDGHC-TNGNIERAFSLLKEM  211 (319)
Q Consensus       188 ~~~----l~~~~~-~~~~~~~a~~~~~~~  211 (319)
                      ...    -...+. ..+++..|...|-+.
T Consensus       179 ~a~i~~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          179 QGALDLQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHhccCHHHHHHHHHHH
Confidence            221    123344 667777777766654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=83.66  E-value=26  Score=31.88  Aligned_cols=229  Identities=12%  Similarity=0.060  Sum_probs=123.6

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHhCCC-------CCCHHhHHHHHHHHHhcCC-hHHHHHHHHHHHHcCCCcChhhHH--
Q 039029           15 SFVSGMCKEGRLEEASRMLEQMKENGL-------VPTAVTYNTLIDGYCNKGN-LEMAFSFRDEMVKQGIMPTASTYN--   84 (319)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~--   84 (319)
                      .+.-+....|..+++..++.......-       .+....-..+.-+.+-.|. -+++.+.+..++.... +......  
T Consensus       416 llaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGla~~GS~~eev~e~L~~~L~dd~-~~~~~~Aal  494 (963)
T 4ady_A          416 LYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLAAMGSANIEVYEALKEVLYNDS-ATSGEAAAL  494 (963)
T ss_dssp             HHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHH
T ss_pred             HHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHH
Confidence            344455666666678877776554311       0111112223333333343 3456666666665421 1111122  


Q ss_pred             HHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHH--HHHHHHHhh
Q 039029           85 LLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTY--TSLIFVLSK  162 (319)
Q Consensus        85 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~  162 (319)
                      .+...+...|+.+....++..+.+.. .-+..-...+.-++...|+.+.+..+.+.+.... .|....-  ..+.-+|+.
T Consensus       495 ALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaG  572 (963)
T 4ady_A          495 GMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAG  572 (963)
T ss_dssp             HHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTT
T ss_pred             HHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcC
Confidence            22333445677777777777766542 1122222333344557799999999988887642 2333222  233456778


Q ss_pred             hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcH-HHHHH
Q 039029          163 QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKV-EEARR  241 (319)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~  241 (319)
                      .|+.....+++..+.... ..+..-...+.-+....|+.+.+.+++..+.+.+ .|....-..+.-+....|.. .++..
T Consensus       573 TGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid  650 (963)
T 4ady_A          573 TGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAID  650 (963)
T ss_dssp             SCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHH
T ss_pred             CCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHH
Confidence            899888888998887652 2233333333334455677676777777666543 44444334444444445443 67778


Q ss_pred             HHHHHHH
Q 039029          242 LLDQMKR  248 (319)
Q Consensus       242 ~~~~~~~  248 (319)
                      .+..+..
T Consensus       651 ~L~~L~~  657 (963)
T 4ady_A          651 VLDPLTK  657 (963)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHcc
Confidence            8888764

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=82.68  E-value=15  Score=28.57  Aligned_cols=140  Identities=14%  Similarity=0.032  Sum_probs=67.2

Q ss_pred             HHHhcCChHHHHHH----HHHHHHcCCCcChhhHHHHHHHHHHcCchh-HHHHHHHHHhh----CC--CCCChHHHHHHH
Q 039029           54 GYCNKGNLEMAFSF----RDEMVKQGIMPTASTYNLLIHELLMERKMV-EADDMLKEMGE----KG--IVPDSITYNILI  122 (319)
Q Consensus        54 ~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~----~~--~~~~~~~~~~l~  122 (319)
                      .+.+.|+...+-++    ++-..+.+++++......++..+.....-+ .-..+++++.+    .|  ..-++.....+.
T Consensus        64 ~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig  143 (336)
T 3lpz_A           64 TLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVG  143 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHH
T ss_pred             HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Confidence            34445555444333    234444566667666666666655443211 11122222211    11  223566667777


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHH
Q 039029          123 NGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIE  202 (319)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (319)
                      ..|.+.+++.+|...|-    .|-.++...+..++.-+...+...              .++...-.++ -.|.-.++..
T Consensus       144 ~~~~~e~~~~~Ae~H~i----lg~~~s~~~~a~mL~ew~~~~~~~--------------e~dlfiaRaV-L~yL~l~n~~  204 (336)
T 3lpz_A          144 TLYVEEGEFEAAEKHLV----LGTKESPEVLARMEYEWYKQDESH--------------TAPLYCARAV-LPYLLVANVR  204 (336)
T ss_dssp             HHHHHTTCHHHHHHHHT----TSCTTHHHHHHHHHHHHHHTSCGG--------------GHHHHHHHHH-HHHHHTTCHH
T ss_pred             HHHHccCCHHHHHHHHH----hcCCchHHHHHHHHHHHHHhcCCc--------------cHHHHHHHHH-HHHHHhCCHH
Confidence            77777777777766652    232333355555544433332211              1122222222 2345566777


Q ss_pred             HHHHHHHHHH
Q 039029          203 RAFSLLKEMD  212 (319)
Q Consensus       203 ~a~~~~~~~~  212 (319)
                      .|..+++...
T Consensus       205 ~A~~~~~~f~  214 (336)
T 3lpz_A          205 AANTAYRIFT  214 (336)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777665543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	319
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.8
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.8
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.59
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.58
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.53
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.51
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.49
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.45
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.45
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.43
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.41
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.21
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.01
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.98
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.97
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.97
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.95
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.93
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.91
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.88
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.84
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.83
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.83
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.82
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.75
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.7
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.66
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.63
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.63
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.55
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.53
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.52
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.44
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.43
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.42
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.42
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.4
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.35
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.34
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.33
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.32
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.2
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.18
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.17
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.16
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.08
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.04
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.03
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.76
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.69
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.67
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.55
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.24
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.19
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.27
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.57
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.45
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.95
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.98
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	91.91
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	87.01

>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=99.92  E-value=3.6e-21  Score=153.79  Aligned_cols=289  Identities=14%  Similarity=0.052  Sum_probs=187.6

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-----------
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM-----------   77 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----------   77 (319)
                      ++..+..+...+.+.|++++|+..|+++.+..+. +..+|..+..++...|++++|+..+....+....           
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            3455666677777777777777777777665322 4566777777777777777777766665543211           


Q ss_pred             --------------------------------------------------------cChhhHHHHHHHHHHcCchhHHHH
Q 039029           78 --------------------------------------------------------PTASTYNLLIHELLMERKMVEADD  101 (319)
Q Consensus        78 --------------------------------------------------------~~~~~~~~l~~~~~~~~~~~~a~~  101 (319)
                                                                              .+...+..+...+...|++++|..
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  190 (388)
T d1w3ba_         111 LVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIH  190 (388)
T ss_dssp             HHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHHHHHH
Confidence                                                                    011223333444555566666666


Q ss_pred             HHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCC
Q 039029          102 MLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGM  181 (319)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (319)
                      .+++..+..+. +...+..+...+...|++++|...+++....+ +.+...+..+..++.+.|++++|...|+++.+..+
T Consensus       191 ~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p  268 (388)
T d1w3ba_         191 HFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP  268 (388)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS
T ss_pred             HHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            66666654433 55666667777777777777777777776654 34556666677777777777777777777766543


Q ss_pred             CccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcc
Q 039029          182 LPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPT  261 (319)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  261 (319)
                      . +..++..+...+...|++++|...++...... +.+...+..+...+...|++++|...|+++++.  .|+.      
T Consensus       269 ~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~------  338 (388)
T d1w3ba_         269 H-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEF------  338 (388)
T ss_dssp             S-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTC------
T ss_pred             C-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCCC------
Confidence            2 45667777777777777777777777766543 445566677777777777777777777776653  3332      


Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCC-ChHHHHHHHHHhhhcch
Q 039029          262 RLTYNALIQGLCKNQEGDLAEELLREMVSKGITP-DDNTYFSLIEGIASVDK  312 (319)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~  312 (319)
                      ..++..+..+|...|++++|.+.|++.++.  .| +...|..+...+.+.||
T Consensus       339 ~~~~~~la~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         339 AAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            256677777777777777777777777764  44 35567777777766654

>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=99.91  E-value=5.8e-21  Score=152.53  Aligned_cols=288  Identities=16%  Similarity=0.061  Sum_probs=239.6

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCc
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERK   95 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (319)
                      +...+.+.|++++|++.++++.+..+ -+..++..+..++...|++++|...++++++.. +-+..++..+..++...|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEP-DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            45667889999999999999988643 367889999999999999999999999999875 3367889999999999999


Q ss_pred             hhHHHHHHHHHhhCCCC---------------------------------------------------------------
Q 039029           96 MVEADDMLKEMGEKGIV---------------------------------------------------------------  112 (319)
Q Consensus        96 ~~~a~~~~~~~~~~~~~---------------------------------------------------------------  112 (319)
                      +++|...+....+....                                                               
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhh
Confidence            99999988776543211                                                               


Q ss_pred             ----CChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHH
Q 039029          113 ----PDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMF  188 (319)
Q Consensus       113 ----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  188 (319)
                          .+...+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...++........ +...+
T Consensus       163 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~  240 (388)
T d1w3ba_         163 ETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVH  240 (388)
T ss_dssp             HHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHH
T ss_pred             ccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhh-HHHHH
Confidence                123445556677778899999999999988874 456788899999999999999999999998876543 67778


Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHH
Q 039029          189 NALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNAL  268 (319)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  268 (319)
                      ..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|++++|.+.++......  |.      +...+..+
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~------~~~~~~~l  311 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC--PT------HADSLNNL  311 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--TT------CHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC--Cc------cchhhhHH
Confidence            888999999999999999999988764 3456788889999999999999999999988753  22      33678889


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCC-ChHHHHHHHHHhhhcchhhhhcC
Q 039029          269 IQGLCKNQEGDLAEELLREMVSKGITP-DDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       269 ~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      ...+...|++++|++.+++.++.  .| +...+..+...+.+.|++++|+.
T Consensus       312 ~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~  360 (388)
T d1w3ba_         312 ANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALM  360 (388)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999999999999875  45 56778889999999999999863

>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=99.80  E-value=2.1e-16  Score=122.92  Aligned_cols=244  Identities=13%  Similarity=0.006  Sum_probs=141.8

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC
Q 039029           15 SFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMER   94 (319)
Q Consensus        15 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   94 (319)
                      .....+.+.|++++|+..|+.+.+..+. +..+|..+..++...|++++|...+++..+..+ -+...+..+..++...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhcccc-ccccccccccccccccc
Confidence            3455666777777777777777765432 566677777777777777777777777766542 24566666667777777


