Citrus Sinensis ID: 035645

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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-------
Protein Sequence
MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV
Secondary Structure (PSIPRED)
cccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEcHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
msdkgfnppvrgRDLLVQGLLNAGYLESAKQMVNKMIkqgsdpdleTFNSLIETICKSGEVEFCVEMYYSVCklgscadvstykiLIPAVSKAGMIDEAFRLLHNLVedghnpfpslyapiikgafrrgqfddafcffseikikghppnrpvyTTLITMCGRGGRFVEAANYLMEMTEmgltpisrcFDLVTdglkncgkhdlAEKIEQLEVSLRSV
Flexible Loop (DISEMBL)
msdkgfnppvrgrDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSeikikghppnrpVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGkhdlaekieqlevslrsv
Low Complexity Region (SEG)
MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV
Disordered region (IsUnstruct)
*************DLLVQGLLNAGYLESAKQMVNKMI******DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLA*************
Disordered Region (DISOPRED)
***KGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV
Disordered Region (DISEMBL)
********PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV
Disordered Region (DISPRO)
****GFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVS****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV
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	217	2.2.26 [Sep-21-2011]
Q94JX6	459	Pentatricopeptide repeat-	yes	no	0.995	0.470	0.774	5e-99
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.838	0.241	0.304	4e-21
Q9SZ52	1112	Pentatricopeptide repeat-	no	no	0.981	0.191	0.299	8e-20
O04504	606	Pentatricopeptide repeat-	no	no	0.889	0.318	0.319	2e-19
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.824	0.245	0.280	3e-19
Q9LQ14	629	Pentatricopeptide repeat-	no	no	0.894	0.308	0.303	3e-19
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.741	0.255	0.294	4e-19
P0C7Q7	602	Putative pentatricopeptid	no	no	0.967	0.348	0.245	8e-19
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.930	0.337	0.269	2e-18
Q9SR00	602	Pentatricopeptide repeat-	no	no	0.820	0.295	0.277	5e-18

>sp|Q94JX6|PP391_ARATH Pentatricopeptide repeat-containing protein At5g18390, mitochondrial OS=Arabidopsis thaliana GN=At5g18390 PE=2 SV=2

 Score =  360 bits (923), Expect = 5e-99,   Method: Compositional matrix adjust.
 Identities = 168/217 (77%), Positives = 187/217 (86%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           MS +GFNPP RGRDLL++GLLNAGYLESAK+MV+KM K G  PD++TFN LIE I KSGE
Sbjct: 243 MSRRGFNPPARGRDLLIEGLLNAGYLESAKEMVSKMTKGGFVPDIQTFNILIEAISKSGE 302

Query: 61  VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
           VEFC+EMYY+ CKLG C D+ TYK LIPAVSK G IDEAFRLL+N VEDGH PFPSLYAP
Sbjct: 303 VEFCIEMYYTACKLGLCVDIDTYKTLIPAVSKIGKIDEAFRLLNNCVEDGHKPFPSLYAP 362

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
           IIKG  R G FDDAF FFS++K+K HPPNRPVYT LITMCGRGG+FV+AANYL+EMTEMG
Sbjct: 363 IIKGMCRNGMFDDAFSFFSDMKVKAHPPNRPVYTMLITMCGRGGKFVDAANYLVEMTEMG 422

Query: 181 LTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV 217
           L PISRCFD+VTDGLKN GKHDLA +IEQLEV LR V
Sbjct: 423 LVPISRCFDMVTDGLKNGGKHDLAMRIEQLEVQLRGV 459

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFF1|PP281_ARATH Pentatricopeptide repeat-containing protein At3g53700, chloroplastic OS=Arabidopsis thaliana GN=MEE40 PE=2 SV=1

 Score =  101 bits (252), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 56/184 (30%), Positives = 99/184 (53%), Gaps = 2/184 (1%)

Query: 14  DLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCK 73
           + L+ GL  +  +E A Q++++MI +G  PD  T+NSL+   C+ G+++   ++  ++  
Sbjct: 509 NTLIDGLCKSRRVEDAAQLMDQMIMEGQKPDKYTYNSLLTHFCRGGDIKKAADIVQAMTS 568

Query: 74  LGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDD 133
            G   D+ TY  LI  + KAG ++ A +LL ++   G N  P  Y P+I+G FR+ +  +
Sbjct: 569 NGCEPDIVTYGTLISGLCKAGRVEVASKLLRSIQMKGINLTPHAYNPVIQGLFRKRKTTE 628

Query: 134 AFCFFSEIKIKGH-PPNRPVYTTLIT-MCGRGGRFVEAANYLMEMTEMGLTPISRCFDLV 191
           A   F E+  +   PP+   Y  +   +C  GG   EA ++L+E+ E G  P      ++
Sbjct: 629 AINLFREMLEQNEAPPDAVSYRIVFRGLCNGGGPIREAVDFLVELLEKGFVPEFSSLYML 688

Query: 192 TDGL 195
            +GL
Sbjct: 689 AEGL 692

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZ52|PP344_ARATH Pentatricopeptide repeat-containing protein At4g31850, chloroplastic OS=Arabidopsis thaliana GN=PGR3 PE=1 SV=1

 Score = 97.1 bits (240), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 64/214 (29%), Positives = 97/214 (45%), Gaps = 1/214 (0%)

Query: 1    MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
            MSD+ F+P       L+ GL  +G L  AKQ+   M+  G  P+   +N LI    K+GE
Sbjct: 882  MSDRDFSPTACTYGPLIDGLSKSGRLYEAKQLFEGMLDYGCRPNCAIYNILINGFGKAGE 941

Query: 61   VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
             +    ++  + K G   D+ TY +L+  +   G +DE       L E G NP    Y  
Sbjct: 942  ADAACALFKRMVKEGVRPDLKTYSVLVDCLCMVGRVDEGLHYFKELKESGLNPDVVCYNL 1001

Query: 121  IIKGAFRRGQFDDAFCFFSEIKI-KGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEM 179
            II G  +  + ++A   F+E+K  +G  P+   Y +LI   G  G   EA     E+   
Sbjct: 1002 IINGLGKSHRLEEALVLFNEMKTSRGITPDLYTYNSLILNLGIAGMVEEAGKIYNEIQRA 1061

Query: 180  GLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVS 213
            GL P    F+ +  G    GK + A  + Q  V+
Sbjct: 1062 GLEPNVFTFNALIRGYSLSGKPEHAYAVYQTMVT 1095

Plays a role in the stabilization of the primary polycistronic transcript of the petL operon encoding subunits of the cytochrome b6-f complex.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 96.3 bits (238), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 62/194 (31%), Positives = 94/194 (48%), Gaps = 1/194 (0%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           M D+   P V   + L+ GL N G +  A  M +KM+  G  P+L T+N+LI   CK+  
Sbjct: 322 MLDQDVKPNVISYNSLINGLCNGGKISEAISMRDKMVSAGVQPNLITYNALINGFCKNDM 381

Query: 61  VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
           ++  ++M+ SV   G+      Y +LI A  K G ID+ F L   +  +G  P    Y  
Sbjct: 382 LKEALDMFGSVKGQGAVPTTRMYNMLIDAYCKLGKIDDGFALKEEMEREGIVPDVGTYNC 441

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
           +I G  R G  + A   F ++  KG P     +  +   C R G   +AA  L EM++MG
Sbjct: 442 LIAGLCRNGNIEAAKKLFDQLTSKGLPDLVTFHILMEGYC-RKGESRKAAMLLKEMSKMG 500

Query: 181 LTPISRCFDLVTDG 194
           L P    +++V  G
Sbjct: 501 LKPRHLTYNIVMKG 514

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FMF6|PP444_ARATH Pentatricopeptide repeat-containing protein At5g64320, mitochondrial OS=Arabidopsis thaliana GN=At5g64320 PE=2 SV=1

 Score = 95.5 bits (236), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 51/182 (28%), Positives = 95/182 (52%)

Query: 14  DLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCK 73
           + L+   L  G ++ A+++VN+M+ QGS  D  T+NSLI+ +C++GEV+    ++  + +
Sbjct: 533 NTLINAFLRRGEIKEARKLVNEMVFQGSPLDEITYNSLIKGLCRAGEVDKARSLFEKMLR 592

Query: 74  LGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDD 133
            G      +  ILI  + ++GM++EA      +V  G  P    +  +I G  R G+ +D
Sbjct: 593 DGHAPSNISCNILINGLCRSGMVEEAVEFQKEMVLRGSTPDIVTFNSLINGLCRAGRIED 652

Query: 134 AFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTD 193
               F +++ +G PP+   + TL++   +GG   +A   L E  E G  P  R + ++  
Sbjct: 653 GLTMFRKLQAEGIPPDTVTFNTLMSWLCKGGFVYDACLLLDEGIEDGFVPNHRTWSILLQ 712

Query: 194 GL 195
            +
Sbjct: 713 SI 714

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQ14|PPR96_ARATH Pentatricopeptide repeat-containing protein At1g62930, chloroplastic OS=Arabidopsis thaliana GN=At1g62930 PE=2 SV=2

 Score = 95.1 bits (235), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 60/198 (30%), Positives = 100/198 (50%), Gaps = 4/198 (2%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           MS +G        + L+QGL  AG  + A+++  KM+  G  PD+ T++ L++ +CK G+
Sbjct: 421 MSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLDGLCKYGK 480

Query: 61  VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
           +E  + ++  + K     D+ TY I+I  + KAG +++ + L  +L   G  P   +Y  
Sbjct: 481 LEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVIIYTT 540

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
           +I G  R+G  ++A   F E+K  G  PN   Y TLI    R G    +A  + EM   G
Sbjct: 541 MISGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLIRARLRDGDKAASAELIKEMRSCG 600

Query: 181 L----TPISRCFDLVTDG 194
                + IS   +++ DG
Sbjct: 601 FVGDASTISMVINMLHDG 618

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SXD1|PPR91_ARATH Pentatricopeptide repeat-containing protein At1g62670, mitochondrial OS=Arabidopsis thaliana GN=At1g62670 PE=2 SV=2

 Score = 94.7 bits (234), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 58/197 (29%), Positives = 100/197 (50%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           MS +G        ++L+QGL  AG  + A+++  +M+  G  P++ T+N+L++ +CK+G+
Sbjct: 422 MSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKNGK 481

Query: 61  VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
           +E  + ++  + +      + TY I+I  + KAG +++ + L  NL   G  P    Y  
Sbjct: 482 LEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLSLKGVKPDVVAYNT 541

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
           +I G  R+G  ++A   F E+K  G  PN   Y TLI    R G    +A  + EM   G
Sbjct: 542 MISGFCRKGSKEEADALFKEMKEDGTLPNSGCYNTLIRARLRDGDREASAELIKEMRSCG 601

Query: 181 LTPISRCFDLVTDGLKN 197
               +    LVT+ L +
Sbjct: 602 FAGDASTIGLVTNMLHD 618

Arabidopsis thaliana (taxid: 3702)

>sp|P0C7Q7|PPR38_ARATH Putative pentatricopeptide repeat-containing protein At1g12700, mitochondrial OS=Arabidopsis thaliana GN=At1g12700 PE=3 SV=1

 Score = 93.6 bits (231), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 52/212 (24%), Positives = 105/212 (49%), Gaps = 2/212 (0%)

Query: 5   GFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFC 64
           G+ P     + L++GL   G +  A  +V++M++ G  PD+ T+NS++  IC+SG+    
Sbjct: 153 GYEPDTTTFNTLIKGLFLEGKVSEAVVLVDRMVENGCQPDVVTYNSIVNGICRSGDTSLA 212

Query: 65  VEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKG 124
           +++   + +    ADV TY  +I ++ + G ID A  L   +   G       Y  +++G
Sbjct: 213 LDLLRKMEERNVKADVFTYSTIIDSLCRDGCIDAAISLFKEMETKGIKSSVVTYNSLVRG 272

Query: 125 AFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPI 184
             + G+++D      ++  +   PN   +  L+ +  + G+  EA     EM   G++P 
Sbjct: 273 LCKAGKWNDGALLLKDMVSREIVPNVITFNVLLDVFVKEGKLQEANELYKEMITRGISPN 332

Query: 185 SRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS 216
              ++ + DG   C ++ L+E    L++ +R+
Sbjct: 333 IITYNTLMDGY--CMQNRLSEANNMLDLMVRN 362

Arabidopsis thaliana (taxid: 3702)

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

 Score = 92.8 bits (229), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 55/204 (26%), Positives = 97/204 (47%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           M  KGF+P V   ++L+  L   G L  A  ++ KM + G  P+  ++N L+   CK  +
Sbjct: 335 MLRKGFSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSYNPLLHGFCKEKK 394

Query: 61  VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
           ++  +E    +   G   D+ TY  ++ A+ K G +++A  +L+ L   G +P    Y  
Sbjct: 395 MDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQLSSKGCSPVLITYNT 454

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
           +I G  + G+   A     E++ K   P+   Y++L+    R G+  EA  +  E   MG
Sbjct: 455 VIDGLAKAGKTGKAIKLLDEMRAKDLKPDTITYSSLVGGLSREGKVDEAIKFFHEFERMG 514

Query: 181 LTPISRCFDLVTDGLKNCGKHDLA 204
           + P +  F+ +  GL    + D A
Sbjct: 515 IRPNAVTFNSIMLGLCKSRQTDRA 538

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SR00|PP213_ARATH Pentatricopeptide repeat-containing protein At3g04760, chloroplastic OS=Arabidopsis thaliana GN=At3g04760 PE=2 SV=1

 Score = 90.9 bits (224), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 50/180 (27%), Positives = 89/180 (49%)

Query: 4   KGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEF 63
           KG  P V   ++L++ LLN G  E  ++++ KM  +  DP++ T++ LI T+C+ G++E 
Sbjct: 292 KGCEPDVISYNILLRALLNQGKWEEGEKLMTKMFSEKCDPNVVTYSILITTLCRDGKIEE 351

Query: 64  CVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIK 123
            + +   + + G   D  +Y  LI A  + G +D A   L  ++ DG  P    Y  ++ 
Sbjct: 352 AMNLLKLMKEKGLTPDAYSYDPLIAAFCREGRLDVAIEFLETMISDGCLPDIVNYNTVLA 411

Query: 124 GAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTP 183
              + G+ D A   F ++   G  PN   Y T+ +     G  + A + ++EM   G+ P
Sbjct: 412 TLCKNGKADQALEIFGKLGEVGCSPNSSSYNTMFSALWSSGDKIRALHMILEMMSNGIDP 471

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	217
224144668	422	predicted protein [Populus trichocarpa]	0.986	0.507	0.804	1e-104
255562047	451	pentatricopeptide repeat-containing prot	0.990	0.476	0.788	1e-100
449449535	455	PREDICTED: pentatricopeptide repeat-cont	0.995	0.474	0.769	2e-98
225430658	454	PREDICTED: pentatricopeptide repeat-cont	0.976	0.466	0.760	9e-98
297807861	459	pentatricopeptide repeat-containing prot	0.995	0.470	0.774	2e-97
15238810	459	pentatricopeptide repeat-containing prot	0.995	0.470	0.774	3e-97
356510681	450	PREDICTED: pentatricopeptide repeat-cont	0.995	0.48	0.732	4e-95
13899129	186	Unknown protein [Arabidopsis thaliana] g	0.857	1.0	0.768	5e-80
356528050	304	PREDICTED: LOW QUALITY PROTEIN: pentatri	0.981	0.700	0.623	6e-77
125562258	465	hypothetical protein OsI_29963 [Oryza sa	0.976	0.455	0.602	2e-74

>gi|224144668|ref|XP_002325369.1| predicted protein [Populus trichocarpa] gi|222862244|gb|EEE99750.1| predicted protein [Populus trichocarpa]

 Score =  383 bits (983), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 173/215 (80%), Positives = 198/215 (92%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           MS KGFNPPVRGRDLL++GLLNAGYLESAK MV +M+K+G  PD+ TFNS++E IC +GE
Sbjct: 207 MSKKGFNPPVRGRDLLIEGLLNAGYLESAKDMVRRMMKEGLVPDVNTFNSMVEAICNAGE 266

Query: 61  VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
           V+FCV+MY+SVCKLG C D+++YKILIPAVSK G IDEAFRLLHNL+EDGH PFPSLYAP
Sbjct: 267 VDFCVDMYHSVCKLGFCPDINSYKILIPAVSKVGRIDEAFRLLHNLIEDGHKPFPSLYAP 326

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
           IIKG FRRGQFDDAFCFFSE+K+KGHPPNRPVYT +ITMCGRGG+ VEAANYL+EMTE+G
Sbjct: 327 IIKGMFRRGQFDDAFCFFSEMKVKGHPPNRPVYTMMITMCGRGGKHVEAANYLVEMTEIG 386

Query: 181 LTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR 215
           L PISRCFD+VTDGLKNCGKHDLA++IEQLEVSLR
Sbjct: 387 LVPISRCFDMVTDGLKNCGKHDLAKRIEQLEVSLR 421

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255562047|ref|XP_002522032.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223538836|gb|EEF40436.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  368 bits (945), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 171/217 (78%), Positives = 194/217 (89%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           MS KGFNPPVRGRDLL++GLLNAGY ESAK+MV KM K+G  PD+ TFN LIE IC SGE
Sbjct: 235 MSKKGFNPPVRGRDLLIEGLLNAGYFESAKEMVFKMSKEGFVPDVNTFNCLIEAICNSGE 294

Query: 61  VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
           V+FCV+MYYS+ KLG C D+++YKILIPAVSK G IDEAF+LL+N +EDGH PFP LYAP
Sbjct: 295 VDFCVDMYYSLRKLGFCPDINSYKILIPAVSKVGKIDEAFKLLNNSIEDGHKPFPGLYAP 354

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
           IIKG  RRGQFDDAFCFF E+K+KGHPPNRPVYT LITMCGRGG++VEAANYL+EMTEMG
Sbjct: 355 IIKGMCRRGQFDDAFCFFGEMKVKGHPPNRPVYTMLITMCGRGGKYVEAANYLVEMTEMG 414

Query: 181 LTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV 217
           LTPISRCFD+VTDGLKNCGKHDLA++IEQLEVS+ SV
Sbjct: 415 LTPISRCFDMVTDGLKNCGKHDLAKRIEQLEVSVCSV 451

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449449535|ref|XP_004142520.1| PREDICTED: pentatricopeptide repeat-containing protein At5g18390, mitochondrial-like [Cucumis sativus] gi|449518358|ref|XP_004166209.1| PREDICTED: pentatricopeptide repeat-containing protein At5g18390, mitochondrial-like [Cucumis sativus]

 Score =  363 bits (933), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 167/217 (76%), Positives = 190/217 (87%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           MS KGFNPP+RGRDLLV+GLLNAGYLESAK MV KM K+GS PD+ TFNSLI+ IC SGE
Sbjct: 239 MSQKGFNPPLRGRDLLVEGLLNAGYLESAKDMVRKMTKEGSVPDIGTFNSLIDVICNSGE 298

Query: 61  VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
           V+FC+ +++ VCKLG C D++TYKILIPA SK G IDEAFRLLH  +EDGH PFPSLY P
Sbjct: 299 VDFCINIFHEVCKLGLCPDINTYKILIPATSKVGRIDEAFRLLHCCIEDGHVPFPSLYGP 358

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
           I+KG  +RGQFDDAFCFF ++K KGHPPNRPVYT LITMCGRGGRFV+AANYLMEM E+G
Sbjct: 359 ILKGMCKRGQFDDAFCFFGDMKHKGHPPNRPVYTMLITMCGRGGRFVDAANYLMEMAELG 418

Query: 181 LTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV 217
           L PISRCFD+VTDGLKNCGKHDLA+KIEQLEVS+R +
Sbjct: 419 LPPISRCFDMVTDGLKNCGKHDLAKKIEQLEVSIRGI 455

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225430658|ref|XP_002268375.1| PREDICTED: pentatricopeptide repeat-containing protein At5g18390, mitochondrial [Vitis vinifera] gi|296085168|emb|CBI28663.3| unnamed protein product [Vitis vinifera]

 Score =  361 bits (927), Expect = 9e-98,   Method: Compositional matrix adjust.
 Identities = 165/217 (76%), Positives = 187/217 (86%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           MS KGFNPPVRGRDLLV GLLNAGYLE+AK+MV KM K+G  PD+ET NS++E ICK+GE
Sbjct: 238 MSRKGFNPPVRGRDLLVDGLLNAGYLEAAKEMVRKMTKEGCAPDVETLNSMLEAICKAGE 297

Query: 61  VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
            EFC+++Y  VC+LG   +V TYKI+IPA  K G IDEAFR+LH  +EDGH PFPSLYAP
Sbjct: 298 AEFCIDIYNDVCRLGVSPNVGTYKIMIPAACKEGRIDEAFRILHRSIEDGHRPFPSLYAP 357

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
           IIK   R GQFDDAFCFFS++K+KGHPPNRPVYT LITMCGRGGRFV+AANYL+EMTE+ 
Sbjct: 358 IIKALCRNGQFDDAFCFFSDMKVKGHPPNRPVYTMLITMCGRGGRFVDAANYLVEMTELN 417

Query: 181 LTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV 217
           LTPISRCFD+VTDGLKNCGKHDLA KIEQLEVSLR V
Sbjct: 418 LTPISRCFDMVTDGLKNCGKHDLARKIEQLEVSLRGV 454

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297807861|ref|XP_002871814.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297317651|gb|EFH48073.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  360 bits (924), Expect = 2e-97,   Method: Compositional matrix adjust.
 Identities = 168/217 (77%), Positives = 187/217 (86%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           MS KGFNPP RGRDLL++GLLNAGYLESAK++V+KM K G  PD+ TFN+LIE I KSGE
Sbjct: 243 MSRKGFNPPARGRDLLIEGLLNAGYLESAKEIVDKMTKGGFVPDILTFNTLIEAISKSGE 302

Query: 61  VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
           VEFC+EMYY+ CKLG C D+ TYK LIPAVSK G IDEAFRLL+N VEDGH PFPSLYAP
Sbjct: 303 VEFCIEMYYTACKLGLCVDIDTYKTLIPAVSKIGKIDEAFRLLNNCVEDGHKPFPSLYAP 362

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
           IIKG  R G FDDAF FFS++K+K HPPNRPVYT LITMCGRGG+FV+AANYL+EMTEMG
Sbjct: 363 IIKGMCRNGMFDDAFSFFSDMKVKAHPPNRPVYTMLITMCGRGGKFVDAANYLVEMTEMG 422

Query: 181 LTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV 217
           L PISRCFD+VTDGLKN GKHDLA +IEQLEV LR V
Sbjct: 423 LVPISRCFDMVTDGLKNSGKHDLAMRIEQLEVQLRGV 459

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15238810|ref|NP_197340.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|223635760|sp|Q94JX6.2|PP391_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g18390, mitochondrial; Flags: Precursor gi|332005166|gb|AED92549.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  360 bits (923), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 168/217 (77%), Positives = 187/217 (86%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           MS +GFNPP RGRDLL++GLLNAGYLESAK+MV+KM K G  PD++TFN LIE I KSGE
Sbjct: 243 MSRRGFNPPARGRDLLIEGLLNAGYLESAKEMVSKMTKGGFVPDIQTFNILIEAISKSGE 302

Query: 61  VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
           VEFC+EMYY+ CKLG C D+ TYK LIPAVSK G IDEAFRLL+N VEDGH PFPSLYAP
Sbjct: 303 VEFCIEMYYTACKLGLCVDIDTYKTLIPAVSKIGKIDEAFRLLNNCVEDGHKPFPSLYAP 362

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
           IIKG  R G FDDAF FFS++K+K HPPNRPVYT LITMCGRGG+FV+AANYL+EMTEMG
Sbjct: 363 IIKGMCRNGMFDDAFSFFSDMKVKAHPPNRPVYTMLITMCGRGGKFVDAANYLVEMTEMG 422

Query: 181 LTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV 217
           L PISRCFD+VTDGLKN GKHDLA +IEQLEV LR V
Sbjct: 423 LVPISRCFDMVTDGLKNGGKHDLAMRIEQLEVQLRGV 459

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356510681|ref|XP_003524064.1| PREDICTED: pentatricopeptide repeat-containing protein At5g18390, mitochondrial-like [Glycine max]

 Score =  353 bits (905), Expect = 4e-95,   Method: Compositional matrix adjust.
 Identities = 159/217 (73%), Positives = 189/217 (87%), Gaps = 1/217 (0%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           MS+KGFNPPVRGRDLLV+GLLNAGY+ESAK MV  MIKQGS PD+ TFN+++ET+ K  +
Sbjct: 235 MSEKGFNPPVRGRDLLVEGLLNAGYVESAKGMVRNMIKQGSVPDVGTFNAVVETVSKE-D 293

Query: 61  VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
           V+FCV +Y+ VC LG   DV+TYKIL+PAVSK+GM+DEAFRLL+N +EDGH PFPSLYAP
Sbjct: 294 VQFCVGLYHEVCALGMAPDVNTYKILVPAVSKSGMVDEAFRLLNNFIEDGHKPFPSLYAP 353

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
           +IK   RRGQFDDAFCFF ++K K HPPNRP+YT LITMCGR G+FVEAANY+ EMTEMG
Sbjct: 354 VIKALCRRGQFDDAFCFFGDMKAKAHPPNRPLYTMLITMCGRAGKFVEAANYIFEMTEMG 413

Query: 181 LTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV 217
           L PISRCFD+VTDGLKNCGKHDLA ++++LEVS+R V
Sbjct: 414 LVPISRCFDMVTDGLKNCGKHDLARRVQELEVSIRGV 450

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|13899129|gb|AAK48986.1|AF370559_1 Unknown protein [Arabidopsis thaliana] gi|27311979|gb|AAO00955.1| Unknown protein [Arabidopsis thaliana]

 Score =  302 bits (774), Expect = 5e-80,   Method: Compositional matrix adjust.
 Identities = 143/186 (76%), Positives = 158/186 (84%)

Query: 32  MVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVS 91
           MV+KM K G  PD++TFN LIE I KSGEVEFC+EMYY+ CKLG C D+ TYK LIPAVS
Sbjct: 1   MVSKMTKGGFVPDIQTFNILIEAISKSGEVEFCIEMYYTACKLGLCVDIDTYKTLIPAVS 60

Query: 92  KAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRP 151
           K G IDEAFRLL+N VEDGH PFPSLYAPIIKG  R G FDDAF FFS++K+K HPPNRP
Sbjct: 61  KIGKIDEAFRLLNNCVEDGHKPFPSLYAPIIKGMCRNGMFDDAFSFFSDMKVKAHPPNRP 120

Query: 152 VYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE 211
           VYT LITMCGRGG+FV+AANYL+EMTEMGL PISRCFD+VTDGLKN GKHDLA +IEQLE
Sbjct: 121 VYTMLITMCGRGGKFVDAANYLVEMTEMGLVPISRCFDMVTDGLKNGGKHDLAMRIEQLE 180

Query: 212 VSLRSV 217
           V LR V
Sbjct: 181 VQLRGV 186

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356528050|ref|XP_003532618.1| PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At5g18390, mitochondrial-like [Glycine max]

 Score =  292 bits (747), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 139/223 (62%), Positives = 166/223 (74%), Gaps = 10/223 (4%)

Query: 4   KGFNPPVRGRDLLVQGLLNAGYLESAK---------QMVNKMIKQGSDPDLETFNSLIET 54
           KG  P      LL+    + G L  AK         +MV  MIKQGS PD+ TFN+++ET
Sbjct: 83  KGLCPDKTTYALLINAWCSNGKLREAKLFLREMSEKEMVRSMIKQGSVPDVGTFNAVVET 142

Query: 55  ICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPF 114
           + K   V+FCV++Y+ VC LG   DV+TYKIL+P VSK GMIDEAFRLL+N V+DGH PF
Sbjct: 143 VSKEN-VQFCVDLYHEVCALGMAPDVNTYKILVPTVSKDGMIDEAFRLLNNFVDDGHKPF 201

Query: 115 PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLM 174
           PSLYAP+IK    RGQFDDAFCFF ++K K HPPNRP+YT LITMCGR G+FVE ANY+ 
Sbjct: 202 PSLYAPVIKALCSRGQFDDAFCFFGDMKAKAHPPNRPLYTMLITMCGRAGKFVEVANYIF 261

Query: 175 EMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV 217
           EMTEMGL PISRCFD+VTDGLKNCGKHDLA K+++ EVS+R V
Sbjct: 262 EMTEMGLVPISRCFDMVTDGLKNCGKHDLAGKVQEWEVSIRGV 304

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125562258|gb|EAZ07706.1| hypothetical protein OsI_29963 [Oryza sativa Indica Group]

 Score =  284 bits (726), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 129/214 (60%), Positives = 162/214 (75%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           M+++GF+PPVRGRDLLV GL+ AG LE AK    +M K+G  PD+ TFNSL E +C SG+
Sbjct: 249 MAERGFHPPVRGRDLLVDGLVRAGRLEEAKAFALRMTKEGVLPDVATFNSLAEALCSSGD 308

Query: 61  VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
           VEF V +       G C D+STYK++IPAV+KAG IDEAFRL +  +EDGH PFPSLYA 
Sbjct: 309 VEFAVALLADASSRGLCPDISTYKVMIPAVAKAGRIDEAFRLFYAALEDGHRPFPSLYAA 368

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
           IIK   + G+F DAF FF ++K KGHPPNRPVY  L+ MC RGGRFVEAANYL+EM+E G
Sbjct: 369 IIKALCKAGRFADAFAFFGDMKSKGHPPNRPVYVMLVKMCVRGGRFVEAANYLVEMSEAG 428

Query: 181 LTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL 214
             P +  F+ V DGL++CGKHDLA+++EQLE+S+
Sbjct: 429 FAPRAPTFNSVVDGLRHCGKHDLAQRMEQLEMSM 462

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

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	217
TAIR|locus:2146288	459	AT5G18390 "AT5G18390" [Arabido	1.0	0.472	0.774	7.3e-91
TAIR|locus:2019085	763	AT1G74580 "AT1G74580" [Arabido	0.963	0.273	0.327	2.5e-21
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.884	0.254	0.293	3.2e-21
TAIR|locus:2024301	606	AT1G09820 "AT1G09820" [Arabido	0.986	0.353	0.310	1.8e-19
TAIR|locus:2116772	1112	PGR3 "AT4G31850" [Arabidopsis	0.981	0.191	0.299	3.1e-19
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.926	0.319	0.297	4.1e-19
TAIR|locus:2015494	629	RPF3 "RNA processing factor 3"	0.894	0.308	0.303	6.7e-19
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.953	0.346	0.256	1.6e-18
TAIR|locus:2173403	730	AT5G64320 "AT5G64320" [Arabido	0.829	0.246	0.283	1.9e-18
TAIR|locus:2020808	660	AT1G03560 [Arabidopsis thalian	0.944	0.310	0.304	2e-18

TAIR|locus:2146288 AT5G18390 "AT5G18390" [Arabidopsis thaliana (taxid:3702)]

 Score = 906 (324.0 bits), Expect = 7.3e-91, P = 7.3e-91
 Identities = 168/217 (77%), Positives = 187/217 (86%)

Query:     1 MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
             MS +GFNPP RGRDLL++GLLNAGYLESAK+MV+KM K G  PD++TFN LIE I KSGE
Sbjct:   243 MSRRGFNPPARGRDLLIEGLLNAGYLESAKEMVSKMTKGGFVPDIQTFNILIEAISKSGE 302

Query:    61 VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
             VEFC+EMYY+ CKLG C D+ TYK LIPAVSK G IDEAFRLL+N VEDGH PFPSLYAP
Sbjct:   303 VEFCIEMYYTACKLGLCVDIDTYKTLIPAVSKIGKIDEAFRLLNNCVEDGHKPFPSLYAP 362

Query:   121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
             IIKG  R G FDDAF FFS++K+K HPPNRPVYT LITMCGRGG+FV+AANYL+EMTEMG
Sbjct:   363 IIKGMCRNGMFDDAFSFFSDMKVKAHPPNRPVYTMLITMCGRGGKFVDAANYLVEMTEMG 422

Query:   181 LTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRSV 217
             L PISRCFD+VTDGLKN GKHDLA +IEQLEV LR V
Sbjct:   423 LVPISRCFDMVTDGLKNGGKHDLAMRIEQLEVQLRGV 459

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2019085 AT1G74580 "AT1G74580" [Arabidopsis thaliana (taxid:3702)]

 Score = 260 (96.6 bits), Expect = 2.5e-21, P = 2.5e-21
 Identities = 69/211 (32%), Positives = 108/211 (51%)

Query:     4 KGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEF 63
             +G  P +   +L +QGL   G L+ A +MV  +I+QG  PD+ T+N+LI  +CK+ + + 
Sbjct:   245 RGVLPNLFTYNLFIQGLCQRGELDGAVRMVGCLIEQGPKPDVITYNNLIYGLCKNSKFQE 304

Query:    64 CVEMYYS-VCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPII 122
               E+Y   +   G   D  TY  LI    K GM+  A R++ + V +G  P    Y  +I
Sbjct:   305 A-EVYLGKMVNEGLEPDSYTYNTLIAGYCKGGMVQLAERIVGDAVFNGFVPDQFTYRSLI 363

Query:   123 KGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLT 182
              G    G+ + A   F+E   KG  PN  +Y TLI      G  +EAA    EM+E GL 
Sbjct:   364 DGLCHEGETNRALALFNEALGKGIKPNVILYNTLIKGLSNQGMILEAAQLANEMSEKGLI 423

Query:   183 PISRCFDLVTDGLKNCGKHDLAEKIEQLEVS 213
             P  + F+++ +GL   G    A+ + ++ +S
Sbjct:   424 PEVQTFNILVNGLCKMGCVSDADGLVKVMIS 454

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 259 (96.2 bits), Expect = 3.2e-21, P = 3.2e-21
 Identities = 57/194 (29%), Positives = 101/194 (52%)

Query:    16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLG 75
             L+ GL  +  +E A Q++++MI +G  PD  T+NSL+   C+ G+++   ++  ++   G
Sbjct:   511 LIDGLCKSRRVEDAAQLMDQMIMEGQKPDKYTYNSLLTHFCRGGDIKKAADIVQAMTSNG 570

Query:    76 SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAF 135
                D+ TY  LI  + KAG ++ A +LL ++   G N  P  Y P+I+G FR+ +  +A 
Sbjct:   571 CEPDIVTYGTLISGLCKAGRVEVASKLLRSIQMKGINLTPHAYNPVIQGLFRKRKTTEAI 630

Query:   136 CFFSEIKIKGH-PPNRPVYTTLIT-MCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTD 193
               F E+  +   PP+   Y  +   +C  GG   EA ++L+E+ E G  P      ++ +
Sbjct:   631 NLFREMLEQNEAPPDAVSYRIVFRGLCNGGGPIREAVDFLVELLEKGFVPEFSSLYMLAE 690

Query:   194 GLKNCGKHDLAEKI 207
             GL      +   K+
Sbjct:   691 GLLTLSMEETLVKL 704

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

 Score = 241 (89.9 bits), Expect = 1.8e-19, P = 1.8e-19
 Identities = 67/216 (31%), Positives = 101/216 (46%)

Query:     1 MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
             M D+   P V   + L+ GL N G +  A  M +KM+  G  P+L T+N+LI   CK+  
Sbjct:   322 MLDQDVKPNVISYNSLINGLCNGGKISEAISMRDKMVSAGVQPNLITYNALINGFCKNDM 381

Query:    61 VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
             ++  ++M+ SV   G+      Y +LI A  K G ID+ F L   +  +G  P    Y  
Sbjct:   382 LKEALDMFGSVKGQGAVPTTRMYNMLIDAYCKLGKIDDGFALKEEMEREGIVPDVGTYNC 441

Query:   121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
             +I G  R G  + A   F ++  KG P     +  +   C R G   +AA  L EM++MG
Sbjct:   442 LIAGLCRNGNIEAAKKLFDQLTSKGLPDLVTFHILMEGYC-RKGESRKAAMLLKEMSKMG 500

Query:   181 LTPISRCFDLVTDGLKNCGKHDLAEKIE-QLEVSLR 215
             L P    +++V  G    G    A  +  Q+E   R
Sbjct:   501 LKPRHLTYNIVMKGYCKEGNLKAATNMRTQMEKERR 536

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2116772 PGR3 "AT4G31850" [Arabidopsis thaliana (taxid:3702)]

 Score = 243 (90.6 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 64/214 (29%), Positives = 97/214 (45%)

Query:     1 MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
             MSD+ F+P       L+ GL  +G L  AKQ+   M+  G  P+   +N LI    K+GE
Sbjct:   882 MSDRDFSPTACTYGPLIDGLSKSGRLYEAKQLFEGMLDYGCRPNCAIYNILINGFGKAGE 941

Query:    61 VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
              +    ++  + K G   D+ TY +L+  +   G +DE       L E G NP    Y  
Sbjct:   942 ADAACALFKRMVKEGVRPDLKTYSVLVDCLCMVGRVDEGLHYFKELKESGLNPDVVCYNL 1001

Query:   121 IIKGAFRRGQFDDAFCFFSEIKI-KGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEM 179
             II G  +  + ++A   F+E+K  +G  P+   Y +LI   G  G   EA     E+   
Sbjct:  1002 IINGLGKSHRLEEALVLFNEMKTSRGITPDLYTYNSLILNLGIAGMVEEAGKIYNEIQRA 1061

Query:   180 GLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVS 213
             GL P    F+ +  G    GK + A  + Q  V+
Sbjct:  1062 GLEPNVFTFNALIRGYSLSGKPEHAYAVYQTMVT 1095

GO:0008150 "biological_process" evidence=ND

GO:0000023 "maltose metabolic process" evidence=RCA

GO:0000272 "polysaccharide catabolic process" evidence=RCA

GO:0005982 "starch metabolic process" evidence=RCA

GO:0006098 "pentose-phosphate shunt" evidence=RCA

GO:0006655 "phosphatidylglycerol biosynthetic process" evidence=RCA

GO:0009664 "plant-type cell wall organization" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

GO:0019252 "starch biosynthetic process" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0046777 "protein autophosphorylation" evidence=RCA

TAIR|locus:2026192 RPF2 "rna processing factor 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 238 (88.8 bits), Expect = 4.1e-19, P = 4.1e-19
 Identities = 60/202 (29%), Positives = 103/202 (50%)

Query:     1 MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
             MS +G        ++L+QGL  AG  + A+++  +M+  G  P++ T+N+L++ +CK+G+
Sbjct:   422 MSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKNGK 481

Query:    61 VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
             +E  + ++  + +      + TY I+I  + KAG +++ + L  NL   G  P    Y  
Sbjct:   482 LEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLSLKGVKPDVVAYNT 541

Query:   121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
             +I G  R+G  ++A   F E+K  G  PN   Y TLI    R G    +A  + EM   G
Sbjct:   542 MISGFCRKGSKEEADALFKEMKEDGTLPNSGCYNTLIRARLRDGDREASAELIKEMRSCG 601

Query:   181 LTPISRCFDLVTDGLKNCGKHD 202
                 +    LVT+ L + G+ D
Sbjct:   602 FAGDASTIGLVTNMLHD-GRLD 622

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0000966 "RNA 5'-end processing" evidence=IMP

GO:0003723 "RNA binding" evidence=IDA

TAIR|locus:2015494 RPF3 "RNA processing factor 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 236 (88.1 bits), Expect = 6.7e-19, P = 6.7e-19
 Identities = 60/198 (30%), Positives = 100/198 (50%)

Query:     1 MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
             MS +G        + L+QGL  AG  + A+++  KM+  G  PD+ T++ L++ +CK G+
Sbjct:   421 MSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLDGLCKYGK 480

Query:    61 VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
             +E  + ++  + K     D+ TY I+I  + KAG +++ + L  +L   G  P   +Y  
Sbjct:   481 LEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVIIYTT 540

Query:   121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
             +I G  R+G  ++A   F E+K  G  PN   Y TLI    R G    +A  + EM   G
Sbjct:   541 MISGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLIRARLRDGDKAASAELIKEMRSCG 600

Query:   181 L----TPISRCFDLVTDG 194
                  + IS   +++ DG
Sbjct:   601 FVGDASTISMVINMLHDG 618

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006397 "mRNA processing" evidence=IMP

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

 Score = 232 (86.7 bits), Expect = 1.6e-18, P = 1.6e-18
 Identities = 53/207 (25%), Positives = 100/207 (48%)

Query:     1 MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
             M D+G  P V   ++LV G+   G L+ A + +N M   G  P++ T N ++ ++C +G 
Sbjct:   265 MRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSMCSTGR 324

Query:    61 VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP 120
                  ++   + + G    V T+ ILI  + + G++  A  +L  + + G  P    Y P
Sbjct:   325 WMDAEKLLADMLRKGFSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSYNP 384

Query:   121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG 180
             ++ G  +  + D A  +   +  +G  P+   Y T++T   + G+  +A   L +++  G
Sbjct:   385 LLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQLSSKG 444

Query:   181 LTPISRCFDLVTDGLKNCGKHDLAEKI 207
              +P+   ++ V DGL   GK   A K+
Sbjct:   445 CSPVLITYNTVIDGLAKAGKTGKAIKL 471

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2173403 AT5G64320 "AT5G64320" [Arabidopsis thaliana (taxid:3702)]

 Score = 233 (87.1 bits), Expect = 1.9e-18, P = 1.9e-18
 Identities = 51/180 (28%), Positives = 94/180 (52%)

Query:    16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLG 75
             L+   L  G ++ A+++VN+M+ QGS  D  T+NSLI+ +C++GEV+    ++  + + G
Sbjct:   535 LINAFLRRGEIKEARKLVNEMVFQGSPLDEITYNSLIKGLCRAGEVDKARSLFEKMLRDG 594