Q ss_pred             chhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHH
Q 039029           95 KMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFE  174 (319)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  174 (319)
                      ++++|.+.+++....... ....+........                    ..+.......+..+...+...++...+.
T Consensus       102 ~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~  160 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPA-YAHLVTPAEEGAG--------------------GAGLGPSKRILGSLLSDSLFLEVKELFL  160 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTT-TGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccc-hHHHHHhhhhhhh--------------------hcccccchhhHHHHHHhhHHHHHHHHHH
Confidence            777777777776654221 1100000000000                    0000001111122334455566666666


Q ss_pred             HHhhCCC-CccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCC
Q 039029          175 NFLAKGM-LPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKP  253 (319)
Q Consensus       175 ~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  253 (319)
                      +...... .++..++..+...+...|++++|...+++..... +-+...|..+...+...|++++|.+.|+++++.  .|
T Consensus       161 ~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p  237 (323)
T d1fcha_         161 AAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QP  237 (323)
T ss_dssp             HHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CT
T ss_pred             HHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHH--hh
Confidence            6554322 2345566666667777777777777777766543 234556666777777777777777777777664  33


Q ss_pred             CCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 039029          254 DHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVS  290 (319)
Q Consensus       254 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  290 (319)
                      +.      ..+|..+..+|.+.|++++|++.|++.++
T Consensus       238 ~~------~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         238 GY------IRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             TC------HHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cc------HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            32      25666777777777777777777777665

>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=99.80  E-value=2.9e-16  Score=122.11  Aligned_cols=249  Identities=10%  Similarity=-0.040  Sum_probs=169.2

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      +..+|..+...+...|++++|+..|.+..+..+. +...|..+..++...|++++|.+.++......  |+.........
T Consensus        52 ~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~  128 (323)
T d1fcha_          52 HMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQACEILRDWLRYT--PAYAHLVTPAE  128 (323)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC---
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccccccccccchhhHHHhc--cchHHHHHhhh
Confidence            4667899999999999999999999999886433 67889999999999999999999999998763  22211100000


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCccHHHHHHHHHHHhhhccHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKG-IQPTMLTYTSLIFVLSKQNRMI  167 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~  167 (319)
                      .....                   .+.......+..+...+.+.++...+.+..... ...+..++..+...+...|+++
T Consensus       129 ~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~  189 (323)
T d1fcha_         129 EGAGG-------------------AGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYD  189 (323)
T ss_dssp             -------------------------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHH
T ss_pred             hhhhh-------------------cccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHh
Confidence            00000                   000111111223344455677777777776643 1235667777888888888999


Q ss_pred             HHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHH
Q 039029          168 EADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMK  247 (319)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  247 (319)
                      +|...+++....... +..+|..+...|...|++++|...++++.+.. +-+..++..+..+|.+.|++++|...|++++
T Consensus       190 ~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al  267 (323)
T d1fcha_         190 KAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEAL  267 (323)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hhhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999988888776433 57788888888999999999999999887754 3356678888999999999999999999887


Q ss_pred             HcCCCCCCcc-----cCcchhhHHHHHHHHHhcCchhHHHH
Q 039029          248 RRGIKPDHIS-----FNPTRLTYNALIQGLCKNQEGDLAEE  283 (319)
Q Consensus       248 ~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~  283 (319)
                      +.  .|+...     .......|..+-.++...|+.+.+..
T Consensus       268 ~l--~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         268 NM--QRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             HH--HHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             Hh--CCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            73  222111     11122345556666666666655443

>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=99.59  E-value=3.9e-12  Score=99.60  Aligned_cols=299  Identities=11%  Similarity=0.029  Sum_probs=211.4

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhCCCCCC----HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCC-----CcChhhH
Q 039029           13 YGSFVSGMCKEGRLEEASRMLEQMKENGLVPT----AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGI-----MPTASTY   83 (319)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~   83 (319)
                      .......+...|++++|++++++..+.....+    ..++..+..++...|++++|...+++..+...     ......+
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            34455677899999999999999887643222    24677788899999999999999998876421     1123445


Q ss_pred             HHHHHHHHHcCchhHHHHHHHHHhhC----CCCC---ChHHHHHHHHHHHhcCChHHHHHHHHHHHHcC----CCccHHH
Q 039029           84 NLLIHELLMERKMVEADDMLKEMGEK----GIVP---DSITYNILINGYCRCGNAKKAFSLHDEMIHKG----IQPTMLT  152 (319)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~  152 (319)
                      ..+...+...|++..+...+......    +...   ....+..+...+...|+++.+...+.......    .......
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            66677788899999999988876532    1111   22355667788999999999999999887652    2223455


Q ss_pred             HHHHHHHHhhhccHHHHHHHHHHHhhC----CCCc--cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCC---hhhH
Q 039029          153 YTSLIFVLSKQNRMIEADQLFENFLAK----GMLP--DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPD---EVTY  223 (319)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~  223 (319)
                      +......+...++...+...+......    +..+  ....+..+...+...|++++|...+..........+   ...+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            666667778888888888887765542    1111  133456667788899999999999998766533222   3345


Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHHc----CCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC----CCCC
Q 039029          224 NTLMHGRCRQGKVEEARRLLDQMKRR----GIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK----GITP  295 (319)
Q Consensus       224 ~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~  295 (319)
                      ..+...+...|++++|...++++...    +..|+      ...++..+...|.+.|++++|.+.+++.++.    |...
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~------~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~  328 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSD------LNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFIS  328 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH------HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChH------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHH
Confidence            66788999999999999999988653    22222      2357888899999999999999999987653    3211


Q ss_pred             ----ChHHHHHHHHHhhhcchhhhhc
Q 039029          296 ----DDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       296 ----~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                          ....+..++..+...++.+++.
T Consensus       329 ~~~~~~~~~~~~~~~l~~~~~l~e~e  354 (366)
T d1hz4a_         329 HFVIEGEAMAQQLRQLIQLNTLPELE  354 (366)
T ss_dssp             HHHTTHHHHHHHHHHHHHTTCSCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcCCChHHH
Confidence                2334555666777777776654

>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=99.58  E-value=2.6e-12  Score=98.74  Aligned_cols=197  Identities=11%  Similarity=0.084  Sum_probs=104.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC-chhHHHHHHHHHhhCCCCCChHHHHHHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMER-KMVEADDMLKEMGEKGIVPDSITYNILINGY  125 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  125 (319)
                      .++.+...+.+.+.+++|+++++++++.+ |-+...|+....++...| ++++|+..++...+..+. +..+|..+...+
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHHH
Confidence            34444445555555566666666655553 224445555555555544 355666666655554433 555555555556


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCc-----
Q 039029          126 CRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGN-----  200 (319)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-----  200 (319)
                      .+.|++++|+..++++.+.. +.+...|..+..++...|++++|...++++++.++. +...|+.+...+.+.+.     
T Consensus       123 ~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~~  200 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRA  200 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchhh
Confidence            66666666666666665553 334555555555666666666666666665555332 34445444443333322     


Q ss_pred             -HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          201 -IERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       201 -~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                       +++|...+..+.+.. +.+...|..+...+.. ...+++.+.++...+.
T Consensus       201 ~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         201 VLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDL  248 (315)
T ss_dssp             HHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHH
T ss_pred             hhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHh
Confidence             455666666655543 2344555555444433 3345566666666553

>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=8.8e-12  Score=95.75  Aligned_cols=215  Identities=9%  Similarity=0.028  Sum_probs=169.1

Q ss_pred             cccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039029           10 SYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKG-NLEMAFSFRDEMVKQGIMPTASTYNLLIH   88 (319)
Q Consensus        10 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   88 (319)
                      ...|+.+...+.+.+.+++|+++++.+.+.++. +..+|+....++...+ ++++|+..++..++... -+..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p-~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHH-hhhhHHHHHhH
Confidence            345667777888999999999999999997544 6778899888888876 58999999999998863 37889999999


Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhc----
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQN----  164 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----  164 (319)
                      ++.+.|++++|+..++++.+..+. +...|..+...+...|++++|++.++++.+.+ +.+...|+.+..++.+.+    
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            999999999999999999988655 88999999999999999999999999999985 457778887776665544    


Q ss_pred             --cHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCC-ChhhHHHHHHHH
Q 039029          165 --RMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHP-DEVTYNTLMHGR  230 (319)
Q Consensus       165 --~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~  230 (319)
                        .+++|...+..+++..+. +...|..+...+...+ .+++...++...+....+ +...+..++..|
T Consensus       199 ~~~~~~ai~~~~~al~~~P~-~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y  265 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRG-LSKYPNLLNQLLDLQPSHSSPYLIAFLVDIY  265 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhCCC-chHHHHHHHHHHHhcC-hHHHHHHHHHHHHhCCCcCCHHHHHHHHHHH
Confidence              467899999888887543 6777777766655444 567777777776643222 233444444444

>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=99.51  E-value=3.6e-11  Score=92.14  Aligned_cols=190  Identities=7%  Similarity=-0.002  Sum_probs=140.9

Q ss_pred             chhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHH
Q 039029           95 KMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFE  174 (319)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  174 (319)
                      ..+++..+|++..+...+.+...|...+....+.|+++.|..+|+.+.+........+|...+..+.+.|+.+.|.++|+
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            45778888888876544446677788888888889999999999988876433334577888888888899999999999


Q ss_pred             HHhhCCCCccHHHHHHHHHH-HhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCC-C
Q 039029          175 NFLAKGMLPDIVMFNALIDG-HCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGI-K  252 (319)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~  252 (319)
                      ++.+.+.. +...|...... +...|+.+.|..+|+.+.+.. +.+...|...+......|+++.|..+|++.++... .
T Consensus       159 ~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         159 KAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            88877543 33444433332 344678888999999887753 44577888888888899999999999999887542 2


Q ss_pred             CCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          253 PDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       253 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                      |..     ....|...+.--...|+.+.+.++++++.+.
T Consensus       237 ~~~-----~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         237 PEK-----SGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GGG-----CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             hHH-----HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            221     1246777787777889999999999888764

>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=99.49  E-value=1.8e-11  Score=93.89  Aligned_cols=221  Identities=10%  Similarity=-0.031  Sum_probs=172.3

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhc--------------CChHHHHHHHHHHHHcCCCcChhhHHHHHHHHH
Q 039029           26 LEEASRMLEQMKENGLVPTAVTYNTLIDGYCNK--------------GNLEMAFSFRDEMVKQGIMPTASTYNLLIHELL   91 (319)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (319)
                      .+++..+|+++... .+.++..|...+..+...              +..++|..+|++.++...+.+...+...+....
T Consensus        32 ~~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            45677788888775 334667777766654332              235788899999887654556677888888999


Q ss_pred             HcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHH-HhhhccHHHHH
Q 039029           92 MERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFV-LSKQNRMIEAD  170 (319)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  170 (319)
                      ..|+++.|..+|+++.+..+......|...+....+.|+.+.|.++|+.+.+.+ +.+...+...... +...|+.+.|.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHH
Confidence            999999999999999887554445678999999999999999999999998774 3344555444433 34468899999


Q ss_pred             HHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC-CCCC--hhhHHHHHHHHHcCCcHHHHHHHHHHHH
Q 039029          171 QLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMK-VHPD--EVTYNTLMHGRCRQGKVEEARRLLDQMK  247 (319)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~  247 (319)
                      .+|+.+.... +.+...|...+......|+++.|..+|++..... ..|.  ...|...+..-...|+.+.+..+++++.
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            9999999873 3368889999999999999999999999987753 2333  3478888888788999999999999987


Q ss_pred             Hc
Q 039029          248 RR  249 (319)
Q Consensus       248 ~~  249 (319)
                      +.
T Consensus       269 ~~  270 (308)
T d2onda1         269 TA  270 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            75

>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=99.45  E-value=1.1e-11  Score=92.56  Aligned_cols=218  Identities=13%  Similarity=-0.049  Sum_probs=151.7

Q ss_pred             CChHHHHHHHHHHHhCCCCC---CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHH
Q 039029           24 GRLEEASRMLEQMKENGLVP---TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEAD  100 (319)
Q Consensus        24 ~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  100 (319)
                      .+.+.++.-++++.......   ...+|..+..+|.+.|++++|+..|++.++.. +-+..+|..+..++...|++++|+
T Consensus        13 ~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~   91 (259)
T d1xnfa_          13 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   91 (259)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhh
Confidence            34566777777776643211   23477788899999999999999999999875 347888999999999999999999


Q ss_pred             HHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC
Q 039029          101 DMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG  180 (319)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (319)
                      ..|++..+..+. +..++..+..++...|++++|...++...+.. +.+......+...+.+.+.......+........
T Consensus        92 ~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (259)
T d1xnfa_          92 EAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD  169 (259)
T ss_dssp             HHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC
T ss_pred             hhhhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc
Confidence            999999987654 67789999999999999999999999998875 4455555555555566666655555555555442


Q ss_pred             CCccHHHHHHHHHHHhcCCc----HHHHHHHHHHHHhCCCCC-ChhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          181 MLPDIVMFNALIDGHCTNGN----IERAFSLLKEMDRMKVHP-DEVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       181 ~~~~~~~~~~l~~~~~~~~~----~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      ..+  ..+. ++..+.....    .+.+...+......  .| ...+|..+...|...|++++|...|++.+..
T Consensus       170 ~~~--~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         170 KEQ--WGWN-IVEFYLGNISEQTLMERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             CCS--THHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             hhh--hhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            222  1122 2222222222    22222222111111  12 2346677889999999999999999999874

>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=99.45  E-value=9.5e-13  Score=102.45  Aligned_cols=281  Identities=9%  Similarity=-0.042  Sum_probs=192.7

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHH----------HhcCChHHHHHHHHHHHHcCCCcChhhHHH
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGY----------CNKGNLEMAFSFRDEMVKQGIMPTASTYNL   85 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (319)
                      ++....+.+..++|+++++.+.+.++. +...|+..-..+          ...|++++|+.+++...+.. +-+...|..
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~~~P~-~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~  112 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHH  112 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHH
Confidence            333333444458999999999886433 444554433332          22345788999999988875 336677777


Q ss_pred             HHHHHHHcCc--hhHHHHHHHHHhhCCCCCChHHHH-HHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhh
Q 039029           86 LIHELLMERK--MVEADDMLKEMGEKGIVPDSITYN-ILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSK  162 (319)
Q Consensus        86 l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (319)
                      +..++...++  ++++...++++.+..+. +...+. .....+...+.+++|+..++.+...+ +-+...+..+..++.+
T Consensus       113 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~  190 (334)
T d1dcea1         113 RCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQ  190 (334)
T ss_dssp             HHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHH
T ss_pred             hhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            7777766654  78999999998877544 555554 45567778899999999999988875 5578889999999999


Q ss_pred             hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHH
Q 039029          163 QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRL  242 (319)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  242 (319)
                      .|++++|...+....+.  .|+   ...+...+...+..+++...+....... +++...+..+...+...|++++|...
T Consensus       191 ~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~  264 (334)
T d1dcea1         191 LHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKE  264 (334)
T ss_dssp             HSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHH
Confidence            99888776655544332  111   1122333445566667777777776654 44555666777788888999999999


Q ss_pred             HHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChH-HHHHHHHHhh---hcchhhhh
Q 039029          243 LDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDN-TYFSLIEGIA---SVDKAAES  316 (319)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~---~~g~~~~A  316 (319)
                      +.+.....  |+      +..+|..+..++...|++++|.+.++++.+.  .|+.. -|..+...+.   +.++.+.|
T Consensus       265 ~~~~~~~~--p~------~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~~~~~~e~~~~~~~~~  332 (334)
T d1dcea1         265 LQELEPEN--KW------CLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSKFLLENSVLKMEYA  332 (334)
T ss_dssp             HHHHCTTC--HH------HHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhhC--ch------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHHHHHhHhhHHHHHhhc
Confidence            99876542  22      3367888999999999999999999999985  57544 4455544444   34444443

>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=99.43  E-value=8e-11  Score=91.93  Aligned_cols=268  Identities=11%  Similarity=0.026  Sum_probs=191.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcC----hhhHHHHHHHHHHcCchhHHHHHHHHHhhCCC----C-CChHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPT----ASTYNLLIHELLMERKMVEADDMLKEMGEKGI----V-PDSIT  117 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~-~~~~~  117 (319)
                      ........+...|++++|++++++.+......+    ...+..+..++...|++++|...+++..+...    . .....
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   93 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   93 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHH
Confidence            344456678899999999999999987632211    23567778899999999999999998765311    1 12345


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHc----CCC--c-cHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC----CCccHH
Q 039029          118 YNILINGYCRCGNAKKAFSLHDEMIHK----GIQ--P-TMLTYTSLIFVLSKQNRMIEADQLFENFLAKG----MLPDIV  186 (319)
Q Consensus       118 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~  186 (319)
                      +..+...+...|++..+...+......    ...  + ....+..+...+...|+++.+...+.......    ......
T Consensus        94 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  173 (366)
T d1hz4a_          94 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  173 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHH
Confidence            566778889999999999999887642    111  1 12355667788889999999999998876542    223345


Q ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHhCC--CCC----ChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCc
Q 039029          187 MFNALIDGHCTNGNIERAFSLLKEMDRMK--VHP----DEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNP  260 (319)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  260 (319)
                      .+......+...++...+...+.+.....  ...    ....+......+...|++++|...+..........+    ..
T Consensus       174 ~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~  249 (366)
T d1hz4a_         174 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANN----HF  249 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTC----GG
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccc----hH
Confidence            66667777888899998888887764321  111    123455667788899999999999988765432211    12


Q ss_pred             chhhHHHHHHHHHhcCchhHHHHHHHHHHhC----CCCCC-hHHHHHHHHHhhhcchhhhhcC
Q 039029          261 TRLTYNALIQGLCKNQEGDLAEELLREMVSK----GITPD-DNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       261 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      ....+..+..++...|++++|...++++...    +..|+ ...+..+...+.+.|++++|..
T Consensus       250 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  312 (366)
T d1hz4a_         250 LQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQR  312 (366)
T ss_dssp             GHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHH
Confidence            3345667888999999999999999988642    44443 4567778889999999999863

>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=8.1e-11  Score=87.79  Aligned_cols=222  Identities=11%  Similarity=-0.059  Sum_probs=152.5

Q ss_pred             ChHHHHHHHHHHHHcCC-Cc--ChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHH
Q 039029           60 NLEMAFSFRDEMVKQGI-MP--TASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFS  136 (319)
Q Consensus        60 ~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  136 (319)
                      +.+.++.-+++...... .+  ...++..+..+|.+.|++++|...|++..+..+. ++.+|..+..++.+.|++++|+.
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhh
Confidence            34556666666665421 11  2346777888999999999999999999987655 88999999999999999999999


Q ss_pred             HHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC
Q 039029          137 LHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKV  216 (319)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (319)
                      .|+++.+.. +.+..++..+..++...|++++|...++...+..+. +......+...+.+.+..+....+........ 
T Consensus        93 ~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  169 (259)
T d1xnfa_          93 AFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD-  169 (259)
T ss_dssp             HHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC-
T ss_pred             hhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc-
Confidence            999999975 446778889999999999999999999999887543 44444444455556666666666655555432 


Q ss_pred             CCChhhHHHHHHHHHcCCc----HHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCC
Q 039029          217 HPDEVTYNTLMHGRCRQGK----VEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKG  292 (319)
Q Consensus       217 ~~~~~~~~~l~~~~~~~g~----~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  292 (319)
                       ++...+. ++..+.....    .+.+...+......  .|+      ...+|..+...|...|++++|...|++.+.. 
T Consensus       170 -~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~------~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-  238 (259)
T d1xnfa_         170 -KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSL--AEH------LSETNFYLGKYYLSLGDLDSATALFKLAVAN-  238 (259)
T ss_dssp             -CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHH--HHH------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-
T ss_pred             -hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhc--Ccc------cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-
Confidence             2222222 2333322222    22222222211111  011      1246777899999999999999999999875 


Q ss_pred             CCCCh
Q 039029          293 ITPDD  297 (319)
Q Consensus       293 ~~~~~  297 (319)
                       .|+.
T Consensus       239 -~p~~  242 (259)
T d1xnfa_         239 -NVHN  242 (259)
T ss_dssp             -CCTT
T ss_pred             -CCCC
Confidence             4543