Query:    76 SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAF 135
                   +  ILI  + ++GM++EA      +V  G  P    +  +I G  R G+ +D  
Sbjct:   595 HAPSNISCNILINGLCRSGMVEEAVEFQKEMVLRGSTPDIVTFNSLINGLCRAGRIEDGL 654

Query:   136 CFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGL 195
               F +++ +G PP+   + TL++   +GG   +A   L E  E G  P  R + ++   +
Sbjct:   655 TMFRKLQAEGIPPDTVTFNTLMSWLCKGGFVYDACLLLDEGIEDGFVPNHRTWSILLQSI 714

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2020808 AT1G03560 [Arabidopsis thaliana (taxid:3702)]

 Score = 232 (86.7 bits), Expect = 2.0e-18, P = 2.0e-18
 Identities = 64/210 (30%), Positives = 104/210 (49%)

Query:     1 MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
             M  KG  P V    +L+ G   +G +E A +++++MI +G  PD+ T++ ++  +CK+G 
Sbjct:   353 MIRKGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDEGFKPDVVTYSVVVNGLCKNGR 412

Query:    61 VEFCVEMYYSVCKLGSCADVST-YKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYA 119
             VE  ++ Y+  C+    A  S  Y  LI  + KAG +DEA RL   + E G       Y 
Sbjct:   413 VEEALD-YFHTCRFDGLAINSMFYSSLIDGLGKAGRVDEAERLFEEMSEKGCTRDSYCYN 471

Query:   120 PIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCG--RGGRFVEAANYLMEMT 177
              +I    +  + D+A   F  ++ +    ++ VYT  I + G  +  R  EA      M 
Sbjct:   472 ALIDAFTKHRKVDEAIALFKRME-EEEGCDQTVYTYTILLSGMFKEHRNEEALKLWDMMI 530

Query:   178 EMGLTPISRCFDLVTDGLKNCGKHDLAEKI 207
             + G+TP + CF  ++ GL   GK   A KI
Sbjct:   531 DKGITPTAACFRALSTGLCLSGKVARACKI 560

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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q94JX6	PP391_ARATH	No assigned EC number	0.7741	0.9953	0.4705	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: gw1.XIX.736.1 hypothetical protein (422 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	217
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	8e-07
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	9e-06
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.001
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.003
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.004

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

 Score = 71.8 bits (176), Expect = 1e-14
 Identities = 48/160 (30%), Positives = 72/160 (45%), Gaps = 5/160 (3%)

Query: 43  PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRL 102
           P L TFN L+     S +++  + +   V + G  AD   Y  LI   +K+G +D  F +
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 103 LHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGR 162
            H +V  G       +  +I G  R GQ   AF  +  ++ K   P+R V+  LI+ CG+
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQ 554

Query: 163 GGRFVEAANYLMEMTEMGLTPISRCFDLVTDG--LKNCGK 200
            G    A + L EM      PI    D +T G  +K C  
Sbjct: 555 SGAVDRAFDVLAEMKAET-HPIDP--DHITVGALMKACAN 591

Length = 1060

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

 Score = 56.4 bits (136), Expect = 2e-09
 Identities = 29/142 (20%), Positives = 60/142 (42%)

Query: 42  DPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFR 101
           DPD  T  +L++    +G+V+   E+Y  + +         Y I + + S+ G  D A  
Sbjct: 576 DPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALS 635

Query: 102 LLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCG 161
           +  ++ + G  P    ++ ++  A   G  D AF    + + +G       Y++L+  C 
Sbjct: 636 IYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACS 695

Query: 162 RGGRFVEAANYLMEMTEMGLTP 183
               + +A     ++  + L P
Sbjct: 696 NAKNWKKALELYEDIKSIKLRP 717

Length = 1060

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

 Score = 55.7 bits (134), Expect = 3e-09
 Identities = 37/168 (22%), Positives = 70/168 (41%)

Query: 16  LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLG 75
           L++   NAG ++ AK++   + +       E +   + +  + G+ +F + +Y  + K G
Sbjct: 585 LMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKG 644

Query: 76  SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAF 135
              D   +  L+     AG +D+AF +L +  + G       Y+ ++        +  A 
Sbjct: 645 VKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKAL 704

Query: 136 CFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTP 183
             + +IK     P       LIT    G +  +A   L EM  +GL P
Sbjct: 705 ELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP 752

Length = 1060

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

 Score = 51.8 bits (124), Expect = 7e-08
 Identities = 31/140 (22%), Positives = 60/140 (42%)

Query: 23  AGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVST 82
           AG L+ A +++    KQG      +++SL+     +   +  +E+Y  +  +     VST
Sbjct: 662 AGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVST 721

Query: 83  YKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIK 142
              LI A+ +   + +A  +L  +   G  P    Y+ ++  + R+   D      S+ K
Sbjct: 722 MNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAK 781

Query: 143 IKGHPPNRPVYTTLITMCGR 162
             G  PN  +   +  +C R
Sbjct: 782 EDGIKPNLVMCRCITGLCLR 801

Length = 1060

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

 Score = 49.5 bits (118), Expect = 4e-07
 Identities = 37/139 (26%), Positives = 66/139 (47%), Gaps = 3/139 (2%)

Query: 40  GSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEA 99
           G   D + + +LI T  KSG+V+   E+++ +   G  A+V T+  LI   ++AG + +A
Sbjct: 467 GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKA 526

Query: 100 FRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHP--PNRPVYTTLI 157
           F     +      P   ++  +I    + G  D AF   +E+K + HP  P+      L+
Sbjct: 527 FGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALM 586

Query: 158 TMCGRGGRFVEAANYLMEM 176
             C   G+ V+ A  + +M
Sbjct: 587 KACANAGQ-VDRAKEVYQM 604

Length = 1060

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

 Score = 49.5 bits (118), Expect = 4e-07
 Identities = 46/187 (24%), Positives = 76/187 (40%), Gaps = 6/187 (3%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
           M + G    V     L+ G   AG +  A      M  +   PD   FN+LI    +SG 
Sbjct: 498 MVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGA 557

Query: 61  VE--FCV--EMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPS 116
           V+  F V  EM      +    D  T   L+ A + AG +D A  +   + E      P 
Sbjct: 558 VDRAFDVLAEMKAETHPIDP--DHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPE 615

Query: 117 LYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEM 176
           +Y   +    ++G +D A   + ++K KG  P+   ++ L+ + G  G   +A   L + 
Sbjct: 616 VYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDA 675

Query: 177 TEMGLTP 183
            + G+  
Sbjct: 676 RKQGIKL 682

Length = 1060

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

 Score = 48.7 bits (116), Expect = 8e-07
 Identities = 28/107 (26%), Positives = 46/107 (42%)

Query: 22  NAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVS 81
           NA   + A ++   +      P + T N+LI  +C+  ++   +E+   + +LG C +  
Sbjct: 696 NAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTI 755

Query: 82  TYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR 128
           TY IL+ A  +    D    LL    EDG  P   +   I     RR
Sbjct: 756 TYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRR 802

Length = 1060

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

 Score = 48.3 bits (115), Expect = 1e-06
 Identities = 36/139 (25%), Positives = 71/139 (51%), Gaps = 11/139 (7%)

Query: 44  DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLL 103
           D+ ++N L+      G+    VE++  + + G   D  T+  L+ A S++GM+ +     
Sbjct: 553 DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYF 612

Query: 104 HNLVEDGHNPFPSL--YAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCG 161
           H++ E+ ++  P+L  YA ++    R G+  +A+ F +++ I    P+  V+  L+  C 
Sbjct: 613 HSM-EEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPIT---PDPAVWGALLNAC- 667

Query: 162 RGGRFVE----AANYLMEM 176
           R  R VE    AA ++ E+
Sbjct: 668 RIHRHVELGELAAQHIFEL 686

Length = 857

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

 Score = 47.2 bits (112), Expect = 3e-06
 Identities = 37/150 (24%), Positives = 64/150 (42%), Gaps = 3/150 (2%)

Query: 20  LLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD 79
           LL  G ++    ++  M K+G     + +++     CK    +  V+  +   KL     
Sbjct: 380 LLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKK---QRAVKEAFRFAKLIRNPT 436

Query: 80  VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFS 139
           +ST+ +L+   + +  ID A R+L  + E G      LY  +I    + G+ D  F  F 
Sbjct: 437 LSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFH 496

Query: 140 EIKIKGHPPNRPVYTTLITMCGRGGRFVEA 169
           E+   G   N   +  LI  C R G+  +A
Sbjct: 497 EMVNAGVEANVHTFGALIDGCARAGQVAKA 526

Length = 1060

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

 Score = 42.8 bits (102), Expect = 3e-06
 Identities = 13/42 (30%), Positives = 24/42 (57%)

Query: 121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGR 162
           +I G  ++G+ ++A   F+E+K +G  PN   Y+ LI    +
Sbjct: 9   LIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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 = 42.4 bits (101), Expect = 4e-06
 Identities = 15/42 (35%), Positives = 27/42 (64%)

Query: 16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICK 57
          L+ G    G +E A ++ N+M K+G  P++ T++ LI+ +CK
Sbjct: 9  LIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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 = 45.6 bits (108), Expect = 9e-06
 Identities = 47/192 (24%), Positives = 85/192 (44%), Gaps = 8/192 (4%)

Query: 23  AGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVST 82
           +G +++  ++ ++M+  G + ++ TF +LI+   ++G+V      Y  +       D   
Sbjct: 485 SGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVV 544

Query: 83  YKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPS--LYAPIIKGAFRRGQFDDA---FCF 137
           +  LI A  ++G +D AF +L  +  + H   P       ++K     GQ D A   +  
Sbjct: 545 FNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQM 604

Query: 138 FSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKN 197
             E  IKG P    VYT  +  C + G +  A +   +M + G+ P    F  + D   +
Sbjct: 605 IHEYNIKGTPE---VYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGH 661

Query: 198 CGKHDLAEKIEQ 209
            G  D A +I Q
Sbjct: 662 AGDLDKAFEILQ 673

Length = 1060

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

 Score = 44.9 bits (106), Expect = 1e-05
 Identities = 33/147 (22%), Positives = 64/147 (43%), Gaps = 4/147 (2%)

Query: 16  LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLG 75
           ++ GL++AG    A  +  +M + GSD +  TF  ++      G      +++  V K G
Sbjct: 195 IIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTG 254

Query: 76  SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAF 135
              D      LI   SK G I++A  +   + E     + S    ++ G    G  ++A 
Sbjct: 255 VVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNS----MLAGYALHGYSEEAL 310

Query: 136 CFFSEIKIKGHPPNRPVYTTLITMCGR 162
           C + E++  G   ++  ++ +I +  R
Sbjct: 311 CLYYEMRDSGVSIDQFTFSIMIRIFSR 337

Length = 697

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

 Score = 35.5 bits (83), Expect = 0.001
 Identities = 20/50 (40%), Positives = 32/50 (64%)

Query: 43 PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK 92
          PD+ T+N+LI+  CK G+VE  ++++  + K G   +V TY ILI  + 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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 37.9 bits (88), Expect = 0.003
 Identities = 27/92 (29%), Positives = 38/92 (41%), Gaps = 5/92 (5%)

Query: 13  RDLLVQGLLNAGYLESAK-----QMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEM 67
           RD +    + +GY E+ +     ++   M +   DPDL T  S+I      G+     EM
Sbjct: 251 RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREM 310

Query: 68  YYSVCKLGSCADVSTYKILIPAVSKAGMIDEA 99
           +  V K G   DVS    LI      G   EA
Sbjct: 311 HGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEA 342

Length = 857

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

 Score = 33.6 bits (78), Expect = 0.004
 Identities = 13/32 (40%), Positives = 15/32 (46%)

Query: 152 VYTTLITMCGRGGRFVEAANYLMEMTEMGLTP 183
            Y TLI    + GR  EA     EM E G+ P
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33

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	217
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	99.84
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.82
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.76
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.75
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.71
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.65
PF13041	50	PPR_2: PPR repeat family	99.64
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.64
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.63
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.62
PF13041	50	PPR_2: PPR repeat family	99.61
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.6
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.6
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.59
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.56
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.55
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.55
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.54
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.54
KOG1126	638	consensus DNA-binding cell division cycle control	99.51
PRK12370	553	invasion protein regulator; Provisional	99.5
PRK12370	553	invasion protein regulator; Provisional	99.5
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.48
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.46
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.46
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.45
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.45
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.44
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.44
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.43
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.43
KOG1126	638	consensus DNA-binding cell division cycle control	99.42
PRK11189	296	lipoprotein NlpI; Provisional	99.42
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.41
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.4
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.39
KOG1129	478	consensus TPR repeat-containing protein [General f	99.38
KOG1129	478	consensus TPR repeat-containing protein [General f	99.37
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.32
PRK14574	822	hmsH outer membrane protein; Provisional	99.3
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.3
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.28
PRK14574	822	hmsH outer membrane protein; Provisional	99.27
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.25
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.25
PF12854	34	PPR_1: PPR repeat	99.23
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.2
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.18
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.13
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.12
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.12
PF12854	34	PPR_1: PPR repeat	99.11
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.11
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.09
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.08
KOG2003	840	consensus TPR repeat-containing protein [General f	99.07
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.05
PRK11189	296	lipoprotein NlpI; Provisional	99.05
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.02
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.01
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.98
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.97
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.96
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.95
KOG2076	895	consensus RNA polymerase III transcription factor	98.95
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.94
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.93
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.92
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.92
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.9
KOG2003	840	consensus TPR repeat-containing protein [General f	98.88
PRK15359	144	type III secretion system chaperone protein SscB;	98.87
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.86
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.86
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.86
PRK15359	144	type III secretion system chaperone protein SscB;	98.85
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.84
PLN02789	320	farnesyltranstransferase	98.83
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.83
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.82
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.81
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.81
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.81
KOG2076	895	consensus RNA polymerase III transcription factor	98.81
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.81
PLN02789	320	farnesyltranstransferase	98.8
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.77
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.77
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.76
KOG1125	579	consensus TPR repeat-containing protein [General f	98.75
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.74
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.72
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.72
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.71
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.7
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.67
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.67
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.65
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.64
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.64
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.64
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.64
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.6
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.59
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.58
KOG1125	579	consensus TPR repeat-containing protein [General f	98.58
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.57
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.57
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.56
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.54
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.46
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.43
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.43
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.42
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.41
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.4
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.4
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.39
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.38
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.38
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.38
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.36
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.36
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.36
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.33
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.33
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.32
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.32
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.31
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.3
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.29
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.29
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.27
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.24
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.23
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.23
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.22
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.21
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.2
PRK04841	903	transcriptional regulator MalT; Provisional	98.19
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.18
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.18
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.18
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.17
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.13
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.12
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.12
PRK04841	903	transcriptional regulator MalT; Provisional	98.11
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.11
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.11
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.09
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.03
KOG0553	304	consensus TPR repeat-containing protein [General f	98.03
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.02
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.0
PF12688	120	TPR_5: Tetratrico peptide repeat	98.0
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.0
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.98
PF12688	120	TPR_5: Tetratrico peptide repeat	97.97
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.96
KOG0553	304	consensus TPR repeat-containing protein [General f	97.94
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.94
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.91
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.9
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.9
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.89
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.88
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.88
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.88
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.86
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.84
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.83
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.81
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.81
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.8
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.73
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.71
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.69
PRK10803	263	tol-pal system protein YbgF; Provisional	97.68
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.68
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.67
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.65
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.63
PRK10803	263	tol-pal system protein YbgF; Provisional	97.62
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.62
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.61
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.61
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.58
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.58
PF13371	73	TPR_9: Tetratricopeptide repeat	97.56
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.51
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.46
PF13371	73	TPR_9: Tetratricopeptide repeat	97.46
PRK15331	165	chaperone protein SicA; Provisional	97.41
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.38
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.36
PRK15331	165	chaperone protein SicA; Provisional	97.34
KOG3941	406	consensus Intermediate in Toll signal transduction	97.31
KOG3941	406	consensus Intermediate in Toll signal transduction	97.26
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.22
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.18
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.17
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.16
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	97.15
KOG1585	308	consensus Protein required for fusion of vesicles	97.15
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.15
smart00299	140	CLH Clathrin heavy chain repeat homology.	97.11
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	97.03
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.97
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.94
PF13512	142	TPR_18: Tetratricopeptide repeat	96.89
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.83
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.82
KOG2376	652	consensus Signal recognition particle, subunit Srp	96.82
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.81
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.8
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.77
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.71
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.7
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.69
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.69
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.67
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.64
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.58
PF13929	292	mRNA_stabil: mRNA stabilisation	96.53
KOG4570	418	consensus Uncharacterized conserved protein [Funct	96.52
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.52
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.51
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.47
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.47
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.44
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.37
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.34
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.34
KOG4570	418	consensus Uncharacterized conserved protein [Funct	96.27
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.26
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.23
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.07
PF13428	44	TPR_14: Tetratricopeptide repeat	96.05
PF13428	44	TPR_14: Tetratricopeptide repeat	95.94
KOG4555	175	consensus TPR repeat-containing protein [Function	95.9
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.86
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	95.84
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.77
KOG1585	308	consensus Protein required for fusion of vesicles	95.75
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.74
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	95.73
KOG4555	175	consensus TPR repeat-containing protein [Function	95.72
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.72
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.71
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.67
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.65
PF13762	145	MNE1: Mitochondrial splicing apparatus component	95.65
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.59
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.58
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	95.57
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.54
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.53
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.49
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.47
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.31
PF13512	142	TPR_18: Tetratricopeptide repeat	95.17
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.15
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	95.06
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.97
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.88
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.86
KOG2041	1189	consensus WD40 repeat protein [General function pr	94.79
PF13929	292	mRNA_stabil: mRNA stabilisation	94.66
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.66
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.57
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.51
COG1747	711	Uncharacterized N-terminal domain of the transcrip	94.48
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.24
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.19
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	94.17
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	94.0
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.0
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.89
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.8
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.73
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	93.73
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	93.5
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	93.39
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	93.31
KOG4234	271	consensus TPR repeat-containing protein [General f	93.31
COG4455	273	ImpE Protein of avirulence locus involved in tempe	93.31
PF13431	34	TPR_17: Tetratricopeptide repeat	93.25
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.13
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.1
KOG4648	536	consensus Uncharacterized conserved protein, conta	93.03
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.98
PF13431	34	TPR_17: Tetratricopeptide repeat	92.81
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.74
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	92.74
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	92.7
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	92.6
PRK11906	458	transcriptional regulator; Provisional	92.48
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	92.17
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	92.15
COG1747	711	Uncharacterized N-terminal domain of the transcrip	91.97
PHA02875	413	ankyrin repeat protein; Provisional	91.94
PRK11906	458	transcriptional regulator; Provisional	91.9
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	91.86
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	91.69
COG4455	273	ImpE Protein of avirulence locus involved in tempe	91.51
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	91.48
COG3947	361	Response regulator containing CheY-like receiver a	91.36
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.31
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	91.16
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	91.16
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	90.42
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	90.35
KOG4234	271	consensus TPR repeat-containing protein [General f	89.93
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	89.77
PF09797	365	NatB_MDM20: N-acetyltransferase B complex (NatB) n	89.68
KOG1550	552	consensus Extracellular protein SEL-1 and related	89.38
KOG4648	536	consensus Uncharacterized conserved protein, conta	89.37
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	89.24
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	89.2
COG3898	531	Uncharacterized membrane-bound protein [Function u	89.05
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	88.93
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	88.92
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	88.81
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.67
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.62
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	88.61
KOG1941	518	consensus Acetylcholine receptor-associated protei	88.1
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	87.61
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	87.1
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	86.99
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	86.57
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	86.5
KOG4567	370	consensus GTPase-activating protein [General funct	86.21
KOG1586	288	consensus Protein required for fusion of vesicles	85.54
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	85.45
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	85.43
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	85.06
KOG1941	518	consensus Acetylcholine receptor-associated protei	84.76
COG5159	421	RPN6 26S proteasome regulatory complex component [	84.66
PF13762	145	MNE1: Mitochondrial splicing apparatus component	84.63
KOG1586	288	consensus Protein required for fusion of vesicles	84.35
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	83.77
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	83.66
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	83.63
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	82.56
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	82.33
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	81.92
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	81.45
COG5108	1117	RPO41 Mitochondrial DNA-directed RNA polymerase [T	81.4
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	81.39
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	81.22
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	81.05
COG5108	1117	RPO41 Mitochondrial DNA-directed RNA polymerase [T	80.95
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	80.9
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	80.09

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.1e-43  Score=285.87  Aligned_cols=209  Identities=21%  Similarity=0.301  Sum_probs=99.6

Q ss_pred             CCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHh--cCCCcch
Q 035645            3 DKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCK--LGSCADV   80 (217)
Q Consensus         3 ~~g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~   80 (217)
                      +.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|..  .|+.||.
T Consensus       500 ~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~  579 (1060)
T PLN03218        500 NAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDH  579 (1060)
T ss_pred             HcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcH
Confidence            34444444444444444444444444444444444444444444444444444444444444444444432  3344444


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMC  160 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  160 (217)
                      .+|++++.+|++.|++++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|
T Consensus       580 vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~  659 (1060)
T PLN03218        580 ITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVA  659 (1060)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            44444444444444444444444444444444444444444444444444444444444444444444444444444444


Q ss_pred             hcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          161 GRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       161 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      ++.|++++|.++|++|.+.|+.||..+|+.|+.+|++.|++++|.++|+.|
T Consensus       660 ~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM  710 (1060)
T PLN03218        660 GHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI  710 (1060)
T ss_pred             HhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            444444444444444444444444444444444444444444444444444

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.2e-43  Score=285.79  Aligned_cols=214  Identities=21%  Similarity=0.305  Sum_probs=201.7

Q ss_pred             CCCCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcch
Q 035645            1 MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADV   80 (217)
Q Consensus         1 M~~~g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (217)
                      |++.|+.||..+|+++|.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||.
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--CCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVE--DGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLIT  158 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  158 (217)
                      .+|+.++.+|++.|++++|.++|++|..  .++.||..+|+.++.+|++.|++++|.++|+.|.+.|+.|+..+|+.+|.
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             HHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          159 MCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       159 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      +|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++++.|.+.
T Consensus       623 ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~  678 (1060)
T PLN03218        623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQ  678 (1060)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999998764

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

Probab=100.00  E-value=1.1e-39  Score=262.15  Aligned_cols=200  Identities=18%  Similarity=0.229  Sum_probs=137.3

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      +|..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||..+|+.++
T Consensus       288 ~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li  367 (697)
T PLN03081        288 KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALV  367 (697)
T ss_pred             CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHH
Confidence            45666666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFV  167 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  167 (217)
                      ++|++.|++++|.++|++|.    .||..+||.+|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|+.+
T Consensus       368 ~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~  443 (697)
T PLN03081        368 DLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSE  443 (697)
T ss_pred             HHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHH
Confidence            66666666666666666664    24666677777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHH-cCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          168 EAANYLMEMTE-MGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       168 ~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      +|.++|+.|.+ .|+.|+..+|+.++++|++.|++++|.++++.+
T Consensus       444 ~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~  488 (697)
T PLN03081        444 QGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA  488 (697)
T ss_pred             HHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC
Confidence            77777777764 566777777777777777777777777766554

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

Probab=100.00  E-value=2.4e-39  Score=260.22  Aligned_cols=205  Identities=20%  Similarity=0.220  Sum_probs=188.9

Q ss_pred             CCCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchh
Q 035645            2 SDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVS   81 (217)
Q Consensus         2 ~~~g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   81 (217)
                      .+.|+.||..+||+++.+|++.|++++|.++|++|.    ++|..+|+.++.+|++.|++++|+++|++|.+.|+.||..
T Consensus       251 ~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~  326 (697)
T PLN03081        251 LKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQF  326 (697)
T ss_pred             HHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            356889999999999999999999999999999985    4588999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHh
Q 035645           82 TYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCG  161 (217)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  161 (217)
                      ||+.++.+|++.|++++|.+++..|.+.|+.||..+|+.++.+|++.|++++|.++|++|.    .||..+||.||.+|+
T Consensus       327 t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~  402 (697)
T PLN03081        327 TFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYG  402 (697)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999886    468899999999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          162 RGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       162 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      +.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|..++|.++|+.|.+.
T Consensus       403 ~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~  455 (697)
T PLN03081        403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSEN  455 (697)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999998764

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.9e-37  Score=251.93  Aligned_cols=204  Identities=18%  Similarity=0.192  Sum_probs=178.3

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHH
Q 035645            7 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKIL   86 (217)
Q Consensus         7 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (217)
                      .||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+.+.+.+++..|.+.|+.||..+|+.+
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            46777888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCH
Q 035645           87 IPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRF  166 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  166 (217)
                      +.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++
T Consensus       330 i~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~  405 (857)
T PLN03077        330 IQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDL  405 (857)
T ss_pred             HHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchH
Confidence            888888888888888888885    4678889999999999999999999999998889999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          167 VEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      ++|.++++.+.+.|+.|+..+|+.|+.+|++.|++++|.++|+.|.+.
T Consensus       406 ~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~  453 (857)
T PLN03077        406 DVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK  453 (857)
T ss_pred             HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCC
Confidence            999999999999999999999999999999999999999999887653

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.5e-36  Score=247.77  Aligned_cols=203  Identities=19%  Similarity=0.220  Sum_probs=156.3

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHH
Q 035645            7 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKIL   86 (217)
Q Consensus         7 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (217)
                      +||..+||++|.+|++.|++++|.++|++|...|+.||..||+.++.+|+..++++.+.+++..+.+.|+.||..+|+.+
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            47888899999999999999999999998888888888888888887777777777777777777777777777777777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCH
Q 035645           87 IPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRF  166 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  166 (217)
                      +.+|++.|++++|.++|++|.    .||..+|+.+|.+|++.|++++|.++|.+|...|+.||..||+.++.+|++.|+.
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 ITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE  304 (857)
T ss_pred             HHHHhcCCCHHHHHHHHhcCC----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCCh
Confidence            777777777777777777774    3566777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          167 VEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      +.+.+++..+.+.|+.||..+|+.|+.+|++.|++++|.++|+.|.+
T Consensus       305 ~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~  351 (857)
T PLN03077        305 RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET  351 (857)
T ss_pred             HHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC
Confidence            77777777777777777777777777777777777777777766653

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.84  E-value=4.3e-18  Score=129.27  Aligned_cols=200  Identities=17%  Similarity=0.157  Sum_probs=119.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc----hhhHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD----VSTYKILI   87 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll   87 (217)
                      .+..+...|.+.|++++|..+|+++.+.. +++..++..++..+.+.|++++|.+.++.+.+.+..++    ...+..+.
T Consensus       109 ~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la  187 (389)
T PRK11788        109 ALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELA  187 (389)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHH
Confidence            45555666666666666666666665542 23455666666666666666666666666655432221    11334455


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFV  167 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  167 (217)
                      ..+.+.|++++|...|+++.+.. +.+...+..+...+.+.|++++|.+.++++...+......+++.++.+|...|+++
T Consensus       188 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~  266 (389)
T PRK11788        188 QQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEA  266 (389)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHH
Confidence            55666666666666666666543 22344555666666677777777777776665432222345666666777777777


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          168 EAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      +|.+.++++.+.  .|+...+..+...+.+.|++++|.++++.+.+..
T Consensus       267 ~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~  312 (389)
T PRK11788        267 EGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRRH  312 (389)
T ss_pred             HHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            777777766654  3555555666777777777777777776665543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.82  E-value=1.8e-17  Score=125.87  Aligned_cols=206  Identities=13%  Similarity=0.140  Sum_probs=166.3

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC---hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPD---LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKI   85 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (217)
                      +..++..+...+...|++++|..+++.+...+..++   ...+..+...|.+.|++++|..+|+++.+. .+++..+++.
T Consensus        68 ~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~  146 (389)
T PRK11788         68 TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDE-GDFAEGALQQ  146 (389)
T ss_pred             cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcC-CcchHHHHHH
Confidence            456788899999999999999999999887543222   246778889999999999999999999875 2346788999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCc----ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHh
Q 035645           86 LIPAVSKAGMIDEAFRLLHNLVEDGHNPFP----SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCG  161 (217)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  161 (217)
                      ++.++.+.|++++|.+.++.+.+.+..+..    ..+..+...+.+.|++++|...|+++.+.. +.+...+..+...+.
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            999999999999999999999876532221    235567778889999999999999988753 334667888889999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          162 RGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       162 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +.|++++|.+.++++.+.+......++..+..+|...|++++|.+.++.+.+..|
T Consensus       226 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p  280 (389)
T PRK11788        226 AQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYP  280 (389)
T ss_pred             HCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            9999999999999998765333356788899999999999999999998877654

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

Probab=99.76  E-value=1.3e-15  Score=126.46  Aligned_cols=201  Identities=12%  Similarity=-0.001  Sum_probs=112.2

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +...|..+...+.+.|++++|...|+++.+.. +.+...+..+..++.+.|++++|...|+++.+.. +.+..++..+..
T Consensus       600 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  677 (899)
T TIGR02917       600 SPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQ  677 (899)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            44555555556666666666666666555432 2244455555555555666666666665555432 223455555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVE  168 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  168 (217)
                      .+...|++++|..+++.+.+.+ +.+...+..+...+.+.|++++|...|..+...+  |+..++..+..++.+.|++++
T Consensus       678 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~  754 (899)
T TIGR02917       678 LLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAE  754 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHH
Confidence            5555555555555555555443 3344455555566666666666666666655542  333455555566666666666


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          169 AANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      |.+.+..+.+.. +.+...+..+...|...|++++|.+.++.+.+..
T Consensus       755 A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~  800 (899)
T TIGR02917       755 AVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA  800 (899)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC
Confidence            666666655543 3345556666666666666666666666655443

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=99.75  E-value=1.9e-15  Score=125.58  Aligned_cols=195  Identities=15%  Similarity=0.038  Sum_probs=114.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      ..+..+...+.+.|++++|...|+.+...+  |+..++..+..++.+.|++++|.+.++++.+.. +.+..++..+...|
T Consensus       704 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~  780 (899)
T TIGR02917       704 LGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELY  780 (899)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            334444444444555555555555444432  223444444555555555555555555554432 23445555555566


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHH
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAA  170 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  170 (217)
                      ...|++++|..+|+++.+.+ +.+..+++.+...+...|+ ++|...+++..... +.+..++..+...+...|++++|.
T Consensus       781 ~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~  857 (899)
T TIGR02917       781 LAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRAL  857 (899)
T ss_pred             HHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHH
Confidence            66666666666666665543 3345555666666666666 55666666655442 223455666677777778888888


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHh
Q 035645          171 NYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      +.++++.+.+. .+..++..+..++.+.|++++|.++++.+.
T Consensus       858 ~~~~~a~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       858 PLLRKAVNIAP-EAAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHHHHhhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            88888877663 377777788888888888888888887765

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.71  E-value=9e-14  Score=97.94  Aligned_cols=203  Identities=17%  Similarity=0.170  Sum_probs=168.9

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      ....+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            35668888999999999999999999998764 3357788889999999999999999999998764 335677888899


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCC-CCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHN-PFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFV  167 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  167 (217)
                      .+...|++++|...+++....... .....+..+...+...|++++|...+.+..... +.+...+..+...+...|+++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHH
Confidence            999999999999999999875322 234567778888999999999999999988763 335678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          168 EAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      +|.+.+++..+. .+.+...+..+...+...|+.+.|..+.+.+....
T Consensus       187 ~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  233 (234)
T TIGR02521       187 DARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLF  233 (234)
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            999999998876 34466677788899999999999999988776653

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.

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.65  E-value=4e-13  Score=107.96  Aligned_cols=157  Identities=15%  Similarity=0.147  Sum_probs=68.2

Q ss_pred             HHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHH----HHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 035645           54 TICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDE----AFRLLHNLVEDGHNPFPSLYAPIIKGAFRRG  129 (217)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g  129 (217)
                      ++.+.|++++|+..+++..+.. +.+...+..+...+...|++++    |...|++..+.. +.+..++..+...+.+.|
T Consensus       221 ~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g  298 (656)
T PRK15174        221 TLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTG  298 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCC
Confidence            3333444444444444433321 1123333344444444444443    344444444332 222334444445555555


Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHhcCCchHHHHHH
Q 035645          130 QFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISR-CFDLVTDGLKNCGKHDLAEKIE  208 (217)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~  208 (217)
                      ++++|...++...... +.+...+..+..++.+.|++++|...++.+...+  |+.. .+..+..++...|+.++|.+.+
T Consensus       299 ~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~--P~~~~~~~~~a~al~~~G~~deA~~~l  375 (656)
T PRK15174        299 QNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREK--GVTSKWNRYAAAALLQAGKTSEAESVF  375 (656)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            5555555555544431 1123344444455555555555555555544432  2221 2222344455555555555555


Q ss_pred             HHHhhhc
Q 035645          209 QLEVSLR  215 (217)
Q Consensus       209 ~~~~~~~  215 (217)
                      +...+.+
T Consensus       376 ~~al~~~  382 (656)
T PRK15174        376 EHYIQAR  382 (656)
T ss_pred             HHHHHhC
Confidence            5554443

>PF13041 PPR_2: PPR repeat family

Probab=99.64  E-value=7.6e-16  Score=81.54  Aligned_cols=50  Identities=38%  Similarity=0.624  Sum_probs=39.5

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICK   57 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~   57 (217)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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            67778888888888888888888888888888888888888888877754

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.64  E-value=6.8e-13  Score=106.64  Aligned_cols=124  Identities=13%  Similarity=0.052  Sum_probs=58.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHH----HHHHHHHHHhcCCCCCHhHHHHHHHHHhcC
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDD----AFCFFSEIKIKGHPPNRPVYTTLITMCGRG  163 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~----a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  163 (217)
                      .++.+.|++++|...+++..+.+ +.+...+..+...+...|++++    |...|+...... +.+...+..+...+...
T Consensus       220 ~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~  297 (656)
T PRK15174        220 DTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRT  297 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHC
Confidence            34444444444444444444332 2223344444444555555543    455555544431 12344555555555555


Q ss_pred             CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          164 GRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       164 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      |++++|...+++..+.. +.+...+..+..++.+.|++++|.+.++.+...
T Consensus       298 g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~  347 (656)
T PRK15174        298 GQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLARE  347 (656)
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            55555555555555432 112334445555555555555555555555443

>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=99.63  E-value=8.6e-13  Score=105.86  Aligned_cols=163  Identities=14%  Similarity=0.053  Sum_probs=87.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      ..|+.+...+...|++++|+..+++..+.. +-+...|..+...+...|++++|+..|++..+.. +.+..++..+...+
T Consensus       332 ~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~  409 (615)
T TIGR00990       332 IALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLH  409 (615)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            345555556666666666666666665542 1124455555566666666666666666655432 12345555555566


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHH
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAA  170 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  170 (217)
                      ...|++++|...|++..+.+ +.+...+..+..++.+.|++++|...|+..... .+.+...++.+...+...|++++|.
T Consensus       410 ~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~  487 (615)
T TIGR00990       410 FIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAI  487 (615)
T ss_pred             HHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHH
Confidence            66666666666666655543 223344445555555555556555555555443 1223445555555555555555555


Q ss_pred             HHHHHHH
Q 035645          171 NYLMEMT  177 (217)
Q Consensus       171 ~~~~~~~  177 (217)
                      +.|++..
T Consensus       488 ~~~~~Al  494 (615)
T TIGR00990       488 EKFDTAI  494 (615)
T ss_pred             HHHHHHH
Confidence            5555544

>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=99.62  E-value=1.3e-12  Score=104.86  Aligned_cols=205  Identities=16%  Similarity=0.112  Sum_probs=164.4

Q ss_pred             CCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHH
Q 035645            7 NPP-VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKI   85 (217)
Q Consensus         7 ~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (217)
                      .|+ ...|..+...+...|++++|...|++..+.. +.+...|..+...+...|++++|+..|++..+.. +.+...+..
T Consensus       361 ~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~  438 (615)
T TIGR00990       361 DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQ  438 (615)
T ss_pred             CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHH
Confidence            454 5578888999999999999999999998764 3367889999999999999999999999998753 235677888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH------hHHHHHHHH
Q 035645           86 LIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNR------PVYTTLITM  159 (217)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~li~~  159 (217)
                      +..++.+.|++++|...|++..+.. +.+...++.+...+...|++++|...|+.........+.      ..++.....
T Consensus       439 la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~  517 (615)
T TIGR00990       439 LGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALAL  517 (615)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHH
Confidence            8999999999999999999998763 445678899999999999999999999998765322111      112222333


Q ss_pred             HhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          160 CGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      +...|++++|.+++++..... +-+...+..+...+.+.|++++|.+.++...++.
T Consensus       518 ~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       518 FQWKQDFIEAENLCEKALIID-PECDIAVATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            445799999999999988764 2334578899999999999999999999887653

>PF13041 PPR_2: PPR repeat family

Probab=99.61  E-value=2.6e-15  Score=79.46  Aligned_cols=49  Identities=33%  Similarity=0.586  Sum_probs=28.2

Q ss_pred             CCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 035645          148 PNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLK  196 (217)
Q Consensus       148 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  196 (217)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4555555555555555555555555555555555555555555555554

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.60  E-value=2.4e-12  Score=106.59  Aligned_cols=202  Identities=12%  Similarity=-0.008  Sum_probs=147.9

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      |+......+...+...|++++|...|+++...  +|+...+..+..++.+.|++++|...+++..+.. +.+...+..+.
T Consensus       507 Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La  583 (987)
T PRK09782        507 PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLH  583 (987)
T ss_pred             CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHH
Confidence            44333333344445788888888888887554  3444556666777788888888888888887653 22223333333


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFV  167 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  167 (217)
                      ....+.|++++|...+++..+..  |+...|..+..++.+.|++++|...++...... +.+...++.+..++...|+++
T Consensus       584 ~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~e  660 (987)
T PRK09782        584 AQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIA  660 (987)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHH
Confidence            44445588999999888888764  567788888888999999999999999888763 335677888888888899999


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          168 EAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +|.+.++...+.. +-+...+..+..++...|++++|++.++...+++|
T Consensus       661 eAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P  708 (987)
T PRK09782        661 QSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDDID  708 (987)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            9999998888754 23556788889999999999999999988887765

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.60  E-value=5.9e-13  Score=97.57  Aligned_cols=203  Identities=17%  Similarity=0.232  Sum_probs=137.1

Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHH
Q 035645            6 FNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKI   85 (217)
Q Consensus         6 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (217)
                      .+.+..+|.++|.++|+--..++|.+++++......+.+..+||.+|.+-.-    ....++..+|....+.||..|||+
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 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGKKLVAEMISQKMTPNLFTFNA  278 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccHHHHHHHHHhhcCCchHhHHH
Confidence            3456789999999999999999999999988877677788888888765432    233677778877778888888888


Q ss_pred             HHHHHHhcCCHHH----HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHH-HHHHHHHHHhc----CCCC----CHhH
Q 035645           86 LIPAVSKAGMIDE----AFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDD-AFCFFSEIKIK----GHPP----NRPV  152 (217)
Q Consensus        86 ll~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~-a~~~~~~~~~~----~~~~----~~~~  152 (217)
                      ++.+..+.|+++.    |.+++.+|++.|+.|...+|..+|..+++.++..+ +..++.++.+.    .++|    |...
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            8888888887765    45667778888888888888888888877777644 34444443321    1221    2334


Q ss_pred             HHHHHHHHhcCCCHHHHHHH------------------------------------------HHHHHHcCCCCChhhHHH
Q 035645          153 YTTLITMCGRGGRFVEAANY------------------------------------------LMEMTEMGLTPISRCFDL  190 (217)
Q Consensus       153 ~~~li~~~~~~g~~~~a~~~------------------------------------------~~~~~~~~~~~~~~~~~~  190 (217)
                      |...+..|.+..+.+.|.++                                          ++.|.-.-+-|+..+...
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            44445555555555444444                                          333433334456666666


Q ss_pred             HHHHHHhcCCchHHHHHHHHHh
Q 035645          191 VTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      ++++..-.|.++-..+++..++
T Consensus       439 ~lrA~~v~~~~e~ipRiw~D~~  460 (625)
T KOG4422|consen  439 LLRALDVANRLEVIPRIWKDSK  460 (625)
T ss_pred             HHHHHhhcCcchhHHHHHHHHH
Confidence            6777777777777777666554

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

Probab=99.59  E-value=2.1e-14  Score=104.30  Aligned_cols=193  Identities=18%  Similarity=0.203  Sum_probs=76.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcC-CCcchhhHHHHHHHHH
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLG-SCADVSTYKILIPAVS   91 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~   91 (217)
                      +..++.. ...+++++|.+++....+..  ++...+...+..+.+.++++++.++++.+.... .+.+...|..+...+.
T Consensus        81 ~~~l~~l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~  157 (280)
T PF13429_consen   81 YERLIQL-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYE  157 (280)
T ss_dssp             ----------------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHH
T ss_pred             ccccccc-cccccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHH
Confidence            3444444 45555555555555544332  344445555555666666666666666654321 2334555556666666


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHH
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAAN  171 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  171 (217)
                      +.|+.++|.+.+++..+.. +.+......++..+...|+.+++.+++....... +.|+..+..+..++...|+.++|..
T Consensus       158 ~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~  235 (280)
T PF13429_consen  158 QLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALE  235 (280)
T ss_dssp             HCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccc
Confidence            6666666666666666553 2234555566666666666666666665555442 3344555666666666666666666