>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=99.21  E-value=1.5e-10  Score=89.83  Aligned_cols=252  Identities=6%  Similarity=-0.076  Sum_probs=178.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH----------HHHcCchhHHHHHHHHHhhCCCCCChHHH
Q 039029           49 NTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE----------LLMERKMVEADDMLKEMGEKGIVPDSITY  118 (319)
Q Consensus        49 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~----------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  118 (319)
                      ..++.........++|+++++.+++.++. +...|+..-..          +...|++++|+..++...+..+. +...|
T Consensus        33 ~~~~~~~~~~~~~~~al~~~~~~l~~~P~-~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk-~~~~~  110 (334)
T d1dcea1          33 QAVFQKRQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTW  110 (334)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHH
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC-cHHHH
Confidence            33444444444568999999999987422 34444433322          23345678999999999887655 77788


Q ss_pred             HHHHHHHHhcC--ChHHHHHHHHHHHHcCCCccHHHH-HHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 039029          119 NILINGYCRCG--NAKKAFSLHDEMIHKGIQPTMLTY-TSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGH  195 (319)
Q Consensus       119 ~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (319)
                      ..+..++...+  ++++|...+.++.... +++...+ ......+...+..+.|...++.++..++. +...|..+...+
T Consensus       111 ~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~  188 (334)
T d1dcea1         111 HHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLL  188 (334)
T ss_dssp             HHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHH
T ss_pred             HHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHH
Confidence            88877777766  4789999999998875 4455554 44556777889999999999999888654 788899999999


Q ss_pred             hcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhc
Q 039029          196 CTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKN  275 (319)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  275 (319)
                      ...|++++|...+....+.  .|+   ...+...+...+..+++...+.......  |+.      ...+..+...+...
T Consensus       189 ~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~--~~~------~~~~~~l~~~~~~~  255 (334)
T d1dcea1         189 PQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR--AEP------LFRCELSVEKSTVL  255 (334)
T ss_dssp             HHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC--CCC------SSSCCCCHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC--cch------hhHHHHHHHHHHHH
Confidence            9999888776655544332  111   1223344455667777888888877753  322      13455667778888


Q ss_pred             CchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhcC
Q 039029          276 QEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESSN  318 (319)
Q Consensus       276 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  318 (319)
                      |++++|...+.+..... +.+...+..+...+.+.|++++|+.
T Consensus       256 ~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~  297 (334)
T d1dcea1         256 QSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQ  297 (334)
T ss_dssp             HHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHH
T ss_pred             hhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHH
Confidence            99999999999887652 2356778888999999999999864

>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=99.01  E-value=2.9e-08  Score=69.83  Aligned_cols=123  Identities=13%  Similarity=-0.131  Sum_probs=87.2

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      ...+...|+++.|++.|.++    .+|++.+|..+..++...|++++|++.|++.++.+. -....|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp-~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh-hhhhhHHHHHHHHHhhccH
Confidence            55567788888888888754    235677788888888888888888888888888753 3667788888888888888


Q ss_pred             hHHHHHHHHHhhCCCC--------------C-ChHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           97 VEADDMLKEMGEKGIV--------------P-DSITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus        97 ~~a~~~~~~~~~~~~~--------------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      ++|...|++.......              + ...++..+..++.+.|++++|.+.+......
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            8888888877543111              0 1234445566667777777777777666554

>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=98.98  E-value=3.2e-08  Score=74.67  Aligned_cols=200  Identities=13%  Similarity=-0.001  Sum_probs=135.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHc----CCC-cChhhHHHHHHHHHHcCchhHHHHHHHHHhhC----C-CCCChHH
Q 039029           48 YNTLIDGYCNKGNLEMAFSFRDEMVKQ----GIM-PTASTYNLLIHELLMERKMVEADDMLKEMGEK----G-IVPDSIT  117 (319)
Q Consensus        48 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~  117 (319)
                      |......|...+++++|.+.|.+....    +-+ ....+|..+..+|.+.|++++|.+.+++..+.    + ......+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            555567788899999999999888763    111 12457888889999999999999999876543    1 1112345


Q ss_pred             HHHHHHHHHh-cCChHHHHHHHHHHHHc----CCCc-cHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCc-----c-H
Q 039029          118 YNILINGYCR-CGNAKKAFSLHDEMIHK----GIQP-TMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLP-----D-I  185 (319)
Q Consensus       118 ~~~l~~~~~~-~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~-~  185 (319)
                      +..+...|.. .|++++|++.+++..+.    +.++ ...++..+...+...|++++|...|+++.......     . .
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~  199 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLK  199 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHH
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHH
Confidence            6666667744 69999999999887653    2111 13567888899999999999999999987753221     1 1


Q ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCC-CC---hhhHHHHHHHHHc--CCcHHHHHHHHHHHH
Q 039029          186 VMFNALIDGHCTNGNIERAFSLLKEMDRMKVH-PD---EVTYNTLMHGRCR--QGKVEEARRLLDQMK  247 (319)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~~~~~~--~g~~~~a~~~~~~~~  247 (319)
                      ..+...+..+...|+++.|...+++..+.... ++   ......++.++..  .+.+++|...|+.+.
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            23344555677889999999999998775421 11   2234556666554  345777777776543

>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=98.97  E-value=3.2e-08  Score=74.68  Aligned_cols=212  Identities=12%  Similarity=0.051  Sum_probs=142.7

Q ss_pred             ChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhC----CC-CCChHHHHHHHHHHHhcCChHHH
Q 039029           60 NLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEK----GI-VPDSITYNILINGYCRCGNAKKA  134 (319)
Q Consensus        60 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a  134 (319)
                      ++++|.++|.++               ...|...+++++|.+.|.+..+.    +- ..-..+|..+..+|.+.|++++|
T Consensus        32 ~~~~Aa~~y~~a---------------a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A   96 (290)
T d1qqea_          32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (290)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHH
Confidence            456676666543               56788899999999999988653    11 11246788899999999999999


Q ss_pred             HHHHHHHHHc----C-CCccHHHHHHHHHHHh-hhccHHHHHHHHHHHhhC----CCCc-cHHHHHHHHHHHhcCCcHHH
Q 039029          135 FSLHDEMIHK----G-IQPTMLTYTSLIFVLS-KQNRMIEADQLFENFLAK----GMLP-DIVMFNALIDGHCTNGNIER  203 (319)
Q Consensus       135 ~~~~~~~~~~----~-~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~  203 (319)
                      .+.+++....    + ......++..+...|. ..|++++|...+++..+.    +.++ -..++..+...+...|++++
T Consensus        97 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~  176 (290)
T d1qqea_          97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHH
Confidence            9999987653    1 1112345666666674 469999999999987643    2221 14567888999999999999


Q ss_pred             HHHHHHHHHhCCCCCCh------hhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHh--c
Q 039029          204 AFSLLKEMDRMKVHPDE------VTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCK--N  275 (319)
Q Consensus       204 a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~  275 (319)
                      |...++++.........      ..+...+..+...|+++.|...+++..+..  |.... .........++.++..  .
T Consensus       177 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~--~~~~~-sre~~~l~~l~~a~~~~d~  253 (290)
T d1qqea_         177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED--PNFAD-SRESNFLKSLIDAVNEGDS  253 (290)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC------------HHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCccc-hHHHHHHHHHHHHHHhcCH
Confidence            99999998765322211      123445566778999999999999987643  22100 0011344566666654  2


Q ss_pred             CchhHHHHHHHHHH
Q 039029          276 QEGDLAEELLREMV  289 (319)
Q Consensus       276 g~~~~A~~~~~~~~  289 (319)
                      +.+++|+..|+.+.
T Consensus       254 e~~~eai~~y~~~~  267 (290)
T d1qqea_         254 EQLSEHCKEFDNFM  267 (290)
T ss_dssp             TTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHh
Confidence            44777777776544

>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=98.97  E-value=8.2e-08  Score=67.45  Aligned_cols=122  Identities=12%  Similarity=-0.025  Sum_probs=74.8

Q ss_pred             HHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHH
Q 039029           89 ELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIE  168 (319)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (319)
                      .+...|+++.|++.|.++.    +|+..+|..+..+|...|++++|++.|++..+.+ +.+...|..+..++.+.|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHH
Confidence            3455566666666655432    2355556666666666666666666666666654 3445566666666666666666


Q ss_pred             HHHHHHHHhhCCC--------------Cc-cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC
Q 039029          169 ADQLFENFLAKGM--------------LP-DIVMFNALIDGHCTNGNIERAFSLLKEMDRMK  215 (319)
Q Consensus       169 a~~~~~~~~~~~~--------------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (319)
                      |.+.|++......              .+ ...++..+..++.+.|++++|.+.+....+..
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            6666665543210              11 13456667778888999999999988887754

>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=98.95  E-value=4e-08  Score=63.01  Aligned_cols=91  Identities=15%  Similarity=0.126  Sum_probs=46.5

Q ss_pred             HHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCch
Q 039029           17 VSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKM   96 (319)
Q Consensus        17 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   96 (319)
                      ...+.+.|++++|+..|++..+..+. +...|..+..++...|++++|+..+...++.+ +.+...|..+..++...|++
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            34445555555555555555544322 44455555555555555555555555555443 22444555555555555555


Q ss_pred             hHHHHHHHHHhhC
Q 039029           97 VEADDMLKEMGEK  109 (319)
Q Consensus        97 ~~a~~~~~~~~~~  109 (319)
                      ++|+..|++..+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            5555555555544

>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=98.93  E-value=7.1e-08  Score=61.79  Aligned_cols=86  Identities=19%  Similarity=0.134  Sum_probs=33.7

Q ss_pred             HHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHH
Q 039029           91 LMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEAD  170 (319)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (319)
                      ...|++++|+..|++..+..+. +...|..+..++...|++++|+..+......+ +.+...|..+..++...|++++|.
T Consensus        14 ~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~A~   91 (117)
T d1elwa_          14 LSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEEAK   91 (117)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHHHH
Confidence            3334444444444444333222 33334444444444444444444444443332 223333444444444444444444


Q ss_pred             HHHHHHhh
Q 039029          171 QLFENFLA  178 (319)
Q Consensus       171 ~~~~~~~~  178 (319)
                      ..|++..+
T Consensus        92 ~~~~~a~~   99 (117)
T d1elwa_          92 RTYEEGLK   99 (117)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHH
Confidence            44444333

>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=98.91  E-value=3.4e-06  Score=62.35  Aligned_cols=223  Identities=13%  Similarity=-0.027  Sum_probs=111.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHH----cCchhHHHHHHHHHhhCCCCCChHHHHHHH
Q 039029           47 TYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLM----ERKMVEADDMLKEMGEKGIVPDSITYNILI  122 (319)
Q Consensus        47 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (319)
                      .+..+...+...+++++|+++|++..+.|   +...+..|...|..    ..+...+...+......+   +......+.
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~   77 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   77 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhccc
Confidence            34444444445555555555555554443   23333334444433    334455555555544443   222222332