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          172 YLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      ++++..+.. +.|+.+...+.+++...|+.++|.++.+..
T Consensus       236 ~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  236 YLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHHHHHS-TT-HHHHHHHHHHHT---------------
T ss_pred             ccccccccc-cccccccccccccccccccccccccccccc
Confidence            666655533 235555556666666666666666665543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.56  E-value=1.4e-12  Score=95.66  Aligned_cols=165  Identities=19%  Similarity=0.253  Sum_probs=121.7

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIK  123 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (217)
                      +..++.++|.++++-...+.|.++|++......+.+..+||.+|.+-+-..    ..+++.+|....+.||..|+|++++
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHHH
Confidence            556788888888888888888888888877667778888888887755332    2678888888888888888888888


Q ss_pred             HHHhcCChHH----HHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHH-HHHHHHHHH----HcCCCC----ChhhHHH
Q 035645          124 GAFRRGQFDD----AFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVE-AANYLMEMT----EMGLTP----ISRCFDL  190 (217)
Q Consensus       124 ~~~~~g~~~~----a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~~~----~~~~~~----~~~~~~~  190 (217)
                      +..+.|+++.    |.+++.+|++-|+.|...+|..+|..+++.++..+ +..++.++.    .+.+.|    |...|..
T Consensus       282 c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~  361 (625)
T KOG4422|consen  282 CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQS  361 (625)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHH
Confidence            8888887664    56677788888888888888888888888877754 444445544    223333    3345667


Q ss_pred             HHHHHHhcCCchHHHHHHHHHh
Q 035645          191 VTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      -+..|.+..+.+.|.++-....
T Consensus       362 AM~Ic~~l~d~~LA~~v~~ll~  383 (625)
T KOG4422|consen  362 AMSICSSLRDLELAYQVHGLLK  383 (625)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHH
Confidence            7777888888888888765543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.55  E-value=1.2e-11  Score=102.62  Aligned_cols=199  Identities=12%  Similarity=0.009  Sum_probs=158.4

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +...|..+..++.. +++++|...+.+....  .|+......+...+...|++++|...|+++...  +|+...+..+..
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            56677878877776 8999999988888765  356554445556667899999999999998654  455555677788


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVE  168 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  168 (217)
                      ++.+.|+.++|...+++..+.+ +.+...+..+.....+.|++++|...++...+.  .|+...+..+..++.+.|++++
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-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPA  627 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHH
Confidence            8999999999999999998765 223333333344445669999999999999876  4678899999999999999999


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          169 AANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      |...+++..... +-+...+..+..++...|++++|.+.++...++.|
T Consensus       628 A~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P  674 (987)
T PRK09782        628 AVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLP  674 (987)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            999999998865 33556788888899999999999999999988765

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

Probab=99.55  E-value=7.4e-13  Score=101.18  Aligned_cols=189  Identities=17%  Similarity=0.228  Sum_probs=100.6

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc-hhhHHHHHHHHHhcCCHHH
Q 035645           20 LLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD-VSTYKILIPAVSKAGMIDE   98 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~   98 (217)
                      |...|.++.|+..+++.++.. +--...|+.|..++...|+..+|++.|.+....  .|+ ..+.+.|..+|...|.+++
T Consensus       296 YyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NLgni~~E~~~~e~  372 (966)
T KOG4626|consen  296 YYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNLGNIYREQGKIEE  372 (966)
T ss_pred             EeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhccchH
Confidence            333344444444444443321 112334555555555555555555555544442  222 2344555555555555555


Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645           99 AFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      |..+|....+-. +.-...++.|...|.+.|++++|...|++...  +.|+ ...|+.+...|-..|+.+.|.+.+.+.+
T Consensus       373 A~~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI  449 (966)
T KOG4626|consen  373 ATRLYLKALEVF-PEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAI  449 (966)
T ss_pred             HHHHHHHHHhhC-hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHH
Confidence            555555544432 11233455566666666666666666665554  3444 3556666666666666666666666555


Q ss_pred             HcCCCCC-hhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          178 EMGLTPI-SRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       178 ~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ..+  |. ...++.|...|..+|++.+|.+-++....++|
T Consensus       450 ~~n--Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkP  487 (966)
T KOG4626|consen  450 QIN--PTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKP  487 (966)
T ss_pred             hcC--cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCC
Confidence            533  33 34566777777777777777777777776665

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

Probab=99.54  E-value=1.1e-13  Score=100.52  Aligned_cols=200  Identities=16%  Similarity=0.128  Sum_probs=100.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      ..|..+...+...++++.|.+.++++...+.. +...+..++.. ...+++++|.+++....+.  .++...+..++..+
T Consensus        45 ~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~  120 (280)
T PF13429_consen   45 EYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDPEEALKLAEKAYER--DGDPRYLLSALQLY  120 (280)
T ss_dssp             -----------------------------------------------------------------------------H-H
T ss_pred             cccccccccccccccccccccccccccccccc-ccccccccccc-ccccccccccccccccccc--ccccchhhHHHHHH
Confidence            33444555566677777777777777765433 55556666666 6777888888877766543  25666777888889


Q ss_pred             HhcCCHHHHHHHHHHHHhCC-CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHH
Q 035645           91 SKAGMIDEAFRLLHNLVEDG-HNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEA  169 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  169 (217)
                      .+.++++++..+++.+.... .+.+...|..+...+.+.|+.++|.+.+++..+.. +.|....+.++..+...|+.+++
T Consensus       121 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~  199 (280)
T PF13429_consen  121 YRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYDEA  199 (280)
T ss_dssp             HHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHH
Confidence            99999999999999977542 34566778888899999999999999999998873 22577888899999999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          170 ANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .++++...+.. +.|+..+..+..++...|+.++|...++......|
T Consensus       200 ~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p  245 (280)
T PF13429_consen  200 REALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNP  245 (280)
T ss_dssp             HHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccccc
Confidence            99998887654 55667788999999999999999999998877654

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

Probab=99.54  E-value=7.4e-13  Score=101.20  Aligned_cols=203  Identities=12%  Similarity=0.140  Sum_probs=141.6

Q ss_pred             CCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc-hhhH
Q 035645            6 FNPP-VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD-VSTY   83 (217)
Q Consensus         6 ~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~   83 (217)
                      +.|+ ...|-.|...|...+.+++|...+.+..... +-....+..+...|...|.++.|++.|++..+.  .|+ ...|
T Consensus       247 ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay  323 (966)
T KOG4626|consen  247 LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAY  323 (966)
T ss_pred             CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHH
Confidence            3344 3456667777777777777777777666532 124456666777777777777777777777663  344 4677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhc
Q 035645           84 KILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGR  162 (217)
Q Consensus        84 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~  162 (217)
                      +.|..++...|++.+|.+.|++.+... +......+.|..++...|.+++|..+|....+-  .|. ...++.|...|-+
T Consensus       324 ~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kq  400 (966)
T KOG4626|consen  324 NNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQ  400 (966)
T ss_pred             hHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHh
Confidence            888888888888888888888777654 334556777778888888888888888777654  233 5677778888888


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          163 GGRFVEAANYLMEMTEMGLTPIS-RCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       163 ~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .|++++|...+++...  +.|+. ..|+.+...|...|+.+.|.+.+.++...+|
T Consensus       401 qgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nP  453 (966)
T KOG4626|consen  401 QGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINP  453 (966)
T ss_pred             cccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCc
Confidence            8888888888877766  34553 4677777778888888888888777776655

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

Probab=99.51  E-value=2.1e-12  Score=98.96  Aligned_cols=201  Identities=16%  Similarity=0.090  Sum_probs=167.4

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDP-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      +..+|.++..+|.-+++.+.|++.|++....+  | ...+|+.+..-+....++|.|...|+....... .+-.+|.-+.
T Consensus       420 sPesWca~GNcfSLQkdh~~Aik~f~RAiQld--p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~-rhYnAwYGlG  496 (638)
T KOG1126|consen  420 SPESWCALGNCFSLQKDHDTAIKCFKRAIQLD--PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDP-RHYNAWYGLG  496 (638)
T ss_pred             CcHHHHHhcchhhhhhHHHHHHHHHHHhhccC--CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc-hhhHHHHhhh
Confidence            56899999999999999999999999998753  4 778888898899999999999999988866311 1234455577


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFV  167 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  167 (217)
                      -.|.+.++++.|.-.|++..+.+ +-+.+....+...+-+.|+.|+|++++++......+ |+..--..+..+...++++
T Consensus       497 ~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~  574 (638)
T KOG1126|consen  497 TVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYV  574 (638)
T ss_pred             hheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchH
Confidence            78999999999999999999876 456667777888899999999999999999876443 4445555667778899999


Q ss_pred             HHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          168 EAANYLMEMTEMGLTPI-SRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       168 ~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +|...++++++.  .|+ ...|..+...|.+.|+.+.|..-|-.+.+++|
T Consensus       575 eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  575 EALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDP  622 (638)
T ss_pred             HHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCC
Confidence            999999999884  454 55788999999999999999999999998886

>PRK12370 invasion protein regulator; Provisional

Probab=99.50  E-value=4.5e-11  Score=94.69  Aligned_cols=183  Identities=11%  Similarity=0.006  Sum_probs=138.2

Q ss_pred             CCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHH
Q 035645           24 GYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLL  103 (217)
Q Consensus        24 g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  103 (217)
                      +++++|...+++..+.+. -+...+..+...+...|++++|...|++..+.+ +.+...+..+..++...|++++|...+
T Consensus       318 ~~~~~A~~~~~~Al~ldP-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~  395 (553)
T PRK12370        318 NAMIKAKEHAIKATELDH-NNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTI  395 (553)
T ss_pred             hHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            458999999999988753 367788888888999999999999999998864 234667888899999999999999999


Q ss_pred             HHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCC
Q 035645          104 HNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTP  183 (217)
Q Consensus       104 ~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  183 (217)
                      ++..+.+. .+...+..++..+...|++++|...+.+......+-+...+..+..++...|++++|...+.++...  .|
T Consensus       396 ~~Al~l~P-~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~  472 (553)
T PRK12370        396 NECLKLDP-TRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EI  472 (553)
T ss_pred             HHHHhcCC-CChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cc
Confidence            99988752 2233344455567778999999999999876532224556777888888999999999999887654  34


Q ss_pred             Ch-hhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          184 IS-RCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       184 ~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      +. ...+.+...|...|  +.|...++.+.+
T Consensus       473 ~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        473 TGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             hhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            43 34455556667766  477776655443

>PRK12370 invasion protein regulator; Provisional

Probab=99.50  E-value=5.5e-11  Score=94.18  Aligned_cols=202  Identities=12%  Similarity=0.022  Sum_probs=151.1

Q ss_pred             ChhhHHHHHHHHHh-----cCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh---------cCchhHHHHHHHHHHhc
Q 035645            9 PVRGRDLLVQGLLN-----AGYLESAKQMVNKMIKQGSDPDLETFNSLIETICK---------SGEVEFCVEMYYSVCKL   74 (217)
Q Consensus         9 ~~~~~~~ll~~~~~-----~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~~~   74 (217)
                      +...|...+.+-..     .+.+++|...|++..+.... +...|..+..++..         .+++++|...+++..+.
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            44556666666422     23467899999999876322 45566666655442         34588999999999885


Q ss_pred             CCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHH
Q 035645           75 GSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYT  154 (217)
Q Consensus        75 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  154 (217)
                      . +-+..++..+..++...|++++|...|++..+.+ +.+...+..+...+...|++++|...++...+.... +...+.
T Consensus       334 d-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~  410 (553)
T PRK12370        334 D-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGI  410 (553)
T ss_pred             C-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHH
Confidence            4 2356778888888999999999999999999876 445667888899999999999999999999886332 223334


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          155 TLITMCGRGGRFVEAANYLMEMTEMGLTP-ISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       155 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      .++..+...|++++|...+++..+.. .| +...+..+..++...|+.++|.+.++.+....
T Consensus       411 ~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~  471 (553)
T PRK12370        411 TKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE  471 (553)
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc
Confidence            44555667899999999999987654 34 44457778888999999999999998765543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.48  E-value=6.2e-11  Score=83.43  Aligned_cols=169  Identities=12%  Similarity=0.041  Sum_probs=140.9

Q ss_pred             CChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHH
Q 035645           43 PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPII  122 (217)
Q Consensus        43 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  122 (217)
                      .....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+.
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~  106 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYG  106 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            345678888999999999999999999997753 3356778889999999999999999999998765 34556788888


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCC-CCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCc
Q 035645          123 KGAFRRGQFDDAFCFFSEIKIKGH-PPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKH  201 (217)
Q Consensus       123 ~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (217)
                      ..+...|++++|...+........ ......+..+...+...|++++|...+.+..+.. +.+...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCH
Confidence            999999999999999999986532 2234567778888999999999999999988754 23456788999999999999


Q ss_pred             hHHHHHHHHHhhh
Q 035645          202 DLAEKIEQLEVSL  214 (217)
Q Consensus       202 ~~a~~~~~~~~~~  214 (217)
                      ++|.+.++...+.
T Consensus       186 ~~A~~~~~~~~~~  198 (234)
T TIGR02521       186 KDARAYLERYQQT  198 (234)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999887765

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.

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

Probab=99.46  E-value=5.2e-10  Score=75.90  Aligned_cols=201  Identities=18%  Similarity=0.143  Sum_probs=169.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVS   91 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   91 (217)
                      +..-+.-.|.+.|++..|.+-+++.++.. +-+..+|..+...|.+.|+.+.|.+-|++..+.. +-+-.+.|.....+|
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-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            45667788999999999999999999875 3367799999999999999999999999998853 235678999999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCC-CcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHH
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNP-FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAA  170 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  170 (217)
                      ..|++++|...|++....-.-+ ...+|..+.-+..+.|+.+.|...|+...+.... ...+.-.+.......|++-.|.
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            9999999999999988763222 3568889999999999999999999999887322 3567788889999999999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          171 NYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ..++.....+. ++.......|+.-.+.|+-+.+.+.-..+.++-|
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP  238 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFP  238 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            99999887775 8888888899999999999999888766665543

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

Probab=99.46  E-value=4.8e-11  Score=88.37  Aligned_cols=206  Identities=12%  Similarity=0.077  Sum_probs=168.5

Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC--CChhhHH-------------------------------H
Q 035645            4 KGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSD--PDLETFN-------------------------------S   50 (217)
Q Consensus         4 ~g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~--~~~~~~~-------------------------------~   50 (217)
                      .|++-+...-+-...+.-...++++|+.+|+++.+...-  -|..+|+                               +
T Consensus       256 ~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKyR~ETCCi  335 (559)
T KOG1155|consen  256 VGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKYRPETCCI  335 (559)
T ss_pred             ccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccCCccceee
Confidence            355555555555556666788999999999999887311  0334443                               3


Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC
Q 035645           51 LIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQ  130 (217)
Q Consensus        51 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~  130 (217)
                      +.+-|+-.++.++|+..|++..+.+. .....|+.+.+-|....+...|++-++...+-+ +-|-..|-.+-++|.-.+.
T Consensus       336 IaNYYSlr~eHEKAv~YFkRALkLNp-~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~M  413 (559)
T KOG1155|consen  336 IANYYSLRSEHEKAVMYFKRALKLNP-KYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKM  413 (559)
T ss_pred             ehhHHHHHHhHHHHHHHHHHHHhcCc-chhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcc
Confidence            44456667788999999999988643 256789999999999999999999999999886 6688899999999999999


Q ss_pred             hHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHH
Q 035645          131 FDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQL  210 (217)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (217)
                      +.-|+-.|++..... +-|...|.+|..+|.+.++.++|++.|......| ..+...+..|.+.|.+.++.++|-+.+++
T Consensus       414 h~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek  491 (559)
T KOG1155|consen  414 HFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEK  491 (559)
T ss_pred             hHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            999999999988762 4478999999999999999999999999998876 34667899999999999999999999876


Q ss_pred             Hhh
Q 035645          211 EVS  213 (217)
Q Consensus       211 ~~~  213 (217)
                      -++
T Consensus       492 ~v~  494 (559)
T KOG1155|consen  492 YVE  494 (559)
T ss_pred             HHH
Confidence            554

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

Probab=99.45  E-value=8.9e-13  Score=103.99  Aligned_cols=198  Identities=19%  Similarity=0.181  Sum_probs=140.0

Q ss_pred             CCCCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCC------------------------CCCChhhHHHHHHHHH
Q 035645            1 MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQG------------------------SDPDLETFNSLIETIC   56 (217)
Q Consensus         1 M~~~g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~------------------------~~~~~~~~~~ll~~~~   56 (217)
                      |+..|+.|+.+||.++|.-||..|+.+.|- +|.-|.-..                        -.|...||..|..+|.
T Consensus        16 ~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr   94 (1088)
T KOG4318|consen   16 HEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYR   94 (1088)
T ss_pred             HHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHH
Confidence            356799999999999999999999999998 776665332                        2456789999999999


Q ss_pred             hcCchhH---HHHHHHHHH----hcCC-----------------CcchhhHHHHHHHHHhcCCHHHHHHH----------
Q 035645           57 KSGEVEF---CVEMYYSVC----KLGS-----------------CADVSTYKILIPAVSKAGMIDEAFRL----------  102 (217)
Q Consensus        57 ~~~~~~~---a~~~~~~~~----~~~~-----------------~~~~~~~~~ll~~~~~~~~~~~a~~~----------  102 (217)
                      ..||...   +.+.+..+.    ..|+                 -||..   ..+....-.|.++.+.++          
T Consensus        95 ~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illlv~eglwaqllkll~~~Pvsa~~  171 (1088)
T KOG4318|consen   95 IHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLVLEGLWAQLLKLLAKVPVSAWN  171 (1088)
T ss_pred             hccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHHHHHHHHHHHHHHhhCCccccc
Confidence            9998665   222121111    1121                 12211   111111122222222222          


Q ss_pred             --------------------HHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhc
Q 035645          103 --------------------LHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGR  162 (217)
Q Consensus       103 --------------------~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  162 (217)
                                          .+......-.|++.+|..++....-.|+.+.|..++.+|++.|++.+.+-|-.|+-+   
T Consensus       172 ~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---  248 (1088)
T KOG4318|consen  172 APFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---  248 (1088)
T ss_pred             chHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---
Confidence                                222221111488899999999999999999999999999999999999888888766   


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHH
Q 035645          163 GGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAE  205 (217)
Q Consensus       163 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  205 (217)
                      .++..-+..+++-|.+.|+.|+..|+.--+..+..+|....+.
T Consensus       249 ~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~  291 (1088)
T KOG4318|consen  249 INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGE  291 (1088)
T ss_pred             CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcc
Confidence            8888999999999999999999999997777777766544443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.45  E-value=1.3e-10  Score=99.32  Aligned_cols=197  Identities=13%  Similarity=0.091  Sum_probs=114.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      +..+...+...|++++|.+.+++..+... -+...+..+...|.+.|++++|+..++++.+... .+...+..+...+..
T Consensus       464 ~~~~a~~~~~~g~~~eA~~~~~~Al~~~P-~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P-~~~~~~~a~al~l~~  541 (1157)
T PRK11447        464 LAQQAEALENQGKWAQAAELQRQRLALDP-GSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKP-NDPEQVYAYGLYLSG  541 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHh
Confidence            44456667778888888888888887532 2556677788888888888888888888765321 122222222222333


Q ss_pred             cCCHHHHHHHHHHHHhC---------------------------------------CCCCCcccHHHHHHHHHhcCChHH
Q 035645           93 AGMIDEAFRLLHNLVED---------------------------------------GHNPFPSLYAPIIKGAFRRGQFDD  133 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~---------------------------------------~~~~~~~~~~~ll~~~~~~g~~~~  133 (217)
                      .++.++|...++.+...                                       ..+.+...+..+...+.+.|++++
T Consensus       542 ~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~  621 (1157)
T PRK11447        542 SDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAA  621 (1157)
T ss_pred             CCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHH
Confidence            33333333333321100                                       012334445556666666666666


Q ss_pred             HHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          134 AFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      |...|+...... +.+...+..+...+...|++++|.+.++...+.. +.+..+...+..++...|++++|.++++.+.+
T Consensus       622 A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~  699 (1157)
T PRK11447        622 ARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIP  699 (1157)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhh
Confidence            666666666542 2245566666666666666666666666555432 12233445556666666666666666666554

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.44  E-value=2.2e-10  Score=87.30  Aligned_cols=201  Identities=12%  Similarity=0.074  Sum_probs=154.0

Q ss_pred             CCCChhhHH--HHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC------
Q 035645            6 FNPPVRGRD--LLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC------   77 (217)
Q Consensus         6 ~~~~~~~~~--~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~------   77 (217)
                      ..|+.....  .....+...|+++.|...++++.+.. +-+......+...|.+.|++++|.+++..+.+.+..      
T Consensus       147 ~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~  225 (398)
T PRK10747        147 LADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRA  225 (398)
T ss_pred             cCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHH
Confidence            345544333  33567888999999999999988775 336778888889999999999999888877654332      


Q ss_pred             -----------------------------------cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHH
Q 035645           78 -----------------------------------ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPII  122 (217)
Q Consensus        78 -----------------------------------~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  122 (217)
                                                         .+......+...+...|+.++|.+.+++..+.  .++..  -.++
T Consensus       226 ~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~--l~~l  301 (398)
T PRK10747        226 MLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDER--LVLL  301 (398)
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHH--HHHH
Confidence                                               13334455677778889999999999888774  44442  1234


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCch
Q 035645          123 KGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHD  202 (217)
Q Consensus       123 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (217)
                      .+....++.+++.+..+...+. .+-|.....++...+.+.+++++|.+.|+...+.  .|+..++..+...+.+.|+.+
T Consensus       302 ~~~l~~~~~~~al~~~e~~lk~-~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~  378 (398)
T PRK10747        302 IPRLKTNNPEQLEKVLRQQIKQ-HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPE  378 (398)
T ss_pred             HhhccCCChHHHHHHHHHHHhh-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHH
Confidence            4445568899999999888766 3446677889999999999999999999999875  599999999999999999999


Q ss_pred             HHHHHHHHHhhh
Q 035645          203 LAEKIEQLEVSL  214 (217)
Q Consensus       203 ~a~~~~~~~~~~  214 (217)
                      +|.++++....+
T Consensus       379 ~A~~~~~~~l~~  390 (398)
T PRK10747        379 EAAAMRRDGLML  390 (398)
T ss_pred             HHHHHHHHHHhh
Confidence            999999877553

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.44  E-value=1.6e-10  Score=94.83  Aligned_cols=196  Identities=10%  Similarity=-0.006  Sum_probs=153.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCC-CChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCc---chhhHHHHHHHHHh
Q 035645           17 VQGLLNAGYLESAKQMVNKMIKQGSD-PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCA---DVSTYKILIPAVSK   92 (217)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~ll~~~~~   92 (217)
                      +..+...|++++|...|+.+.+.+.+ |+. ....+...|...|++++|+..|+++.+.....   .......+..++.+
T Consensus       244 l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~  322 (765)
T PRK10049        244 LGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLE  322 (765)
T ss_pred             HHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHh
Confidence            34556779999999999999887532 332 22235778999999999999999987643211   13456667778899


Q ss_pred             cCCHHHHHHHHHHHHhCCC-----------CCCc---ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH
Q 035645           93 AGMIDEAFRLLHNLVEDGH-----------NPFP---SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLIT  158 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~-----------~~~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  158 (217)
                      .|++++|..+++.+.+...           .|+.   ..+..+...+...|++++|+++++++... .+.+...+..+..
T Consensus       323 ~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~-~P~n~~l~~~lA~  401 (765)
T PRK10049        323 SENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN-APGNQGLRIDYAS  401 (765)
T ss_pred             cccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHH
Confidence            9999999999999987531           1221   24456778899999999999999999876 3446789999999


Q ss_pred             HHhcCCCHHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          159 MCGRGGRFVEAANYLMEMTEMGLTPI-SRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       159 ~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .+...|++++|.+.+++.....  |+ ...+......+.+.|++++|+++++.+.+..|
T Consensus       402 l~~~~g~~~~A~~~l~~al~l~--Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~P  458 (765)
T PRK10049        402 VLQARGWPRAAENELKKAEVLE--PRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREP  458 (765)
T ss_pred             HHHhcCCHHHHHHHHHHHHhhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC
Confidence            9999999999999999988854  54 55677788889999999999999999887765

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

Probab=99.43  E-value=1.9e-10  Score=81.68  Aligned_cols=204  Identities=12%  Similarity=0.122  Sum_probs=141.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC---hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPD---LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKIL   86 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (217)
                      ..+.-+|.+.|.+.|..++|+.+.+.+.++.-.+.   ......|..-|...|-+|.|.++|..+.+.+- .-......|
T Consensus        69 ~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~e-fa~~AlqqL  147 (389)
T COG2956          69 FEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGE-FAEGALQQL  147 (389)
T ss_pred             hHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchh-hhHHHHHHH
Confidence            44555677777777777777777777766421111   12334455666777777777777777765432 234566777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCc----ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhc
Q 035645           87 IPAVSKAGMIDEAFRLLHNLVEDGHNPFP----SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGR  162 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  162 (217)
                      +..|....+|++|+++-+++.+.+-.+..    .-|.-+...+....+.+.|..++.+..+.+. .++..--.+.+....
T Consensus       148 l~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~-~cvRAsi~lG~v~~~  226 (389)
T COG2956         148 LNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADK-KCVRASIILGRVELA  226 (389)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCc-cceehhhhhhHHHHh
Confidence            78888888888888887777765433222    2355555666666778888888887776532 234455566777888


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          163 GGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       163 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      .|+++.|.+.++...+.+...-+.+...|..+|...|+.++...++..+.+..
T Consensus       227 ~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~  279 (389)
T COG2956         227 KGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN  279 (389)
T ss_pred             ccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            89999999999998888766677788899999999999999988887776543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.43  E-value=2.3e-10  Score=97.91  Aligned_cols=202  Identities=11%  Similarity=0.020  Sum_probs=150.2

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc--------------
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL--------------   74 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------------   74 (217)
                      +...+..+...+.+.|++++|...++++.+... .+...+..+...+...++.++|+..++.+...              
T Consensus       494 ~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~  572 (1157)
T PRK11447        494 SVWLTYRLAQDLRQAGQRSQADALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQ  572 (1157)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHh
Confidence            456677888899999999999999999886532 23333333333344445555555444432110              


Q ss_pred             -------------------------CCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 035645           75 -------------------------GSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRG  129 (217)
Q Consensus        75 -------------------------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g  129 (217)
                                               ..+.+...+..+...+.+.|++++|...|++..+.. +.+..++..+...+...|
T Consensus       573 ~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g  651 (1157)
T PRK11447        573 SDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQG  651 (1157)
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCC
Confidence                                     123455667788889999999999999999999875 446778999999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCC--CC---ChhhHHHHHHHHHhcCCchHH
Q 035645          130 QFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGL--TP---ISRCFDLVTDGLKNCGKHDLA  204 (217)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~~---~~~~~~~l~~~~~~~~~~~~a  204 (217)
                      ++++|.+.++...+.. +.+..+...+..++...|++++|.++++.+.....  .|   +...+..+...+...|+.++|
T Consensus       652 ~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A  730 (1157)
T PRK11447        652 DLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQA  730 (1157)
T ss_pred             CHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999887652 23456677788889999999999999999886532  12   224566678889999999999


Q ss_pred             HHHHHHHhh
Q 035645          205 EKIEQLEVS  213 (217)
Q Consensus       205 ~~~~~~~~~  213 (217)
                      .+.++....
T Consensus       731 ~~~y~~Al~  739 (1157)
T PRK11447        731 LETYKDAMV  739 (1157)
T ss_pred             HHHHHHHHh
Confidence            999988864

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

Probab=99.42  E-value=1.7e-11  Score=94.05  Aligned_cols=201  Identities=9%  Similarity=-0.001  Sum_probs=154.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCC---------------------------------CCCChhhHHHHHHHHHh
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQG---------------------------------SDPDLETFNSLIETICK   57 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~---------------------------------~~~~~~~~~~ll~~~~~   57 (217)
                      .....+..+|...+++++|.++|+.+....                                 -+-.+.+|..+.++|.-
T Consensus       354 wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcfSL  433 (638)
T KOG1126|consen  354 WVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCFSL  433 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchhhh
Confidence            445567788888999999999998887642                                 12246788888999999


Q ss_pred             cCchhHHHHHHHHHHhcCCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHH
Q 035645           58 SGEVEFCVEMYYSVCKLGSCA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFC  136 (217)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~  136 (217)
                      +++.+.|++.|++..+.  .| ...+|+.+..-+....++|.|...|+..+..+ +-+-.+|.-+-..|.+.++++.|+-
T Consensus       434 Qkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-~rhYnAwYGlG~vy~Kqek~e~Ae~  510 (638)
T KOG1126|consen  434 QKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD-PRHYNAWYGLGTVYLKQEKLEFAEF  510 (638)
T ss_pred             hhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-chhhHHHHhhhhheeccchhhHHHH
Confidence            99999999999998874  45 67888889888999999999999998877543 1123355566778899999999999


Q ss_pred             HHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          137 FFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .|++..+-+. -+.+....+...+-+.|+.++|++++++....+. -|+..--.-+..+...++.++|.+.++.++++-|
T Consensus       511 ~fqkA~~INP-~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~-kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP  588 (638)
T KOG1126|consen  511 HFQKAVEINP-SNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP-KNPLCKYHRASILFSLGRYVEALQELEELKELVP  588 (638)
T ss_pred             HHHhhhcCCc-cchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC-CCchhHHHHHHHHHhhcchHHHHHHHHHHHHhCc
Confidence            9998876542 2566777777888889999999999998887653 2343444456667778999999999988877644

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.42  E-value=4.8e-10  Score=82.05  Aligned_cols=196  Identities=13%  Similarity=0.010  Sum_probs=142.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCc-chhhHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCA-DVSTYKILIPA   89 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~   89 (217)
                      ..|......+.+.|+++.|...|++..+.. +.+...|+.+...+...|++++|...|++..+.  .| +..++..+..+
T Consensus        65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~  141 (296)
T PRK11189         65 QLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAYLNRGIA  141 (296)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            457778888999999999999999998864 336789999999999999999999999999875  34 45778888889


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHH
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEA  169 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  169 (217)
                      +...|++++|.+.|+...+.+  |+..........+...++.++|...+...... ..|+...+ .+..  ...|+...+
T Consensus       142 l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~-~~~~~~~~-~~~~--~~lg~~~~~  215 (296)
T PRK11189        142 LYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEK-LDKEQWGW-NIVE--FYLGKISEE  215 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh-CCccccHH-HHHH--HHccCCCHH
Confidence            999999999999999998764  33321222223345677899999999775543 23332222 2222  234555443


Q ss_pred             HHHHHHHHH---cCC--CC-ChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          170 ANYLMEMTE---MGL--TP-ISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       170 ~~~~~~~~~---~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                       +.+..+.+   ..+  .| ...+|..+...+.+.|++++|...|+...+..|
T Consensus       216 -~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        216 -TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             -HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence             34444442   111  11 235799999999999999999999999887764

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.41  E-value=5e-10  Score=85.34  Aligned_cols=196  Identities=9%  Similarity=-0.001  Sum_probs=149.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHH--HHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFN--SLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      |.....+..+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.|...++++.+.. +-+......+...|
T Consensus       121 ~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~  197 (398)
T PRK10747        121 YLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAY  197 (398)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            444455558999999999999999875  45544332  44678899999999999999998864 33678889999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCC-----------------------------------------CcccHHHHHHHHHhcC
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHNP-----------------------------------------FPSLYAPIIKGAFRRG  129 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~-----------------------------------------~~~~~~~ll~~~~~~g  129 (217)
                      .+.|++++|.+++..+.+.+..+                                         ++.....+...+...|
T Consensus       198 ~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g  277 (398)
T PRK10747        198 IRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECD  277 (398)
T ss_pred             HHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCC
Confidence            99999999999998887654321                                         2223445566778889


Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHH
Q 035645          130 QFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQ  209 (217)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (217)
                      +.++|..++.+..+.  +|+....  ++.+....++.+++.+..+...+.. +-|...+..+...|.+.+++++|.+.|+
T Consensus       278 ~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le  352 (398)
T PRK10747        278 DHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFR  352 (398)
T ss_pred             CHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            999999999888774  4454222  3344446689999999999888764 2345567899999999999999999999


Q ss_pred             HHhhhcC
Q 035645          210 LEVSLRS  216 (217)
Q Consensus       210 ~~~~~~~  216 (217)
                      ...+.+|
T Consensus       353 ~al~~~P  359 (398)
T PRK10747        353 AALKQRP  359 (398)
T ss_pred             HHHhcCC
Confidence            9988765

>TIGR00540 hemY_coli hemY protein

Probab=99.40  E-value=4.3e-10  Score=86.04  Aligned_cols=193  Identities=13%  Similarity=0.120  Sum_probs=135.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC------------------
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC------------------   77 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~------------------   77 (217)
                      ....+...|+++.|...++.+.+.. +-+......+...+.+.|++++|.+.+..+.+.+..                  
T Consensus       159 ~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~  237 (409)
T TIGR00540       159 RTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLD  237 (409)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence            4666677788888888887777764 225566777777777777777777777666544321                  


Q ss_pred             ------------------c-----chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCccc-HHHHHHH--HHhcCCh
Q 035645           78 ------------------A-----DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSL-YAPIIKG--AFRRGQF  131 (217)
Q Consensus        78 ------------------~-----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~ll~~--~~~~g~~  131 (217)
                                        |     +...+..+...+...|+.++|.+.+++..+..  |+... ...++..  ....++.
T Consensus       238 ~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~  315 (409)
T TIGR00540       238 EAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDN  315 (409)
T ss_pred             HHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCCh
Confidence                              2     44556666677778888888888888888763  33321 1012222  2334677


Q ss_pred             HHHHHHHHHHHhcCCCCCH--hHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHH
Q 035645          132 DDAFCFFSEIKIKGHPPNR--PVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQ  209 (217)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (217)
                      +.+.+.++...+. .+-|.  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.++++
T Consensus       316 ~~~~~~~e~~lk~-~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~  394 (409)
T TIGR00540       316 EKLEKLIEKQAKN-VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQ  394 (409)
T ss_pred             HHHHHHHHHHHHh-CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            7787777776654 22234  56668888899999999999999965554457888888899999999999999999998


Q ss_pred             HHh
Q 035645          210 LEV  212 (217)
Q Consensus       210 ~~~  212 (217)
                      ...
T Consensus       395 ~~l  397 (409)
T TIGR00540       395 DSL  397 (409)
T ss_pred             HHH
Confidence            754

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.

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

Probab=99.39  E-value=3.2e-10  Score=80.58  Aligned_cols=188  Identities=13%  Similarity=0.119  Sum_probs=151.8

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcch------hhHHHHHHHHHhcCCH
Q 035645           23 AGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADV------STYKILIPAVSKAGMI   96 (217)
Q Consensus        23 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~ll~~~~~~~~~   96 (217)
                      ..+.++|.+.|-+|.+.. +-+..+.-+|.+.|.+.|..|.|+++.+.+.++   ||.      .....|..=|...|-+
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~  123 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLL  123 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhh
Confidence            468999999999998853 235566778999999999999999999999874   442      3445566778889999


Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC----HhHHHHHHHHHhcCCCHHHHHHH
Q 035645           97 DEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN----RPVYTTLITMCGRGGRFVEAANY  172 (217)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~  172 (217)
                      |.|+.+|..+.+.+ ..-..+...|+..|-...+|++|+++-+++.+.+-.+.    ...|.-+...+....+.+.|..+
T Consensus       124 DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~  202 (389)
T COG2956         124 DRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRAREL  202 (389)
T ss_pred             hHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            99999999998865 34466788999999999999999999999988765544    24667777888888999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          173 LMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +.+..+.+. -....--.+.+.....|+++.|.+.++...+.+|
T Consensus       203 l~kAlqa~~-~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~  245 (389)
T COG2956         203 LKKALQADK-KCVRASIILGRVELAKGDYQKAVEALERVLEQNP  245 (389)
T ss_pred             HHHHHhhCc-cceehhhhhhHHHHhccchHHHHHHHHHHHHhCh
Confidence            999887652 2334445677888999999999999999887664

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

Probab=99.38  E-value=7.4e-11  Score=84.01  Aligned_cols=197  Identities=14%  Similarity=0.053  Sum_probs=102.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhc
Q 035645           14 DLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKA   93 (217)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~   93 (217)
                      +-+..+|.+.|.+.+|.+.++.-.+.  .|-+.||..|-+.|.+..+++.|+.+|.+-.+. ++-|+....-....+...
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            34555555566666666555555543  334445555555555555555555555554442 222222223344445555


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH-------------
Q 035645           94 GMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMC-------------  160 (217)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-------------  160 (217)
                      ++.++|.++|+...+.. +.+......+...|.-.++++.|+..|+.+.+.|+. ++..|+.+.-+|             
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            55555555555554442 233333444444444455555555555555554443 344444444444             


Q ss_pred             ------------------------hcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          161 ------------------------GRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       161 ------------------------~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                                              ...|++..|.+.|+-....+ .-+...++.|.-.-.+.|++++|..+++...++.|
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P  460 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence                                    44455555555554444332 22344666666666678888888888877766544

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

Probab=99.37  E-value=8.7e-11  Score=83.68  Aligned_cols=169  Identities=12%  Similarity=-0.020  Sum_probs=144.5

Q ss_pred             CCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHH
Q 035645           41 SDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP  120 (217)
Q Consensus        41 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  120 (217)
                      ...|-..-+.+.++|.+.|-+.+|...++.-.+.  .|-+.||-.|-.+|.+.++++.|+.++.+-.+.- +.++....-
T Consensus       219 ~~~dwwWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g  295 (478)
T KOG1129|consen  219 CTLDWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLG  295 (478)
T ss_pred             chHhHHHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-Cchhhhhhh
Confidence            3334444568899999999999999999988764  5788899999999999999999999999988762 445555567


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 035645          121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGK  200 (217)
Q Consensus       121 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (217)
                      +.+.+-..++.++|.++|+...+. .+.++....++...|.-.++++.|.++++++...|+ .++..|+.+.-+|...++
T Consensus       296 ~ARi~eam~~~~~a~~lYk~vlk~-~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ  373 (478)
T KOG1129|consen  296 QARIHEAMEQQEDALQLYKLVLKL-HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQ  373 (478)
T ss_pred             hHHHHHHHHhHHHHHHHHHHHHhc-CCccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcc
Confidence            788899999999999999999876 355788888888999999999999999999999994 678889999999999999


Q ss_pred             chHHHHHHHHHhhh
Q 035645          201 HDLAEKIEQLEVSL  214 (217)
Q Consensus       201 ~~~a~~~~~~~~~~  214 (217)
                      +|.+..-|++..+.
T Consensus       374 ~D~~L~sf~RAlst  387 (478)
T KOG1129|consen  374 IDLVLPSFQRALST  387 (478)
T ss_pred             hhhhHHHHHHHHhh
Confidence            99999998887654

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

Probab=99.32  E-value=7.9e-10  Score=82.10  Aligned_cols=196  Identities=13%  Similarity=0.086  Sum_probs=164.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      .|...+.+.|+-.++.++|...|++.++.+.. ....|+.+..-|....+...|++-|++..+.. +.|-..|-.|..+|
T Consensus       331 ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaY  408 (559)
T KOG1155|consen  331 ETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAY  408 (559)
T ss_pred             cceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHH
Confidence            45566777788889999999999999986533 66789999999999999999999999999864 34889999999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHH
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAA  170 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  170 (217)
                      .-.+...-|+-.|++..... +.|...|.+|-.+|.+.++.++|+..|+.....|-. +...+..|.+.+-+.++..+|.
T Consensus       409 eim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d~~eAa  486 (559)
T KOG1155|consen  409 EIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKDLNEAA  486 (559)
T ss_pred             HHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHhHHHHH
Confidence            99999999999999998875 668899999999999999999999999999887633 6688999999999999999999


Q ss_pred             HHHHHHHH----cCC-CC-ChhhHHHHHHHHHhcCCchHHHHHHHH
Q 035645          171 NYLMEMTE----MGL-TP-ISRCFDLVTDGLKNCGKHDLAEKIEQL  210 (217)
Q Consensus       171 ~~~~~~~~----~~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (217)
                      ..|.+.++    .|. .| .......|..-+.+.+++++|......
T Consensus       487 ~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~  532 (559)
T KOG1155|consen  487 QYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATL  532 (559)
T ss_pred             HHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHH
Confidence            99988774    232 23 233444577788899999998876543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.30  E-value=4.4e-09  Score=86.04  Aligned_cols=200  Identities=11%  Similarity=0.008  Sum_probs=162.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcC-----CCcchhhHHHHHHH
Q 035645           15 LLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLG-----SCADVSTYKILIPA   89 (217)
Q Consensus        15 ~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~ll~~   89 (217)
                      --+-++...|+..++++.++.+...|.+....+-..+.++|...+++++|..+|+.+....     ..++......|.-+
T Consensus       297 Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA  376 (822)
T PRK14574        297 DRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYS  376 (822)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHH
Confidence            4566788899999999999999988866566688899999999999999999999996542     12344446789999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCC-----------CCCc---ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHH
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGH-----------NPFP---SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTT  155 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~-----------~~~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (217)
                      +...+++++|..+++.+.+...           .|+.   ..+..++..+...|++.+|++.++++.... +-|......
T Consensus       377 ~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~  455 (822)
T PRK14574        377 LNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIA  455 (822)
T ss_pred             HHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            9999999999999999987321           1221   234556788899999999999999998763 458899999


Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          156 LITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       156 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +...+...|.+.+|.+.++...... +-+..+......++...+++++|.++.+...+..|
T Consensus       456 ~A~v~~~Rg~p~~A~~~~k~a~~l~-P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~P  515 (822)
T PRK14574        456 LASIYLARDLPRKAEQELKAVESLA-PRSLILERAQAETAMALQEWHQMELLTDDVISRSP  515 (822)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHhhhC-CccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCC
Confidence            9999999999999999997766542 23456777889999999999999999877766544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.30  E-value=6.1e-09  Score=85.74  Aligned_cols=119  Identities=10%  Similarity=0.048  Sum_probs=68.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ...+..+...+.+.|++++|..+|++..+.. +.+...+..+..++...|++++|+..+++..+.. +.+.. +..+..+
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            3346666666677777777777777666542 2244555566666666777777777776665542 22334 5566666


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChH
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFD  132 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~  132 (217)
                      +...|+.++|...+++..+.. +.+...+..+..++...|..+
T Consensus       126 l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e  167 (765)
T PRK10049        126 YKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSA  167 (765)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChH
Confidence            666677777766666666553 222333333444444444433

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.28  E-value=1.5e-09  Score=83.59  Aligned_cols=167  Identities=17%  Similarity=0.202  Sum_probs=105.4

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhc-----CC-Ccch-hhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCC--
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKL-----GS-CADV-STYKILIPAVSKAGMIDEAFRLLHNLVED---GHNPF--  114 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~--  114 (217)
                      +++.|..+|.+.|++++|...+++..+.     |. .|.+ ..++.+...+...+++++|..+++...+.   -..++  
T Consensus       285 ~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~  364 (508)
T KOG1840|consen  285 TLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNV  364 (508)
T ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccch
Confidence            3444444555555555555554444211     11 1111 22344455555555566655555544321   11111  


Q ss_pred             --cccHHHHHHHHHhcCChHHHHHHHHHHHhc-----C--CCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH----cCC
Q 035645          115 --PSLYAPIIKGAFRRGQFDDAFCFFSEIKIK-----G--HPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE----MGL  181 (217)
Q Consensus       115 --~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-----~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~  181 (217)
                        ..+++.+...|...|++++|.+++++....     |  ..-....++.+...|.+.+++.+|.++|.+...    .|.
T Consensus       365 ~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~  444 (508)
T KOG1840|consen  365 NLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGP  444 (508)
T ss_pred             HHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCC
Confidence              356888899999999999999999987643     1  112246778888899999999999998887653    232


Q ss_pred             -CCC-hhhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          182 -TPI-SRCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       182 -~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                       .|+ ..+|..|...|.+.|+++.|.++.+....
T Consensus       445 ~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  445 DHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             CCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence             122 35889999999999999999999887664

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.27  E-value=9.9e-09  Score=84.07  Aligned_cols=186  Identities=13%  Similarity=0.073  Sum_probs=144.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCCh--hhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcC
Q 035645           17 VQGLLNAGYLESAKQMVNKMIKQGSDPDL--ETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAG   94 (217)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~   94 (217)
                      +-...+.|+++.|+..|++..+..  |+.  ..+ .++..+...|+.++|+..+++.... .+.+......+...+...|
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~g  116 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEK  116 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcC
Confidence            334568999999999999998864  443  234 8888888999999999999999721 1222333334466888889


Q ss_pred             CHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHH
Q 035645           95 MIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLM  174 (217)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  174 (217)
                      ++++|+++|+++.+.. +-+...+..++..+...++.++|++.+..+...  .|+...+..++..+...++..+|.+.++
T Consensus       117 dyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~e  193 (822)
T PRK14574        117 RWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASS  193 (822)
T ss_pred             CHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHH
Confidence            9999999999999885 445677778889999999999999999999876  4565566555555555677767999999


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHH
Q 035645          175 EMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQL  210 (217)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (217)
                      ++.+.. +-+...+..+..++.+.|-...|.++.+.
T Consensus       194 kll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~  228 (822)
T PRK14574        194 EAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKE  228 (822)
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHh
Confidence            999875 34567788999999999999999888754

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

Probab=99.25  E-value=1.8e-08  Score=73.63  Aligned_cols=195  Identities=15%  Similarity=0.169  Sum_probs=120.4

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCc-----------
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCA-----------   78 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----------   78 (217)
                      ...+-+........|+.+.|..-+.++.+.+.. +.........+|.+.|++.....+...+.+.|.-.           
T Consensus       153 l~v~ltrarlll~~~d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a  231 (400)
T COG3071         153 LAVELTRARLLLNRRDYPAARENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQA  231 (400)
T ss_pred             HHHHHHHHHHHHhCCCchhHHHHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHH
Confidence            333444555555666666666666666555322 45555566666666666666666666665554422           


Q ss_pred             ------------------------------chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 035645           79 ------------------------------DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR  128 (217)
Q Consensus        79 ------------------------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (217)
                                                    ++..-.+++.-+.+.|+.++|.++..+..+.+..|.    -...-.+.+-
T Consensus       232 ~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~  307 (400)
T COG3071         232 WEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRP  307 (400)
T ss_pred             HHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCC
Confidence                                          233334444445555555555555555555443333    1111223333


Q ss_pred             CChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHH
Q 035645          129 GQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIE  208 (217)
Q Consensus       129 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (217)
                      ++.+.-.+..+.-.+. ++.++..+.+|...|.+.+.|.+|.+.|+...+.  .|+..+|..+.++|.+.|+..+|.++.
T Consensus       308 ~d~~~l~k~~e~~l~~-h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r  384 (400)
T COG3071         308 GDPEPLIKAAEKWLKQ-HPEDPLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVR  384 (400)
T ss_pred             CCchHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHH
Confidence            4444444433333222 2335678899999999999999999999966664  699999999999999999999999998


Q ss_pred             HHHh
Q 035645          209 QLEV  212 (217)
Q Consensus       209 ~~~~  212 (217)
                      +...
T Consensus       385 ~e~L  388 (400)
T COG3071         385 REAL  388 (400)
T ss_pred             HHHH
Confidence            7654

>TIGR00540 hemY_coli hemY protein

Probab=99.25  E-value=5.9e-09  Score=79.87  Aligned_cols=118  Identities=10%  Similarity=0.073  Sum_probs=52.1

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCChh-hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcch--hhHHHHHHHHHhcCCHHHH
Q 035645           23 AGYLESAKQMVNKMIKQGSDPDLE-TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADV--STYKILIPAVSKAGMIDEA   99 (217)
Q Consensus        23 ~g~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~a   99 (217)
                      .|+++.|.+.+.+..+.  .|+.. .+-....+..+.|+++.|.+.+.+..+..  |+.  ...-.....+...|+++.|
T Consensus        97 ~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        97 EGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             CCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHH
Confidence            35555555555444332  12221 22233344444455555555555543321  222  1222234444445555555


Q ss_pred             HHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 035645          100 FRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG  145 (217)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  145 (217)
                      ...++.+.+.+ +-+..++..+...+...|++++|.+.+..+.+.+
T Consensus       173 l~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~  217 (409)
T TIGR00540       173 RHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAG  217 (409)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcC
Confidence            55555555443 2233344445555555555555555555554443

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.

>PF12854 PPR_1: PPR repeat

Probab=99.23  E-value=1.6e-11  Score=58.77  Aligned_cols=34  Identities=26%  Similarity=0.499  Sum_probs=27.4

Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHh
Q 035645            4 KGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMI   37 (217)
Q Consensus         4 ~g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~   37 (217)
                      +|++||..|||++|.+|++.|++++|.++|++|.
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            4778888888888888888888888888888773

>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=99.20  E-value=1.8e-09  Score=78.35  Aligned_cols=199  Identities=17%  Similarity=0.152  Sum_probs=134.3

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhH-HHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHH
Q 035645            7 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETF-NSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKI   85 (217)
Q Consensus         7 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (217)
                      +|.......+...+...++-+.+..-+++....+..++..++ ......+...|++++|++++..-      .+......
T Consensus        63 ~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al  136 (290)
T PF04733_consen   63 SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLAL  136 (290)
T ss_dssp             SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHH
T ss_pred             ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHH
Confidence            555555555555554445555666555555444333223233 33445667789999998887542      35667778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHh
Q 035645           86 LIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR----RGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCG  161 (217)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  161 (217)
                      .+.+|.+.++++.|.+.++.|.+.+   +..+...+..++..    .+.+.+|..+|+++.+. ..+++.+.+.+..+..
T Consensus       137 ~Vqi~L~~~R~dlA~k~l~~~~~~~---eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l  212 (290)
T PF04733_consen  137 AVQILLKMNRPDLAEKELKNMQQID---EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHL  212 (290)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHCCS---CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC---CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHH
Confidence            8899999999999999999998764   33445555555443    34689999999998765 5678899999999999


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCc-hHHHHHHHHHhhhcC
Q 035645          162 RGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKH-DLAEKIEQLEVSLRS  216 (217)
Q Consensus       162 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~  216 (217)
                      ..|++++|.+++.+..+.+ +-+..+...++-+....|+. +.+.+++..+.+..|
T Consensus       213 ~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p  267 (290)
T PF04733_consen  213 QLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNP  267 (290)
T ss_dssp             HCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTT
T ss_pred             HhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCC
Confidence            9999999999999877654 33556777777777778877 667788877765543

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.

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

Probab=99.18  E-value=6.7e-08  Score=70.70  Aligned_cols=200  Identities=11%  Similarity=0.042  Sum_probs=125.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      ..|..-..+.-+.|+.+.+-.++.+..+.-..++....-.........|+++.|..-.+++.+.+. .+.........+|
T Consensus       119 l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~p-r~~~vlrLa~r~y  197 (400)
T COG3071         119 LAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMTP-RHPEVLRLALRAY  197 (400)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhCc-CChHHHHHHHHHH
Confidence            345556666777788888888888777653345566666677777778888888888887776543 3567788888888


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCc-------ccHHHHHHH----------------------------------HHhcC
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHNPFP-------SLYAPIIKG----------------------------------AFRRG  129 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~ll~~----------------------------------~~~~g  129 (217)
                      .+.|++.....+...+.+.+.-.++       .+|..+++-                                  +.++|
T Consensus       198 ~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~  277 (400)
T COG3071         198 IRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLG  277 (400)
T ss_pred             HHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcC
Confidence            8888888888888888777654333       233333333                                  34444


Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHH
Q 035645          130 QFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQ  209 (217)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (217)
                      +.++|.++..+..+++..|+    -...-.+.+.++.+.-.+..++-.+.. +-++..+.+|...|.+.+.|.+|.+.|+
T Consensus       278 ~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~le  352 (400)
T COG3071         278 DHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALE  352 (400)
T ss_pred             ChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHH
Confidence            45555544444444433322    111112233444444443333333221 2244678899999999999999999999


Q ss_pred             HHhhhcC
Q 035645          210 LEVSLRS  216 (217)
Q Consensus       210 ~~~~~~~  216 (217)
                      ...+.++
T Consensus       353 aAl~~~~  359 (400)
T COG3071         353 AALKLRP  359 (400)
T ss_pred             HHHhcCC
Confidence            8877654

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

Probab=99.13  E-value=7.8e-08  Score=65.56  Aligned_cols=164  Identities=11%  Similarity=-0.037  Sum_probs=137.3

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF  126 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (217)
                      +..-|.-.|.+.|+...|..-+++..+.. +.+..++..+...|.+.|+.+.|.+-|++..+.. +-+..+.|..-..+|
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-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            34567778999999999999999998853 2356789999999999999999999999999875 456778999999999


Q ss_pred             hcCChHHHHHHHHHHHhcCCC-CCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHH
Q 035645          127 RRGQFDDAFCFFSEIKIKGHP-PNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAE  205 (217)
Q Consensus       127 ~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  205 (217)
                      ..|.+++|...|+.......- -...+|..+.-+..+.|+++.|...|++-.+.. +-...+...+.....+.|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHH
Confidence            999999999999998875222 235788899888899999999999999988765 234456778889999999999999


Q ss_pred             HHHHHHhh
Q 035645          206 KIEQLEVS  213 (217)
Q Consensus       206 ~~~~~~~~  213 (217)
                      .++++...
T Consensus       194 ~~~~~~~~  201 (250)
T COG3063         194 LYLERYQQ  201 (250)
T ss_pred             HHHHHHHh
Confidence            99877654

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

Probab=99.12  E-value=3.7e-08  Score=73.99  Aligned_cols=197  Identities=14%  Similarity=0.093  Sum_probs=145.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      |--+...|....+.++.+..|+.....+.. ++.+|..-...+.-.+++++|..=|++.++... -+...|-.+.-+..+
T Consensus       363 yI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~p-e~~~~~iQl~~a~Yr  440 (606)
T KOG0547|consen  363 YIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLDP-ENAYAYIQLCCALYR  440 (606)
T ss_pred             HHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcCh-hhhHHHHHHHHHHHH
Confidence            667777888888888888899888776533 666777767777777888999999988877432 245667777777788


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-----CCH--hHHHHHHHHHhcCCC
Q 035645           93 AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHP-----PNR--PVYTTLITMCGRGGR  165 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~--~~~~~li~~~~~~g~  165 (217)
                      .+++++++..|++.++. ++..+.+|+....++...++++.|.+.|+........     .+.  .+--.++. +--.++
T Consensus       441 ~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~-~qwk~d  518 (606)
T KOG0547|consen  441 QHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLV-LQWKED  518 (606)
T ss_pred             HHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhh-hchhhh
Confidence            88999999999998876 3556788999999999999999999999887654111     111  11112222 224488


Q ss_pred             HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          166 FVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      +..|..++++..+.+.+ ....|..|...-.+.|+.++|.++|+....+
T Consensus       519 ~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~l  566 (606)
T KOG0547|consen  519 INQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQL  566 (606)
T ss_pred             HHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            88899988888876532 3446888999999999999999999876543

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

Probab=99.12  E-value=2.2e-08  Score=75.11  Aligned_cols=195  Identities=13%  Similarity=0.055  Sum_probs=153.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHH
Q 035645           18 QGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMID   97 (217)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~   97 (217)
                      ..+.-.|+...|..-|+..++....++ ..|--+..+|...++.++.+..|+...+.+.. +..+|..-...+.-.++++
T Consensus       334 tF~fL~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e  411 (606)
T KOG0547|consen  334 TFHFLKGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYE  411 (606)
T ss_pred             hhhhhcCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHH
Confidence            344557899999999999988654433 33777888899999999999999999876433 6777888888888889999


Q ss_pred             HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645           98 EAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      +|..=|++..+.+ +-+...|..+.-+..+.+.+++++..|++.++. ++..+..|+.....+...++++.|.+.|+...
T Consensus       412 ~A~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai  489 (606)
T KOG0547|consen  412 EAIADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAI  489 (606)
T ss_pred             HHHHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHH
Confidence            9999999998775 345667778888888999999999999999887 66678999999999999999999999999987


Q ss_pred             HcCCC-----CChh-hHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          178 EMGLT-----PISR-CFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       178 ~~~~~-----~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +....     .+.. ..+.-+-.+...+++..|.+++.++.+++|
T Consensus       490 ~LE~~~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA~e~Dp  534 (606)
T KOG0547|consen  490 ELEPREHLIIVNAAPLVHKALLVLQWKEDINQAENLLRKAIELDP  534 (606)
T ss_pred             hhccccccccccchhhhhhhHhhhchhhhHHHHHHHHHHHHccCc
Confidence            53211     1111 112222233356999999999999999886

>PF12854 PPR_1: PPR repeat

Probab=99.11  E-value=1.2e-10  Score=55.80  Aligned_cols=32  Identities=38%  Similarity=0.488  Sum_probs=16.0

Q ss_pred             CCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHH
Q 035645          145 GHPPNRPVYTTLITMCGRGGRFVEAANYLMEM  176 (217)
Q Consensus       145 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  176 (217)
                      |+.||..||++||.+|++.|++++|.++|++|
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            44455555555555555555555555555444

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

Probab=99.11  E-value=4.2e-08  Score=74.76  Aligned_cols=206  Identities=11%  Similarity=0.050  Sum_probs=157.6

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHH
Q 035645            7 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKIL   86 (217)
Q Consensus         7 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (217)
                      |....+|-++...|...|+..+|.+.|-+....+.. =...|-.....|+-.+..|+|+..|...-+. ++-...-+--+
T Consensus       309 P~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYl  386 (611)
T KOG1173|consen  309 PSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYL  386 (611)
T ss_pred             CCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHH
Confidence            445677888888888889999999998887654211 3456788888888888899998888877553 22222223334


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc--CCC----CCHhHHHHHHHHH
Q 035645           87 IPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK--GHP----PNRPVYTTLITMC  160 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~~~----~~~~~~~~li~~~  160 (217)
                      .--|.+.+..+.|.++|.+..... +.|+.+++-+--.....+.+.+|...|......  ...    .-..+++.|..++
T Consensus       387 gmey~~t~n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~  465 (611)
T KOG1173|consen  387 GMEYMRTNNLKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAY  465 (611)
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHH
Confidence            445788899999999999888764 557778888877778888999999999887632  111    1245688889999


Q ss_pred             hcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          161 GRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       161 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .+.+.+++|+..++...... +-+..++.++.-.|...|+++.|.+.|.+..-++|
T Consensus       466 Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p  520 (611)
T KOG1173|consen  466 RKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALALKP  520 (611)
T ss_pred             HHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCC
Confidence            99999999999999888754 56788999999999999999999999998887776

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.09  E-value=1.3e-07  Score=67.14  Aligned_cols=185  Identities=13%  Similarity=0.073  Sum_probs=102.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-C-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcch--hhHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSD-P-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADV--STYKI   85 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~   85 (217)
                      ...+-.+...+.+.|+++.|...|+++...... | ...++..+..++.+.|++++|+..++++.+.......  .++..
T Consensus        33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~  112 (235)
T TIGR03302        33 AEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYL  112 (235)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHH
Confidence            445556666666777777777777766553211 1 1134555666666777777777777776653211111  13334


Q ss_pred             HHHHHHhc--------CCHHHHHHHHHHHHhCCCCCCc-ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHH
Q 035645           86 LIPAVSKA--------GMIDEAFRLLHNLVEDGHNPFP-SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTL  156 (217)
Q Consensus        86 ll~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (217)
                      +..++...        |+.++|.+.|+.+.+..  |+. ..+..+.....    ...      ..        ......+
T Consensus       113 ~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~----~~~------~~--------~~~~~~~  172 (235)
T TIGR03302       113 RGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDY----LRN------RL--------AGKELYV  172 (235)
T ss_pred             HHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHH----HHH------HH--------HHHHHHH
Confidence            44444433        55666666666666542  222 12111111000    000      00        0011244


Q ss_pred             HHHHhcCCCHHHHHHHHHHHHHcCC--CCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          157 ITMCGRGGRFVEAANYLMEMTEMGL--TPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       157 i~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      ...+.+.|++++|...+....+...  +.....+..+..++...|++++|.++++.+...
T Consensus       173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            5667788888888888888876431  123467788888888888888888888776543

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).

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.08  E-value=8.7e-08  Score=67.97  Aligned_cols=150  Identities=15%  Similarity=0.025  Sum_probs=96.2

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC-c-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcc---cH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC-A-DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPS---LY  118 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~  118 (217)
                      ....+-.+...+.+.|++++|...|+++...... | ...++..+..++.+.|++++|...++++.+.... +..   ++
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~  110 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPN-HPDADYAY  110 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC-CCchHHHH
Confidence            5566777888888999999999999998764321 1 1246677888899999999999999999876421 222   34


Q ss_pred             HHHHHHHHhc--------CChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHH
Q 035645          119 APIIKGAFRR--------GQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFD  189 (217)
Q Consensus       119 ~~ll~~~~~~--------g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  189 (217)
                      ..+..++.+.        |++++|.+.+..+...  .|+ ...+..+.....    ...      ...        ....
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~~~------~~~--------~~~~  170 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----LRN------RLA--------GKEL  170 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----HHH------HHH--------HHHH
Confidence            4444555443        6788888888888765  233 222222211100    000      000        0112


Q ss_pred             HHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          190 LVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      .+...+.+.|++++|...++...+.
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~  195 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVEN  195 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHH
Confidence            5667788889999999988887654

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).

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

Probab=99.07  E-value=4e-08  Score=73.43  Aligned_cols=172  Identities=13%  Similarity=0.208  Sum_probs=92.6

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHH
Q 035645           22 NAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFR  101 (217)
Q Consensus        22 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  101 (217)
                      .+|++++|.+.+++.+.....-....||+=+ .+-..|++++|++.|-++... ..-+..+.-.+.+.|-...+...|++
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfnigl-t~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNIGL-TAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            3577777877777776654332333333322 345567777777777665432 22344555556666666666666666


Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHhcCChH----------------------------------HHHHHHHHHHhcCCC
Q 035645          102 LLHNLVEDGHNPFPSLYAPIIKGAFRRGQFD----------------------------------DAFCFFSEIKIKGHP  147 (217)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~----------------------------------~a~~~~~~~~~~~~~  147 (217)
                      ++-+.... ++.|+.....|...|-+.|+-.                                  +++..|++..-  +.
T Consensus       580 ~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iq  656 (840)
T KOG2003|consen  580 LLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQ  656 (840)
T ss_pred             HHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cC
Confidence            66554432 2334555555555555555544                                  44444443321  35


Q ss_pred             CCHhHHHHHHHHHh-cCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 035645          148 PNRPVYTTLITMCG-RGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCG  199 (217)
Q Consensus       148 ~~~~~~~~li~~~~-~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (217)
                      |+..-|-.++..|. +.|++++|+++++..... ++-|.....-|+..+...|
T Consensus       657 p~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlg  708 (840)
T KOG2003|consen  657 PNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLG  708 (840)
T ss_pred             ccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhcccc
Confidence            56666665554443 456666666666554432 3445555555555555544

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

Probab=99.05  E-value=4.5e-09  Score=83.74  Aligned_cols=175  Identities=18%  Similarity=0.186  Sum_probs=117.1

Q ss_pred             HHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCC------------------------CcchhhHHHH
Q 035645           31 QMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGS------------------------CADVSTYKIL   86 (217)
Q Consensus        31 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~------------------------~~~~~~~~~l   86 (217)
                      .++-.+...|+.|+..||..+|.-|+..|+.+.|- +|..|.-...                        .|...||..|
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~L   89 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNL   89 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHH
Confidence            45677888999999999999999999999999988 7776643211                        3567899999


Q ss_pred             HHHHHhcCCHHHHHHHHHH-HH-------hCCC-----------------CCCcccHHHHHHHHHhcCChHHHHHHHH--
Q 035645           87 IPAVSKAGMIDEAFRLLHN-LV-------EDGH-----------------NPFPSLYAPIIKGAFRRGQFDDAFCFFS--  139 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~-~~-------~~~~-----------------~~~~~~~~~ll~~~~~~g~~~~a~~~~~--  139 (217)
                      ..+|...|++.. ++..++ |.       ..|.                 .||..   ..+.-....|.|+.+..++.  
T Consensus        90 l~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illlv~eglwaqllkll~~~  165 (1088)
T KOG4318|consen   90 LKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLVLEGLWAQLLKLLAKV  165 (1088)
T ss_pred             HHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHHHHHHHHHHHHHHhhC
Confidence            999999998754 222222 21       1111                 11111   11111222222222222221  


Q ss_pred             --------------H-------------HHhcCC-CCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHH
Q 035645          140 --------------E-------------IKIKGH-PPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLV  191 (217)
Q Consensus       140 --------------~-------------~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  191 (217)
                                    .             |.+.+. .|++.+|..++..-..+|+.+.|..++.+|.+.|++.+..-|..|
T Consensus       166 Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpL  245 (1088)
T KOG4318|consen  166 PVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPL  245 (1088)
T ss_pred             CcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhh
Confidence                          1             111112 488899999999999999999999999999999998888877777


Q ss_pred             HHHHHhcCCchHHHHHHHHHhh
Q 035645          192 TDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      +-+   .++...++.++..|..
T Consensus       246 l~g---~~~~q~~e~vlrgmqe  264 (1088)
T KOG4318|consen  246 LLG---INAAQVFEFVLRGMQE  264 (1088)
T ss_pred             hhc---CccchHHHHHHHHHHH
Confidence            766   6777777777765544

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.05  E-value=2.5e-07  Score=67.89  Aligned_cols=172  Identities=11%  Similarity=-0.011  Sum_probs=120.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +...|+.+...+...|+++.|...|++..+... -+..+|..+..++...|++++|++.|++..+.  .|+.........
T Consensus        97 ~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~  173 (296)
T PRK11189         97 MADAYNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLY  173 (296)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            467899999999999999999999999987542 25678888999999999999999999999875  344432223333


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc---CC--CC-CHhHHHHHHHHHhc
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK---GH--PP-NRPVYTTLITMCGR  162 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~--~~-~~~~~~~li~~~~~  162 (217)
                      .+...++.++|...|.+..... .++...+ .  ......|+.+.+ ..+..+.+.   ..  .| ....|..+...+..
T Consensus       174 l~~~~~~~~~A~~~l~~~~~~~-~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~  248 (296)
T PRK11189        174 LAESKLDPKQAKENLKQRYEKL-DKEQWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLS  248 (296)
T ss_pred             HHHccCCHHHHHHHHHHHHhhC-CccccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHH
Confidence            3456788999999997765432 3332222 2  233345665544 344444321   11  11 24688999999999


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCChhhHH
Q 035645          163 GGRFVEAANYLMEMTEMGLTPISRCFD  189 (217)
Q Consensus       163 ~g~~~~a~~~~~~~~~~~~~~~~~~~~  189 (217)
                      .|++++|...|++..+.+ +||..-+.
T Consensus       249 ~g~~~~A~~~~~~Al~~~-~~~~~e~~  274 (296)
T PRK11189        249 LGDLDEAAALFKLALANN-VYNFVEHR  274 (296)
T ss_pred             CCCHHHHHHHHHHHHHhC-CchHHHHH
Confidence            999999999999999866 34544444

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

Probab=99.02  E-value=3.6e-07  Score=62.87  Aligned_cols=162  Identities=9%  Similarity=0.056  Sum_probs=122.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCC
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGM   95 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~   95 (217)
                      -+..|...|+++.+....+.+...    .        ..+...++.++++..++...+.. +.|...|..+...|...|+
T Consensus        22 ~~~~Y~~~g~~~~v~~~~~~~~~~----~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         22 CVGSYLLSPKWQAVRAEYQRLADP----L--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHHcchHHHHHHHHHHHhCc----c--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCC
Confidence            345688899999876555433221    1        01223567788888888887653 4578889999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCcccHHHHHHHH-HhcCC--hHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHH
Q 035645           96 IDEAFRLLHNLVEDGHNPFPSLYAPIIKGA-FRRGQ--FDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANY  172 (217)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~-~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  172 (217)
                      +++|...|++..+.+ +.+...+..+..++ ...|+  .++|.+++++..+.+. -+..++..+...+.+.|++++|...
T Consensus        89 ~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP-~~~~al~~LA~~~~~~g~~~~Ai~~  166 (198)
T PRK10370         89 YDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDA-NEVTALMLLASDAFMQADYAQAIEL  166 (198)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCC-CChhHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999875 44667777777764 67777  5999999999998743 3678899999999999999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHH
Q 035645          173 LMEMTEMGLTPISRCFDLVTDG  194 (217)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~  194 (217)
                      |+++.+.. +|+..-+. +|.+
T Consensus       167 ~~~aL~l~-~~~~~r~~-~i~~  186 (198)
T PRK10370        167 WQKVLDLN-SPRVNRTQ-LVES  186 (198)
T ss_pred             HHHHHhhC-CCCccHHH-HHHH
Confidence            99998865 45554443 3344

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

Probab=99.01  E-value=2.3e-07  Score=77.62  Aligned_cols=202  Identities=11%  Similarity=0.069  Sum_probs=155.7

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC-----ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDP-----DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTY   83 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~-----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (217)
                      +...|-..|....+.++.++|+++.++.+.. +.+     -...|.++++.-...|.-+...++|+++.+.  .-....|
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            3456888999999999999999999998764 222     2346777777777778888899999999774  3345678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CCHhHHHHHHHHHhc
Q 035645           84 KILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHP-PNRPVYTTLITMCGR  162 (217)
Q Consensus        84 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~  162 (217)
                      ..|...|.+.+..++|-++++.|.+.- .-....|...+..+.++++-++|..++.+..+.-.+ -........++.-.+
T Consensus      1534 ~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1534 LKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhh
Confidence            899999999999999999999998762 245678999999999999999999999887765111 124455566666678


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          163 GGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       163 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      .|+.+.+..+|+...... +--...|+..++.=.++|+.+.++++|++...+.
T Consensus      1613 ~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~ 1664 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELK 1664 (1710)
T ss_pred             cCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcC
Confidence            888888888888877643 2344578888888888888888888888877653

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.98  E-value=1.7e-07  Score=72.51  Aligned_cols=171  Identities=17%  Similarity=0.216  Sum_probs=124.8

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhc-----C-CCcchh-hHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKL-----G-SCADVS-TYKILIPAVSKAGMIDEAFRLLHNLVED-----GH  111 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~  111 (217)
                      -..+...+...|...|+++.|+.+++...+.     | ..|... ..+.+...|...+++++|..+|+++...     |-
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            3456677889999999999999999887653     2 123333 3445777888999999999999988743     21


Q ss_pred             --CCCcccHHHHHHHHHhcCChHHHHHHHHHHHh-----cCCC-CC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHH---c
Q 035645          112 --NPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKI-----KGHP-PN-RPVYTTLITMCGRGGRFVEAANYLMEMTE---M  179 (217)
Q Consensus       112 --~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~~~-~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~  179 (217)
                        +--..+++.|..+|.+.|++++|...++...+     .|.. |. ...++.+...+...+++++|..++.+..+   .
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              11234677888889999999998888877543     1222 22 24566777888899999999999987763   1


Q ss_pred             CCCCCh----hhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          180 GLTPIS----RCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       180 ~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      -+.++.    .+++.|...|...|++++|+++++.+.+.
T Consensus       358 ~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~  396 (508)
T KOG1840|consen  358 APGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQI  396 (508)
T ss_pred             hccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence            122333    58999999999999999999999888754

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

Probab=98.97  E-value=8.7e-07  Score=66.80  Aligned_cols=197  Identities=15%  Similarity=0.055  Sum_probs=93.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-CCChh-hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGS-DPDLE-TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      .|..+...+...|+.+.+...+....+... .++.. ........+...|++++|.+.+++..+.. +.+...+.. ...
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~   85 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLG   85 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHH
Confidence            344555555555666665555554433211 11211 11222334455666666666666665532 122223321 111


Q ss_pred             HHh----cCCHHHHHHHHHHHHhCCCCCC-cccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCC
Q 035645           90 VSK----AGMIDEAFRLLHNLVEDGHNPF-PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGG  164 (217)
Q Consensus        90 ~~~----~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  164 (217)
                      +..    .+..+.+.+.+...  ....|+ ......+...+...|++++|...++...+.. +.+...+..+...+...|
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g  162 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPLW--APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQG  162 (355)
T ss_pred             HHHhcccccCchhHHHHHhcc--CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcC
Confidence            212    23333333333321  111121 1222334445566666666666666666542 223455556666666666


Q ss_pred             CHHHHHHHHHHHHHcCC-CCCh--hhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          165 RFVEAANYLMEMTEMGL-TPIS--RCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       165 ~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      ++++|...+++...... .|+.  ..|..+...+...|++++|.++++....
T Consensus       163 ~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         163 RFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             CHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            66666666666554321 1121  2344556666666666666666666543

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.

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

Probab=98.96  E-value=6.5e-08  Score=77.95  Aligned_cols=190  Identities=14%  Similarity=0.078  Sum_probs=135.3

Q ss_pred             CCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcC-CCcchhhHHHHHHHHHhc---------
Q 035645           24 GYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLG-SCADVSTYKILIPAVSKA---------   93 (217)
Q Consensus        24 g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~---------   93 (217)
                      ++..+|...+++..... ..++..++.+...+.....+..|.+-|....+.- ..+|..+.-.|.+.|.+.         
T Consensus       544 ~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~e  622 (1018)
T KOG2002|consen  544 NNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPE  622 (1018)
T ss_pred             cCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChH
Confidence            45555666666555432 2345555555666666666666666665554321 124556555666655432         


Q ss_pred             ---CCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHH
Q 035645           94 ---GMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAA  170 (217)
Q Consensus        94 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  170 (217)
                         +..++|+.+|.+.++.. +.+..+-|-+--.++..|++.+|..+|..+.+... .+..+|-.+..+|...|++..|+
T Consensus       623 k~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AI  700 (1018)
T KOG2002|consen  623 KEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAI  700 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHH
Confidence               34678888888888775 55677778888888999999999999999988743 35568889999999999999999


Q ss_pred             HHHHHHHH-cCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          171 NYLMEMTE-MGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       171 ~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ++|+...+ ..-.-+..+...|..++.+.|.+.+|.+.+.....+.|
T Consensus       701 qmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p  747 (1018)
T KOG2002|consen  701 QMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAP  747 (1018)
T ss_pred             HHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            99988774 44445677888999999999999999998877766543

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

Probab=98.95  E-value=5.3e-07  Score=62.06  Aligned_cols=151  Identities=11%  Similarity=0.087  Sum_probs=118.2

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC
Q 035645           51 LIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQ  130 (217)
Q Consensus        51 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~  130 (217)
                      .+-.|...|+++.+....+.+..    |. .       .+...++.+++...++...+.+ +.+...|..+...|...|+
T Consensus        22 ~~~~Y~~~g~~~~v~~~~~~~~~----~~-~-------~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         22 CVGSYLLSPKWQAVRAEYQRLAD----PL-H-------QFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHHcchHHHHHHHHHHHhC----cc-c-------cccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCC
Confidence            34568889998887555433322    11 0       1223677788888888888775 6678899999999999999


Q ss_pred             hHHHHHHHHHHHhcCCCCCHhHHHHHHHHH-hcCCC--HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHH
Q 035645          131 FDDAFCFFSEIKIKGHPPNRPVYTTLITMC-GRGGR--FVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKI  207 (217)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  207 (217)
                      +++|...|+...... +.+...+..+..++ ...|+  .++|.+++++..+.+ +-+..++..+...+.+.|++++|.+.
T Consensus        89 ~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~  166 (198)
T PRK10370         89 YDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIEL  166 (198)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999998874 33678888888764 67777  599999999999876 33667889999999999999999999


Q ss_pred             HHHHhhhcC
Q 035645          208 EQLEVSLRS  216 (217)
Q Consensus       208 ~~~~~~~~~  216 (217)
                      ++.+.++.|
T Consensus       167 ~~~aL~l~~  175 (198)
T PRK10370        167 WQKVLDLNS  175 (198)
T ss_pred             HHHHHhhCC
Confidence            999988765

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

Probab=98.95  E-value=1.2e-06  Score=70.39  Aligned_cols=204  Identities=15%  Similarity=0.094  Sum_probs=157.3

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHH
Q 035645            7 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKIL   86 (217)
Q Consensus         7 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (217)
                      .|.+...-.......-.|++++|.+++.+.++.. +.+...|..|...|-+.|+.+++...+-..-..+ +-|...|..+
T Consensus       136 ~~~l~~ll~eAN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~l  213 (895)
T KOG2076|consen  136 APELRQLLGEANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRL  213 (895)
T ss_pred             CHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHH
Confidence            3334444444555555699999999999999875 4488899999999999999999999886665442 3467889999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH----hHHHHHHHHHhc
Q 035645           87 IPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNR----PVYTTLITMCGR  162 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~  162 (217)
                      .....+.|.++.|.-+|.+..+.+ +++...+-.-...|-+.|+...|.+.|.++.....+.|.    ...-.+++.+..
T Consensus       214 adls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~  292 (895)
T KOG2076|consen  214 ADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFIT  292 (895)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999886 555556666778899999999999999999887332222    233345667777


Q ss_pred             CCCHHHHHHHHHHHHH-cCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          163 GGRFVEAANYLMEMTE-MGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       163 ~g~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      .++-+.|.+.+..... .+-..+...++.++..|.+..+++.|.........
T Consensus       293 ~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~  344 (895)
T KOG2076|consen  293 HNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRN  344 (895)
T ss_pred             hhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhc
Confidence            7877999998887765 23355667788899999999999998887655543

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

Probab=98.94  E-value=1.5e-06  Score=60.53  Aligned_cols=158  Identities=14%  Similarity=0.042  Sum_probs=111.0

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 035645           49 NSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR  128 (217)
Q Consensus        49 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (217)
                      ..+-..+...|+-+....+....... .+.|....+..+....+.|++.+|...+++..... ++|..+|+.+--+|-+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            55566666677777766666654332 23355566667777788888888888888877665 66777888888888888


Q ss_pred             CChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHH
Q 035645          129 GQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIE  208 (217)
Q Consensus       129 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (217)
                      |+.+.|..-|.+..+.- .-+....|.+.-.+.-.|+++.|..++......+ .-|..+-..+..+....|++++|+++.
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 GRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            88888888888777652 2245667777777777888888888887766544 235556667777777888888887775


Q ss_pred             HH
Q 035645          209 QL  210 (217)
Q Consensus       209 ~~  210 (217)
                      ..
T Consensus       226 ~~  227 (257)
T COG5010         226 VQ  227 (257)
T ss_pred             cc
Confidence            43

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

Probab=98.93  E-value=6.8e-08  Score=75.71  Aligned_cols=193  Identities=16%  Similarity=0.058  Sum_probs=119.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      ..|.-++.+|...|+-.+|..+..+..++  +||+..|..+.+......-+++|+++.+.....       +-..+....
T Consensus       425 emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~  495 (777)
T KOG1128|consen  425 EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLI  495 (777)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhcccc
Confidence            34556666677777777776666666552  566666766666666666666666666544221       011111112


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHH
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAA  170 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  170 (217)
                      .+.++++++.+.|+.-.+.+ +....+|-.+-.+..+.++++.|...|....... +.+...||.+-.+|.+.++-.+|.
T Consensus       496 ~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~  573 (777)
T KOG1128|consen  496 LSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAF  573 (777)
T ss_pred             ccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHH
Confidence            23455666666666555443 3344566666666667777777777777766541 224677888888888888888888


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          171 NYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      ..+.+..+.+ .-+...|..-+....+-|.+++|.+.++.+.+.+
T Consensus       574 ~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~  617 (777)
T KOG1128|consen  574 RKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLR  617 (777)
T ss_pred             HHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhh
Confidence            8887777766 4444455556666667788888887777776543

>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=98.92  E-value=2.9e-06  Score=66.41  Aligned_cols=198  Identities=19%  Similarity=0.188  Sum_probs=127.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChh-hHHHHHHHHHhc-----CchhHHHHHHHHHHhcCCC---c---
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLE-TFNSLIETICKS-----GEVEFCVEMYYSVCKLGSC---A---   78 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~---~---   78 (217)
                      .........+.+.|+.++|..+|..+++++  |+.. -|..+..+..-.     .+.+...++|+++...-..   |   
T Consensus        39 ~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl  116 (517)
T PF12569_consen   39 AVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKYPRSDAPRRL  116 (517)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhCccccchhHh
Confidence            335566677788888888888888888774  4444 444444444222     2455566666665432110   0   


Q ss_pred             -------------------------chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----C----------CCCCcc--c
Q 035645           79 -------------------------DVSTYKILIPAVSKAGMIDEAFRLLHNLVED----G----------HNPFPS--L  117 (217)
Q Consensus        79 -------------------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~----------~~~~~~--~  117 (217)
                                               -+.+|+.+-..|......+-..+++......    +          -+|+..  +
T Consensus       117 ~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~  196 (517)
T PF12569_consen  117 PLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWT  196 (517)
T ss_pred             hcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHH
Confidence                                     0123444444444333333344444444321    1          123332  4


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 035645          118 YAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLK  196 (217)
Q Consensus       118 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  196 (217)
                      +.-+...|-..|++++|++.+++.+++  .|+ +..|..-...+-+.|++++|.+.++..+..+ .-|...-+..+..+.
T Consensus       197 ~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~L  273 (517)
T PF12569_consen  197 LYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLL  273 (517)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHH
Confidence            455667788899999999999988876  455 6778888888899999999999999888766 467777888888889


Q ss_pred             hcCCchHHHHHHHHHhh
Q 035645          197 NCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       197 ~~~~~~~a~~~~~~~~~  213 (217)
                      ++|++++|++++....+
T Consensus       274 Ra~~~e~A~~~~~~Ftr  290 (517)
T PF12569_consen  274 RAGRIEEAEKTASLFTR  290 (517)
T ss_pred             HCCCHHHHHHHHHhhcC
Confidence            99999999998877654

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 [], [].

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.92  E-value=2.8e-06  Score=59.00  Aligned_cols=190  Identities=16%  Similarity=0.135  Sum_probs=133.3

Q ss_pred             cCCHHHHHHHHHHHhh---CC-CCCChhh-HHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHH
Q 035645           23 AGYLESAKQMVNKMIK---QG-SDPDLET-FNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMID   97 (217)
Q Consensus        23 ~g~~~~a~~~~~~m~~---~~-~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~   97 (217)
                      ..+.++..+++.++..   .| ..++..+ |..++-+....|+.+.|...++.+... ++-+..+-..-.-.+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchh
Confidence            4568888888888764   34 4555543 446666777888899999999888765 3334444333344456678899


Q ss_pred             HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645           98 EAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      +|.++++.+.+.+ +.|..++--=+...-..|+.-+|++-+.+..+. +..|...|.-+...|...|++++|.-.++++.
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            9999999988876 556667766666777778777888887777766 56688999999999999999999999998888


Q ss_pred             HcCCCCChhhHHHHHHHHHhcC---CchHHHHHHHHHhhhcC
Q 035645          178 EMGLTPISRCFDLVTDGLKNCG---KHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       178 ~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~  216 (217)
                      -.. +.++..+..+.+.+...|   +.+.|.+.+....++.|
T Consensus       182 l~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  182 LIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             HcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence            643 234444555655554444   45566777776665543

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

Probab=98.90  E-value=6.8e-07  Score=62.16  Aligned_cols=160  Identities=20%  Similarity=0.221  Sum_probs=127.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhc
Q 035645           14 DLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKA   93 (217)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~   93 (217)
                      ..+-..+...|+-+....+....... .+.|....+.......+.|++.+|+..+.+.... -++|..+|+.+.-+|-+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHc
Confidence            33444555566666666666554332 2335566677889999999999999999999765 467899999999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHH
Q 035645           94 GMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYL  173 (217)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  173 (217)
                      |+.++|..-|.+..+.. .-+...++.+.-.+.-.|+.+.|..++......+. -|..+-..+..+....|++++|.++.
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 GRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHhhc
Confidence            99999999999998874 34567889999999999999999999999887743 36777888888889999999999887


Q ss_pred             HHHH
Q 035645          174 MEMT  177 (217)
Q Consensus       174 ~~~~  177 (217)
                      ..-.
T Consensus       226 ~~e~  229 (257)
T COG5010         226 VQEL  229 (257)
T ss_pred             cccc
Confidence            5433

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

Probab=98.88  E-value=1.2e-06  Score=65.74  Aligned_cols=161  Identities=15%  Similarity=0.192  Sum_probs=111.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      .....+...|-...+...|++++-+..+. ++.|+...+-|...|-+.|+-.+|.+.+-.--+. ++-+..+..=|...|
T Consensus       559 evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayy  636 (840)
T KOG2003|consen  559 EVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYY  636 (840)
T ss_pred             HHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHH
Confidence            33444455555556666666666554432 4446667777777777777777777765444332 445667777777777


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH-hcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHH
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF-RRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEA  169 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  169 (217)
                      ....-+++++..|++..-  +.|+..-|..++..|. +.|++++|.++|+..... ++.|.....-|+..+...|- .++
T Consensus       637 idtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl-~d~  712 (840)
T KOG2003|consen  637 IDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL-KDA  712 (840)
T ss_pred             HhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc-hhH
Confidence            777778888888887654  4789999998886654 689999999999999876 67788888888888877774 445


Q ss_pred             HHHHHHHH
Q 035645          170 ANYLMEMT  177 (217)
Q Consensus       170 ~~~~~~~~  177 (217)
                      .++-+++.
T Consensus       713 key~~kle  720 (840)
T KOG2003|consen  713 KEYADKLE  720 (840)
T ss_pred             HHHHHHHH
Confidence            55555444

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.87  E-value=8.5e-07  Score=57.86  Aligned_cols=95  Identities=8%  Similarity=-0.171  Sum_probs=55.4

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh
Q 035645           48 FNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR  127 (217)
Q Consensus        48 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  127 (217)
                      +..+...+.+.|++++|...|+...... +.+..++..+..++.+.|++++|...|++....+ +.+...+..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            3344555566666666666666665532 2245556666666666666666666666666543 3345555666666666


Q ss_pred             cCChHHHHHHHHHHHhc
Q 035645          128 RGQFDDAFCFFSEIKIK  144 (217)
Q Consensus       128 ~g~~~~a~~~~~~~~~~  144 (217)
                      .|++++|...|......
T Consensus       105 ~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        105 MGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            66666666666665554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.86  E-value=1.1e-06  Score=71.20  Aligned_cols=133  Identities=12%  Similarity=0.082  Sum_probs=88.5

Q ss_pred             CCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHH
Q 035645           42 DPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD-VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP  120 (217)
Q Consensus        42 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  120 (217)
                      ..+...+-.|.....+.|.+++|..+++...+.  .|+ ......+..++.+.+++++|....++..... +-+......
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            335666666777777777777777777777663  343 4556666777777777777777777777654 233445566


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       121 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      +..++.+.|++++|.++|+++... .+-+..++..+..++-..|+.++|...|+...+
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~-~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQ-HPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            666777777777777777777663 223466677777777777777777777777664

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.86  E-value=8.1e-07  Score=71.85  Aligned_cols=138  Identities=9%  Similarity=0.001  Sum_probs=118.5

Q ss_pred             CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHH
Q 035645           76 SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTT  155 (217)
Q Consensus        76 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (217)
                      ...+...+..|..+..+.|+.++|..+++...+.. +-+......+..++.+.+++++|...++...... +-+......
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            45578899999999999999999999999999874 3345678889999999999999999999998873 235677788


Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          156 LITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       156 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +..++.+.|++++|..+|+++...+ +-+..++..+..++...|+.++|...|+...+..+
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~  219 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIG  219 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhC
Confidence            8889999999999999999999843 23477899999999999999999999998877653

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

Probab=98.86  E-value=2.5e-06  Score=64.36  Aligned_cols=157  Identities=13%  Similarity=0.053  Sum_probs=110.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh----cCchhHHHHHHHHHHhcCCCcc-hhhHHHHHHHHH
Q 035645           17 VQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICK----SGEVEFCVEMYYSVCKLGSCAD-VSTYKILIPAVS   91 (217)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~   91 (217)
                      ...+...|++++|.+.+++..+.. +.+...+.. ...+..    .+..+.+.+.++..  ....|+ ......+...+.
T Consensus        50 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~a~~~~  125 (355)
T cd05804          50 ALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPLW--APENPDYWYLLGMLAFGLE  125 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhcccccCchhHHHHHhcc--CcCCCCcHHHHHHHHHHHH
Confidence            345667899999999999988763 234444442 222222    34455555555441  112233 344556667888


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCC-CCCH--hHHHHHHHHHhcCCCHHH
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGH-PPNR--PVYTTLITMCGRGGRFVE  168 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~--~~~~~li~~~~~~g~~~~  168 (217)
                      ..|++++|...+++..+.. +.+...+..+..++...|++++|...+.+...... .|+.  ..|..+...+...|++++
T Consensus       126 ~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~  204 (355)
T cd05804         126 EAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEA  204 (355)
T ss_pred             HcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHH
Confidence            9999999999999999875 44566788888999999999999999998876532 2232  345578888999999999


Q ss_pred             HHHHHHHHHH
Q 035645          169 AANYLMEMTE  178 (217)
Q Consensus       169 a~~~~~~~~~  178 (217)
                      |.+++++...
T Consensus       205 A~~~~~~~~~  214 (355)
T cd05804         205 ALAIYDTHIA  214 (355)
T ss_pred             HHHHHHHHhc
Confidence            9999999764

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.

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.85  E-value=6.6e-07  Score=58.38  Aligned_cols=114  Identities=9%  Similarity=-0.097  Sum_probs=93.6

Q ss_pred             HHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           65 VEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        65 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      ..++++..+.  .|+.  +..+...+...|++++|...|+.....+ +.+..+|..+..++.+.|++++|...|......
T Consensus        13 ~~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         13 EDILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            4556666653  3443  5567788899999999999999998875 557788999999999999999999999999976


Q ss_pred             CCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChh
Q 035645          145 GHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISR  186 (217)
Q Consensus       145 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  186 (217)
                      . +.+...+..+..++...|++++|...|+...+..  |+..
T Consensus        88 ~-p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~--p~~~  126 (144)
T PRK15359         88 D-ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMS--YADA  126 (144)
T ss_pred             C-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCh
Confidence            3 3478899999999999999999999999988754  5443

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.84  E-value=2.1e-07  Score=70.46  Aligned_cols=125  Identities=14%  Similarity=0.108  Sum_probs=102.7

Q ss_pred             cCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHh
Q 035645           74 LGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED--GHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRP  151 (217)
Q Consensus        74 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  151 (217)
                      .+.+.+......+++.+....+++++..++.+++..  ....-..|..++++.|.+.|..+.+..++..=...|+-||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            344556777888888888888899999998888865  222334566789999999999999999999888899999999


Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 035645          152 VYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNC  198 (217)
Q Consensus       152 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (217)
                      ++|.|++.+.+.|++..|.++...|..++...+..|+..-+.+|.+.
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999999999999999999999988877777778887777777665

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 [].

>PLN02789 farnesyltranstransferase

Probab=98.83  E-value=8.8e-06  Score=60.13  Aligned_cols=200  Identities=12%  Similarity=0.060  Sum_probs=113.9

Q ss_pred             HHHHHHHHHhcC-CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCch--hHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           13 RDLLVQGLLNAG-YLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEV--EFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        13 ~~~ll~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      |+.--.++...| ++++++..++++.+...+ +..+|+..-..+.+.|+.  ++++.+++++.+... -+..+|+...-+
T Consensus        74 W~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~  151 (320)
T PLN02789         74 WHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWV  151 (320)
T ss_pred             HHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHH
Confidence            444444444444 456666666666654322 444555444344444432  455666666655432 255666666666


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc---CCh----HHHHHHHHHHHhcCCCCCHhHHHHHHHHHhc
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR---GQF----DDAFCFFSEIKIKGHPPNRPVYTTLITMCGR  162 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~---g~~----~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  162 (217)
                      +...|+++++++.++++.+.+ +-+..+|+.....+.+.   |..    ++......+..... +-|...|+-+...+..
T Consensus       152 l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~  229 (320)
T PLN02789        152 LRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKD  229 (320)
T ss_pred             HHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhc
Confidence            677777777777777777765 33455566555544443   222    34555555555442 2356677777666665


Q ss_pred             C----CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC------------------CchHHHHHHHHHhhhcCC
Q 035645          163 G----GRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCG------------------KHDLAEKIEQLEVSLRSV  217 (217)
Q Consensus       163 ~----g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~------------------~~~~a~~~~~~~~~~~~v  217 (217)
                      .    ++..+|.+.+.+..+.+ ..+......|++.|+...                  ..++|.++++.+.+.+||
T Consensus       230 ~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~~~d~i  305 (320)
T PLN02789        230 DKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELEVADPM  305 (320)
T ss_pred             CCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHHhhCcH
Confidence            2    33455777776665543 335566777888887532                  236677777777666654

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.83  E-value=9e-08  Score=72.36  Aligned_cols=124  Identities=15%  Similarity=0.150  Sum_probs=104.8

Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhC--CCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhh
Q 035645            5 GFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ--GSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVST   82 (217)
Q Consensus         5 g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   82 (217)
                      +.+.+......+++.+....+++.+..++.+.+..  ....-..|..++++.|.+.|..++++.++..=...|+.||..+
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            44556777888888888888999999999988865  3333455667999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 035645           83 YKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR  128 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (217)
                      +|.|++.+.+.|++..|.++...|...+...+..|+...+.+|.+.
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            9999999999999999999999998887777778877777777665

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 [].

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

Probab=98.82  E-value=4.1e-06  Score=68.05  Aligned_cols=201  Identities=12%  Similarity=0.013  Sum_probs=149.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC--CChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcch--hhHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSD--PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADV--STYK   84 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~   84 (217)
                      +++..+.|...|.-.|++..++.+...+......  .-...|-.+.++|...|++++|...|....+.  .++.  ..+-
T Consensus       269 nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~~~  346 (1018)
T KOG2002|consen  269 NPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLPLV  346 (1018)
T ss_pred             CcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCcccccc
Confidence            5667888888899999999999999988765321  12445778899999999999999999777654  3443  3445


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC----ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 035645           85 ILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRG----QFDDAFCFFSEIKIKGHPPNRPVYTTLITMC  160 (217)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  160 (217)
                      -+...+.+.|+++.+...|+...+.. +.+..+...+-..|...+    ..+.|..++.+....- +.|...|-.+...+
T Consensus       347 GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~  424 (1018)
T KOG2002|consen  347 GLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLL  424 (1018)
T ss_pred             chhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHH
Confidence            68888999999999999999998874 334556666666666654    5677888888777653 44677887777766


Q ss_pred             hcCCCHHHHHHHHHHHH----HcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          161 GRGGRFVEAANYLMEMT----EMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       161 ~~~g~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      -. ++...+..++....    ..+-.+.+...+.+.......|+++.|...|+...+.
T Consensus       425 e~-~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~  481 (1018)
T KOG2002|consen  425 EQ-TDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGK  481 (1018)
T ss_pred             Hh-cChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhh
Confidence            54 44444477776554    4555577788899999999999999999999887654

>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=98.81  E-value=2.5e-07  Score=67.34  Aligned_cols=153  Identities=18%  Similarity=0.251  Sum_probs=114.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH----HH
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA----VS   91 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~----~~   91 (217)
                      ....+...|+++.|+++++.-      .+.......+.+|.+.++++.|.+.++.|.+.  ..| .+...+..+    +.
T Consensus       108 ~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD-~~l~qLa~awv~l~~  178 (290)
T PF04733_consen  108 AATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED-SILTQLAEAWVNLAT  178 (290)
T ss_dssp             HHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc-HHHHHHHHHHHHHHh
Confidence            334566789999999987542      36777788899999999999999999999874  333 333334443    33


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCH-HHHH
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRF-VEAA  170 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~a~  170 (217)
                      -.+.+++|..+|+++.+. ..+++.+.+.+..+....|++++|.+++.+....+ +-++.+...++.+....|+. +.+.
T Consensus       179 g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~  256 (290)
T PF04733_consen  179 GGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAE  256 (290)
T ss_dssp             TTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHH
T ss_pred             CchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHH
Confidence            345799999999998765 46788889999999999999999999999987654 33577888888888888888 6688


Q ss_pred             HHHHHHHHc
Q 035645          171 NYLMEMTEM  179 (217)
Q Consensus       171 ~~~~~~~~~  179 (217)
                      +.+.++...
T Consensus       257 ~~l~qL~~~  265 (290)
T PF04733_consen  257 RYLSQLKQS  265 (290)
T ss_dssp             HHHHHCHHH
T ss_pred             HHHHHHHHh
Confidence            888888764

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=98.81  E-value=3.9e-06  Score=70.63  Aligned_cols=199  Identities=13%  Similarity=0.067  Sum_probs=160.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      -.|.++++.-...|.-+...++|+++.+.-  -....|..|...|.+.+.+++|.++++.|.+. +.-....|...+..+
T Consensus      1498 NiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fL 1574 (1710)
T KOG1070|consen 1498 NIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFL 1574 (1710)
T ss_pred             HHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHH
Confidence            357777777777788899999999998752  23456789999999999999999999999876 345778899999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCC-CCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHH
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHN-PFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEA  169 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  169 (217)
                      .+.++-+.|..++++.++.-.+ -........+..-.+.|+.+.+..+|+...... +--...|+.+|++-.++|+.+.+
T Consensus      1575 l~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~v 1653 (1710)
T KOG1070|consen 1575 LRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYV 1653 (1710)
T ss_pred             hcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHH
Confidence            9999999999999998876211 123345555666678999999999999998763 33578999999999999999999


Q ss_pred             HHHHHHHHHcCCCCCh--hhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          170 ANYLMEMTEMGLTPIS--RCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       170 ~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      ..+|++....++.|-.  ..|..-++.=...|+-+.++.+-.++.+
T Consensus      1654 R~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~VKarA~E 1699 (1710)
T KOG1070|consen 1654 RDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYVKARAKE 1699 (1710)
T ss_pred             HHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence            9999999998887754  4677777777778888888777655543

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.81  E-value=1.2e-08  Score=49.37  Aligned_cols=33  Identities=33%  Similarity=0.659  Sum_probs=25.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPD   44 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~   44 (217)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            677778888888888888888888777777776

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.

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

Probab=98.81  E-value=5.5e-06  Score=66.75  Aligned_cols=67  Identities=15%  Similarity=0.083  Sum_probs=45.3

Q ss_pred             HhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          150 RPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       150 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ...|.-+..++...|++.+|..+|..+......-+...|-.+..+|...|..++|.+.+++...+.|
T Consensus       414 ~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p  480 (895)
T KOG2076|consen  414 VDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAP  480 (895)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            4455556667777777777777777776654444555677777777777777777777777666554

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.81  E-value=2.2e-06  Score=70.52  Aligned_cols=204  Identities=9%  Similarity=0.025  Sum_probs=131.6

Q ss_pred             CCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCh-hhHHHHHHHHHhcCchhHHHHHHHHHHhcC-------
Q 035645            5 GFNP-PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDL-ETFNSLIETICKSGEVEFCVEMYYSVCKLG-------   75 (217)
Q Consensus         5 g~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-------   75 (217)
                      ++.| +...+..|+..+...+++++|.++.+...+.  .|+. ..|-.+...+.+.++...+..+  .+...-       
T Consensus        25 ~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~  100 (906)
T PRK14720         25 NYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWA  100 (906)
T ss_pred             cCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchh
Confidence            3444 4577999999999999999999999977765  3443 3344444466666666655554  332210       


Q ss_pred             -----------CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           76 -----------SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        76 -----------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                                 ..-+..++..+..+|-+.|+.++|..+|+++.+.+ +-+..+.|.+...|+.. ++++|.+++.+....
T Consensus       101 ~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~  178 (906)
T PRK14720        101 IVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR  178 (906)
T ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH
Confidence                       11233577788888889999999999999999987 66788999999999999 999999999887654


Q ss_pred             CC---CCC--HhHHHHHHHHHhcCCCHHHHHHHHHHHHHc-CCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          145 GH---PPN--RPVYTTLITMCGRGGRFVEAANYLMEMTEM-GLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       145 ~~---~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      -+   .++  ...|.-++.  ....+.+.-.++.+.+... |..--..++--+-..|....+|+++.++++.+.+.++
T Consensus       179 ~i~~kq~~~~~e~W~k~~~--~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~  254 (906)
T PRK14720        179 FIKKKQYVGIEEIWSKLVH--YNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDN  254 (906)
T ss_pred             HHhhhcchHHHHHHHHHHh--cCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCC
Confidence            11   000  111222211  1223333334444444322 3333344555566677777777777777777776553

>PLN02789 farnesyltranstransferase

Probab=98.80  E-value=1.2e-05  Score=59.36  Aligned_cols=197  Identities=8%  Similarity=0.019  Sum_probs=141.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC-chhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSG-EVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      ++..+-..+...++.++|+.+..++++... -+..+|+..-.++...| ++++++..++++.+...+ +..+|+.....+
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~lnP-~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l  116 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLNP-GNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHCc-hhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHH
Confidence            455566667778899999999999987632 25567776666666777 679999999999876433 556677665556


Q ss_pred             HhcCCH--HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcC---CC
Q 035645           91 SKAGMI--DEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRG---GR  165 (217)
Q Consensus        91 ~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~  165 (217)
                      .+.++.  +++..+++++.+.+ +-+..+|+....++.+.|+++++++.+.++++.+.. |...|+.....+.+.   |.
T Consensus       117 ~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        117 EKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhcccccc
Confidence            666653  67888998998776 456788999999999999999999999999987644 567777776665544   22


Q ss_pred             H----HHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc----CCchHHHHHHHHHhh
Q 035645          166 F----VEAANYLMEMTEMGLTPISRCFDLVTDGLKNC----GKHDLAEKIEQLEVS  213 (217)
Q Consensus       166 ~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~  213 (217)
                      .    ++..++..+.+... +-|...|+.+...+...    ++..+|.+++....+
T Consensus       195 ~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~  249 (320)
T PLN02789        195 LEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS  249 (320)
T ss_pred             ccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc
Confidence            2    45666776666654 34566788777777763    344557666655443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.77  E-value=1.8e-08  Score=48.38  Aligned_cols=33  Identities=27%  Similarity=0.419  Sum_probs=25.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDP   43 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~   43 (217)
                      .+|+.+|.+|++.|+++.|.++|++|.+.|++|
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            567777777777777777777777777777766

>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=98.77  E-value=7e-06  Score=64.31  Aligned_cols=129  Identities=19%  Similarity=0.166  Sum_probs=106.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-cccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 035645           82 TYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPF-PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMC  160 (217)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  160 (217)
                      ++..+...|...|++++|.+++++..+..  |+ +..|..-.+.+.+.|++++|.+.++........ |...-+-.+..+
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~ht--Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~  272 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIEHT--PTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYL  272 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHH
Confidence            45667777889999999999999998874  44 668888899999999999999999999887543 677777888999


Q ss_pred             hcCCCHHHHHHHHHHHHHcCCCCChhhH--------HHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          161 GRGGRFVEAANYLMEMTEMGLTPISRCF--------DLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       161 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~--------~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      .+.|++++|.+++....+.+..|....+        .....+|.+.|++..|.+-+....+
T Consensus       273 LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  273 LRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            9999999999999999877654533222        4557889999999999998876654

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 [], [].

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

Probab=98.76  E-value=5.3e-06  Score=63.72  Aligned_cols=208  Identities=13%  Similarity=0.076  Sum_probs=138.6

Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHH
Q 035645            5 GFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYK   84 (217)
Q Consensus         5 g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (217)
                      |...+......-.+-+...+++.+..++.+...+.. ++....+..-|.++...|+..+-..+=.++.+. .+....+|-
T Consensus       239 ~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~  316 (611)
T KOG1173|consen  239 GLAENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWF  316 (611)
T ss_pred             hhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchh
Confidence            344556666666777777888888888888877653 445555555555777777766666666666554 333456677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHH----------------------------------HHhcCC
Q 035645           85 ILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKG----------------------------------AFRRGQ  130 (217)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~----------------------------------~~~~g~  130 (217)
                      ++.--|...|+..+|.+.|.+....+-. -...|-.+...                                  |.+.++
T Consensus       317 aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n  395 (611)
T KOG1173|consen  317 AVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNN  395 (611)
T ss_pred             hHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhcc
Confidence            7776677777777777777665433211 11233333333                                  455556


Q ss_pred             hHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH----c--CCCCChhhHHHHHHHHHhcCCchHH
Q 035645          131 FDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE----M--GLTPISRCFDLVTDGLKNCGKHDLA  204 (217)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~--~~~~~~~~~~~l~~~~~~~~~~~~a  204 (217)
                      .+.|..+|.....- .+-|+...+-+.-.....+.+.+|..+|+....    .  .......+++.|..+|.+.+.+++|
T Consensus       396 ~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eA  474 (611)
T KOG1173|consen  396 LKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEA  474 (611)
T ss_pred             HHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHH
Confidence            66666666655433 233567777777777788999999999988762    1  1113567899999999999999999


Q ss_pred             HHHHHHHhhhcC
Q 035645          205 EKIEQLEVSLRS  216 (217)
Q Consensus       205 ~~~~~~~~~~~~  216 (217)
                      ...++....+.|
T Consensus       475 I~~~q~aL~l~~  486 (611)
T KOG1173|consen  475 IDYYQKALLLSP  486 (611)
T ss_pred             HHHHHHHHHcCC
Confidence            999999887765

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

Probab=98.75  E-value=3.7e-06  Score=64.65  Aligned_cols=192  Identities=17%  Similarity=0.161  Sum_probs=126.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHH
Q 035645           18 QGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMID   97 (217)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~   97 (217)
                      ..+.+.|++.+|.-.|+..++.... +...|..|....+..++-..|+..+.+..+... -+....-.|.-.|...|.-.
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP-~NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELDP-TNLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCC-ccHHHHHHHHHHHhhhhhHH
Confidence            3456788899999999998887533 778899998888888888899999988887532 25566777777777777666


Q ss_pred             HHHHHHHHHHhC------------------------------------------CCCCCcccHHHHHHHHHhcCChHHHH
Q 035645           98 EAFRLLHNLVED------------------------------------------GHNPFPSLYAPIIKGAFRRGQFDDAF  135 (217)
Q Consensus        98 ~a~~~~~~~~~~------------------------------------------~~~~~~~~~~~ll~~~~~~g~~~~a~  135 (217)
                      .|.+.++.-...                                          +..+|+.+...|--.|--.|++++|.
T Consensus       371 ~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            676666544322                                          11134444445555555666677777


Q ss_pred             HHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          136 CFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPIS-RCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      +.|+..+... +-|..+||-|...++...+.++|+..|++.++.  .|.- .+...|.-+|...|.+++|.+.|-.+..+
T Consensus       451 Dcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  451 DCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            7777666542 224567777777777777777777777766653  3432 23444556666777777776666554443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.74  E-value=1.9e-05  Score=55.35  Aligned_cols=124  Identities=15%  Similarity=0.165  Sum_probs=69.9

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF  126 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (217)
                      ....-...|...+++++|++.....      -+....-.=+..+.+..+++-|...+++|.+..   +..|.+.|..++.
T Consensus       110 ~~l~aa~i~~~~~~~deAl~~~~~~------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv  180 (299)
T KOG3081|consen  110 DLLLAAIIYMHDGDFDEALKALHLG------ENLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWV  180 (299)
T ss_pred             HHHHhhHHhhcCCChHHHHHHHhcc------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHH
Confidence            3334444566667777776665541      122222233334556666666666666666543   3445554544443


Q ss_pred             h----cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcC
Q 035645          127 R----RGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG  180 (217)
Q Consensus       127 ~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  180 (217)
                      +    .+.+..|.-+|++|.++ .+|+..+.+-...++...|++++|..++++.....
T Consensus       181 ~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd  237 (299)
T KOG3081|consen  181 KLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD  237 (299)
T ss_pred             HHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            3    23466666666666553 45666666666666666677777777766666543

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.72  E-value=2e-06  Score=55.44  Aligned_cols=93  Identities=15%  Similarity=0.068  Sum_probs=40.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcC
Q 035645           84 KILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRG  163 (217)
Q Consensus        84 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  163 (217)
                      ..+...+...|++++|...|+.....+ +.+...+..+...+.+.|++++|...++.....+ +.+..++..+...+...
T Consensus        21 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~   98 (135)
T TIGR02552        21 YALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHc
Confidence            334444444444444444444444332 2233344444444444444444444444443332 22334444444444444


Q ss_pred             CCHHHHHHHHHHHHH
Q 035645          164 GRFVEAANYLMEMTE  178 (217)
Q Consensus       164 g~~~~a~~~~~~~~~  178 (217)
                      |++++|...|+...+
T Consensus        99 g~~~~A~~~~~~al~  113 (135)
T TIGR02552        99 GEPESALKALDLAIE  113 (135)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555554444444

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.72  E-value=6.7e-07  Score=57.69  Aligned_cols=112  Identities=16%  Similarity=0.207  Sum_probs=90.8

Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCC
Q 035645          102 LLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGL  181 (217)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  181 (217)
                      .+++....+ +.+......+...+...|++++|.+.+......+ +.+...+..+...+...|++++|...++...+.+ 
T Consensus         5 ~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-   81 (135)
T TIGR02552         5 TLKDLLGLD-SEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-   81 (135)
T ss_pred             hHHHHHcCC-hhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-
Confidence            455555543 2234556677788899999999999999998764 4477888899999999999999999999988765 


Q ss_pred             CCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          182 TPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +.+...+..+..++...|++++|.+.++...++.|
T Consensus        82 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  116 (135)
T TIGR02552        82 PDDPRPYFHAAECLLALGEPESALKALDLAIEICG  116 (135)
T ss_pred             CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence            44667788889999999999999999999887765

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

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

Probab=98.71  E-value=1.8e-05  Score=62.13  Aligned_cols=194  Identities=13%  Similarity=0.109  Sum_probs=102.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      |-....-+...|++..|..++....+.... +...|-..+..-..+.+++.|..+|.+...  ..|+...|..-+..--.
T Consensus       587 wlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~  663 (913)
T KOG0495|consen  587 WLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERY  663 (913)
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHH
Confidence            333333444455555555555555444222 444555555555555555555555555543  23445555554444445


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCC-cccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHH
Q 035645           93 AGMIDEAFRLLHNLVEDGHNPF-PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAAN  171 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  171 (217)
                      .+..++|.+++++.++.  .|+ ...|-.+-+.+-+.++.+.|.+.|..=.+. ++-.+..|-.+...--+.|.+-.|..
T Consensus       664 ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~  740 (913)
T KOG0495|consen  664 LDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARS  740 (913)
T ss_pred             hhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHH
Confidence            55555555555555443  222 234444445555555555555554433222 22234555555555556666666777


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          172 YLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      +++...-.+ +-+...|-..|+.=.+.|+.+.|+.+..++.+
T Consensus       741 ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQ  781 (913)
T KOG0495|consen  741 ILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQ  781 (913)
T ss_pred             HHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            766665544 33555677777777777777777776655543

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.70  E-value=4.4e-08  Score=47.28  Aligned_cols=31  Identities=29%  Similarity=0.658  Sum_probs=11.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 035645          118 YAPIIKGAFRRGQFDDAFCFFSEIKIKGHPP  148 (217)
Q Consensus       118 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  148 (217)
                      |+.++.+|++.|++++|.++|.+|.+.|+.|
T Consensus         3 ~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p   33 (35)
T TIGR00756         3 YNTLIDGLCKAGRVEEALELFKEMLERGIEP   33 (35)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            3333333333333333333333333333333

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.

>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=98.67  E-value=2.3e-06  Score=64.54  Aligned_cols=124  Identities=13%  Similarity=0.104  Sum_probs=92.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      ...++..+...++++.|..+++++.+..  |+  ....++..+...++-.+|++++++..+.. +.+......-...|.+
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence            3456666667788888888888888764  44  34457777777788888888888887542 3356667777777888


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 035645           93 AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIK  142 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  142 (217)
                      .++.+.|..+.+++.+.. +-+-.+|..|..+|.+.|+++.|+..++.+.
T Consensus       247 k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            888888888888888763 3334588888888888888888888887654

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

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

Probab=98.67  E-value=1.7e-05  Score=62.36  Aligned_cols=94  Identities=12%  Similarity=-0.070  Sum_probs=63.7

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +...|-..+..-....++++|..+|.+....  .|+...|.--+..-.-.+..++|++++++..+. ++.-...|-.+..
T Consensus       617 seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQ  693 (913)
T KOG0495|consen  617 SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQ  693 (913)
T ss_pred             cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhH
Confidence            5667888888888888899999988888764  466777766666666677888888888777664 2222345555555


Q ss_pred             HHHhcCCHHHHHHHHHH
Q 035645           89 AVSKAGMIDEAFRLLHN  105 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~  105 (217)
                      .+-+.++++.|...|..
T Consensus       694 i~e~~~~ie~aR~aY~~  710 (913)
T KOG0495|consen  694 IEEQMENIEMAREAYLQ  710 (913)
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence            55555555555555443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.65  E-value=5.8e-08  Score=46.55  Aligned_cols=32  Identities=31%  Similarity=0.596  Sum_probs=17.6

Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCC
Q 035645          152 VYTTLITMCGRGGRFVEAANYLMEMTEMGLTP  183 (217)
Q Consensus       152 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  183 (217)
                      +|+.++.+|++.|+++.|.++|++|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            45555555555555555555555555555544

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.64  E-value=5.8e-06  Score=62.44  Aligned_cols=122  Identities=13%  Similarity=0.099  Sum_probs=87.9

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 035645           49 NSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR  128 (217)
Q Consensus        49 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (217)
                      ..++..+...++++.|+.+++++.+..  |+  ....++..+...++-.+|.+++++..+.. +-+...+..-...+.+.
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            355666667788888888888887653  44  34456777777777888888888877653 33455555566677888


Q ss_pred             CChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645          129 GQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus       129 g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      ++++.|..+.+++.+.  .|+ -.+|..|..+|...|+++.|.-.++.+.
T Consensus       248 ~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            8888888888888765  444 4588888888888888888887777654

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.64  E-value=1.5e-05  Score=60.29  Aligned_cols=117  Identities=14%  Similarity=0.133  Sum_probs=55.8

Q ss_pred             HhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-cccHHHHHHHHHhcCChHHH
Q 035645           56 CKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPF-PSLYAPIIKGAFRRGQFDDA  134 (217)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~g~~~~a  134 (217)
                      ...|++++|+..++.+... .+-|..........+.+.++.++|.+.++.+...  .|+ ....-.+..++.+.|++++|
T Consensus       317 ~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~ea  393 (484)
T COG4783         317 YLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEA  393 (484)
T ss_pred             HHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHH
Confidence            3445555555555555443 2223333344445555555555555555555544  222 23333444555555555555


Q ss_pred             HHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHH
Q 035645          135 FCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEM  176 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  176 (217)
                      ..+++..... .+.|+..|..|..+|...|+..++.....+.
T Consensus       394 i~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         394 IRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             HHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            5555554433 2334555555555555555444444444333

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.64  E-value=1.1e-06  Score=53.33  Aligned_cols=79  Identities=14%  Similarity=0.235  Sum_probs=49.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCC-CCChhhHHHHHHHHHhcC--------chhHHHHHHHHHHhcCCCcchhhHH
Q 035645           14 DLLVQGLLNAGYLESAKQMVNKMIKQGS-DPDLETFNSLIETICKSG--------EVEFCVEMYYSVCKLGSCADVSTYK   84 (217)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~   84 (217)
                      ..-|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-+.+.+|+.|...+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3445555556777777777777777777 677777777776665532        1234566666666666666666666


Q ss_pred             HHHHHHHh
Q 035645           85 ILIPAVSK   92 (217)
Q Consensus        85 ~ll~~~~~   92 (217)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            66665543

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 [, , ].

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.64  E-value=5.6e-05  Score=57.35  Aligned_cols=138  Identities=17%  Similarity=0.162  Sum_probs=101.0

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc-hhhHHHHHHHHHhcCCHHH
Q 035645           20 LLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD-VSTYKILIPAVSKAGMIDE   98 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~   98 (217)
                      +...|+++.|+..++.+... .+-|...+......+.+.++..+|.+.++++...  .|+ ....-.+..++.+.|++++
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHH
Confidence            44668888888888887765 2234455556677888888888888888888764  455 4556677788888888888


Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645           99 AFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      |+.+++...... +-|+..|..|.++|...|+..++..-..+                  .+...|+++.|...+....+
T Consensus       393 ai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~  453 (484)
T COG4783         393 AIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRASQ  453 (484)
T ss_pred             HHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHH
Confidence            888888877664 55778888888888888888777665554                  34457888888887777665


Q ss_pred             c
Q 035645          179 M  179 (217)
Q Consensus       179 ~  179 (217)
                      .
T Consensus       454 ~  454 (484)
T COG4783         454 Q  454 (484)
T ss_pred             h
Confidence            4

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.60  E-value=5.2e-06  Score=54.28  Aligned_cols=125  Identities=19%  Similarity=0.180  Sum_probs=70.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---cccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--HhHHHHHH
Q 035645           83 YKILIPAVSKAGMIDEAFRLLHNLVEDGHNPF---PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN--RPVYTTLI  157 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li  157 (217)
                      |..++..+ ..++...+...++.+.+.. +.+   ....-.+...+...|++++|...|+........|+  ....-.+.
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            44444444 3566666666666666543 111   12222344556667777777777777766542222  12333455


Q ss_pred             HHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          158 TMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       158 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      ..+...|++++|...++......  .....+....++|.+.|++++|.+.|+..
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            66667777777777775533222  23345556677777777777777776653

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.59  E-value=7.9e-06  Score=53.45  Aligned_cols=124  Identities=14%  Similarity=0.116  Sum_probs=50.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC--ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcch--hhHHHHHH
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDP--DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADV--STYKILIP   88 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~ll~   88 (217)
                      |..++..+ ..++...+...++.+.+.....  .....-.+...+...|++++|...|+........|+.  .....+..
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~   93 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLAR   93 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHH
Confidence            33344433 2455555555555554432110  0112222334444555555555555555443311111  12223444


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFS  139 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~  139 (217)
                      .+...|++++|...++.....  ......+...-.++.+.|++++|...|+
T Consensus        94 ~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~  142 (145)
T PF09976_consen   94 ILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQ  142 (145)
T ss_pred             HHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            444555555555555432211  1122233334444555555555555444

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.58  E-value=2.3e-05  Score=54.98  Aligned_cols=155  Identities=17%  Similarity=0.183  Sum_probs=115.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh-
Q 035645           14 DLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK-   92 (217)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-   92 (217)
                      ..-...|.+.|++++|.+.....    .  +......=...+.+..+++-|.+.+++|.+.   .+..|.+.|..++.+ 
T Consensus       112 l~aa~i~~~~~~~deAl~~~~~~----~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~l  182 (299)
T KOG3081|consen  112 LLAAIIYMHDGDFDEALKALHLG----E--NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKL  182 (299)
T ss_pred             HHhhHHhhcCCChHHHHHHHhcc----c--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHH
Confidence            33455688999999999987762    1  3333334445567788999999999999874   366677766666654 


Q ss_pred             ---cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCH-HH
Q 035645           93 ---AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRF-VE  168 (217)
Q Consensus        93 ---~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~  168 (217)
                         .+.+.+|.-+|++|.+. .+|+..+.+-...++...|++++|..++++...+... ++.+...+|..-...|.. +-
T Consensus       183 a~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~  260 (299)
T KOG3081|consen  183 ATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEV  260 (299)
T ss_pred             hccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHH
Confidence               46789999999999875 3788999999999999999999999999999887544 566666666655556654 44


Q ss_pred             HHHHHHHHHHc
Q 035645          169 AANYLMEMTEM  179 (217)
Q Consensus       169 a~~~~~~~~~~  179 (217)
                      ..+.+..+...
T Consensus       261 ~~r~l~QLk~~  271 (299)
T KOG3081|consen  261 TERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHHhc
Confidence            55666666654

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

Probab=98.58  E-value=2.6e-05  Score=60.15  Aligned_cols=194  Identities=14%  Similarity=0.094  Sum_probs=135.7

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHH-----------------
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVC-----------------   72 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-----------------   72 (217)
                      ...|--|.......++-..|+..+.+..+... -|....-.|.-.|...|.-.+|++.++.-+                 
T Consensus       319 aeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP-~NleaLmaLAVSytNeg~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~  397 (579)
T KOG1125|consen  319 AEAWQKLGITQAENENEQNAISALRRCLELDP-TNLEALMALAVSYTNEGLQNQALKMLDKWIRNKPKYVHLVSAGENED  397 (579)
T ss_pred             HHHHHHhhhHhhhccchHHHHHHHHHHHhcCC-ccHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCccchhccccCcccc
Confidence            44555555555556666666666666655431 144444455555555554444444443332                 


Q ss_pred             -------------------------hcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh
Q 035645           73 -------------------------KLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR  127 (217)
Q Consensus        73 -------------------------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  127 (217)
                                               ..+..+|..+...|.-.|.-.|++++|.+.|+..+... +-|...||-|-..++.
T Consensus       398 ~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~-Pnd~~lWNRLGAtLAN  476 (579)
T KOG1125|consen  398 FENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVK-PNDYLLWNRLGATLAN  476 (579)
T ss_pred             ccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcC-CchHHHHHHhhHHhcC
Confidence                                     22223677788888888999999999999999999875 5567899999999999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHH---c------CCCCChhhHHHHHHHHHh
Q 035645          128 RGQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMTE---M------GLTPISRCFDLVTDGLKN  197 (217)
Q Consensus       128 ~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~------~~~~~~~~~~~l~~~~~~  197 (217)
                      ..+.++|..-|.+.++.  .|+ +.+...|.-+|...|.+++|.+.|-..+.   .      +..++..+|..|=.++.-
T Consensus       477 ~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~  554 (579)
T KOG1125|consen  477 GNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSA  554 (579)
T ss_pred             CcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHH
Confidence            99999999999999876  555 56666777889999999999998876552   2      112345678888888888


Q ss_pred             cCCchHHHHH
Q 035645          198 CGKHDLAEKI  207 (217)
Q Consensus       198 ~~~~~~a~~~  207 (217)
                      .++.|.+.+.
T Consensus       555 ~~~~D~l~~a  564 (579)
T KOG1125|consen  555 MNRSDLLQEA  564 (579)
T ss_pred             cCCchHHHHh
Confidence            8888865554

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

Probab=98.57  E-value=2.6e-05  Score=58.14  Aligned_cols=190  Identities=13%  Similarity=0.041  Sum_probs=117.6

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHH
Q 035645           20 LLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEA   99 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a   99 (217)
                      ....++++.|+.+-++.+.... -+...+-.-...+...++.++|.-.|+..+... +-+...|.-|+..|...|++.+|
T Consensus       310 l~~~K~~~rAL~~~eK~I~~~~-r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA  387 (564)
T KOG1174|consen  310 LYDEKKFERALNFVEKCIDSEP-RNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEA  387 (564)
T ss_pred             hhhhhhHHHHHHHHHHHhccCc-ccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHH
Confidence            3344455555555555544321 133333333445556667777777776665531 12456677777777777777776


Q ss_pred             HHHHHHHHhCCCCCCcccHHHHH-HHHHh-cCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHH
Q 035645          100 FRLLHNLVEDGHNPFPSLYAPII-KGAFR-RGQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFVEAANYLMEM  176 (217)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~ll-~~~~~-~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~  176 (217)
                      .-+-+...+. ++.+..+.+.+- ..+.- -.--++|..++++-...  .|+ ....+.+...+...|..++++.++++-
T Consensus       388 ~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~  464 (564)
T KOG1174|consen  388 NALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKH  464 (564)
T ss_pred             HHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHH
Confidence            6655544332 122333333221 22221 12245566666655443  344 456667777788899999999999887


Q ss_pred             HHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          177 TEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       177 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ..  ..||....+.|.+.+...+.+.+|.+.|..+.+++|
T Consensus       465 L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP  502 (564)
T KOG1174|consen  465 LI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDP  502 (564)
T ss_pred             Hh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCc
Confidence            76  368999999999999999999999999999988876

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.57  E-value=1.6e-06  Score=52.56  Aligned_cols=77  Identities=13%  Similarity=0.296  Sum_probs=47.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCC-CCCHhHHHHHHHHHhcCC--------CHHHHHHHHHHHHHcCCCCChhhHHHH
Q 035645          121 IIKGAFRRGQFDDAFCFFSEIKIKGH-PPNRPVYTTLITMCGRGG--------RFVEAANYLMEMTEMGLTPISRCFDLV  191 (217)
Q Consensus       121 ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g--------~~~~a~~~~~~~~~~~~~~~~~~~~~l  191 (217)
                      .|.-+...+++.....+|..++..|+ .|+..+|+.++.+.++..        +.-....++++|...+++|+..||+.+
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            34444455666666666666666666 666666666666655432        234556666777766777777777777


Q ss_pred             HHHHHh
Q 035645          192 TDGLKN  197 (217)
Q Consensus       192 ~~~~~~  197 (217)
                      +..+.+
T Consensus       111 l~~Llk  116 (120)
T PF08579_consen  111 LGSLLK  116 (120)
T ss_pred             HHHHHH
Confidence            766654

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 [, , ].