Q ss_pred             HHHHh----cCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHh----hhccHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 039029          123 NGYCR----CGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLS----KQNRMIEADQLFENFLAKGMLPDIVMFNALIDG  194 (319)
Q Consensus       123 ~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  194 (319)
                      ..+..    ..+.+.|...++.....|..   .....+...+.    .......+...+......   .+...+..+...
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~  151 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSL  151 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHH
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhh
Confidence            22222    23445555555555554421   11111211111    123344455555544443   234445555555


Q ss_pred             Hhc----CCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----CCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHH
Q 039029          195 HCT----NGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCR----QGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYN  266 (319)
Q Consensus       195 ~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (319)
                      |..    ..+...+...++...+.+   +......+...|..    ..++++|..+|.+..+.|.          +..+.
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~----------~~a~~  218 (265)
T d1ouva_         152 YDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN----------GGGCF  218 (265)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC----------HHHHH
T ss_pred             hccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhcccC----------HHHHH
Confidence            543    345566666666665543   44555555555544    4578888888888777652          14555


Q ss_pred             HHHHHHHh----cCchhHHHHHHHHHHhCCCC
Q 039029          267 ALIQGLCK----NQEGDLAEELLREMVSKGIT  294 (319)
Q Consensus       267 ~l~~~~~~----~g~~~~A~~~~~~~~~~~~~  294 (319)
                      .|...|.+    .++.++|.+.|++....|..
T Consensus       219 ~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         219 NLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            66666654    34677888888888777643

>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=98.88  E-value=1.8e-07  Score=63.60  Aligned_cols=92  Identities=13%  Similarity=0.006  Sum_probs=58.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCC
Q 039029           51 LIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGN  130 (319)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  130 (319)
                      ....|.+.|++++|+..|++.++.. +-+...|..+..++...|++++|...|++..+..+. +..+|..+..++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHHcCC
Confidence            3445566666666666666666654 235566666666666666666666666666665433 55666666666666666


Q ss_pred             hHHHHHHHHHHHHc
Q 039029          131 AKKAFSLHDEMIHK  144 (319)
Q Consensus       131 ~~~a~~~~~~~~~~  144 (319)
                      +++|...+++....
T Consensus        94 ~~eA~~~~~~a~~~  107 (159)
T d1a17a_          94 FRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            66666666666665

>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=98.84  E-value=1.6e-07  Score=63.82  Aligned_cols=93  Identities=11%  Similarity=0.055  Sum_probs=65.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCc
Q 039029          121 LINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGN  200 (319)
Q Consensus       121 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (319)
                      ....|.+.|++++|+..|++..+.. +.+...|..+..+|...|++++|...|+++++.... +..+|..+..++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHHcCC
Confidence            3556667777777777777777764 456677777777777777777777777777766433 56677777777777777


Q ss_pred             HHHHHHHHHHHHhCC
Q 039029          201 IERAFSLLKEMDRMK  215 (319)
Q Consensus       201 ~~~a~~~~~~~~~~~  215 (319)
                      +++|...+++.....
T Consensus        94 ~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          94 FRAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHcC
Confidence            777777777776653

>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=98.83  E-value=3.2e-08  Score=70.30  Aligned_cols=99  Identities=10%  Similarity=-0.099  Sum_probs=64.8

Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHH
Q 039029           43 PTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILI  122 (319)
Q Consensus        43 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  122 (319)
                      |++..+......+.+.|++++|+..|++.+... |.+...|..+..+|.+.|++++|+..|++..+..+. +..+|..+.
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            455555566666667777777777776666654 335566666667777777777777777776665433 566666677


Q ss_pred             HHHHhcCChHHHHHHHHHHHH
Q 039029          123 NGYCRCGNAKKAFSLHDEMIH  143 (319)
Q Consensus       123 ~~~~~~~~~~~a~~~~~~~~~  143 (319)
                      .+|...|++++|+..|++...
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            777777777777777766654

>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=98.83  E-value=6.7e-06  Score=60.68  Aligned_cols=225  Identities=13%  Similarity=-0.001  Sum_probs=160.7

Q ss_pred             CcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCcChhhHH
Q 039029            9 DSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCN----KGNLEMAFSFRDEMVKQGIMPTASTYN   84 (319)
Q Consensus         9 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (319)
                      |+..+..|...+.+.+++.+|++.|++..+.|   +...+..|...|..    ..++..+..++......+   +.....
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            45567778888889999999999999998875   56677777777776    668999999999988775   333344


Q ss_pred             HHHHHHHH----cCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCccHHHHHHH
Q 039029           85 LLIHELLM----ERKMVEADDMLKEMGEKGIVPDSITYNILINGYCR----CGNAKKAFSLHDEMIHKGIQPTMLTYTSL  156 (319)
Q Consensus        85 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (319)
                      .+...+..    ..+.+.|...++...+.|..   .....+...+..    ......+...+......+   +...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhccc---ccchhhhh
Confidence            44444433    45678889999988877632   233333333332    345667777777766543   56667777


Q ss_pred             HHHHhh----hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhc----CCcHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 039029          157 IFVLSK----QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCT----NGNIERAFSLLKEMDRMKVHPDEVTYNTLMH  228 (319)
Q Consensus       157 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (319)
                      ...+..    ..+...+...++...+.+   +......+...|..    ..+.++|...|.+..+.|   ++..+..|..
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    456778888888877764   45555556655554    568999999999998876   4566677777


Q ss_pred             HHHc----CCcHHHHHHHHHHHHHcCC
Q 039029          229 GRCR----QGKVEEARRLLDQMKRRGI  251 (319)
Q Consensus       229 ~~~~----~g~~~~a~~~~~~~~~~~~  251 (319)
                      .|..    .++.++|.++|++..+.|.
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            7765    4479999999999988774

>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=98.82  E-value=3.2e-08  Score=70.29  Aligned_cols=98  Identities=13%  Similarity=0.040  Sum_probs=49.1

Q ss_pred             cChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHH
Q 039029           78 PTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLI  157 (319)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  157 (319)
                      |+...+......+.+.|++++|+..|++..+..+. +...|..+..+|.+.|++++|+..|++..+.. |-+..+|..+.
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            34444444455555555555555555555444332 44555555555555555555555555554432 22344455555


Q ss_pred             HHHhhhccHHHHHHHHHHHh
Q 039029          158 FVLSKQNRMIEADQLFENFL  177 (319)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~  177 (319)
                      .+|...|++++|...|+++.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHH
Confidence            55555555555555555444

>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=98.75  E-value=1.5e-07  Score=59.69  Aligned_cols=89  Identities=9%  Similarity=-0.040  Sum_probs=51.5

Q ss_pred             HHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhcc
Q 039029           86 LIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNR  165 (319)
Q Consensus        86 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (319)
                      +...+.+.|++++|...|++.....+. +...|..+..++.+.|++++|+..+++..+.. |.+...+..+..+|...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCC
Confidence            344455566666666666665555433 45556666666666666666666666665553 3345555666666666666


Q ss_pred             HHHHHHHHHHH
Q 039029          166 MIEADQLFENF  176 (319)
Q Consensus       166 ~~~a~~~~~~~  176 (319)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666665554

>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=98.70  E-value=1.9e-07  Score=59.18  Aligned_cols=89  Identities=13%  Similarity=-0.033  Sum_probs=45.5

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCc
Q 039029           16 FVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERK   95 (319)
Q Consensus        16 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   95 (319)
                      +...+.+.|++++|+..|++.....+. ++.+|..+..++.+.|++++|+..+++.++.. +.+...+..+..++...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCC
Confidence            344445555555555555555544322 44455555555555555555555555555543 2244455555555555555


Q ss_pred             hhHHHHHHHHH
Q 039029           96 MVEADDMLKEM  106 (319)
Q Consensus        96 ~~~a~~~~~~~  106 (319)
                      +++|.+.+++.
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=2.7e-07  Score=59.24  Aligned_cols=94  Identities=16%  Similarity=0.071  Sum_probs=50.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcC---chhHHHHHHHHHhhCCCCCC-hHHHHHHHHHH
Q 039029           50 TLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMER---KMVEADDMLKEMGEKGIVPD-SITYNILINGY  125 (319)
Q Consensus        50 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  125 (319)
                      .+++.+...+++++|.+.|+..+..+ +.+..++..+..++.+.+   ++++|+.+++++......|+ ..++..+..+|
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            34455555556666666666655554 234455555555555433   33345666666555433222 22455555666


Q ss_pred             HhcCChHHHHHHHHHHHHc
Q 039029          126 CRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       126 ~~~~~~~~a~~~~~~~~~~  144 (319)
                      .+.|++++|.+.|+++.+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh
Confidence            6666666666666666554

>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=98.63  E-value=3.3e-06  Score=57.77  Aligned_cols=73  Identities=10%  Similarity=-0.125  Sum_probs=43.8

Q ss_pred             hHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHH
Q 039029           82 TYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSL  156 (319)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (319)
                      +|+.+..+|.+.|++++|+..++..+...+. ++..+..+..++...|++++|+..|++..+.. |.+..+...+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l  136 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQL  136 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcccc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            3455566666666666666666666665433 56666666666666666666666666666653 2244444333

>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=98.63  E-value=3.6e-07  Score=58.65  Aligned_cols=94  Identities=15%  Similarity=0.131  Sum_probs=53.5

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhh---ccHHHHHHHHHHHhhCCCCcc-HHHHHHHHHHH
Q 039029          120 ILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQ---NRMIEADQLFENFLAKGMLPD-IVMFNALIDGH  195 (319)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  195 (319)
                      .+++.+...+++++|.+.|++....+ +.+..++..+..++.+.   ++..+|+.+++++......|+ ..++..+..+|
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            45555556666666666666666654 44555666666665542   334456666666655433332 23455566666


Q ss_pred             hcCCcHHHHHHHHHHHHhC
Q 039029          196 CTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~  214 (319)
                      .+.|++++|...|+++.+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh
Confidence            6666666666666666554

>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=98.55  E-value=2.1e-06  Score=58.77  Aligned_cols=114  Identities=9%  Similarity=-0.103  Sum_probs=89.1

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCC--------------CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVP--------------TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM   77 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   77 (319)
                      .+......+.+.|++++|+..|.+........              ...+|+.+..+|.+.|++++|+..++..+..+ |
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p   93 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-S   93 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-c
Confidence            34556678899999999999999887642111              12457778889999999999999999999986 3