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.56  E-value=7.7e-05  Score=52.07  Aligned_cols=171  Identities=13%  Similarity=0.134  Sum_probs=128.1

Q ss_pred             CCCChhh-HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHH
Q 035645            6 FNPPVRG-RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYK   84 (217)
Q Consensus         6 ~~~~~~~-~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (217)
                      ..++..+ |..++-+....|+.+.|...++++..+ ++-+..+-..-...+-..|++++|+++|+.+.+.. +.|..++-
T Consensus        47 ~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~K  124 (289)
T KOG3060|consen   47 LGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRK  124 (289)
T ss_pred             cCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHH
Confidence            4556544 666777888899999999999998876 33233333333333455789999999999998875 44677787


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcC-
Q 035645           85 ILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRG-  163 (217)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-  163 (217)
                      .-+.+.-..|+.-+|++-++...+. +..|...|.-+...|...|++++|.-+++++.-.. +.++..+..+...+.-. 
T Consensus       125 RKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~-P~n~l~f~rlae~~Yt~g  202 (289)
T KOG3060|consen  125 RKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQ-PFNPLYFQRLAEVLYTQG  202 (289)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHh
Confidence            7777888888888999999888876 46789999999999999999999999999998652 23455555565554433 


Q ss_pred             --CCHHHHHHHHHHHHHcC
Q 035645          164 --GRFVEAANYLMEMTEMG  180 (217)
Q Consensus       164 --g~~~~a~~~~~~~~~~~  180 (217)
                        .+.+.+.++|....+..
T Consensus       203 g~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  203 GAENLELARKYYERALKLN  221 (289)
T ss_pred             hHHHHHHHHHHHHHHHHhC
Confidence              35667888888777654

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.54  E-value=1.6e-07  Score=43.94  Aligned_cols=30  Identities=23%  Similarity=0.411  Sum_probs=21.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGS   41 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~   41 (217)
                      +||+++++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            677777777777777777777777776653

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.46  E-value=2.1e-05  Score=49.31  Aligned_cols=98  Identities=15%  Similarity=0.059  Sum_probs=51.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC--CChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC--cchhhHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSD--PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC--ADVSTYKILI   87 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~ll   87 (217)
                      ++..+...+.+.|++++|.+.|+.+.+....  .....+..+..++.+.|++++|...|+.+......  ....++..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            3445555556666666666666666543211  11234444555666666666666666665542211  1133455555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 035645           88 PAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      .++.+.|++++|...++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            5555666666666666665554

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.

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

Probab=98.43  E-value=0.00015  Score=55.25  Aligned_cols=188  Identities=12%  Similarity=0.092  Sum_probs=136.6

Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHH
Q 035645           21 LNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAF  100 (217)
Q Consensus        21 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  100 (217)
                      ...+++..|..+|++.+.-. ..+...|.-.+.+=.++.....|..+|++....-.. -...|-..+..=-..|++..|.
T Consensus        84 esq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPR-VdqlWyKY~ymEE~LgNi~gaR  161 (677)
T KOG1915|consen   84 ESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPR-VDQLWYKYIYMEEMLGNIAGAR  161 (677)
T ss_pred             HhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcch-HHHHHHHHHHHHHHhcccHHHH
Confidence            34567778889999888755 336777777888888888899999999988764222 2234555555556678899999


Q ss_pred             HHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHc-
Q 035645          101 RLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEM-  179 (217)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-  179 (217)
                      ++|.+-.+-  .|+..+|.+.|+.=.+...++.|..+|+...--  .|+..+|--...---+.|....+..++....+. 
T Consensus       162 qiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~  237 (677)
T KOG1915|consen  162 QIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFL  237 (677)
T ss_pred             HHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh
Confidence            999887765  688999999999999999999999999887653  588888888888888889998888888877652 


Q ss_pred             CC-CCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          180 GL-TPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       180 ~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      |- .-+...|.+...-=.++..++.|.-+++.+.+.
T Consensus       238 ~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~  273 (677)
T KOG1915|consen  238 GDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH  273 (677)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            11 112223333333334567777777777776543

>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=98.43  E-value=6.9e-06  Score=48.80  Aligned_cols=92  Identities=18%  Similarity=0.179  Sum_probs=43.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcC
Q 035645           84 KILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRG  163 (217)
Q Consensus        84 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  163 (217)
                      ..+...+...|++++|...+++..+.. +.+...+..+...+...+++++|...+....... +.+..++..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHH
Confidence            344444555555555555555554432 1222344444555555555555555555544432 11223444444455555


Q ss_pred             CCHHHHHHHHHHHH
Q 035645          164 GRFVEAANYLMEMT  177 (217)
Q Consensus       164 g~~~~a~~~~~~~~  177 (217)
                      |++++|...+....
T Consensus        82 ~~~~~a~~~~~~~~   95 (100)
T cd00189          82 GKYEEALEAYEKAL   95 (100)
T ss_pred             HhHHHHHHHHHHHH
Confidence            55555555554443

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

Probab=98.42  E-value=0.0001  Score=55.10  Aligned_cols=25  Identities=12%  Similarity=0.076  Sum_probs=13.5

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          187 CFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      ....+.+.+...|..+.+..+++..
T Consensus       440 AV~~~AEL~~~Eg~~~D~i~LLe~~  464 (564)
T KOG1174|consen  440 AVNLIAELCQVEGPTKDIIKLLEKH  464 (564)
T ss_pred             HHHHHHHHHHhhCccchHHHHHHHH
Confidence            3444555555556666665555544

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.41  E-value=7.8e-05  Score=53.45  Aligned_cols=105  Identities=17%  Similarity=0.246  Sum_probs=79.0

Q ss_pred             CCCCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcch
Q 035645            1 MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADV   80 (217)
Q Consensus         1 M~~~g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (217)
                      |...|+....--+++.+..+.+..+++.|++++..-.++. +.+....+.+..+|....++..|-..|+++...  .|..
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 MAGSGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPEL   77 (459)
T ss_pred             CCcccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHH
Confidence            4445666655668889999999999999999999887764 227788889999999999999999999999764  3544


Q ss_pred             hhHHH-HHHHHHhcCCHHHHHHHHHHHHh
Q 035645           81 STYKI-LIPAVSKAGMIDEAFRLLHNLVE  108 (217)
Q Consensus        81 ~~~~~-ll~~~~~~~~~~~a~~~~~~~~~  108 (217)
                      .-|.. -...+.+.+.+-+|.++...|.+
T Consensus        78 ~qYrlY~AQSLY~A~i~ADALrV~~~~~D  106 (459)
T KOG4340|consen   78 EQYRLYQAQSLYKACIYADALRVAFLLLD  106 (459)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHhcC
Confidence            44432 23445566777777777776654

>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=98.40  E-value=1.4e-05  Score=47.43  Aligned_cols=93  Identities=19%  Similarity=0.173  Sum_probs=48.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      +..+...+...|++++|...+++..+.. +.+...+..+..++...+++++|.+.++...+.. +.+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            3444555555666666666666555432 1233445555555555566666666665554432 1223445555555555


Q ss_pred             cCCHHHHHHHHHHHH
Q 035645           93 AGMIDEAFRLLHNLV  107 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~  107 (217)
                      .|++++|...+....
T Consensus        81 ~~~~~~a~~~~~~~~   95 (100)
T cd00189          81 LGKYEEALEAYEKAL   95 (100)
T ss_pred             HHhHHHHHHHHHHHH
Confidence            555555555555544

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.40  E-value=2.4e-05  Score=57.00  Aligned_cols=131  Identities=8%  Similarity=0.002  Sum_probs=102.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHH-HHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIET-ICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      .+|..+|...-+.+..+.|..+|.+.++.+ ..+...|...... +.-.++.+.|..+|+...+. +..+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            468899999999999999999999998653 2345555555444 33457777799999999876 66688889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCc---ccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFP---SLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      +.+.++.+.|..+|++.... +.++.   ..|...+..=.+.|+++.+..+...+.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999999866 23222   48999999999999999999999988765

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.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.39  E-value=6.3e-07  Score=41.83  Aligned_cols=18  Identities=39%  Similarity=0.730  Sum_probs=6.3

Q ss_pred             HHHHHhcCChHHHHHHHH
Q 035645          122 IKGAFRRGQFDDAFCFFS  139 (217)
Q Consensus       122 l~~~~~~g~~~~a~~~~~  139 (217)
                      +++|++.|++++|.++|+
T Consensus         7 i~~~~~~~~~~~a~~~~~   24 (31)
T PF01535_consen    7 ISGYCKMGQFEEALEVFD   24 (31)
T ss_pred             HHHHHccchHHHHHHHHH
Confidence            333333333333333333

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.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.38  E-value=3.3e-05  Score=56.54  Aligned_cols=197  Identities=11%  Similarity=0.031  Sum_probs=126.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHH-----HHHhcCchhHHHHHHHHHHhcCCCcch-hhHHHHH
Q 035645           14 DLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIE-----TICKSGEVEFCVEMYYSVCKLGSCADV-STYKILI   87 (217)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~-----~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll   87 (217)
                      -.++-.|.+.+++.+|..+.+++..  ..|-......+..     -........-|.+.|+-.-+++..-|. .--.++.
T Consensus       289 lNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmA  366 (557)
T KOG3785|consen  289 LNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMA  366 (557)
T ss_pred             hhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHH
Confidence            3455567889999999998877632  1122222221111     112223355677777766665554443 3344566


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFV  167 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  167 (217)
                      ..+.-..++++++-.++.+...-...|...+ .+.++.+..|++.+|+++|-.+....++.+..-.+.|..+|.+.+.++
T Consensus       367 s~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~  445 (557)
T KOG3785|consen  367 SYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQ  445 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCch
Confidence            6666677888988888888776443444444 477899999999999999987765545533344445677888999999


Q ss_pred             HHHHHHHHHHHcCCCCCh-hhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          168 EAANYLMEMTEMGLTPIS-RCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .|++++-++..   ..+. .....+..-|.+++.+--|-+.|+.+..++|
T Consensus       446 lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP  492 (557)
T KOG3785|consen  446 LAWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEILDP  492 (557)
T ss_pred             HHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC
Confidence            99888754332   2222 2344556778888888888888888877765

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

Probab=98.38  E-value=1.8e-05  Score=62.67  Aligned_cols=162  Identities=15%  Similarity=0.074  Sum_probs=129.8

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHH
Q 035645            7 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKIL   86 (217)
Q Consensus         7 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (217)
                      +||...|..+.+......-+++|.++.+..-.+       .-..+.....+.++++++.+.|+.-.+.+ +.-..+|-.+
T Consensus       454 ~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~  525 (777)
T KOG1128|consen  454 DPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGL  525 (777)
T ss_pred             CCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhc
Confidence            578888999999888888899999988875322       22233333345789999999999876643 2356788888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCH
Q 035645           87 IPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRF  166 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  166 (217)
                      .-+..+.++++.|.+.|....... +.+...||.+-.+|.+.++..+|...+.+..+.+ .-+...|...+-.....|.+
T Consensus       526 G~~ALqlek~q~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~  603 (777)
T KOG1128|consen  526 GCAALQLEKEQAAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEF  603 (777)
T ss_pred             cHHHHHHhhhHHHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccH
Confidence            888999999999999999887753 3345689999999999999999999999998876 44667888888888999999


Q ss_pred             HHHHHHHHHHHH
Q 035645          167 VEAANYLMEMTE  178 (217)
Q Consensus       167 ~~a~~~~~~~~~  178 (217)
                      ++|.+.+..+.+
T Consensus       604 eda~~A~~rll~  615 (777)
T KOG1128|consen  604 EDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHHHHHHHH
Confidence            999999988874

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.38  E-value=0.00017  Score=56.05  Aligned_cols=185  Identities=13%  Similarity=0.109  Sum_probs=114.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVS   91 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   91 (217)
                      ..-+=++.+.+.|++++|.+..+++...+ +-+...+..-+-+..+.+++++|+.+.+.-..  ...+...+---.-+..
T Consensus        14 ~l~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~--~~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   14 ALLTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA--LLVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch--hhhcchhhHHHHHHHH
Confidence            34445677788899999999999998876 44566677777788999999999955443221  0111111122233455


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHHHHH
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFVEAA  170 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~  170 (217)
                      +.+..++|...++-..    +.+..+...-...+.+.|++++|..+|..+.+++...- ...-..++.+-..    ..+ 
T Consensus        91 rlnk~Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~----l~~-  161 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA----LQV-  161 (652)
T ss_pred             HcccHHHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh----hhH-
Confidence            7899999999988221    12334566667889999999999999999987754311 1111222221111    111 


Q ss_pred             HHHHHHHHcCCCCChhhHHH---HHHHHHhcCCchHHHHHHHHHh
Q 035645          171 NYLMEMTEMGLTPISRCFDL---VTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      +   .+......| ..+|..   ....+...|++.+|+++++...
T Consensus       162 ~---~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~  202 (652)
T KOG2376|consen  162 Q---LLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKAL  202 (652)
T ss_pred             H---HHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            1   122222233 223443   3455668899999999998873

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.36  E-value=1.7e-06  Score=50.87  Aligned_cols=81  Identities=21%  Similarity=0.322  Sum_probs=46.0

Q ss_pred             cCCHHHHHHHHHHHhhCCCC-CChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHH
Q 035645           23 AGYLESAKQMVNKMIKQGSD-PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFR  101 (217)
Q Consensus        23 ~g~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  101 (217)
                      .|+++.|+.+++++.+.... ++...+-.+..++.+.|++++|+.++++ .+.+. .+....-.+..++.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            46677777777777664321 2334444566777777777777777766 22211 122333344666777777777777


Q ss_pred             HHHH
Q 035645          102 LLHN  105 (217)
Q Consensus       102 ~~~~  105 (217)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6654

>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=98.36  E-value=1.3e-05  Score=54.66  Aligned_cols=89  Identities=16%  Similarity=0.250  Sum_probs=65.9

Q ss_pred             CcchhhHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC----------------ChHHHH
Q 035645           77 CADVSTYKILIPAVSKA-----GMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRG----------------QFDDAF  135 (217)
Q Consensus        77 ~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g----------------~~~~a~  135 (217)
                      ..+..+|..+++.|.+.     |..+-....++.|.+-|+.-|..+|+.|++.+-+..                +-+-|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            46888999999988765     667778888888889999889999999998875421                234566


Q ss_pred             HHHHHHHhcCCCCCHhHHHHHHHHHhcCCC
Q 035645          136 CFFSEIKIKGHPPNRPVYTTLITMCGRGGR  165 (217)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  165 (217)
                      +++++|...|+.||..++..+++.+.+.+.
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            666667666777777777777766665554

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.36  E-value=2.3e-05  Score=57.03  Aligned_cols=144  Identities=10%  Similarity=0.141  Sum_probs=100.7

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 035645           46 ETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA-VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKG  124 (217)
Q Consensus        46 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (217)
                      .+|..+++..-+.+..+.|..+|.+..+.+ ..+..+|-..... +...++.+.|.++|+...+. ...+...|...+..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            467888888888888999999999887543 2244455554444 33356777799999988875 34566778888888


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCH---hHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 035645          125 AFRRGQFDDAFCFFSEIKIKGHPPNR---PVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDG  194 (217)
Q Consensus       125 ~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  194 (217)
                      +...|+.+.|..+|+..... +.++.   ..|...+..-.+.|+.+.+.++.+++.+.  .|+......+++-
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~r  149 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDR  149 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCC
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHH
Confidence            89999999999999988765 33222   48888888888889999999888888874  3444444444443

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.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.33  E-value=7.9e-05  Score=61.73  Aligned_cols=134  Identities=10%  Similarity=0.014  Sum_probs=97.7

Q ss_pred             CCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcch-hhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-------
Q 035645           40 GSDP-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADV-STYKILIPAVSKAGMIDEAFRLLHNLVEDG-------  110 (217)
Q Consensus        40 ~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-------  110 (217)
                      +..| +...+..|+..+...+++++|.++.+...+.  .|+. ..|-.+...+.+.++.+++..+  .+...-       
T Consensus        25 ~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~  100 (906)
T PRK14720         25 NYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWA  100 (906)
T ss_pred             cCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchh
Confidence            3444 5668889999999999999999999977664  3443 4444444467777777666544  332221       


Q ss_pred             -----------CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHc
Q 035645          111 -----------HNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEM  179 (217)
Q Consensus       111 -----------~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  179 (217)
                                 ..-+..++-.+..+|-+.|+.++|..+|+++.+.. +-|+.+.|.+...|+.. ++++|.+++.+....
T Consensus       101 ~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~  178 (906)
T PRK14720        101 IVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR  178 (906)
T ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH
Confidence                       01122466677788888899999999999999886 44788999999999888 999999998877653

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.33  E-value=4e-05  Score=48.02  Aligned_cols=100  Identities=16%  Similarity=0.064  Sum_probs=75.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCC--CCHhHHHHH
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHN--PFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHP--PNRPVYTTL  156 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~l  156 (217)
                      .++..+...+.+.|++++|...|..+.+....  .....+..+..++.+.|+++.|...|+.+......  .....+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            45667777888899999999999998865311  11345666888899999999999999988765211  124567777


Q ss_pred             HHHHhcCCCHHHHHHHHHHHHHcC
Q 035645          157 ITMCGRGGRFVEAANYLMEMTEMG  180 (217)
Q Consensus       157 i~~~~~~g~~~~a~~~~~~~~~~~  180 (217)
                      ..++...|++++|.+.++++.+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            788888999999999999888764

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.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.32  E-value=5.1e-05  Score=50.95  Aligned_cols=92  Identities=13%  Similarity=0.106  Sum_probs=39.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 035645           83 YKILIPAVSKAGMIDEAFRLLHNLVEDGHNP--FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMC  160 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  160 (217)
                      +..+...+...|++++|...|++.......+  ...++..+...+...|++++|...++...... +....++..+...+
T Consensus        38 ~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~i~  116 (168)
T CHL00033         38 YYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAVIC  116 (168)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            3444444444455555555555444332111  11244444455555555555555555444331 11223333333333


Q ss_pred             h-------cCCCHHHHHHHHHH
Q 035645          161 G-------RGGRFVEAANYLME  175 (217)
Q Consensus       161 ~-------~~g~~~~a~~~~~~  175 (217)
                      .       ..|+++.|...+++
T Consensus       117 ~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        117 HYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHhhHHHHHcccHHHHHHHHHH
Confidence            3       55666655544443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.32  E-value=0.00077  Score=54.15  Aligned_cols=127  Identities=18%  Similarity=0.067  Sum_probs=93.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHhHHHHHHHHHhcC
Q 035645           85 ILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPP-NRPVYTTLITMCGRG  163 (217)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~  163 (217)
                      .....+.+.+..++|...+.+..... +.....|...-..+...|.+++|.+.|......  .| ++....++...+.+.
T Consensus       655 laa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~l--dP~hv~s~~Ala~~lle~  731 (799)
T KOG4162|consen  655 LAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALAL--DPDHVPSMTALAELLLEL  731 (799)
T ss_pred             HHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhc--CCCCcHHHHHHHHHHHHh
Confidence            33344445555555555555554432 233445555555667778888888888877654  34 367788899999999


Q ss_pred             CCHHHHHH--HHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          164 GRFVEAAN--YLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       164 g~~~~a~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      |+...|..  ++.++.+.+ +.+...|-.+...+.+.|+.+.|-+.|+...+++
T Consensus       732 G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  732 GSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             CCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence            98888888  999999877 5678899999999999999999999999888775

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.31  E-value=0.00044  Score=49.27  Aligned_cols=57  Identities=12%  Similarity=0.228  Sum_probs=45.2

Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHHc--CCCCChhhHHHHHHHHHhcCCchHHHHHHHHHh
Q 035645          156 LITMCGRGGRFVEAANYLMEMTEM--GLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       156 li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      +..-|.+.|.+.-|..-++.+.+.  +.+........++.+|...|..++|.++.+...
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            445678889999999999998863  334455677889999999999999999887654

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.30  E-value=3.2e-05  Score=51.94  Aligned_cols=115  Identities=11%  Similarity=0.124  Sum_probs=77.8

Q ss_pred             HHHHHHHHHHHh-hCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCc--chhhHHHHHHHHHhcCCHHHHHHH
Q 035645           26 LESAKQMVNKMI-KQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCA--DVSTYKILIPAVSKAGMIDEAFRL  102 (217)
Q Consensus        26 ~~~a~~~~~~m~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~  102 (217)
                      +..+...+..+. ..+..-....|..+...+...|++++|+..|++.......+  ...++..+..++...|++++|...
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            444555555553 33322245566777888888999999999999887643222  235788888899999999999999


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHH-------hcCChHHHHHHHHHH
Q 035645          103 LHNLVEDGHNPFPSLYAPIIKGAF-------RRGQFDDAFCFFSEI  141 (217)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~ll~~~~-------~~g~~~~a~~~~~~~  141 (217)
                      +++..... +....++..+...+.       ..|+++.|...+.+.
T Consensus        95 ~~~Al~~~-~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033         95 YFQALERN-PFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHHhC-cCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            99888653 233455666666666       667777655555443

>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=98.29  E-value=1e-05  Score=55.21  Aligned_cols=88  Identities=22%  Similarity=0.267  Sum_probs=57.9

Q ss_pred             ChhhHHHHHHHHHh-----cCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhc----------------CCHHHHHHH
Q 035645           44 DLETFNSLIETICK-----SGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKA----------------GMIDEAFRL  102 (217)
Q Consensus        44 ~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----------------~~~~~a~~~  102 (217)
                      +..+|..++..|.+     .|..+-....+..|.+-|+..|..+|+.|++.+=+.                .+-+-|+++
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~l  125 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDL  125 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHH
Confidence            45555555555543     345555566666666666666667777766665432                223567888


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHhcCCh
Q 035645          103 LHNLVEDGHNPFPSLYAPIIKGAFRRGQF  131 (217)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~ll~~~~~~g~~  131 (217)
                      +++|...|+.||..++..+++.+++.+..
T Consensus       126 L~qME~~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  126 LEQMENNGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHHHHcCCCCcHHHHHHHHHHhccccHH
Confidence            88888888888888888888888777753

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.29  E-value=2.1e-06  Score=50.51  Aligned_cols=81  Identities=16%  Similarity=0.280  Sum_probs=45.3

Q ss_pred             cCchhHHHHHHHHHHhcCCC-cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHH
Q 035645           58 SGEVEFCVEMYYSVCKLGSC-ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFC  136 (217)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~  136 (217)
                      .|+++.|+.+++++.+.... ++...+..+..+|.+.|++++|..++++ .+.+ +.+......+..++.+.|++++|..
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            46677777777777654321 1334444466777777777777777766 2221 1122333344666677777777777


Q ss_pred             HHHH
Q 035645          137 FFSE  140 (217)
Q Consensus       137 ~~~~  140 (217)
                      ++.+
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6654

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.27  E-value=0.00014  Score=48.98  Aligned_cols=90  Identities=18%  Similarity=0.084  Sum_probs=61.1

Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHH
Q 035645           45 LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD--VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPII  122 (217)
Q Consensus        45 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  122 (217)
                      ...+..+...+...|++++|+..|++..+....+.  ...+..+..++.+.|++++|...+.+..+.. +.+...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            34566777777888888888888888876433222  3567777888888888888888888877653 22345556666


Q ss_pred             HHHHhcCChHHHH
Q 035645          123 KGAFRRGQFDDAF  135 (217)
Q Consensus       123 ~~~~~~g~~~~a~  135 (217)
                      ..+...|+...+.
T Consensus       114 ~~~~~~g~~~~a~  126 (172)
T PRK02603        114 VIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHcCChHhHh
Confidence            6666666644433

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.24  E-value=0.00028  Score=46.03  Aligned_cols=96  Identities=7%  Similarity=-0.088  Sum_probs=66.2

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF  126 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (217)
                      ..-.+...+...|++++|..+|+.+..... -+..-|..|..++...|++++|+..|......+ +-++..+-.+-.++.
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp-~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L  114 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYDA-WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            334455556677888888888877766422 244556667777777788888888888777665 346677777777777


Q ss_pred             hcCChHHHHHHHHHHHhc
Q 035645          127 RRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus       127 ~~g~~~~a~~~~~~~~~~  144 (217)
                      ..|+.+.|.+.|+.....
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            888888888877766654

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

Probab=98.23  E-value=0.0011  Score=50.67  Aligned_cols=202  Identities=12%  Similarity=0.048  Sum_probs=140.5

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCh--hhHHHHH--------HHHHhcCchhHHHHHHHHHHhcCCC
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDL--ETFNSLI--------ETICKSGEVEFCVEMYYSVCKLGSC   77 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~--~~~~~ll--------~~~~~~~~~~~a~~~~~~~~~~~~~   77 (217)
                      .|-.+|-..+..-...|+.+...++|++.+.. ++|-.  ..|.-.|        -.=....+.+.+.++|+...+. ++
T Consensus       320 ~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IP  397 (677)
T KOG1915|consen  320 YNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IP  397 (677)
T ss_pred             CCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cC
Confidence            35567777777778889999999999998876 44422  1222222        1223467888889999888874 55


Q ss_pred             cchhhHHHHHHHHH----hcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHH
Q 035645           78 ADVSTYKILIPAVS----KAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVY  153 (217)
Q Consensus        78 ~~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  153 (217)
                      ....||..+--.|.    +..++..|.+++....  |.-|-..++-..|..=.+.+++|.+..+|+.....+. -+..+|
T Consensus       398 HkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~P-e~c~~W  474 (677)
T KOG1915|consen  398 HKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSP-ENCYAW  474 (677)
T ss_pred             cccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcCh-HhhHHH
Confidence            56666666555553    5677888888877665  3457777777788888888888888888888887753 366777


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHHcCC-CCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          154 TTLITMCGRGGRFVEAANYLMEMTEMGL-TPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       154 ~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      ......-...|+.+.|..+|.-.++... .-....+.+-|+-=...|.++.|..+++...+.
T Consensus       475 ~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r  536 (677)
T KOG1915|consen  475 SKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR  536 (677)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh
Confidence            7777777788888888888887775321 112234555555556788888888888877654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.23  E-value=7.2e-05  Score=48.74  Aligned_cols=98  Identities=8%  Similarity=-0.031  Sum_probs=83.3

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ....-.+...+...|++++|..+|+.+....+. +..-|-.|..++-..|++++|+..|........ -|...+-.+..+
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c  112 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAEC  112 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHH
Confidence            344556677788999999999999999886533 677788899999999999999999999988653 477889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhC
Q 035645           90 VSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~  109 (217)
                      +...|+.+.|.+.|+.....
T Consensus       113 ~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        113 YLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999987754

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.22  E-value=0.00048  Score=53.03  Aligned_cols=199  Identities=17%  Similarity=0.214  Sum_probs=138.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHH-------
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKI-------   85 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------   85 (217)
                      ...+..+..+..+++.+.+-+....+..  -+..-++....+|...|.+.+....-+...+.|.. ...-|+.       
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            4456777778888899998888887764  35666677777888888888877777666655533 2222332       


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccH-------------------------HHHHHHHHhcCChHHHHHHHHH
Q 035645           86 LIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLY-------------------------APIIKGAFRRGQFDDAFCFFSE  140 (217)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------------------------~~ll~~~~~~g~~~~a~~~~~~  140 (217)
                      +..+|.+.++++.+...|++.......|+...-                         -.--..+.+.|++..|...|.+
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~Yte  383 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTE  383 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHH
Confidence            334566667788888888876544333332110                         0112336788899999999999


Q ss_pred             HHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          141 IKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       141 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ++... +-|...|+.-.-+|.+.|.+..|.+-.+...+.. ++....|..=..++.-..+++.|.+.|+...+++|
T Consensus       384 AIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp  457 (539)
T KOG0548|consen  384 AIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALELDP  457 (539)
T ss_pred             HHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence            88875 4568889999999999999998888777777654 33444566666677777788888888888877664

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.21  E-value=9.5e-05  Score=55.79  Aligned_cols=93  Identities=13%  Similarity=-0.003  Sum_probs=77.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCC
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGM   95 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~   95 (217)
                      -...+...|+++.|++.|++.++... -+...|..+..+|.+.|++++|+..+++..+.. +.+...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            34566788999999999999988643 367788888999999999999999999998753 2356778888999999999


Q ss_pred             HHHHHHHHHHHHhCC
Q 035645           96 IDEAFRLLHNLVEDG  110 (217)
Q Consensus        96 ~~~a~~~~~~~~~~~  110 (217)
                      +++|...|++..+.+
T Consensus        86 ~~eA~~~~~~al~l~  100 (356)
T PLN03088         86 YQTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999999988764

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.20  E-value=0.00012  Score=55.33  Aligned_cols=91  Identities=13%  Similarity=0.129  Sum_probs=68.8

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCh
Q 035645           52 IETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQF  131 (217)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~  131 (217)
                      ...+...|++++|++.|++..+... .+...|..+..+|...|++++|...+++..+.+ +.+...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            4456677888888888888877532 356677777888888888888888888887764 33556777777888888888


Q ss_pred             HHHHHHHHHHHhc
Q 035645          132 DDAFCFFSEIKIK  144 (217)
Q Consensus       132 ~~a~~~~~~~~~~  144 (217)
                      ++|...|+.....
T Consensus        87 ~eA~~~~~~al~l   99 (356)
T PLN03088         87 QTAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHHh
Confidence            8888888887765

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.19  E-value=0.0013  Score=56.09  Aligned_cols=203  Identities=16%  Similarity=0.098  Sum_probs=131.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhh----CCCC--C-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhc--CCCc--ch
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIK----QGSD--P-DLETFNSLIETICKSGEVEFCVEMYYSVCKL--GSCA--DV   80 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~----~~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~--~~   80 (217)
                      ++..+...+...|+++.|...+++...    .+..  + ....+..+...+...|++++|...+++....  ...+  ..
T Consensus       533 ~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~  612 (903)
T PRK04841        533 SLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQL  612 (903)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHH
Confidence            445566677889999999998887654    2221  1 2233445566677789999999998877542  1112  23


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCcccH-----HHHHHHHHhcCChHHHHHHHHHHHhcCCCCC---Hh
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHN-PFPSLY-----APIIKGAFRRGQFDDAFCFFSEIKIKGHPPN---RP  151 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~-----~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~  151 (217)
                      ..+..+...+...|+.++|...+.+....... .....+     ...+..+...|+.+.|...+...........   ..
T Consensus       613 ~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~  692 (903)
T PRK04841        613 QCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQG  692 (903)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHH
Confidence            44555666788899999999998887542101 111111     1122445568899999988776543211111   11


Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHc----CCCCC-hhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          152 VYTTLITMCGRGGRFVEAANYLMEMTEM----GLTPI-SRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       152 ~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      .+..+..++...|++++|...+......    |..++ ..+...+..++.+.|+.++|.+.+....++
T Consensus       693 ~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        693 QWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            2345667788899999999999887642    33322 246667788899999999999999887664

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.18  E-value=0.0015  Score=50.65  Aligned_cols=151  Identities=13%  Similarity=0.080  Sum_probs=109.0

Q ss_pred             hhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CcccHHHHHHHHHhcCChHHHHHHHH
Q 035645           61 VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNP-FPSLYAPIIKGAFRRGQFDDAFCFFS  139 (217)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~  139 (217)
                      .+.....++++...-..--..+|-.+++.--+..=++.|..+|.+..+.+..+ +..++++++..+| .++.+.|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHH
Confidence            55666667776543222223457777777777777888899999988876665 5667777777666 577888888888


Q ss_pred             HHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCCh--hhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          140 EIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPIS--RCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       140 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      .=.+. +..++.--...++-+...++-..+..+|++....++.||.  .+|..++.-=..-|+...+.++-+++..
T Consensus       426 LGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  426 LGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            65443 2334455567788888888888899999988877666554  5888888888888988888888776654

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.18  E-value=0.00026  Score=47.67  Aligned_cols=91  Identities=15%  Similarity=0.049  Sum_probs=70.6

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC--hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPD--LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      ...+..+...+...|++++|...|++..+....+.  ...+..+..++.+.|++++|...+++..+.. +.+...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            44577888889999999999999999987543332  4678889999999999999999999998753 22456677777


Q ss_pred             HHHHhcCCHHHHHH
Q 035645           88 PAVSKAGMIDEAFR  101 (217)
Q Consensus        88 ~~~~~~~~~~~a~~  101 (217)
                      .++...|+...+..
T Consensus       114 ~~~~~~g~~~~a~~  127 (172)
T PRK02603        114 VIYHKRGEKAEEAG  127 (172)
T ss_pred             HHHHHcCChHhHhh
Confidence            78888777555443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.18  E-value=0.00072  Score=49.44  Aligned_cols=192  Identities=15%  Similarity=0.130  Sum_probs=107.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHHh----cCCCcc--
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GSDP-DLETFNSLIETICKSGEVEFCVEMYYSVCK----LGSCAD--   79 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~--   79 (217)
                      ..|......|...|++++|.+.|.+....    +-+. -...|.....+|.+. ++++|++.+++..+    .| .|+  
T Consensus        36 ~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~a  113 (282)
T PF14938_consen   36 DLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQA  113 (282)
T ss_dssp             HHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHH
T ss_pred             HHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHH
Confidence            45677777777888888888888776431    2111 122344444444443 77888887776643    22 222  


Q ss_pred             hhhHHHHHHHHHhc-CCHHHHHHHHHHHHhC----CCCCC--cccHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-----
Q 035645           80 VSTYKILIPAVSKA-GMIDEAFRLLHNLVED----GHNPF--PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHP-----  147 (217)
Q Consensus        80 ~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~----~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-----  147 (217)
                      ...+..+...|... |++++|.+.|++..+.    + .+.  ..++..+...+.+.|++++|.++|++....-..     
T Consensus       114 A~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~  192 (282)
T PF14938_consen  114 AKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLK  192 (282)
T ss_dssp             HHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTG
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccc
Confidence            24566677777777 7888888888776532    2 111  235666777788888888888888877654222     


Q ss_pred             CCH-hHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChh------hHHHHHHHHHhcCCchHHHHHH
Q 035645          148 PNR-PVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISR------CFDLVTDGLKNCGKHDLAEKIE  208 (217)
Q Consensus       148 ~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~  208 (217)
                      .+. ..|-..+-++...|++-.|.+.+++....  .|.-.      ....|+.+| +.|+.+...+..
T Consensus       193 ~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~--~~~F~~s~E~~~~~~l~~A~-~~~D~e~f~~av  257 (282)
T PF14938_consen  193 YSAKEYFLKAILCHLAMGDYVAARKALERYCSQ--DPSFASSREYKFLEDLLEAY-EEGDVEAFTEAV  257 (282)
T ss_dssp             HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTT--STTSTTSHHHHHHHHHHHHH-HTT-CCCHHHHC
T ss_pred             hhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHH-HhCCHHHHHHHH
Confidence            111 12222333455667888888887776653  35553      234455555 345555544443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.17  E-value=0.0003  Score=55.60  Aligned_cols=63  Identities=17%  Similarity=0.130  Sum_probs=28.5

Q ss_pred             hHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          151 PVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       151 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      ..|..+.......|++++|...+++..+.+  |+...|..+...+...|+.++|.+.++.+..++
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            334433333333444455554444444433  344444444444444455555544444444443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.13  E-value=0.00025  Score=57.07  Aligned_cols=110  Identities=23%  Similarity=0.320  Sum_probs=81.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCC
Q 035645           86 LIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGR  165 (217)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  165 (217)
                      .+.+.....+|.+|+.+++.+..++.  -..-|..+...|+..|+++.|.++|.+.         ..++-.|.+|.+.|+
T Consensus       738 aieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~k  806 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGK  806 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhcccc
Confidence            34555667888899999988887642  3456778888999999999999998743         246677888999999


Q ss_pred             HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHH
Q 035645          166 FVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIE  208 (217)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (217)
                      |+.|.++-.+..  |.......|-.-.+-+-.+|++.+|++++
T Consensus       807 w~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  807 WEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            999988876543  33455566666666677777777777664

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.12  E-value=0.00014  Score=52.14  Aligned_cols=54  Identities=17%  Similarity=0.348  Sum_probs=26.5

Q ss_pred             HhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 035645           56 CKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG  110 (217)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  110 (217)
                      .+.|+++.|++-|+...+-+.--....||..+ +..+.++.+.|.+...++.++|
T Consensus       155 ykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG  208 (459)
T KOG4340|consen  155 YKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERG  208 (459)
T ss_pred             eccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhh
Confidence            34555666666665554432222334444433 3334455556666555555544

>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=98.12  E-value=2e-05  Score=44.33  Aligned_cols=67  Identities=15%  Similarity=0.144  Sum_probs=50.1

Q ss_pred             CHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC-CchHHHHHHHHHhhhcC
Q 035645          149 NRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCG-KHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       149 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~  216 (217)
                      +..+|..+...+...|++++|...|.+..+.. +-+...|..+..++...| ++++|.+.++...+++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            45667777777888888888888888877764 235567777788888887 68888888888777765

...

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.11  E-value=0.0013  Score=56.06  Aligned_cols=202  Identities=16%  Similarity=0.049  Sum_probs=128.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCC-CChhhHHHHHHHHHhcCchhHHHHHHHHHHhc----CCC--c-c
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQ----GSD-PDLETFNSLIETICKSGEVEFCVEMYYSVCKL----GSC--A-D   79 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~   79 (217)
                      ..+.+...+...|+++.|...+++....    |.. +...++..+...+...|++++|...+++....    +..  + .
T Consensus       493 a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~  572 (903)
T PRK04841        493 ATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMH  572 (903)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHH
Confidence            3455666777899999999998887642    111 11234556677788899999999998876432    211  1 2


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCC--CcccHHHHHHHHHhcCChHHHHHHHHHHHhcC--CCCCHh--
Q 035645           80 VSTYKILIPAVSKAGMIDEAFRLLHNLVEDG--HNP--FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG--HPPNRP--  151 (217)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~--  151 (217)
                      ...+..+...+...|++++|...+.+.....  ..+  ....+..+...+...|+++.|.+.+.......  ......  
T Consensus       573 ~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~  652 (903)
T PRK04841        573 EFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWI  652 (903)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHh
Confidence            2334556667778899999999988875431  112  12344456667888999999999988875421  111110  


Q ss_pred             HH--HHHHHHHhcCCCHHHHHHHHHHHHHcCCCCC---hhhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          152 VY--TTLITMCGRGGRFVEAANYLMEMTEMGLTPI---SRCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       152 ~~--~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      ..  ...+..+...|+.+.|.+++...........   ......+..++...|+.++|...++....
T Consensus       653 ~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~  719 (903)
T PRK04841        653 ANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNE  719 (903)
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            10  1122344567899999988776553211111   11245677788899999999999887764

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.11  E-value=0.00051  Score=57.09  Aligned_cols=184  Identities=14%  Similarity=0.155  Sum_probs=93.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      ..|+.+..+-.+.|.+.+|.+-|-+.      -|+..|..++....+.|.|++-++.+....+....|.+.  +.|+-+|
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~Ay 1176 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAY 1176 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHH
Confidence            44556666666666666655554332      255566666666666777766666666555544444433  3566666


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcC--------------------CCCCH
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG--------------------HPPNR  150 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--------------------~~~~~  150 (217)
                      .+.++..+..++..       .|+..-...+-.-|...+.++.|.-+|.......                    -..+.
T Consensus      1177 Akt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKAns~ 1249 (1666)
T KOG0985|consen 1177 AKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKANST 1249 (1666)
T ss_pred             HHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhccch
Confidence            66666665554432       2233222333333333333333333332211000                    01133


Q ss_pred             hHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          151 PVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       151 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      .||..+-.+|...+.+..|     .|-..++.....-..-|+..|...|-+++...+++....+
T Consensus      1250 ktWK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGL 1308 (1666)
T KOG0985|consen 1250 KTWKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGL 1308 (1666)
T ss_pred             hHHHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhch
Confidence            4555555555444433322     1222333445555677888888888888888877665543

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.11  E-value=0.00058  Score=54.03  Aligned_cols=142  Identities=13%  Similarity=0.038  Sum_probs=75.9

Q ss_pred             CCCChhhHHHHHHHHHhc-----CchhHHHHHHHHHHhcCCCcch-hhHHHHHHHHHhc--------CCHHHHHHHHHHH
Q 035645           41 SDPDLETFNSLIETICKS-----GEVEFCVEMYYSVCKLGSCADV-STYKILIPAVSKA--------GMIDEAFRLLHNL  106 (217)
Q Consensus        41 ~~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~--------~~~~~a~~~~~~~  106 (217)
                      .+.+...|...+.+....     ++.+.|.++|++..+.  .|+- ..+..+..++...        .++..+.+...+.
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            345666666666654332     2255666666666653  3432 2333322222111        1123334444433


Q ss_pred             HhCC-CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCCh
Q 035645          107 VEDG-HNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPIS  185 (217)
Q Consensus       107 ~~~~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  185 (217)
                      .... ...+..+|..+.-.....|++++|...+++....+  |+...|..+...+...|+.++|.+.+.+....+  |..
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~--P~~  486 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR--PGE  486 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCC
Confidence            3321 22334556666555556677777777777776653  566677777777777777777777777666533  444


Q ss_pred             hhH
Q 035645          186 RCF  188 (217)
Q Consensus       186 ~~~  188 (217)
                      .+|
T Consensus       487 pt~  489 (517)
T PRK10153        487 NTL  489 (517)
T ss_pred             chH
Confidence            443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.09  E-value=0.00054  Score=56.93  Aligned_cols=181  Identities=14%  Similarity=0.051  Sum_probs=118.0

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      |...|..+++...+.|.|++-.+.+...++..-+|...  +.|+-+|++.++..+..++.       ..||..-...+.+
T Consensus      1132 Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vGd 1202 (1666)
T KOG0985|consen 1132 DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI-------AGPNVANIQQVGD 1202 (1666)
T ss_pred             CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh-------cCCCchhHHHHhH
Confidence            56679999999999999999999999888876666555  47888999999988766654       2366666667777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHH------------------------Hhc
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEI------------------------KIK  144 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~------------------------~~~  144 (217)
                      -|...+.++.|.-+|...         .-|..+...+...|+++.|.+.-++.                        -..
T Consensus      1203 rcf~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~aRKAns~ktWK~VcfaCvd~~EFrlAQiCGL 1273 (1666)
T KOG0985|consen 1203 RCFEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDAARKANSTKTWKEVCFACVDKEEFRLAQICGL 1273 (1666)
T ss_pred             HHhhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHhchhhhhHHHhcCc
Confidence            777777777666555432         22444444444444444443332221                        111


Q ss_pred             CCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHH
Q 035645          145 GHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQ  209 (217)
Q Consensus       145 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (217)
                      .+.....-...++..|-..|-+++.+.+++.-.... +.....|+.|.-.|.+- +.++..+-++
T Consensus      1274 ~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLE-RAHMgmfTELaiLYsky-kp~km~EHl~ 1336 (1666)
T KOG0985|consen 1274 NIIVHADELEELIEYYQDRGYFEELISLLEAGLGLE-RAHMGMFTELAILYSKY-KPEKMMEHLK 1336 (1666)
T ss_pred             eEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchh-HHHHHHHHHHHHHHHhc-CHHHHHHHHH
Confidence            122334556778899999999999998887544221 23445778777777764 3444444443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.03  E-value=0.0018  Score=52.13  Aligned_cols=205  Identities=13%  Similarity=0.097  Sum_probs=144.3

Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCc-chhhHH
Q 035645            6 FNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCA-DVSTYK   84 (217)
Q Consensus         6 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~   84 (217)
                      +.-+...|..+.-+....|+++.+.+.|++....- .-....|..+...+.-.|....|+.+++......-.| +...+-
T Consensus       319 ~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            44577889999999999999999999999987542 2366788899999999999999999998775543234 344444


Q ss_pred             HHHHHHH-hcCCHHHHHHHHHHHHhC--CC--CCCcccHHHHHHHHHhc-----------CChHHHHHHHHHHHhcCC-C
Q 035645           85 ILIPAVS-KAGMIDEAFRLLHNLVED--GH--NPFPSLYAPIIKGAFRR-----------GQFDDAFCFFSEIKIKGH-P  147 (217)
Q Consensus        85 ~ll~~~~-~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~ll~~~~~~-----------g~~~~a~~~~~~~~~~~~-~  147 (217)
                      ..-..|. +.+..+++.++-.+..+.  +.  ......|-.+--+|...           ....++.+.+++..+.+. .
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~d  477 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTD  477 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCC
Confidence            4444444 356677777776666551  11  12234444444444322           224567777777766543 3


Q ss_pred             CCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          148 PNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       148 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      |+...|  +.--|+..++.+.|.+..++..+.+-.-+...|..+.-.+...+++.+|+.+.+....
T Consensus       478 p~~if~--lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~  541 (799)
T KOG4162|consen  478 PLVIFY--LALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALE  541 (799)
T ss_pred             chHHHH--HHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            333333  3345677889999999999999887678888999999999999999999999877654

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.03  E-value=6.2e-05  Score=53.75  Aligned_cols=103  Identities=17%  Similarity=0.110  Sum_probs=75.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFV  167 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~  167 (217)
                      -+.+.+++++|+..|.+.++.. +-|..-|..-..+|++.|.++.|.+=.+..+..  .|. ..+|..|-.+|...|+++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCcHH
Confidence            3566788888888888888764 445667778888888888888888777766654  233 578888888888888888


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 035645          168 EAANYLMEMTEMGLTPISRCFDLVTDGLK  196 (217)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  196 (217)
                      +|.+.|++.++  +.|+-.+|..=+....
T Consensus       167 ~A~~aykKaLe--ldP~Ne~~K~nL~~Ae  193 (304)
T KOG0553|consen  167 EAIEAYKKALE--LDPDNESYKSNLKIAE  193 (304)
T ss_pred             HHHHHHHhhhc--cCCCcHHHHHHHHHHH
Confidence            88888887666  4577777765555443

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.02  E-value=0.002  Score=50.91  Aligned_cols=106  Identities=13%  Similarity=0.072  Sum_probs=46.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCcccHHHHHHH------HHhcCChHHHHHHHHHHHhcCCCCCHhHHH
Q 035645           82 TYKILIPAVSKAGMIDEAFRLLHNLVEDG-HNPFPSLYAPIIKG------AFRRGQFDDAFCFFSEIKIKGHPPNRPVYT  154 (217)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~------~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  154 (217)
                      .|..+..+..-.|+...|..+.++..+.. ..|+...|......      ....|..++|.+.+..-... +......-.
T Consensus       145 ~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e  223 (700)
T KOG1156|consen  145 SWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEE  223 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhh
Confidence            34444444444555555555555554433 12333333322221      23344444444444433222 111111222


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHH
Q 035645          155 TLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDL  190 (217)
Q Consensus       155 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (217)
                      .-...+.+.+++++|..++..+....  ||..-|..
T Consensus       224 ~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~  257 (700)
T KOG1156|consen  224 TKADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYE  257 (700)
T ss_pred             hHHHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHH
Confidence            23344555666666666666666543  55444443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.00  E-value=0.0037  Score=51.31  Aligned_cols=73  Identities=18%  Similarity=0.243  Sum_probs=35.3

Q ss_pred             hcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChH
Q 035645           57 KSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFD  132 (217)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~  132 (217)
                      +.|+.++|..+++.....+.. |..|...+-.+|.+.++.++|..+|+.....  .|+......+..+|.+.+++.
T Consensus        55 r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk  127 (932)
T KOG2053|consen   55 RLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYK  127 (932)
T ss_pred             HhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHH
Confidence            455555555555444333222 4455555555555555555555555555443  233444444445555544443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.00  E-value=0.0011  Score=41.70  Aligned_cols=88  Identities=16%  Similarity=0.110  Sum_probs=42.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCC--hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc----hhhHHHHHHHHH
Q 035645           18 QGLLNAGYLESAKQMVNKMIKQGSDPD--LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD----VSTYKILIPAVS   91 (217)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~   91 (217)
                      .++-..|+.++|+.+|++....|....  ...+-.+.+.+...|++++|+.+++......  |+    ......+..++.
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHH
Confidence            344455666666666666555554332  2234445555555566666666655554421  21    112222233445


Q ss_pred             hcCCHHHHHHHHHHHH
Q 035645           92 KAGMIDEAFRLLHNLV  107 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~  107 (217)
                      ..|+.++|.+.+-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            5555555555554433

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.00  E-value=0.0058  Score=50.20  Aligned_cols=196  Identities=12%  Similarity=0.027  Sum_probs=111.5

Q ss_pred             hHHHHHHHH--HhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           12 GRDLLVQGL--LNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        12 ~~~~ll~~~--~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      .|..++.++  .+.|+.++|..+++.....+.. |..|...+-.+|.+.++.++|..+|++....  .|+..-...+..+
T Consensus        43 ~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFma  119 (932)
T KOG2053|consen   43 LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMA  119 (932)
T ss_pred             HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHH
Confidence            345555554  4789999999999888776555 8889999999999999999999999999764  4677777778888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC----------hHHHHHHHHHHHhcC-CCCCHhHHHHHHH
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQ----------FDDAFCFFSEIKIKG-HPPNRPVYTTLIT  158 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~-~~~~~~~~~~li~  158 (217)
                      |.+.+.+.+-.+.--++-+ +.+-....+-++++...+.-.          .--|...++.+.+.+ ---+..-......
T Consensus       120 yvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~  198 (932)
T KOG2053|consen  120 YVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLL  198 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHH
Confidence            8888777653332222222 123334444445544433211          122344444444332 1111222222233


Q ss_pred             HHhcCCCHHHHHHHHHHH-HHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          159 MCGRGGRFVEAANYLMEM-TEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       159 ~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      .+-..|++++|.+++..- .+.-..-+...-+.-++.+...++|.+..++...+
T Consensus       199 iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  199 ILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            344566777777777332 22222222333334444455555555554444333

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=97.98  E-value=0.0028  Score=50.37  Aligned_cols=179  Identities=13%  Similarity=0.124  Sum_probs=125.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQ-GSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ..|-.-+..+.++|++......|+..+.. .+.--...|...+....+.+-++-++++|++..+.    ++..-+-.+..
T Consensus       103 RIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~  178 (835)
T KOG2047|consen  103 RIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEY  178 (835)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHH
Confidence            34555666677788888888888887653 33334557888888888888899999999998773    34447788888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCC------CCCCcccHHHHHHHHHhcCChHH---HHHHHHHHHhcCCCCC--HhHHHHHHH
Q 035645           90 VSKAGMIDEAFRLLHNLVEDG------HNPFPSLYAPIIKGAFRRGQFDD---AFCFFSEIKIKGHPPN--RPVYTTLIT  158 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~ll~~~~~~g~~~~---a~~~~~~~~~~~~~~~--~~~~~~li~  158 (217)
                      +++.+++++|.+.+.......      -+.+...|..+....+++.+.-.   ...+++.+...  -+|  ...|..|.+
T Consensus       179 L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAd  256 (835)
T KOG2047|consen  179 LAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLAD  256 (835)
T ss_pred             HHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHH
Confidence            999999999998888776431      23455667777666666554333   33444444332  244  368899999


Q ss_pred             HHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 035645          159 MCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKN  197 (217)
Q Consensus       159 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (217)
                      .|.+.|++++|..++++....-  .+..-|..+.++|..
T Consensus       257 YYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~  293 (835)
T KOG2047|consen  257 YYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQ  293 (835)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHH
Confidence            9999999999999998877642  344455666666654

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.97  E-value=0.0012  Score=41.45  Aligned_cols=89  Identities=19%  Similarity=0.197  Sum_probs=49.9

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhcCCCcc--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----cccHHHHHHHH
Q 035645           52 IETICKSGEVEFCVEMYYSVCKLGSCAD--VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPF----PSLYAPIIKGA  125 (217)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~  125 (217)
                      ..++-..|+.++|+.+|++....|....  ...+-.+...+...|++++|..++++.....  |+    ......+..++
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHH
Confidence            3445556667777777777666655433  2344556666666677777777776665442  22    11222233455


Q ss_pred             HhcCChHHHHHHHHHHH
Q 035645          126 FRRGQFDDAFCFFSEIK  142 (217)
Q Consensus       126 ~~~g~~~~a~~~~~~~~  142 (217)
                      ...|+.++|...+-...
T Consensus        86 ~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHCCCHHHHHHHHHHHH
Confidence            56666666666665443

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=97.96  E-value=0.0056  Score=48.59  Aligned_cols=202  Identities=12%  Similarity=0.070  Sum_probs=144.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ..|.....-.+...|+-++|......-....+. +.+.|.++.-.+....++++|+..|......+ +.|...+.-+--.
T Consensus        41 geslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslL  118 (700)
T KOG1156|consen   41 GESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLL  118 (700)
T ss_pred             chhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHH
Confidence            444555555567789999999988887776544 77888888888888899999999999988754 2356677766666


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcC-CCCCHhHHHHHH------HHHhc
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG-HPPNRPVYTTLI------TMCGR  162 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~li------~~~~~  162 (217)
                      =++.++++.......++.+.. +.....|..+..++.-.|++..|..+++...+.. -.|+...+....      .....
T Consensus       119 Q~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E  197 (700)
T KOG1156|consen  119 QIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIE  197 (700)
T ss_pred             HHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHH
Confidence            678888988888888887763 2334568888888889999999999999887653 245655555433      23456


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCChhhH-HHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          163 GGRFVEAANYLMEMTEMGLTPISRCF-DLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       163 ~g~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .|.+++|.+-+..-...  ..|...+ ..-...+.+.++.++|..++..+....|
T Consensus       198 ~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnP  250 (700)
T KOG1156|consen  198 AGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERNP  250 (700)
T ss_pred             cccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhCc
Confidence            78888887777554322  2233322 3456667788999999999888776554

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.94  E-value=0.00034  Score=50.10  Aligned_cols=97  Identities=15%  Similarity=0.226  Sum_probs=64.6

Q ss_pred             HHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHH
Q 035645           55 ICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDA  134 (217)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a  134 (217)
                      +.+.+++.+|+..|.+.++.. +-|.+.|..-..+|++.|.++.|++=.+..+..+ +....+|..|-.+|...|++++|
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHH
Confidence            456677777777777777642 2245556667777777777777777776666654 23356777777777777777777


Q ss_pred             HHHHHHHHhcCCCCCHhHHHH
Q 035645          135 FCFFSEIKIKGHPPNRPVYTT  155 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~  155 (217)
                      .+.|++.++.  .|+-.+|-.
T Consensus       169 ~~aykKaLel--dP~Ne~~K~  187 (304)
T KOG0553|consen  169 IEAYKKALEL--DPDNESYKS  187 (304)
T ss_pred             HHHHHhhhcc--CCCcHHHHH
Confidence            7777776653  555544443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.94  E-value=0.0007  Score=56.03  Aligned_cols=196  Identities=14%  Similarity=0.101  Sum_probs=115.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcC-CCcchhhHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLG-SCADVSTYKILIPA   89 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~   89 (217)
                      ..|..|...|+...+..+|.+.|+...+.+ ..+...+......|++..+++.|..+.-..-+.. ...-..-|....-.
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPY  571 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccc
Confidence            457777777777777777888887776654 2266677777788888888888777732222110 00011122234444


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHH--HHHhcCCCHH
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLI--TMCGRGGRFV  167 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li--~~~~~~g~~~  167 (217)
                      |.+.++..+|...|+...+.. +-|...|..+..+|...|.+..|..+|.+....  .|+ .+|...-  ...+..|.+.
T Consensus       572 yLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~-s~y~~fk~A~~ecd~GkYk  647 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPL-SKYGRFKEAVMECDNGKYK  647 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcH-hHHHHHHHHHHHHHhhhHH
Confidence            566777777777777777664 445667888888888888888888888776654  333 2333322  2235677788


Q ss_pred             HHHHHHHHHHHc------CCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          168 EAANYLMEMTEM------GLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       168 ~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      ++...+......      +..--..++-.+...+.-.|-..+|..+++..
T Consensus       648 eald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eks  697 (1238)
T KOG1127|consen  648 EALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKS  697 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHH
Confidence            887777666521      11112233444444444445555555555443

>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=97.91  E-value=4.9e-05  Score=42.57  Aligned_cols=49  Identities=22%  Similarity=0.270  Sum_probs=18.9

Q ss_pred             cCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 035645           58 SGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLV  107 (217)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  107 (217)
                      .|++++|++.|+++.... +-+......+..+|.+.|++++|..+++.+.
T Consensus         4 ~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             ccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344444444444443321 1133333344444444444444444444443

...

>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=97.90  E-value=7.2e-05  Score=41.88  Aligned_cols=64  Identities=20%  Similarity=0.276  Sum_probs=51.2

Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645           21 LNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus        21 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      .+.|++++|.++|+++..... -+...+..+..+|.+.|++++|.++++++...  .|+...|..++
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l~   65 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNP-DNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQLL   65 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTT-TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHHH
Confidence            568999999999999988643 37788889999999999999999999999875  45644444443

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.90  E-value=7.4e-05  Score=41.44  Aligned_cols=56  Identities=23%  Similarity=0.414  Sum_probs=32.1

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          122 IKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       122 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      ...+.+.|++++|...|+.+.+.. +-+...+..+..++...|++++|...|++..+
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345556666666666666666553 22455555666666666666666666666554

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.89  E-value=0.00012  Score=40.55  Aligned_cols=55  Identities=16%  Similarity=0.249  Sum_probs=29.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 035645           18 QGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCK   73 (217)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~   73 (217)
                      ..+.+.|++++|...|+++++.. +-+...+..+..++...|++++|...|+++.+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34555555555555555555543 11444555555555555555555555555544

>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=97.88  E-value=0.00066  Score=44.39  Aligned_cols=58  Identities=21%  Similarity=0.272  Sum_probs=30.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHH
Q 035645           83 YKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEI  141 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  141 (217)
                      ...++..+...|++++|..+.+.+.... +.+...|..+|.++...|+...|.+.|+.+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            3344445555555555555555555543 344555555555566666555555555554

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.88  E-value=0.0034  Score=43.57  Aligned_cols=175  Identities=14%  Similarity=0.102  Sum_probs=102.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCC--CCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGS--DPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      .-.....+...|++++|.+.|+.+...-.  +-.....-.++.++.+.|+++.|...+++..+.-......-+-..+.+.
T Consensus         8 lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~   87 (203)
T PF13525_consen    8 LYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGL   87 (203)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHH
Confidence            33445566788999999999999987522  2233455677888999999999999999987653221122222222222


Q ss_pred             HhcCC-------------HHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHH
Q 035645           91 SKAGM-------------IDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLI  157 (217)
Q Consensus        91 ~~~~~-------------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  157 (217)
                      +....             ..+|...               +..++.-|-......+|...+..+.+.    =...--.+.
T Consensus        88 ~~~~~~~~~~~~~~D~~~~~~A~~~---------------~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia  148 (203)
T PF13525_consen   88 SYYKQIPGILRSDRDQTSTRKAIEE---------------FEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIA  148 (203)
T ss_dssp             HHHHHHHHHH-TT---HHHHHHHHH---------------HHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHH
T ss_pred             HHHHhCccchhcccChHHHHHHHHH---------------HHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHH
Confidence            21111             1223333               444455555555566666655555432    011122356


Q ss_pred             HHHhcCCCHHHHHHHHHHHHHcC--CCCChhhHHHHHHHHHhcCCchHHHH
Q 035645          158 TMCGRGGRFVEAANYLMEMTEMG--LTPISRCFDLVTDGLKNCGKHDLAEK  206 (217)
Q Consensus       158 ~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~  206 (217)
                      ..|.+.|.+..|..-++.+.+.-  ..........++.+|.+.|..+.+..
T Consensus       149 ~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  149 RFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             HHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            77889999999999999988642  12233466788999999998885544

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.88  E-value=0.00044  Score=50.91  Aligned_cols=154  Identities=17%  Similarity=0.087  Sum_probs=106.6

Q ss_pred             CHHHHHHHHHHHhhCCCCCChh-hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHH
Q 035645           25 YLESAKQMVNKMIKQGSDPDLE-TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLL  103 (217)
Q Consensus        25 ~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  103 (217)
                      ....|.+.|+-.-+++..-|.. --.++.+++.-..++++++-.+..+... +.-|...--.+..+++..|.+.+|+++|
T Consensus       338 HlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn~N~AQAk~atgny~eaEelf  416 (557)
T KOG3785|consen  338 HLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFNLNLAQAKLATGNYVEAEELF  416 (557)
T ss_pred             HHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhhhHHHHHHHHhcChHHHHHHH
Confidence            4566777777666666555443 3446666777778899999888888765 3334444446788999999999999999


Q ss_pred             HHHHhCCCCCCcccH-HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHH-HHHHHHHhcCCCHHHHHHHHHHHHHcCC
Q 035645          104 HNLVEDGHNPFPSLY-APIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVY-TTLITMCGRGGRFVEAANYLMEMTEMGL  181 (217)
Q Consensus       104 ~~~~~~~~~~~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~a~~~~~~~~~~~~  181 (217)
                      -++....++ +..+| ..+.++|.+++.++.|++++-.+...   .+..+. -.+.+-|.+.+.+--|.+.|+.+...+.
T Consensus       417 ~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~---~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP  492 (557)
T KOG3785|consen  417 IRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNTP---SERFSLLQLIANDCYKANEFYYAAKAFDELEILDP  492 (557)
T ss_pred             hhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCCc---hhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC
Confidence            888765544 34455 45668889999999999988766432   122333 3344667788998888888888876554


Q ss_pred             CC
Q 035645          182 TP  183 (217)
Q Consensus       182 ~~  183 (217)
                      .|
T Consensus       493 ~p  494 (557)
T KOG3785|consen  493 TP  494 (557)
T ss_pred             Cc
Confidence            33

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.86  E-value=0.00037  Score=56.08  Aligned_cols=171  Identities=18%  Similarity=0.240  Sum_probs=95.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCH
Q 035645           17 VQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMI   96 (217)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~   96 (217)
                      +.+......|.+|+.+++.+..+.  .-..-|..+..-|+..|+++.|.++|-+.-         .++-.|..|.+.|+|
T Consensus       739 ieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccH
Confidence            444555677778888887776553  233446677778888888888888875432         255667788888888


Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHh----------cC-----------CCCC--HhHH
Q 035645           97 DEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKI----------KG-----------HPPN--RPVY  153 (217)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----------~~-----------~~~~--~~~~  153 (217)
                      +.|.++-.+....  ......|-.-..-.-++|++.+|.++|-.+..          .|           ..|+  ..|-
T Consensus       808 ~da~kla~e~~~~--e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~aiqmydk~~~~ddmirlv~k~h~d~l~dt~  885 (1636)
T KOG3616|consen  808 EDAFKLAEECHGP--EATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDKAIQMYDKHGLDDDMIRLVEKHHGDHLHDTH  885 (1636)
T ss_pred             HHHHHHHHHhcCc--hhHHHHHHHhHHhHHhhcchhhhhheeEEccCchHHHHHHHhhCcchHHHHHHHHhChhhhhHHH
Confidence            8887776654321  22233343333444444444444444321110          00           0111  1233


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHH
Q 035645          154 TTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQ  209 (217)
Q Consensus       154 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (217)
                      ..+..-+-..|+...|.+-|-+..         -|.+-+..|..++-|++|.++.+
T Consensus       886 ~~f~~e~e~~g~lkaae~~flea~---------d~kaavnmyk~s~lw~dayriak  932 (1636)
T KOG3616|consen  886 KHFAKELEAEGDLKAAEEHFLEAG---------DFKAAVNMYKASELWEDAYRIAK  932 (1636)
T ss_pred             HHHHHHHHhccChhHHHHHHHhhh---------hHHHHHHHhhhhhhHHHHHHHHh
Confidence            444445555566666655543322         25566666777777777776653

>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=97.84  E-value=0.0026  Score=41.56  Aligned_cols=72  Identities=17%  Similarity=0.306  Sum_probs=54.9

Q ss_pred             cHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHH-----HcCCCCChhhHH
Q 035645          117 LYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMT-----EMGLTPISRCFD  189 (217)
Q Consensus       117 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-----~~~~~~~~~~~~  189 (217)
                      +...++..+...|++++|..+...+.... +.+...|..+|.++...|+...|.+.|+.+.     +.|+.|+..+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            45567778889999999999999998773 4578899999999999999999999999886     469999887643

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.83  E-value=0.0061  Score=44.97  Aligned_cols=196  Identities=11%  Similarity=0.061  Sum_probs=144.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCC
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGM   95 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~   95 (217)
                      .+..+.-.|+...|+....++++-. +-|...+..-..+|...|++..|+.=+....+.. ..+..++..+-..+...|+
T Consensus       161 ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd  238 (504)
T KOG0624|consen  161 QLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGD  238 (504)
T ss_pred             HHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhh
Confidence            4455667799999999999998853 4588888999999999999999998887776542 3466777777888889999


Q ss_pred             HHHHHHHHHHHHhCCCCCCcccHH----HH---------HHHHHhcCChHHHHHHHHHHHhcCCCCCH---hHHHHHHHH
Q 035645           96 IDEAFRLLHNLVEDGHNPFPSLYA----PI---------IKGAFRRGQFDDAFCFFSEIKIKGHPPNR---PVYTTLITM  159 (217)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~----~l---------l~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~  159 (217)
                      .+.++...++.++.+  ||...+-    .+         +......++|.++.+-.+...+.......   ..+..+-.+
T Consensus       239 ~~~sL~~iRECLKld--pdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C  316 (504)
T KOG0624|consen  239 AENSLKEIRECLKLD--PDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTC  316 (504)
T ss_pred             HHHHHHHHHHHHccC--cchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeec
Confidence            999999888888763  5543211    11         22345667888888888877766433222   344455666


Q ss_pred             HhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          160 CGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +...+++.+|++...+..+.. +.|..++.-=..+|.-...++.|..=++.+.++++
T Consensus       317 ~~~d~~~~eAiqqC~evL~~d-~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~  372 (504)
T KOG0624|consen  317 YREDEQFGEAIQQCKEVLDID-PDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNE  372 (504)
T ss_pred             ccccCCHHHHHHHHHHHHhcC-chHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc
Confidence            778899999999999888753 23477888888888888889999888888777653

>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=97.81  E-value=0.00017  Score=40.49  Aligned_cols=61  Identities=21%  Similarity=0.244  Sum_probs=28.6

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcC-CHHHHHHHHHHHH
Q 035645           46 ETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAG-MIDEAFRLLHNLV  107 (217)
Q Consensus        46 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~  107 (217)
                      .+|..+...+...|++++|+..|++..+.. +.+...+..+..++.+.| ++++|...+++..
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            344444444555555555555555554432 113344444444455554 3555555554443

...

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=97.81  E-value=0.011  Score=47.21  Aligned_cols=200  Identities=12%  Similarity=0.085  Sum_probs=125.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC---hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC----------
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPD---LETFNSLIETICKSGEVEFCVEMYYSVCKLGSC----------   77 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----------   77 (217)
                      ..|..+...|-..|+++.|..+|++..+-..+.-   ..+|..-...=.+..+++.|+++.++.....-.          
T Consensus       388 ~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~  467 (835)
T KOG2047|consen  388 TLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSE  467 (835)
T ss_pred             hHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCC
Confidence            4588999999999999999999999987544322   345666666666778888899888776432111          


Q ss_pred             c-------chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH
Q 035645           78 A-------DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNR  150 (217)
Q Consensus        78 ~-------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~  150 (217)
                      |       +...|...++.--..|-++....+|+.+.+..+- ++...-.....+-.+.-++++.++|++-...=-.|+.
T Consensus       468 pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v  546 (835)
T KOG2047|consen  468 PVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNV  546 (835)
T ss_pred             cHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccH
Confidence            1       3455666667667778888888888888876543 2332222333344556677777777754443112332


Q ss_pred             -hHHHHHHHHHh---cCCCHHHHHHHHHHHHHcCCCCChhhHHHHH--HHHHhcCCchHHHHHHHHHh
Q 035645          151 -PVYTTLITMCG---RGGRFVEAANYLMEMTEMGLTPISRCFDLVT--DGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       151 -~~~~~li~~~~---~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~  212 (217)
                       ..|+..+.-+.   ..-.++.|..+|++..+ |.+|...-+--|+  .-=-+.|-...|..+++++.
T Consensus       547 ~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat  613 (835)
T KOG2047|consen  547 YDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERAT  613 (835)
T ss_pred             HHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence             45665554443   23467888888888888 5555443222121  11224567777777776654

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.80  E-value=0.0062  Score=44.59  Aligned_cols=93  Identities=17%  Similarity=0.162  Sum_probs=42.1

Q ss_pred             HHHHHHhc-CChHHHHHHHHHHHhc----CCCCC--HhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCC-----CCChh-h
Q 035645          121 IIKGAFRR-GQFDDAFCFFSEIKIK----GHPPN--RPVYTTLITMCGRGGRFVEAANYLMEMTEMGL-----TPISR-C  187 (217)
Q Consensus       121 ll~~~~~~-g~~~~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-----~~~~~-~  187 (217)
                      +...|... |+++.|.+.|.+..+.    | .+.  ..++..+...+.+.|++++|.++|++......     .++.. .
T Consensus       120 lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~  198 (282)
T PF14938_consen  120 LAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEY  198 (282)
T ss_dssp             HHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHH
Confidence            33444444 5566666666554321    2 111  23444555556666666666666666553221     11111 2


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          188 FDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      |-..+-++...|+...|.+.++...+.
T Consensus       199 ~l~a~l~~L~~~D~v~A~~~~~~~~~~  225 (282)
T PF14938_consen  199 FLKAILCHLAMGDYVAARKALERYCSQ  225 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHGTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            222333444456666666666655544

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.73  E-value=0.0091  Score=44.12  Aligned_cols=198  Identities=13%  Similarity=0.068  Sum_probs=123.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHH---HHHHHHhcCchhHHHHHHHHHHhcCCCcchhh-HHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNS---LIETICKSGEVEFCVEMYYSVCKLGSCADVST-YKI   85 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~---ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~   85 (217)
                      +.-.-.+...+...|++..|+.-|...++-    |+..|..   -...|...|+-.-|+.=+++..+  .+||-.. -..
T Consensus        38 vekhlElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~ARiQ  111 (504)
T KOG0624|consen   38 VEKHLELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAARIQ  111 (504)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHHHH
Confidence            344555677777888888888888888664    3333433   34566777777777777777776  4566432 223


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCC--c------------ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHh
Q 035645           86 LIPAVSKAGMIDEAFRLLHNLVEDGHNPF--P------------SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRP  151 (217)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~------------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  151 (217)
                      -...+.+.|.++.|..=|+..++.+..-.  .            ......+..+.-.|+...|+.....+.+- .+-|..
T Consensus       112 Rg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi-~~Wda~  190 (504)
T KOG0624|consen  112 RGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEI-QPWDAS  190 (504)
T ss_pred             hchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhc-CcchhH
Confidence            34456788888888888888876531110  0            11223344456677788888877777765 244667


Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          152 VYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       152 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      .+..-..+|...|++..|+.=++...+.. .-+..++-.+-..+..-|+.+.+....+.-..++
T Consensus       191 l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKld  253 (504)
T KOG0624|consen  191 LRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLD  253 (504)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccC
Confidence            77777778888888888877666655543 2233444455555666666666665554444443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.71  E-value=0.0028  Score=52.70  Aligned_cols=164  Identities=13%  Similarity=0.103  Sum_probs=87.6

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCcccHHHHHHH
Q 035645           46 ETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH-NPFPSLYAPIIKG  124 (217)
Q Consensus        46 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~  124 (217)
                      ..|..|...|...-+...|...|+...+..- .+........+.|.+..+++.|..+.-..-+... ..-...|...--.
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLDa-tdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELDA-TDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPY  571 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc-hhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccc
Confidence            3556666666665566666666666655321 2445556666667777777766666222111100 0001112222223


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHhcCCchH
Q 035645          125 AFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISR-CFDLVTDGLKNCGKHDL  203 (217)
Q Consensus       125 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~  203 (217)
                      |.+.++...|..-|+...... +-|...|..+..+|.+.|++..|.++|.+....  .|+.. .---..-.-+..|++++
T Consensus       572 yLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s~y~~fk~A~~ecd~GkYke  648 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLSKYGRFKEAVMECDNGKYKE  648 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHhHHHHHHHHHHHHHhhhHHH
Confidence            445566666666666655442 225667777777777777777777777766553  34332 11112222345667777


Q ss_pred             HHHHHHHHhh
Q 035645          204 AEKIEQLEVS  213 (217)
Q Consensus       204 a~~~~~~~~~  213 (217)
                      |...++++..
T Consensus       649 ald~l~~ii~  658 (1238)
T KOG1127|consen  649 ALDALGLIIY  658 (1238)
T ss_pred             HHHHHHHHHH
Confidence            7766665543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.69  E-value=0.015  Score=45.23  Aligned_cols=152  Identities=15%  Similarity=0.088  Sum_probs=101.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcch-hhHHHHHHHHHhcC
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADV-STYKILIPAVSKAG   94 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~   94 (217)
                      +..++.+.++++.++..|++.......|+.         ..+....+++....+...-.+  |.. .-...-...+.+.|
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~~~--pe~A~e~r~kGne~Fk~g  372 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRTPDL---------LSKLKEAEKALKEAERKAYIN--PEKAEEEREKGNEAFKKG  372 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHhhC--hhHHHHHHHHHHHHHhcc
Confidence            344566677788888888876554333222         233344555655555554432  322 22233366777889


Q ss_pred             CHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHH
Q 035645           95 MIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLM  174 (217)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  174 (217)
                      ++..|+..|.++.+.+ +-|...|....-+|.+.|.+..|+.--+...+.. ++....|.-=..++....++++|.+.|.
T Consensus       373 dy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~  450 (539)
T KOG0548|consen  373 DYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQ  450 (539)
T ss_pred             CHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999988886 6678889999999999999999888877777662 2234555555555666678888888888


Q ss_pred             HHHHcC
Q 035645          175 EMTEMG  180 (217)
Q Consensus       175 ~~~~~~  180 (217)
                      +-++.+
T Consensus       451 eale~d  456 (539)
T KOG0548|consen  451 EALELD  456 (539)
T ss_pred             HHHhcC
Confidence            877654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.68  E-value=0.0027  Score=45.79  Aligned_cols=95  Identities=13%  Similarity=0.073  Sum_probs=44.8

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhcCCCcch----hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCCcccHHHH
Q 035645           48 FNSLIETICKSGEVEFCVEMYYSVCKLGSCADV----STYKILIPAVSKAGMIDEAFRLLHNLVEDGH--NPFPSLYAPI  121 (217)
Q Consensus        48 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l  121 (217)
                      |...+....+.|++++|+..|+.+.+..  |+.    .++.-+..+|...|++++|...|+.+.+...  +.....+-.+
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            3333333344455555555555555432  221    3444555555555555555555555554310  1112233333


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhc
Q 035645          122 IKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus       122 l~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      ...+...|+.++|..+|+.+.+.
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            44455555566666665555544

>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=97.68  E-value=0.00078  Score=42.69  Aligned_cols=100  Identities=13%  Similarity=0.068  Sum_probs=53.2

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      |..++..+|.++++.|+.+....+++..-.-  .++...         ..+.         .-......|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI--~~~~~~---------~~~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGI--DVNGKK---------KEGD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCC--CCCCcc---------ccCc---------cCCCCCCCCCHHHHHHHHH
Confidence            3456666666777777766666666544321  111100         0000         1122334566666666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHh-CCCCCCcccHHHHHHHHHhc
Q 035645           89 AVSKAGMIDEAFRLLHNLVE-DGHNPFPSLYAPIIKGAFRR  128 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~  128 (217)
                      +|+..+++..|.++.+.+.+ .+++.+..+|..|++-+...
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence            66666666666666666553 25555555666666554433

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.67  E-value=0.0089  Score=43.16  Aligned_cols=101  Identities=14%  Similarity=0.130  Sum_probs=65.8

Q ss_pred             cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC---ChHHHHHHHHHHHhcCCCCCHhHHH
Q 035645           78 ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRG---QFDDAFCFFSEIKIKGHPPNRPVYT  154 (217)
Q Consensus        78 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~  154 (217)
                      -|...|-.|..+|...|+.+.|..-|....+.. .++...+..+..++....   ...++..+|+++..... -|+.+..
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~-~~iral~  231 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDP-ANIRALS  231 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCC-ccHHHHH
Confidence            366777777777777777777777777776653 334445555554443322   34567777777776532 2566666


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHcC
Q 035645          155 TLITMCGRGGRFVEAANYLMEMTEMG  180 (217)
Q Consensus       155 ~li~~~~~~g~~~~a~~~~~~~~~~~  180 (217)
                      .|...+...|++.+|...|+.|.+..
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            66677777777777777777777654

>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=97.65  E-value=0.0016  Score=41.24  Aligned_cols=51  Identities=8%  Similarity=0.092  Sum_probs=26.7

Q ss_pred             CCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHH-HcCCCCChhhHHHHHHHHH
Q 035645          146 HPPNRPVYTTLITMCGRGGRFVEAANYLMEMT-EMGLTPISRCFDLVTDGLK  196 (217)
Q Consensus       146 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~  196 (217)
                      ..|+..+..+++.+|+..|++..|.++.+.+. ..+++.+..+|..|++-..
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            34555555555555555555555555555554 2344444555555554443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.63  E-value=0.015  Score=43.88  Aligned_cols=75  Identities=11%  Similarity=0.072  Sum_probs=32.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCC---CCCChhhHHHHHHHHHh---cCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQG---SDPDLETFNSLIETICK---SGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~---~~~~~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ++-.|....+++...++.+.+....   +.-+...-....-++.+   .|+.++|++++..+....-.++..+|..+...
T Consensus       147 lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRI  226 (374)
T PF13281_consen  147 LLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRI  226 (374)
T ss_pred             HHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHH
Confidence            3334555555555555555554321   00011111122333334   55555555555553333334455555555544


Q ss_pred             H
Q 035645           90 V   90 (217)
Q Consensus        90 ~   90 (217)
                      |
T Consensus       227 y  227 (374)
T PF13281_consen  227 Y  227 (374)
T ss_pred             H
Confidence            4

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.62  E-value=0.0027  Score=45.81  Aligned_cols=86  Identities=17%  Similarity=0.110  Sum_probs=39.6

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCC----HhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCC--CCChhhHHHHHHHHHhcC
Q 035645          126 FRRGQFDDAFCFFSEIKIKGHPPN----RPVYTTLITMCGRGGRFVEAANYLMEMTEMGL--TPISRCFDLVTDGLKNCG  199 (217)
Q Consensus       126 ~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~  199 (217)
                      .+.|++++|...|+.+.+..  |+    ...+-.+..+|...|++++|...|+.+.+.-.  ......+..+..++...|
T Consensus       154 ~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g  231 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKG  231 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcC
Confidence            34455555555555554431  11    13344444555555555555555555543210  111223333444454555


Q ss_pred             CchHHHHHHHHHhh
Q 035645          200 KHDLAEKIEQLEVS  213 (217)
Q Consensus       200 ~~~~a~~~~~~~~~  213 (217)
                      +.+.|.++++...+
T Consensus       232 ~~~~A~~~~~~vi~  245 (263)
T PRK10803        232 DTAKAKAVYQQVIK  245 (263)
T ss_pred             CHHHHHHHHHHHHH
Confidence            55555555554443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.62  E-value=0.014  Score=43.35  Aligned_cols=111  Identities=17%  Similarity=0.165  Sum_probs=78.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMC  160 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  160 (217)
                      .+.+..+.-+...|+...|.++-.+..    .|+..-|...+.+++..++|++-..+-..      +-++.-|..++.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHH
Confidence            345556667777888888877766663    46777888888999999999887765432      12347788888888


Q ss_pred             hcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          161 GRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       161 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      ...|+..+|..+...+          .+..-+..|.++|++.+|.+.....
T Consensus       248 ~~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHHc
Confidence            8888888888887651          2245667777788888777664433

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

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.61  E-value=0.011  Score=43.89  Aligned_cols=112  Identities=17%  Similarity=0.227  Sum_probs=86.4

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHH
Q 035645           46 ETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGA  125 (217)
Q Consensus        46 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  125 (217)
                      .+.+..+.-+...|+...|.++-.+..    .|+...|...+.+++..++|++...+-..      .-++..|-.++.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHH
Confidence            455666777788899888888765552    37999999999999999999987765432      22457899999999


Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645          126 FRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus       126 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      .+.|+..+|..+...+          .+..-+..|.+.|++.+|.+.-.+..
T Consensus       248 ~~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~~k  289 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFKEK  289 (319)
T ss_pred             HHCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHHcC
Confidence            9999999999888762          23566788889999999987765443

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

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.61  E-value=0.0066  Score=49.87  Aligned_cols=193  Identities=15%  Similarity=0.126  Sum_probs=108.9

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhh-CC--------CCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIK-QG--------SDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD   79 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-~~--------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~   79 (217)
                      +...|..+...|.+..+++-|.-.+..|.. +|        -.|+ .+=.-..-...+.|-+++|..+|.+.++      
T Consensus       756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR------  828 (1416)
T KOG3617|consen  756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR------  828 (1416)
T ss_pred             hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH------
Confidence            345688888888888877777766666643 11        1111 1112222233456677777777766654      


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH----------hcC----
Q 035645           80 VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIK----------IKG----  145 (217)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~----------~~~----  145 (217)
                         |..|=..|...|+|++|.++-+.--...   -..||..-..-+-..++.+.|++.|++..          ...    
T Consensus       829 ---~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~  902 (1416)
T KOG3617|consen  829 ---YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQI  902 (1416)
T ss_pred             ---HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHH
Confidence               3344445666677777766544221111   12345555555555666666666665421          110    


Q ss_pred             -----CCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHc----------C----------CCCChhhHHHHHHHHHhcCC
Q 035645          146 -----HPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEM----------G----------LTPISRCFDLVTDGLKNCGK  200 (217)
Q Consensus       146 -----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----------~----------~~~~~~~~~~l~~~~~~~~~  200 (217)
                           -..|...|.--.+.+-..|+.+.|+.++....+.          |          -.-|....-.|.+.|...|+
T Consensus       903 e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~fs~VrI~C~qGk~~kAa~iA~esgd~AAcYhlaR~YEn~g~  982 (1416)
T KOG3617|consen  903 EQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDYFSMVRIKCIQGKTDKAARIAEESGDKAACYHLARMYENDGD  982 (1416)
T ss_pred             HHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhhhhheeeEeeccCchHHHHHHHhcccHHHHHHHHHHhhhhHH
Confidence                 1124445555555555667777776666654421          1          02245566678888888999