Q ss_pred             cChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHh
Q 039029           78 PTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCR  127 (319)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  127 (319)
                      .+..++..+..++...|++++|...|++..+..+. +......+..+..+
T Consensus        94 ~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~~  142 (170)
T d1p5qa1          94 NNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQR  142 (170)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHH
T ss_pred             cchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            47889999999999999999999999999987543 55555555444333

>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=98.53  E-value=7.5e-05  Score=56.45  Aligned_cols=274  Identities=14%  Similarity=0.107  Sum_probs=157.1

Q ss_pred             CCcccHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHH
Q 039029            8 PDSYTYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLI   87 (319)
Q Consensus         8 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   87 (319)
                      ||..--..+...|.+.|.++.|..+|..+..         |..++..+.+.++++.|.+++...-      +..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHH
Confidence            4444455677888899999999999975543         6778888889999999888776432      566888888


Q ss_pred             HHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHH
Q 039029           88 HELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMI  167 (319)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (319)
                      ..+.+..+...+     .+.......++.....++..|-..|.+++...+++...... +.+...++.++..|++.+. +
T Consensus        77 ~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~~-~  149 (336)
T d1b89a_          77 FACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP-Q  149 (336)
T ss_dssp             HHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCH-H
T ss_pred             HHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhCh-H
Confidence            888877665443     22233334466667788899999999999999999876542 5577788888888888653 3


Q ss_pred             HHHHHHHHHhhCCCCccH--------HHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHH
Q 039029          168 EADQLFENFLAKGMLPDI--------VMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEA  239 (319)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~--------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  239 (319)
                      ...+.+..... ...+..        ..|..++-.|.+.|+++.|..+.   .+.  .++..-...++..+.+.++.+..
T Consensus       150 kl~e~l~~~s~-~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~---i~~--~~~~~~~~~f~e~~~k~~N~e~~  223 (336)
T d1b89a_         150 KMREHLELFWS-RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MNH--PTDAWKEGQFKDIITKVANVELY  223 (336)
T ss_dssp             HHHHHHHHHST-TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH---HHS--TTTTCCHHHHHHHHHHCSSTHHH
T ss_pred             HHHHHHHhccc-cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH---HHc--chhhhhHHHHHHHHHccCChHHH
Confidence            44444433211 111110        11233444444455554444332   221  34444455666777777777777


Q ss_pred             HHHHHHHHHcCCCCCCcc----cCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhh
Q 039029          240 RRLLDQMKRRGIKPDHIS----FNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAA  314 (319)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  314 (319)
                      .++....++.  .|+...    ......--..++..+.+.++.......++...+.|   +..+...+.+.|...++++
T Consensus       224 ~~~i~~yL~~--~p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~  297 (336)
T d1b89a_         224 YRAIQFYLEF--KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQ  297 (336)
T ss_dssp             HHHHHHHHHH--CGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHc--CHHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhH
Confidence            7766666553  232210    00000112345555566666666666666655544   3467777888888777653

>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=98.52  E-value=1.8e-07  Score=76.07  Aligned_cols=227  Identities=11%  Similarity=-0.014  Sum_probs=114.0

Q ss_pred             HHHHHHHHHHhCCCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcCh-hhHHHHHHHHHHcCchhHHHHHHHH
Q 039029           28 EASRMLEQMKENGLVPT-AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTA-STYNLLIHELLMERKMVEADDMLKE  105 (319)
Q Consensus        28 ~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~  105 (319)
                      +|.+.|++..+.  .|+ +..+..+..++...+++++|   |++++..+  |+. ..++..  ...-...+..+.+.++.
T Consensus         4 eA~q~~~qA~~l--~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~e--~~Lw~~~y~~~ie~~r~   74 (497)
T d1ya0a1           4 QSAQYLRQAEVL--KADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKVE--QDLWNHAFKNQITTLQG   74 (497)
T ss_dssp             HHHHHHHHHHHH--HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTHH--HHHHHHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhHH--HHHHHHHHHHHHHHHHH
Confidence            677888887763  233 34566677777777777765   66665542  211 111111  11111234556666666


Q ss_pred             HhhCCCCCChHHHHHHH--HHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCc
Q 039029          106 MGEKGIVPDSITYNILI--NGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKGMLP  183 (319)
Q Consensus       106 ~~~~~~~~~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  183 (319)
                      ..+....++..-....+  ......+.++.++..+....+.. +++...+..+...+.+.|+.+.|...+.......   
T Consensus        75 ~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---  150 (497)
T d1ya0a1          75 QAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---  150 (497)
T ss_dssp             HHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHH---
T ss_pred             hcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---
Confidence            66543333332222211  12223344555555554444332 3345566777777778888888877776655431   


Q ss_pred             cHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchh
Q 039029          184 DIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRL  263 (319)
Q Consensus       184 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  263 (319)
                      ...++..+...+...|++++|...|.+..+.. +-+...|+.+...+...|+..+|...|.+.+...  |      |...
T Consensus       151 ~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~--~------~~~~  221 (497)
T d1ya0a1         151 CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK--F------PFPA  221 (497)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS--B------CCHH
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--C------CCHH
Confidence            13456667778888888888888888887754 3345678888888888888888888888887643  2      2336


Q ss_pred             hHHHHHHHHHhcC
Q 039029          264 TYNALIQGLCKNQ  276 (319)
Q Consensus       264 ~~~~l~~~~~~~g  276 (319)
                      ++..|...+.+..
T Consensus       222 a~~nL~~~~~~~~  234 (497)
T d1ya0a1         222 ASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhh
Confidence            7777777665443

>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=98.44  E-value=1.4e-06  Score=56.48  Aligned_cols=111  Identities=8%  Similarity=0.076  Sum_probs=81.7

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCccc-CcchhhHH
Q 039029          188 FNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISF-NPTRLTYN  266 (319)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~~~~  266 (319)
                      +..+...+...|++++|...|++..+.+ +.+...+..+..+|.+.|++++|...++++++..  |+.... ..-..+|.
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~--~~~~~~~~~~a~~~~   83 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG--RENREDYRQIAKAYA   83 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhC--cccHHHHHHHHHHHH
Confidence            4456778888999999999999988875 4467788889999999999999999999987742  221100 00124667


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHH
Q 039029          267 ALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSL  303 (319)
Q Consensus       267 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  303 (319)
                      .+...+...+++++|++.|++....  .++......+
T Consensus        84 ~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~l  118 (128)
T d1elra_          84 RIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKC  118 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhc--CCCHHHHHHH
Confidence            7788888999999999999998875  4555444333

>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=98.43  E-value=8.6e-06  Score=55.58  Aligned_cols=93  Identities=13%  Similarity=-0.026  Sum_probs=46.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcC--------------C-CcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCCh
Q 039029           51 LIDGYCNKGNLEMAFSFRDEMVKQG--------------I-MPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDS  115 (319)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~--------------~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  115 (319)
                      ....+...|++++|++.|.++++..              . +.....+..+..++.+.|++++|+..+++.++..+. ++
T Consensus        33 ~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~-~~  111 (169)
T d1ihga1          33 IGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NT  111 (169)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhh-hh
Confidence            3444556666666666666554310              0 112223344444555555555555555555554332 44


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029          116 ITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       116 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      ..|..+..++...|++++|+..|++..+.
T Consensus       112 ~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1         112 KALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            55555555555555555555555555554

>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=98.42  E-value=1.6e-05  Score=53.16  Aligned_cols=61  Identities=10%  Similarity=-0.170  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           83 YNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus        83 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      |..+..+|.+.|++++|++.+++..+..+. +..+|..+..++...|++++|+..|++..+.
T Consensus        70 ~~Nla~~~~~l~~~~~Al~~~~~al~~~p~-~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          70 NLNLATCYNKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHhcccchhhhhhhccccccch-hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            334444444455555555555544444322 4444444455555555555555555444443

>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=98.42  E-value=5.2e-06  Score=55.64  Aligned_cols=108  Identities=11%  Similarity=-0.020  Sum_probs=86.4

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCC----CC-----------HHhHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLV----PT-----------AVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGI   76 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~----~~-----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   76 (319)
                      .+..-...+.+.|++.+|+..|.+....-..    ++           ..+|..+..+|.+.|++++|++.++..++.+ 
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-   97 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-   97 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-
Confidence            3455667888999999999999998764211    11           2367778899999999999999999999886 


Q ss_pred             CcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHH
Q 039029           77 MPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNIL  121 (319)
Q Consensus        77 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (319)
                      |.+..+|..+..++...|++++|...|++..+..+. +..+...+
T Consensus        98 p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~-n~~~~~~l  141 (153)
T d2fbna1          98 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSY  141 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHH
T ss_pred             chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            447899999999999999999999999999987543 55554444

>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=98.40  E-value=6.7e-06  Score=53.19  Aligned_cols=92  Identities=12%  Similarity=0.119  Sum_probs=40.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCC-CC-----hHHHHHHHHH
Q 039029           51 LIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMVEADDMLKEMGEKGIV-PD-----SITYNILING  124 (319)
Q Consensus        51 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-----~~~~~~l~~~  124 (319)
                      +...+...|++++|+..|++.++.+ +.+...+..+..+|.+.|++++|++.++++++.... +.     ..+|..+...
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444443 123444444444444444444444444444332110 00     1233344444


Q ss_pred             HHhcCChHHHHHHHHHHHH
Q 039029          125 YCRCGNAKKAFSLHDEMIH  143 (319)
Q Consensus       125 ~~~~~~~~~a~~~~~~~~~  143 (319)
                      +...+++++|+..|++...
T Consensus        89 ~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            4555555555555555443

>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=98.35  E-value=5.8e-07  Score=73.03  Aligned_cols=207  Identities=8%  Similarity=-0.061  Sum_probs=113.3

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhCCCCCCH-HhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHH--
Q 039029           13 YGSFVSGMCKEGRLEEASRMLEQMKENGLVPTA-VTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHE--   89 (319)
Q Consensus        13 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--   89 (319)
                      +..+...+...|++++|   |+++...+  |+. ..++.. ..+. ...+..+.+.++...+....++..-....+..  
T Consensus        23 ~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~e-~~Lw-~~~y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l   95 (497)
T d1ya0a1          23 KLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKVE-QDLW-NHAFKNQITTLQGQAKNRANPNRSEVQANLSLFL   95 (497)
T ss_dssp             SSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTHH-HHHH-HHHTHHHHHHHHHHHSCSSCTTTTHHHHHHHHHH
T ss_pred             HhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhHH-HHHH-HHHHHHHHHHHHHhcccccCccHHHHHHHHHHHH
Confidence            44455566666777665   66666532  221 111111 1111 12245667777776665433343332222222  


Q ss_pred             HHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHH
Q 039029           90 LLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEA  169 (319)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (319)
                      ....+.++.++..+....+..+ ++...+..+...+.+.|+.++|...+.......   ...++..+...+...|++++|
T Consensus        96 ~~a~~~Y~~ai~~l~~~~~l~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A  171 (497)
T d1ya0a1          96 EAASGFYTQLLQELCTVFNVDL-PCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQA  171 (497)
T ss_dssp             HHHHHHHHHHHHHHTC--------------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHCCCh-hhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHH
Confidence            2234555666555554444332 356677888888999999999999888776542   235777888999999999999


Q ss_pred             HHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 039029          170 DQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCR  232 (319)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  232 (319)
                      ...|.+..+..+. +...|+.+...+...|+..+|...|.+..... +|-..++..|...+.+
T Consensus       172 ~~~y~~A~~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         172 ESYYRHAAQLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHHHHHHHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHH
Confidence            9999999987543 67899999999999999999999999998865 5667778888776654

>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=98.34  E-value=1.9e-05  Score=53.73  Aligned_cols=60  Identities=8%  Similarity=-0.119  Sum_probs=30.3

Q ss_pred             HHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           84 NLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus        84 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      ..+..++.+.|++++|+..++...+..+. +...|..+..++...|++++|...|+++...
T Consensus        68 ~Nla~~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          68 LNLAMCYLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HhHHHHHHHhhhcccchhhhhhhhhcccc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            33444455555555555555555544322 4445555555555555555555555555543

>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=98.33  E-value=7.4e-06  Score=55.84  Aligned_cols=116  Identities=9%  Similarity=-0.051  Sum_probs=89.6

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhC---CCCC-----------CHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKEN---GLVP-----------TAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIM   77 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   77 (319)
                      .+......+.+.|++.+|+..|......   ....           ...+|+.+..+|.+.|++++|+..++..++.. +
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p   95 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-S   95 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-c
Confidence            4556777889999999999999887642   1111           12346678888999999999999999999875 4


Q ss_pred             cChhhHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcC
Q 039029           78 PTASTYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCG  129 (319)
Q Consensus        78 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  129 (319)
                      .+...|..+..++...|++++|...|++..+..+. +......+.......+
T Consensus        96 ~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~~~~  146 (168)
T d1kt1a1          96 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQIFMCQKKAK  146 (168)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHH
Confidence            57889999999999999999999999999987543 5555555544444433

>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=1.4e-05  Score=54.52  Aligned_cols=63  Identities=11%  Similarity=-0.049  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC
Q 039029          151 LTYTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (319)
                      ..+..+..++.+.|++++|+..++++++..+. +..+|..+..++...|++++|...|+++.+.
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~-~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccchhhhhhhhhhhhhhh-hhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            34455555666666666666666666655432 4556666666666666666666666666554

>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=98.20  E-value=4.2e-06  Score=61.44  Aligned_cols=125  Identities=14%  Similarity=0.025  Sum_probs=81.6

Q ss_pred             HHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHHcCchh
Q 039029           18 SGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLMERKMV   97 (319)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   97 (319)
                      +...+.|++++|+..+++..+..+. +...+..+...++..|++++|.+.++...+... -+...+..+...+...+..+
T Consensus         4 ~~aL~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P-~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           4 KNALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLFP-EYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHhccccH
Confidence            3456789999999999999887544 788899999999999999999999999988742 23344444444433333333


Q ss_pred             HHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           98 EADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      ++..-.......+.+++...+......+...|+.++|.+.++++.+.
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            22211111111112223344445566777889999999998888775

>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=6.7e-05  Score=51.37  Aligned_cols=59  Identities=8%  Similarity=0.010  Sum_probs=34.2

Q ss_pred             hHHHHHHHHHHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHH
Q 039029           82 TYNLLIHELLMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEM  141 (319)
Q Consensus        82 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  141 (319)
                      .+..+...+...|++++|+..++++.+..+. +...|..++.++.+.|+..+|++.|+++
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~P~-~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            4445555555666666666666666555433 5555666666666666666666666555

>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=98.17  E-value=6.9e-05  Score=51.29  Aligned_cols=72  Identities=14%  Similarity=0.163  Sum_probs=53.0

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhh-----CCCCccHHH
Q 039029          115 SITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLA-----KGMLPDIVM  187 (319)
Q Consensus       115 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  187 (319)
                      ...+..+...+...|++++|+..++++.... +.+...|..++.++...|+..+|++.|+++.+     .|+.|+..+
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            3456667777888888888888888887764 55777888888888888888888888877643     366666543

>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=98.16  E-value=6.7e-06  Score=60.32  Aligned_cols=122  Identities=13%  Similarity=0.046  Sum_probs=63.1

Q ss_pred             HHcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHH
Q 039029           91 LMERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEAD  170 (319)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (319)
                      .+.|++++|+..+++..+..+. +...+..+...++..|++++|...++...+.. +.+...+..+...+...+..+++.
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~-P~~~~~~~~l~~ll~a~~~~~~a~   84 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhccccHHHH
Confidence            3456777777777777666544 66667777777777777777777777766653 223334433333333333322221


Q ss_pred             HHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhC
Q 039029          171 QLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRM  214 (319)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (319)
                      .-.......+.+++...+......+...|+.++|.+.+.++.+.
T Consensus        85 ~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          85 QGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            11111111111222333333444555666666666666666553

>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=98.08  E-value=0.001  Score=50.17  Aligned_cols=241  Identities=13%  Similarity=0.102  Sum_probs=139.1

Q ss_pred             cHHHHHHHHhccCChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHH
Q 039029           12 TYGSFVSGMCKEGRLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELL   91 (319)
Q Consensus        12 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   91 (319)
                      -|..++..+.+.++++.|.+.+...      -+..+|..+...|.+......+     .+..............++..|.
T Consensus        42 d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye  110 (336)
T d1b89a_          42 NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQ  110 (336)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHH
Confidence            3556777788888888887776543      2567888888888887766543     2222233345556677889999


Q ss_pred             HcCchhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCccH--------HHHHHHHHHHhhh
Q 039029           92 MERKMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHKGIQPTM--------LTYTSLIFVLSKQ  163 (319)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~~~~~l~~~~~~~  163 (319)
                      ..|.+++...+++...... ..+...++.++..|++.+ .++..+.+..... ...+..        ..|.-++-.|.+.
T Consensus       111 ~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~-~y~~~k~~~~c~~~~l~~elv~Ly~~~  187 (336)
T d1b89a_         111 DRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWS-RVNIPKVLRAAEQAHLWAELVFLYDKY  187 (336)
T ss_dssp             HTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHST-TSCHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             HcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHHHHHHHHhccc-cCCHHHHHHHHHHcCChHHHHHHHHhc
Confidence            9999999999999887542 347778888999898864 3444433333211 111110        1133344445555


Q ss_pred             ccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH------------
Q 039029          164 NRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRC------------  231 (319)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~------------  231 (319)
                      |.++.|..++-.   +  .++..-...++..+.+..+.+...++.....+.  .|  ...+.++....            
T Consensus       188 ~~~~~A~~~~i~---~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~~  258 (336)
T d1b89a_         188 EEYDNAIITMMN---H--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNYF  258 (336)
T ss_dssp             TCHHHHHHHHHH---S--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHHH
T ss_pred             CCHHHHHHHHHH---c--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CH--HHHHHHHHHhccCCCHHHHHHHH
Confidence            555554443321   1  122222344555566666666655555554442  22  22344444444            


Q ss_pred             -cCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHH
Q 039029          232 -RQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELL  285 (319)
Q Consensus       232 -~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  285 (319)
                       +.+++.....+++.....+          +....+++...|...++++.-.+..
T Consensus       259 ~k~~~l~li~p~Le~v~~~n----------~~~vn~al~~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         259 SKVKQLPLVKPYLRSVQNHN----------NKSVNESLNNLFITEEDYQALRTSI  303 (336)
T ss_dssp             HHTTCTTTTHHHHHHHHTTC----------CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhcCCcHHHHHHHHHHHHcC----------hHHHHHHHHHHHhCcchhHHHHHHH
Confidence             4444444444444443322          2256788888899988876544433

>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=98.04  E-value=5.2e-05  Score=49.99  Aligned_cols=33  Identities=6%  Similarity=-0.071  Sum_probs=17.4

Q ss_pred             hHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhc
Q 039029          131 AKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQN  164 (319)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (319)
                      +++|+..|++..+.+ |.+..+|..+..+|...|
T Consensus        57 ~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~~g   89 (145)
T d1zu2a1          57 IQEAITKFEEALLID-PKKDEAVWCIGNAYTSFA   89 (145)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhc-chhhHHHhhHHHHHHHcc
Confidence            345555666555543 334555555555554443

>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=98.03  E-value=5.1e-05  Score=50.02  Aligned_cols=114  Identities=15%  Similarity=0.053  Sum_probs=72.6

Q ss_pred             hcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhh----------hccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHh
Q 039029          127 RCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSK----------QNRMIEADQLFENFLAKGMLPDIVMFNALIDGHC  196 (319)
Q Consensus       127 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  196 (319)
                      +.+.+++|...|+...+.. |.+..++..+..++..          .+.+++|+..|+++++..+. +..+|..+..+|.
T Consensus         9 r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHHHH
Confidence            3444666666666666654 4455555555555543          34567889999988887544 6778888888886


Q ss_pred             cCC-----------cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          197 TNG-----------NIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       197 ~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      ..|           .+++|.+.|++..+.  .|+...+..-+..+      .+|.+++.++.+.|
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~------~ka~~~~~e~~k~~  143 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMT------AKAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence            654           357788888888775  46655554433333      45566666665554

>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=97.76  E-value=0.00017  Score=48.16  Aligned_cols=98  Identities=12%  Similarity=0.014  Sum_probs=66.4

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHhCCCC-CC----------hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC-----CCCCC
Q 039029          192 IDGHCTNGNIERAFSLLKEMDRMKVH-PD----------EVTYNTLMHGRCRQGKVEEARRLLDQMKRRG-----IKPDH  255 (319)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-----~~~~~  255 (319)
                      ...+...|++++|...|++..+.... |+          ...|+.+..+|...|++++|...+++.++..     ..++.
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            34455667777777777776543111 11          2467788888999999999999988877531     11111


Q ss_pred             cccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 039029          256 ISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSK  291 (319)
Q Consensus       256 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  291 (319)
                        .+....++..+..+|...|++++|++.|++.++.
T Consensus        96 --~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          96 --GKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             --HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             --cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence              0011235777899999999999999999998763

>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=97.69  E-value=0.00046  Score=45.92  Aligned_cols=61  Identities=16%  Similarity=0.196  Sum_probs=32.9

Q ss_pred             cHHHH--HHHHhccCChHHHHHHHHHHHhCCCC-CC----------HHhHHHHHHHHHhcCChHHHHHHHHHHH
Q 039029           12 TYGSF--VSGMCKEGRLEEASRMLEQMKENGLV-PT----------AVTYNTLIDGYCNKGNLEMAFSFRDEMV   72 (319)
Q Consensus        12 ~~~~l--i~~~~~~~~~~~a~~~~~~~~~~~~~-~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~   72 (319)
                      +|..+  ...+.+.|++++|++.|++..+.... |+          ..+|+.+..+|...|++++|...+++.+
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al   82 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhh
Confidence            34444  44455667777777777776642111 11          2345555556666666666655555554

>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=97.67  E-value=0.00029  Score=42.36  Aligned_cols=81  Identities=14%  Similarity=0.034  Sum_probs=58.8

Q ss_pred             hhhHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCCCCcccCcchhhHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCC-hH
Q 039029          220 EVTYNTLMHGRCRQGKVEEARRLLDQMKRRGIKPDHISFNPTRLTYNALIQGLCKNQEGDLAEELLREMVSKGITPD-DN  298 (319)
Q Consensus       220 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~  298 (319)
                      ...+-.+...+.+.|++++|...|+++++..... .........++..+..++.+.|++++|++.++++++.  .|+ ..
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~-~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l--~P~~~~   81 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEG-EISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DPEHQR   81 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhh-hccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh--CcCCHH
Confidence            3445568888999999999999999987652111 1111122467889999999999999999999999986  465 44


Q ss_pred             HHHHH
Q 039029          299 TYFSL  303 (319)
Q Consensus       299 ~~~~l  303 (319)
                      ++..+
T Consensus        82 a~~Nl   86 (95)
T d1tjca_          82 ANGNL   86 (95)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44443

>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=97.55  E-value=0.00091  Score=40.07  Aligned_cols=28  Identities=18%  Similarity=0.278  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029          117 TYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus       117 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      ++..+..++.+.|++++|+..++++.+.
T Consensus        48 ~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_          48 VLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3444444444444444444444444443

>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=97.24  E-value=0.0088  Score=38.16  Aligned_cols=110  Identities=14%  Similarity=0.077  Sum_probs=47.8

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHH----cCchhHHH
Q 039029           25 RLEEASRMLEQMKENGLVPTAVTYNTLIDGYCNKGNLEMAFSFRDEMVKQGIMPTASTYNLLIHELLM----ERKMVEAD  100 (319)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  100 (319)
                      |+++|+++|++..+.|.   ......+..  ....+.++|++++++..+.|   +......|...|..    ..+.++|.
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            45666666666655542   122222221  22344555555555555544   22333333333332    23344555


Q ss_pred             HHHHHHhhCCCCCChHHHHHHHHHHHh----cCChHHHHHHHHHHHHcC
Q 039029          101 DMLKEMGEKGIVPDSITYNILINGYCR----CGNAKKAFSLHDEMIHKG  145 (319)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  145 (319)
                      ++|++..+.|   ++.....|...|..    ..+.++|.++|++..+.|
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            5555554443   22333333333333    234444555554444443

>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=97.19  E-value=0.01  Score=37.88  Aligned_cols=81  Identities=11%  Similarity=-0.045  Sum_probs=41.8

Q ss_pred             ccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhc----CCcHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----CCc
Q 039029          164 NRMIEADQLFENFLAKGMLPDIVMFNALIDGHCT----NGNIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCR----QGK  235 (319)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~  235 (319)
                      .+.+++.+++++..+.|   ++.....|...|..    ..+.++|.++|++..+.+   ++.....|...|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCC
Confidence            34455555555555443   22333333333332    345566666666666544   33334445445443    346


Q ss_pred             HHHHHHHHHHHHHcC
Q 039029          236 VEEARRLLDQMKRRG  250 (319)
Q Consensus       236 ~~~a~~~~~~~~~~~  250 (319)
                      .++|.++|++..+.|
T Consensus       111 ~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         111 EKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCC
Confidence            667777777766655

>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=96.27  E-value=0.052  Score=33.47  Aligned_cols=60  Identities=13%  Similarity=0.133  Sum_probs=25.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCccHHHHHHHHHHHhhhccHHHHHHHHHHHhhCC
Q 039029          120 ILINGYCRCGNAKKAFSLHDEMIHKGIQPTMLTYTSLIFVLSKQNRMIEADQLFENFLAKG  180 (319)
Q Consensus       120 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (319)
                      ..++.....|.-++..++++.+.+.+ .+++.....+..+|.+.|...++.+++.++-+.|
T Consensus        91 lALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          91 KALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            33444444444444444444433322 3344444444444444444444444444444443

>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=95.57  E-value=0.075  Score=32.84  Aligned_cols=66  Identities=14%  Similarity=0.128  Sum_probs=41.6

Q ss_pred             ccHHHHHHHHHHHhcC---CcHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHcCCcHHHHHHHHHHHHHc
Q 039029          183 PDIVMFNALIDGHCTN---GNIERAFSLLKEMDRMKVHPD-EVTYNTLMHGRCRQGKVEEARRLLDQMKRR  249 (319)
Q Consensus       183 ~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  249 (319)
                      ++..+--....++.++   .+.+++..+++++.+.+ +.+ ...+-.+.-+|.+.|++++|.++++.+++.
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            4444444455555544   34567777777776543 222 245566777777888888888888888774

>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=95.45  E-value=0.13  Score=31.70  Aligned_cols=67  Identities=12%  Similarity=0.045  Sum_probs=35.4

Q ss_pred             cChhhHHHHHHHHHHcC---chhHHHHHHHHHhhCCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 039029           78 PTASTYNLLIHELLMER---KMVEADDMLKEMGEKGIVPDSITYNILINGYCRCGNAKKAFSLHDEMIHK  144 (319)
Q Consensus        78 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  144 (319)
                      ++..+--....++++..   +.++++.+++++.+.++.-....+-.|.-+|.+.|++++|.+.++.+.+.
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 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            34444444444555432   34556666666655432211234455556666666666666666666665

>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=94.95  E-value=0.2  Score=30.89  Aligned_cols=62  Identities=15%  Similarity=0.099  Sum_probs=27.3

Q ss_pred             HHHHHHHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC
Q 039029          153 YTSLIFVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMK  215 (319)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (319)
                      +...+..+..+|.-+...++++.+.+. -.|++...-.+..+|.+.|...++.+++.+.-+.|
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            333344444444444444444443332 22334444444444555555555544444444443

>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=93.98  E-value=0.28  Score=28.53  Aligned_cols=62  Identities=11%  Similarity=0.227  Sum_probs=40.0

Q ss_pred             cHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCCCChhhHHHHH
Q 039029          165 RMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERAFSLLKEMDRMKVHPDEVTYNTLM  227 (319)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  227 (319)
                      +.-+..+-++.+......|++....+.+++|.+.+++.-|.++|+.++... .++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHH
Confidence            344566666666677777777777777777777777777777777665432 23344555444

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=91.91  E-value=2.1  Score=33.11  Aligned_cols=182  Identities=12%  Similarity=0.005  Sum_probs=112.8

Q ss_pred             CChHHHHHHHHHHHHcCCCccHHHHHHHH----HHHhhhccHHHHHHHHHHHhhCCCCccHHHHHHHHHHHhcCCcHHHH
Q 039029          129 GNAKKAFSLHDEMIHKGIQPTMLTYTSLI----FVLSKQNRMIEADQLFENFLAKGMLPDIVMFNALIDGHCTNGNIERA  204 (319)
Q Consensus       129 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (319)
                      .+.+.+..++....... ..+......+-    ......+..+.+...+......+.  +.....-.+......+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQ--STSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCC--CHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhcc-cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccccc--chHHHHHHHHHHHHcCChHHH
Confidence            46677777777766543 22222222222    222345666777777776665543  344444455556677899999


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHH------------cCCCCCCc----ccCcch----hh
Q 039029          205 FSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKR------------RGIKPDHI----SFNPTR----LT  264 (319)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~------------~~~~~~~~----~~~~~~----~~  264 (319)
                      ...+..+... ......-.-.+.+++...|+.+.|...|..+..            .|.++...    +..+..    ..
T Consensus       305 ~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~~~fYG~LAa~~Lg~~~~~~~~~~~~~~~~~~~~~~  383 (450)
T d1qsaa1         305 NTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQQRGFYPMVAAQRIGEEYELKIDKAPQNVDSALTQGP  383 (450)
T ss_dssp             HHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSHHHHHHHHHTTCCCCCCCCCCCSCCCCHHHHSH
T ss_pred             HHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcCCChHHHHHHHHcCCCCCCCcCCCCccHHHhhhcCh
Confidence            9988887542 122344456688999999999999999988643            23222211    011110    00


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCChHHHHHHHHHhhhcchhhhhc
Q 039029          265 YNALIQGLCKNQEGDLAEELLREMVSKGITPDDNTYFSLIEGIASVDKAAESS  317 (319)
Q Consensus       265 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  317 (319)
                      -...+..+...|....|...|..+...   .+......+.....+.|.++.|+
T Consensus       384 ~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~la~lA~~~g~~~~aI  433 (450)
T d1qsaa1         384 EMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQLARYAFNNQWWDLSV  433 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHHHHHHHHCCChhHHH
Confidence            112356678899999999999988764   35667777788888899888776

>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=87.01  E-value=1.7  Score=25.14  Aligned_cols=51  Identities=12%  Similarity=0.161  Sum_probs=45.0

Q ss_pred             cHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcCCcHHHHHHHHHHHHHcC
Q 039029          200 NIERAFSLLKEMDRMKVHPDEVTYNTLMHGRCRQGKVEEARRLLDQMKRRG  250 (319)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  250 (319)
                      +.-+..+-++.+...++.|++....+.+++|.+.+++..|.++|+.++.+.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~   71 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA   71 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            555677778888888899999999999999999999999999999988763