Q ss_pred             chHHHHHHHHHhhh
Q 035645          201 HDLAEKIEQLEVSL  214 (217)
Q Consensus       201 ~~~a~~~~~~~~~~  214 (217)
                      +.+|..+|-++...
T Consensus       983 v~~Av~FfTrAqaf  996 (1416)
T KOG3617|consen  983 VVKAVKFFTRAQAF  996 (1416)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99998888776543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.58  E-value=0.006  Score=43.34  Aligned_cols=155  Identities=17%  Similarity=0.072  Sum_probs=96.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHH
Q 035645           18 QGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMID   97 (217)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~   97 (217)
                      ..+......+...+.|++=.       ...-+.++.++.-.+.+.-...++.+.++...+.++.....|.+.-.+.|+.+
T Consensus       157 ~~~e~~~~~ESsv~lW~KRl-------~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k  229 (366)
T KOG2796|consen  157 ANLEQGLAEESSIRLWRKRL-------GRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIK  229 (366)
T ss_pred             HHHHhccchhhHHHHHHHHH-------HHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHH
Confidence            33333333466666666543       22345566666667777788888888877665666777777777778888888


Q ss_pred             HHHHHHHHHHhCCCCCCcccHHHHH-----HHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHH
Q 035645           98 EAFRLLHNLVEDGHNPFPSLYAPII-----KGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANY  172 (217)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll-----~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  172 (217)
                      .|...|++..+..-..+..+.+.++     ..+.-.+++-.|...+.+....+- -|+...|.-.-++.-.|+..+|.+.
T Consensus       230 ~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~-~~~~a~NnKALcllYlg~l~DAiK~  308 (366)
T KOG2796|consen  230 TAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDP-RNAVANNNKALCLLYLGKLKDALKQ  308 (366)
T ss_pred             HHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCC-CchhhhchHHHHHHHHHHHHHHHHH
Confidence            8888888766554444444444433     334455667777777776665432 2344444444444456778888888


Q ss_pred             HHHHHHcC
Q 035645          173 LMEMTEMG  180 (217)
Q Consensus       173 ~~~~~~~~  180 (217)
                      ++.+....
T Consensus       309 ~e~~~~~~  316 (366)
T KOG2796|consen  309 LEAMVQQD  316 (366)
T ss_pred             HHHHhccC
Confidence            88877654

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.58  E-value=0.0091  Score=43.11  Aligned_cols=103  Identities=13%  Similarity=0.007  Sum_probs=84.2

Q ss_pred             CCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhc---CCCHHHHHHHHHHHHHcCCCCChhhH
Q 035645          112 NPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGR---GGRFVEAANYLMEMTEMGLTPISRCF  188 (217)
Q Consensus       112 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~  188 (217)
                      +-|...|..|-.+|...|+.+.|..-|....+. ..++...+..+..++..   .....++..+|++....+ +-|..+.
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 PGDAEGWDLLGRAYMALGRASDALLAYRNALRL-AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            567889999999999999999999999998775 23456666666665543   234578999999999865 4567788


Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          189 DLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ..|...+...|++.+|...|+.|.++-|
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp  258 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLP  258 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCC
Confidence            8899999999999999999999988754

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.56  E-value=0.0013  Score=37.23  Aligned_cols=21  Identities=14%  Similarity=0.317  Sum_probs=8.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHH
Q 035645          121 IIKGAFRRGQFDDAFCFFSEI  141 (217)
Q Consensus       121 ll~~~~~~g~~~~a~~~~~~~  141 (217)
                      ....+.+.|++++|.+.+...
T Consensus        35 ~a~~~~~~g~~~~A~~~l~~~   55 (73)
T PF13371_consen   35 RARCLFQLGRYEEALEDLERA   55 (73)
T ss_pred             HHHHHHHhccHHHHHHHHHHH
Confidence            333333333333333333333

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.51  E-value=0.013  Score=48.29  Aligned_cols=187  Identities=12%  Similarity=0.080  Sum_probs=130.4

Q ss_pred             ChhhHHHHHH--HHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc-C--------CC
Q 035645            9 PVRGRDLLVQ--GLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL-G--------SC   77 (217)
Q Consensus         9 ~~~~~~~ll~--~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~--------~~   77 (217)
                      |..|-..+++  .|..-|+.+.|.+-++-++      +...|..+.++|.+.++++-|.-.+-.|... |        -.
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~  798 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQN  798 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhC
Confidence            3344444444  3556789999988877664      5678999999999999999888777666432 1        11


Q ss_pred             cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHH
Q 035645           78 ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLI  157 (217)
Q Consensus        78 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  157 (217)
                      |+ .+=..+.-.....|.+++|..+|++-+..         ..|=+.|...|.|++|.++-+.=-.   .--..||....
T Consensus       799 ~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DR---iHLr~Tyy~yA  865 (1416)
T KOG3617|consen  799 GE-EDEAKVAVLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDR---IHLRNTYYNYA  865 (1416)
T ss_pred             Cc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccc---eehhhhHHHHH
Confidence            22 22233444456889999999999988753         3455677889999999998763211   11235777777


Q ss_pred             HHHhcCCCHHHHHHHHHHHH----------HcC---------CCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          158 TMCGRGGRFVEAANYLMEMT----------EMG---------LTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       158 ~~~~~~g~~~~a~~~~~~~~----------~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      .-+-..++.+.|++.|++..          ...         -..|...|..-.+.+...|+.+.|..++..+.+.
T Consensus       866 ~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~  941 (1416)
T KOG3617|consen  866 KYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDY  941 (1416)
T ss_pred             HHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhh
Confidence            77778888888888887532          111         1236677888888888899999999998887654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.46  E-value=0.019  Score=40.90  Aligned_cols=132  Identities=13%  Similarity=0.049  Sum_probs=65.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHH-----H
Q 035645           83 YKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTL-----I  157 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l-----i  157 (217)
                      .+.++..+.-.+.+.-....+++..+.+.+.++.....+.+...+.|+.+.|...|+...+..-..|..+++.+     .
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            44555555555666666666666665544444555555556666666666666666655433222222222222     2


Q ss_pred             HHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          158 TMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       158 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      ..+.-++++-.|...+.++...+ ..|....+.=.-+..-.|+...|.+..+.+++..
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~  316 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQD  316 (366)
T ss_pred             hheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            23344555556666665555433 1222222222223333455666666665555543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.46  E-value=0.00075  Score=38.26  Aligned_cols=63  Identities=14%  Similarity=0.151  Sum_probs=50.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhh
Q 035645          122 IKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRC  187 (217)
Q Consensus       122 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  187 (217)
                      -..|.+.+++++|.++++.+...+ +.+...+.....++...|++++|.+.|+...+.+  |+...
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~--p~~~~   64 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALELS--PDDPD   64 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC--CCcHH
Confidence            356788999999999999998874 3367788888889999999999999999988764  54443

>PRK15331 chaperone protein SicA; Provisional

Probab=97.41  E-value=0.015  Score=38.41  Aligned_cols=91  Identities=8%  Similarity=-0.078  Sum_probs=63.9

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCh
Q 035645           52 IETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQF  131 (217)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~  131 (217)
                      ..-+...|++++|..+|..+.-.++. +..-+..|..++-..+++++|...|......+ .-|+..+-..-.++...|+.
T Consensus        44 Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCH
Confidence            33455678888888888887654332 45556677777777888888888888766544 23444455567778888888


Q ss_pred             HHHHHHHHHHHhc
Q 035645          132 DDAFCFFSEIKIK  144 (217)
Q Consensus       132 ~~a~~~~~~~~~~  144 (217)
                      +.|...|......
T Consensus       122 ~~A~~~f~~a~~~  134 (165)
T PRK15331        122 AKARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHHHhC
Confidence            8888888877763

>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=97.38  E-value=0.00095  Score=38.41  Aligned_cols=60  Identities=18%  Similarity=0.290  Sum_probs=27.7

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhc----CC-Ccc-hhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKL----GS-CAD-VSTYKILIPAVSKAGMIDEAFRLLHNL  106 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~  106 (217)
                      +++.+...|...|++++|+..|++..+.    |- .|+ ..+++.+..++...|++++|.+.+++.
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444455555555555555555544321    10 011 234555555555555555555555543

...

>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=97.36  E-value=0.00082  Score=38.68  Aligned_cols=64  Identities=19%  Similarity=0.272  Sum_probs=35.6

Q ss_pred             hHHHHHHHHHhcCCCHHHHHHHHHHHHHc----CC-CCC-hhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          151 PVYTTLITMCGRGGRFVEAANYLMEMTEM----GL-TPI-SRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       151 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      .+++.+...|...|++++|.+.|++..+.    |- .|+ ..++..+..++...|++++|.+.++...++
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            45555666666666666666666655521    11 111 345666666666666666666666665543

...

>PRK15331 chaperone protein SicA; Provisional

Probab=97.34  E-value=0.0091  Score=39.38  Aligned_cols=95  Identities=11%  Similarity=-0.026  Sum_probs=76.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      .-.....+...|++++|..+|.-+.-.++. +..-|..|..++-..+++++|+..|......+. -|...+--...++..
T Consensus        40 iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~  117 (165)
T PRK15331         40 LYAHAYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLL  117 (165)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHH
Confidence            344555667889999999999999876533 666778888889999999999999988765443 355566777889999


Q ss_pred             cCCHHHHHHHHHHHHhC
Q 035645           93 AGMIDEAFRLLHNLVED  109 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~  109 (217)
                      .|+.+.|...|....+.
T Consensus       118 l~~~~~A~~~f~~a~~~  134 (165)
T PRK15331        118 MRKAAKARQCFELVNER  134 (165)
T ss_pred             hCCHHHHHHHHHHHHhC
Confidence            99999999999988773

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.31  E-value=0.0034  Score=45.01  Aligned_cols=91  Identities=14%  Similarity=0.120  Sum_probs=70.7

Q ss_pred             CCCChhhHHHHHHHHHhc-----CCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC----------------chhHH
Q 035645            6 FNPPVRGRDLLVQGLLNA-----GYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSG----------------EVEFC   64 (217)
Q Consensus         6 ~~~~~~~~~~ll~~~~~~-----g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----------------~~~~a   64 (217)
                      -+.|..+|-..+..+...     +.++-....++.|.+.|++-|..+|+.|++.+-+..                +-+=+
T Consensus        63 ~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~  142 (406)
T KOG3941|consen   63 EKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCA  142 (406)
T ss_pred             ccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHH
Confidence            345667777777777654     667778888888999999999999999998865432                12237


Q ss_pred             HHHHHHHHhcCCCcchhhHHHHHHHHHhcCCH
Q 035645           65 VEMYYSVCKLGSCADVSTYKILIPAVSKAGMI   96 (217)
Q Consensus        65 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~   96 (217)
                      +.++++|...|+.||..+-..+++++.+.+..
T Consensus       143 I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  143 IKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            88889999999999999999999999887654

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.26  E-value=0.0037  Score=44.82  Aligned_cols=90  Identities=13%  Similarity=0.171  Sum_probs=60.2

Q ss_pred             CcchhhHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC----------------ChHHHH
Q 035645           77 CADVSTYKILIPAVSKA-----GMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRG----------------QFDDAF  135 (217)
Q Consensus        77 ~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g----------------~~~~a~  135 (217)
                      ..|..+|-..+..+...     +.++-....++.|.+.|+.-|..+|+.|+..+-+-.                +-+-+.
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            45677777777777553     556777777788888888888888888888764332                123355


Q ss_pred             HHHHHHHhcCCCCCHhHHHHHHHHHhcCCCH
Q 035645          136 CFFSEIKIKGHPPNRPVYTTLITMCGRGGRF  166 (217)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  166 (217)
                      .++++|...|+.||-.+-..+++++.+.+..
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            6666666666666666666666666665543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.22  E-value=0.013  Score=44.98  Aligned_cols=63  Identities=14%  Similarity=0.072  Sum_probs=35.7

Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcch----hhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 035645           45 LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADV----STYKILIPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        45 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      ...++.+..+|.+.|++++|+..|++..+.  .|+.    .+|..+..+|...|+.++|...+++..+.
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345555666666666666666666665553  2332    23556666666666666666666655543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.18  E-value=0.034  Score=37.62  Aligned_cols=134  Identities=17%  Similarity=0.115  Sum_probs=87.6

Q ss_pred             CCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCcccHH
Q 035645           41 SDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHN-PFPSLYA  119 (217)
Q Consensus        41 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~  119 (217)
                      ..|+...--.|..+..+.|+..+|...|++...--+-.|....-.+..+....+++-.|...++.+.+.+.. -++.+.-
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            356666666777788888888888888887766545556677777777777788888888888877765411 1233445


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHH
Q 035645          120 PIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEM  176 (217)
Q Consensus       120 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  176 (217)
                      .+.+.+...|.+..|+.-|+.....  -|+...-......+.+.|+.+++..-+..+
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            5667778888888888888877765  344333333334455666666555444443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.17  E-value=0.048  Score=42.04  Aligned_cols=65  Identities=9%  Similarity=0.059  Sum_probs=57.2

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCh----hhHHHHHHHHHhcCchhHHHHHHHHHHhc
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDL----ETFNSLIETICKSGEVEFCVEMYYSVCKL   74 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   74 (217)
                      .+...|+.+..+|.+.|++++|+..|++.++.  .|+.    .+|..+..+|...|+.++|+..+++..+.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            35678999999999999999999999999886  4553    46999999999999999999999999874

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.16  E-value=0.07  Score=42.14  Aligned_cols=163  Identities=17%  Similarity=0.199  Sum_probs=108.6

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhc-CCCcc-----hhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCcccH
Q 035645           49 NSLIETICKSGEVEFCVEMYYSVCKL-GSCAD-----VSTYKILIPAVSK----AGMIDEAFRLLHNLVEDGHNPFPSLY  118 (217)
Q Consensus        49 ~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~-----~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  118 (217)
                      ..+++..+-.|+-+.+++.+.+..+. ++...     ..+|+..+..++.    ....+.|.+++..+.+.  -|+...|
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lf  269 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALF  269 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHH
Confidence            34555566788999999998877543 22221     2345555544443    45678899999999876  5776655


Q ss_pred             HHH-HHHHHhcCChHHHHHHHHHHHhcC---CCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 035645          119 API-IKGAFRRGQFDDAFCFFSEIKIKG---HPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDG  194 (217)
Q Consensus       119 ~~l-l~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  194 (217)
                      ... .+.+...|++++|.+.|+......   .+.....+--+.-.+.-.++|++|.+.|..+.+.. ..+..+|..+.-+
T Consensus       270 l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~  348 (468)
T PF10300_consen  270 LFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAA  348 (468)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHH
Confidence            433 356778899999999999765321   11223444556666788999999999999999754 3455555544433


Q ss_pred             -HHhcCCc-------hHHHHHHHHHhhh
Q 035645          195 -LKNCGKH-------DLAEKIEQLEVSL  214 (217)
Q Consensus       195 -~~~~~~~-------~~a~~~~~~~~~~  214 (217)
                       +...|+.       ++|.+++.....+
T Consensus       349 c~~~l~~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  349 CLLMLGREEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             HHHhhccchhhhhhHHHHHHHHHHHHHH
Confidence             4457777       7888888776654

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=97.15  E-value=0.057  Score=39.80  Aligned_cols=132  Identities=7%  Similarity=0.082  Sum_probs=85.5

Q ss_pred             hhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh--cC----CHHHHHHHHHHHHhCCCC---CCcccHHHHHHHHHhcCC-
Q 035645           61 VEFCVEMYYSVCKLGSCADVSTYKILIPAVSK--AG----MIDEAFRLLHNLVEDGHN---PFPSLYAPIIKGAFRRGQ-  130 (217)
Q Consensus        61 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~~~---~~~~~~~~ll~~~~~~g~-  130 (217)
                      +++.+.+++.|.+.|+..+..+|-+.......  ..    ...+|..+|+.|++...-   ++..++..++..  ...+ 
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            45677788999999998888777664444443  22    345788999999987432   333455555444  3333 


Q ss_pred             ---hHHHHHHHHHHHhcCCCCC--HhHHHHHHHHHhcCCC--HHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 035645          131 ---FDDAFCFFSEIKIKGHPPN--RPVYTTLITMCGRGGR--FVEAANYLMEMTEMGLTPISRCFDLVTDG  194 (217)
Q Consensus       131 ---~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  194 (217)
                         .+.++.+|+.+.+.|+..+  ....+.++........  ...+.++++.+.+.|+++....|..+.-.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHH
Confidence               4567888888888777654  2344444444333333  34788888899999988877777655433

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.15  E-value=0.045  Score=38.62  Aligned_cols=194  Identities=14%  Similarity=0.134  Sum_probs=117.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCh------hhHHHHHHHHHhcCchhHHHHHHHHHH----hcCCCcch
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDL------ETFNSLIETICKSGEVEFCVEMYYSVC----KLGSCADV   80 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~------~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~~~~   80 (217)
                      ..|.....+|....++++|...+.+..+- .+-+.      ..|...+...-+...+.++..++++..    +.| .|+.
T Consensus        32 s~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhAAKayEqaamLake~~klsEvvdl~eKAs~lY~E~G-spdt  109 (308)
T KOG1585|consen   32 SLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHAAKAYEQAAMLAKELSKLSEVVDLYEKASELYVECG-SPDT  109 (308)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhC-Ccch
Confidence            44667777888899999999988776531 12122      234444444555666777777777653    333 3444


Q ss_pred             hhH--HHHHHHHHhcCCHHHHHHHHHHHHhC---CCC--CCcccHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC
Q 035645           81 STY--KILIPAVSKAGMIDEAFRLLHNLVED---GHN--PFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK----GHPPN  149 (217)
Q Consensus        81 ~~~--~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~~  149 (217)
                      ..-  ..-. -..+..++++|+.+|++....   +-.  --...+..+-+.+.+...+++|-..+.+-...    .--++
T Consensus       110 AAmaleKAa-k~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~  188 (308)
T KOG1585|consen  110 AAMALEKAA-KALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNS  188 (308)
T ss_pred             HHHHHHHHH-HHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhccc
Confidence            321  1111 133456778888888775432   100  11223555666777777787776665543221    01122


Q ss_pred             -HhHHHHHHHHHhcCCCHHHHHHHHHHHHHc---CCCCChhhHHHHHHHHHhcCCchHHHHHH
Q 035645          150 -RPVYTTLITMCGRGGRFVEAANYLMEMTEM---GLTPISRCFDLVTDGLKNCGKHDLAEKIE  208 (217)
Q Consensus       150 -~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (217)
                       -..|-..|-.+....++..|.+.++.-.+.   .-.-+..+...|+.+| ..|+.+++.++.
T Consensus       189 ~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  189 QCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence             234666666777888999999999885432   2233566888889888 568899888876

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.15  E-value=0.082  Score=41.59  Aligned_cols=151  Identities=9%  Similarity=0.063  Sum_probs=115.2

Q ss_pred             HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCc-chhhHHHHHHHHHhcCCHHHHHHHHH
Q 035645           26 LESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCA-DVSTYKILIPAVSKAGMIDEAFRLLH  104 (217)
Q Consensus        26 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~  104 (217)
                      .+.....+++++..-..--..+|...|+...+..-...|..+|.+..+.+..+ ++.+.++++.-+| .++.+-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHH
Confidence            55666777777653222234467888888888888999999999998877777 6677778887665 467889999998


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--HhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          105 NLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN--RPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       105 ~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      --++.- ..++.--...+..+...++-..+..+|+.....+++|+  ...|..+|.--+.-|+...+.++-+++..
T Consensus       426 LGLkkf-~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  426 LGLKKF-GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHhc-CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            765542 22333345678888999999999999999998877666  47999999999999999999888877653

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=97.11  E-value=0.032  Score=36.14  Aligned_cols=86  Identities=17%  Similarity=0.093  Sum_probs=44.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      ...++..+.+.+.+.....+++.+...+. .+...++.++..|++.+ ....++.++.      .++.......+..|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHH
Confidence            34555566666666666666666665542 45556666666666543 2222233221      1223333445555555


Q ss_pred             cCCHHHHHHHHHHH
Q 035645           93 AGMIDEAFRLLHNL  106 (217)
Q Consensus        93 ~~~~~~a~~~~~~~  106 (217)
                      .+.++++.-++.++
T Consensus        82 ~~l~~~~~~l~~k~   95 (140)
T smart00299       82 AKLYEEAVELYKKD   95 (140)
T ss_pred             cCcHHHHHHHHHhh
Confidence            55555555555443

>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=97.03  E-value=0.022  Score=44.36  Aligned_cols=156  Identities=14%  Similarity=0.128  Sum_probs=86.5

Q ss_pred             HHHhcCCHHHHHHHHHHHh-hCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHH
Q 035645           19 GLLNAGYLESAKQMVNKMI-KQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMID   97 (217)
Q Consensus        19 ~~~~~g~~~~a~~~~~~m~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~   97 (217)
                      ...-.|+++.+.++.+.-. -..+  .....+.++..+-+.|..+.|+++-..-.            .-.....+.|+++
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~  335 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLPNI--PKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLD  335 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HH
T ss_pred             HHHHcCChhhhhhhhhhhhhcccC--ChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHH
Confidence            4455688888777775211 1112  24557788888888888888887743321            2233455677777


Q ss_pred             HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645           98 EAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      .|.++.++.      .+...|..|.....+.|+++.|.+.|.+..         -|..|+-.|...|+.+...++.+...
T Consensus       336 ~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~  400 (443)
T PF04053_consen  336 IALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAE  400 (443)
T ss_dssp             HHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHH
Confidence            777664322      255677777777778888888877777543         24555566666777777666666666


Q ss_pred             HcCCCCChhhHHHHHHHHHhcCCchHHHHHHH
Q 035645          178 EMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQ  209 (217)
Q Consensus       178 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (217)
                      ..|-      ++....++.-.|+.++..+++.
T Consensus       401 ~~~~------~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  401 ERGD------INIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             HTT-------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             HccC------HHHHHHHHHHcCCHHHHHHHHH
Confidence            5552      2333444444455555555554

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.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.97  E-value=0.056  Score=36.61  Aligned_cols=127  Identities=13%  Similarity=0.102  Sum_probs=97.7

Q ss_pred             CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcC---CCCCHhH
Q 035645           76 SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG---HPPNRPV  152 (217)
Q Consensus        76 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~  152 (217)
                      .-|+..---.|..++.+.|+..+|...|++...--.-.|....-.+.++....+++..|...++.+-+..   -.||  +
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~  162 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--G  162 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--c
Confidence            4577777778999999999999999999998865455677778888899999999999999999987652   3344  4


Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHH
Q 035645          153 YTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEK  206 (217)
Q Consensus       153 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  206 (217)
                      .-.+...+...|++.+|...|+.....  .|+...-..-...+.+.|+.+++..
T Consensus       163 ~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         163 HLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             hHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHH
Confidence            456678889999999999999988875  4555544444555667776665543

>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=96.94  E-value=0.045  Score=42.69  Aligned_cols=132  Identities=17%  Similarity=0.132  Sum_probs=94.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      ...+.++..+.+.|..+.|+++.+.-.            .-.....+.|+++.|.++-++.      .+...|..|.+..
T Consensus       296 ~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~A  357 (443)
T PF04053_consen  296 DQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDIALEIAKEL------DDPEKWKQLGDEA  357 (443)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHH
Confidence            347888888888999999888754432            2355667788888888775433      3667899999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHH
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAA  170 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  170 (217)
                      .+.|+++-|.+.|.+..         -+..|+-.|.-.|+.+...++.+.....|-      ++....++.-.|+.+++.
T Consensus       358 L~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv  422 (443)
T PF04053_consen  358 LRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECV  422 (443)
T ss_dssp             HHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHH
T ss_pred             HHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHH
Confidence            99999999999988654         256777888889998888888877776642      555566666778888888


Q ss_pred             HHHHH
Q 035645          171 NYLME  175 (217)
Q Consensus       171 ~~~~~  175 (217)
                      +++.+
T Consensus       423 ~lL~~  427 (443)
T PF04053_consen  423 DLLIE  427 (443)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77753

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.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.89  E-value=0.053  Score=35.01  Aligned_cols=82  Identities=16%  Similarity=0.102  Sum_probs=54.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCC--CCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGS--DPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      +-.-.....+.|+++.|.+.|+.+..+-.  +-...+--.++.+|.+.+++++|...+++.++........-|-..+.++
T Consensus        13 ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL   92 (142)
T PF13512_consen   13 LYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGL   92 (142)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHH
Confidence            33344455577899999999998887521  2244556678888889999999999999888765433334455555555


Q ss_pred             HhcC
Q 035645           91 SKAG   94 (217)
Q Consensus        91 ~~~~   94 (217)
                      +...
T Consensus        93 ~~~~   96 (142)
T PF13512_consen   93 SYYE   96 (142)
T ss_pred             HHHH
Confidence            4433

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.83  E-value=0.097  Score=37.22  Aligned_cols=79  Identities=15%  Similarity=0.105  Sum_probs=47.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCC--CCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQG--SDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      .|+.-+. -.+.|++++|...|+.+.++.  -+-...+--.++.++.+.+++++|+...++..+.........|-..|.+
T Consensus        37 LY~~g~~-~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Ylkg  115 (254)
T COG4105          37 LYNEGLT-ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKG  115 (254)
T ss_pred             HHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHH
Confidence            3444433 346788888888888887642  1223445556667777888888888888877664332222334444444


Q ss_pred             HH
Q 035645           90 VS   91 (217)
Q Consensus        90 ~~   91 (217)
                      ++
T Consensus       116 Ls  117 (254)
T COG4105         116 LS  117 (254)
T ss_pred             HH
Confidence            43

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.82  E-value=0.12  Score=38.15  Aligned_cols=150  Identities=11%  Similarity=0.126  Sum_probs=92.4

Q ss_pred             HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh--cC----chhHHHHHHHHHHhcCCC---cchhhHHHHHHHHHhcCCH
Q 035645           26 LESAKQMVNKMIKQGSDPDLETFNSLIETICK--SG----EVEFCVEMYYSVCKLGSC---ADVSTYKILIPAVSKAGMI   96 (217)
Q Consensus        26 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~~~---~~~~~~~~ll~~~~~~~~~   96 (217)
                      +++...+++.|.+.|+.-+..+|-+.......  ..    ....|..+|+.|++....   ++...+..++..  ..++.
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            55677889999999998888776654333333  22    345799999999876432   234455555443  44443


Q ss_pred             ----HHHHHHHHHHHhCCCCCCcc--cHHHHHHHHHhcCC--hHHHHHHHHHHHhcCCCCCHhHHHHHHHHH-hcCCC--
Q 035645           97 ----DEAFRLLHNLVEDGHNPFPS--LYAPIIKGAFRRGQ--FDDAFCFFSEIKIKGHPPNRPVYTTLITMC-GRGGR--  165 (217)
Q Consensus        97 ----~~a~~~~~~~~~~~~~~~~~--~~~~ll~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~--  165 (217)
                          +.+..+|+.+.+.|+..+..  ....++..+.....  ...+.+++..+.+.|+++....|..+.-.. ...+.  
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~~  235 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEEK  235 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCchHH
Confidence                56778888898877665432  33333333333333  347888999999999998887777664333 23333  


Q ss_pred             -HHHHHHHHHHHH
Q 035645          166 -FVEAANYLMEMT  177 (217)
Q Consensus       166 -~~~a~~~~~~~~  177 (217)
                       .+...++.+.+.
T Consensus       236 ~~~~i~ev~~~L~  248 (297)
T PF13170_consen  236 IVEEIKEVIDELK  248 (297)
T ss_pred             HHHHHHHHHHHHh
Confidence             334444444444

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.82  E-value=0.18  Score=40.16  Aligned_cols=162  Identities=13%  Similarity=0.099  Sum_probs=102.3

Q ss_pred             hHHHHHHHHHhcC--chhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHH--------HHHhCCCCCCcc
Q 035645           47 TFNSLIETICKSG--EVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLH--------NLVEDGHNPFPS  116 (217)
Q Consensus        47 ~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~  116 (217)
                      .+.+++..+.+..  .+..+.+++...-+....-...+--..+......|+++.|.+++.        .+.+.+..  +.
T Consensus       341 ~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~--P~  418 (652)
T KOG2376|consen  341 LFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHL--PG  418 (652)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccC--hh
Confidence            3444554443322  356666666666543222234556667777888899999998888        44444433  34


Q ss_pred             cHHHHHHHHHhcCChHHHHHHHHHHHhcC--CCCCH----hHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHH
Q 035645          117 LYAPIIKGAFRRGQFDDAFCFFSEIKIKG--HPPNR----PVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDL  190 (217)
Q Consensus       117 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (217)
                      +...+...+.+.++-+.|..++.+.....  ..+..    .++..+...-.+.|+.++|...++++.+.. ++|..+...
T Consensus       419 ~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~  497 (652)
T KOG2376|consen  419 TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQ  497 (652)
T ss_pred             HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHH
Confidence            55667777778888777777777765431  11222    233333334456789999999999988865 578888888


Q ss_pred             HHHHHHhcCCchHHHHHHHHHh
Q 035645          191 VTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      ++.+|++. +.+.|+.+-+.+.
T Consensus       498 lV~a~~~~-d~eka~~l~k~L~  518 (652)
T KOG2376|consen  498 LVTAYARL-DPEKAESLSKKLP  518 (652)
T ss_pred             HHHHHHhc-CHHHHHHHhhcCC
Confidence            88888764 5666666655443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.81  E-value=0.078  Score=39.32  Aligned_cols=151  Identities=9%  Similarity=-0.046  Sum_probs=83.7

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc---CCCcchhhHHHHHHHHHhcCCHHHH
Q 035645           23 AGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL---GSCADVSTYKILIPAVSKAGMIDEA   99 (217)
Q Consensus        23 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~ll~~~~~~~~~~~a   99 (217)
                      .|++.+|-..++++... .+.|...+...=.+|.-.|+.+.-...++++...   +++-....-..+.-++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            35555555666666554 4446666666666777777777777777666532   1111122223344445566777777


Q ss_pred             HHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCC---CCHhHHHHHHHHHhcCCCHHHHHHHHHH
Q 035645          100 FRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHP---PNRPVYTTLITMCGRGGRFVEAANYLME  175 (217)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~  175 (217)
                      ++.-++..+.+ +.|.-.-.+....+--.|++.++.++..+-...--.   .-...|=...-.+...+.++.|.++|+.
T Consensus       195 Ek~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  195 EKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            77777766655 445555556666666677777777666543322110   0112222233344555777777777754

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.80  E-value=0.15  Score=39.45  Aligned_cols=128  Identities=14%  Similarity=0.146  Sum_probs=81.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCC-CCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhh-HHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQG-SDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVST-YKILIPA   89 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~ll~~   89 (217)
                      .|...|....+..-++.|..+|-+..+.| ..+++..+++++..++. |+...|..+|+-=... + ||... -+..+..
T Consensus       399 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         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK-F-PDSTLYKEKYLLF  475 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh-C-CCchHHHHHHHHH
Confidence            45566666667777778888888887777 45666777777765554 6677777777643332 2 34333 3456667


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCC--cccHHHHHHHHHhcCChHHHHHHHHHHHh
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPF--PSLYAPIIKGAFRRGQFDDAFCFFSEIKI  143 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  143 (217)
                      +...++-+.|..+|+...++ +..+  ...|..+|..=+..|+...+..+=+.+..
T Consensus       476 Li~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         476 LIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            77777777777777744332 0111  34677777777777777776666655544

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.77  E-value=0.18  Score=39.45  Aligned_cols=58  Identities=14%  Similarity=0.137  Sum_probs=31.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCC-CCHhHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645          120 PIIKGAFRRGQFDDAFCFFSEIKIKGHP-PNRPVYTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus       120 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      .+..++-+.|+.++|.+.++++.+.... .+......|+.++...+++.++..++.+-.
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            3444555566666666666666543111 123355556666666666666666665544

The molecular function of this protein is uncertain.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.71  E-value=0.1  Score=38.72  Aligned_cols=152  Identities=11%  Similarity=-0.047  Sum_probs=104.0

Q ss_pred             cCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCCcccHHHHHHHHHhcCChHHH
Q 035645           58 SGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG---HNPFPSLYAPIIKGAFRRGQFDDA  134 (217)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~~g~~~~a  134 (217)
                      .|++.+|-..++++.+. .+.|...++..=.+|...|+.+.....++++....   ++-.+.+-....-++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            46677777778888765 56677888888888999999988888888887652   211223333444556678999999


Q ss_pred             HHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH---cCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          135 FCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE---MGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      ++.-++..+-+ +.|.-.-.++...+--.|++.++.++..+-..   .+.-.-...|-...-.+...+.++.|+++|+..
T Consensus       195 Ek~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~e  273 (491)
T KOG2610|consen  195 EKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDRE  273 (491)
T ss_pred             HHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHHH
Confidence            99888876653 23555556666677778899998888765432   222222234555566667778999999988654

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.70  E-value=0.078  Score=34.29  Aligned_cols=128  Identities=16%  Similarity=0.138  Sum_probs=90.4

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF  126 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (217)
                      ....++..+.+.+.......+++.+...+. .+....+.++..|++.+ .++..+.+..      ..+......+++.|.
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~   80 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCE   80 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHH
Confidence            345677778888899999999999987763 67788999999999875 3444455442      123455666889999


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcC-CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 035645          127 RRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRG-GRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKN  197 (217)
Q Consensus       127 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (217)
                      +.+.++++..++..+..         +...+..+... ++++.|.+++.+      ..+...|..++..+..
T Consensus        81 ~~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~------~~~~~lw~~~~~~~l~  137 (140)
T smart00299       81 KAKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK------QNNPELWAEVLKALLD  137 (140)
T ss_pred             HcCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh------CCCHHHHHHHHHHHHc
Confidence            99999999999987642         22233333334 888889888865      2355677777776654

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.69  E-value=0.11  Score=35.88  Aligned_cols=205  Identities=17%  Similarity=0.114  Sum_probs=132.6

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQ-GSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      ...+......+...+++..+...+...... ........+......+...+++..+...+.........+ .........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHH
Confidence            355666777777888888888888777652 234455666677777777788888888888887643332 122222223


Q ss_pred             -HHHhcCCHHHHHHHHHHHHhCCC--CCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCC
Q 035645           89 -AVSKAGMIDEAFRLLHNLVEDGH--NPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGR  165 (217)
Q Consensus        89 -~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  165 (217)
                       .+...++++.|...+.+......  ......+......+...++.+.+...+..............+..+...+...++
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  217 (291)
T COG0457         138 GALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGK  217 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHccc
Confidence             67888888888888888755221  012223333444456778888888888888765221135677777777888888


Q ss_pred             HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          166 FVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ++.+...+......... ....+..+...+...+..+.+...++......+
T Consensus       218 ~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  267 (291)
T COG0457         218 YEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALELDP  267 (291)
T ss_pred             HHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCc
Confidence            88888888877764321 233444455555566678888877777665543

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.69  E-value=0.081  Score=40.00  Aligned_cols=123  Identities=13%  Similarity=0.077  Sum_probs=84.8

Q ss_pred             HHHHhcCchhHHHHHHHHHHhc-----CCC---------cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccH
Q 035645           53 ETICKSGEVEFCVEMYYSVCKL-----GSC---------ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLY  118 (217)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~-----~~~---------~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  118 (217)
                      +.|.+.|++..|..-|++..+.     +..         .-...++.+.-++.+.+++..|+..-++.+..+ +++....
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KAL  294 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKAL  294 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHH
Confidence            4567778888888887775431     111         123467778888899999999999999888876 5667776


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhH-HHHHHHHHhcCCCH-HHHHHHHHHHHH
Q 035645          119 APIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPV-YTTLITMCGRGGRF-VEAANYLMEMTE  178 (217)
Q Consensus       119 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~-~~a~~~~~~~~~  178 (217)
                      ----.++...|+++.|+..|..+++.  .|+-.. -+.++...-+..+. +...++|..|..
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            66778888999999999999999876  454444 44444443333333 344677777763

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.67  E-value=0.064  Score=40.53  Aligned_cols=124  Identities=17%  Similarity=0.107  Sum_probs=92.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhC-----CCCC---------ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhh
Q 035645           17 VQGLLNAGYLESAKQMVNKMIKQ-----GSDP---------DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVST   82 (217)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~m~~~-----~~~~---------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   82 (217)
                      ...+.+.|++..|..-|++..+.     +..+         -...++.+..++.+.+++..|++.-+...... ++|...
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KA  293 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhH
Confidence            34678899999999998886542     1111         23457788899999999999999999998764 457888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcc-cHHHHHHHHHhcCChH-HHHHHHHHHHh
Q 035645           83 YKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPS-LYAPIIKGAFRRGQFD-DAFCFFSEIKI  143 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~g~~~-~a~~~~~~~~~  143 (217)
                      .-.-..++...|+++.|...|+++.+..  |+.. +-+.++..-.+..... ...++|..|-.
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~~--P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKLE--PSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            8888899999999999999999999874  4444 4445555444444443 34677877754

>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=96.64  E-value=0.08  Score=33.69  Aligned_cols=121  Identities=17%  Similarity=0.250  Sum_probs=49.1

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC------------------cchh
Q 035645           20 LLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC------------------ADVS   81 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~------------------~~~~   81 (217)
                      ..-.|.+++..+++.+...+.   +..-+|-++--....-+-+-..++++.+-+. +.                  .+..
T Consensus        12 ~ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGki-FDis~C~NlKrVi~C~~~~n~~se   87 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKI-FDISKCGNLKRVIECYAKRNKLSE   87 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGG-S-GGG-S-THHHHHHHHHTT---H
T ss_pred             HHHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhh-cCchhhcchHHHHHHHHHhcchHH
Confidence            345688888888888877542   3333333332222223333334444433221 10                  1222


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 035645           82 TYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG  145 (217)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  145 (217)
                      .....++.+...|+-+...++++.+.+.+ .+++.....+..+|.+.|+..++.+++.+.-+.|
T Consensus        88 ~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   88 YVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            33334444444444444444444444322 3334444444444444444444444444444444

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.58  E-value=0.052  Score=39.37  Aligned_cols=77  Identities=17%  Similarity=0.202  Sum_probs=47.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHh-----cCCCCCHhHHHHH
Q 035645           82 TYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKI-----KGHPPNRPVYTTL  156 (217)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  156 (217)
                      ++..++..+...++.+.+.+.++++.... +.+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            44555556666666666666666666654 44566666666666666666666666666544     3566666555555


Q ss_pred             HHH
Q 035645          157 ITM  159 (217)
Q Consensus       157 i~~  159 (217)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            444

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=96.53  E-value=0.19  Score=36.55  Aligned_cols=138  Identities=9%  Similarity=0.099  Sum_probs=94.3

Q ss_pred             chhHHHHHHHHHHh-cCCCcchhhHHHHHHHHHhcC--CHHHHHHHHHHHHhC-CCCCCcccHHHHHHHHHhcCChHHHH
Q 035645           60 EVEFCVEMYYSVCK-LGSCADVSTYKILIPAVSKAG--MIDEAFRLLHNLVED-GHNPFPSLYAPIIKGAFRRGQFDDAF  135 (217)
Q Consensus        60 ~~~~a~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~g~~~~a~  135 (217)
                      ...+|+++|+.... ..+-.|..+...+++......  ....-.++.+-+... +-.++..+...++..++..++|.+-.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            34567777764322 234457777777777776622  233333444444432 34677788889999999999999999


Q ss_pred             HHHHHHHhc-CCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHH-----HHcCCCCChhhHHHHHHHHHh
Q 035645          136 CFFSEIKIK-GHPPNRPVYTTLITMCGRGGRFVEAANYLMEM-----TEMGLTPISRCFDLVTDGLKN  197 (217)
Q Consensus       136 ~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~-----~~~~~~~~~~~~~~l~~~~~~  197 (217)
                      ++|...... +..-|...|..+|......|+..-..++.++=     .+.++..+...-..+-..|.+
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~~  290 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFKK  290 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHHh
Confidence            999987655 56668899999999999999988777777652     255666666666665555543

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.52  E-value=0.021  Score=41.69  Aligned_cols=103  Identities=14%  Similarity=0.143  Sum_probs=77.5

Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCC---CCCC--hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCc
Q 035645            4 KGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQG---SDPD--LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCA   78 (217)
Q Consensus         4 ~g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~---~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~   78 (217)
                      .|.+.+..+...++..-....+++.+...+-+++.+.   ..|+  .++|-.++.    .-+.++++.+...-++.|+.|
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll----ky~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL----KYDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH----ccChHHHHHHHhCcchhcccc
Confidence            4667777788888888888888999999888887541   1222  223322322    236778888888888999999


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 035645           79 DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG  110 (217)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  110 (217)
                      |..+++.+++.+.+.+++.+|..+.-.|...+
T Consensus       134 dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  134 DQFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            99999999999999999999988887776553

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.52  E-value=0.1  Score=39.66  Aligned_cols=156  Identities=14%  Similarity=0.098  Sum_probs=91.3

Q ss_pred             HHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHH---HH---------
Q 035645           54 TICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYA---PI---------  121 (217)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~l---------  121 (217)
                      ++.-.|+.++|.+.-....+..- .+....-.--.++...++.+.+...|++.+..+  |+...-.   ..         
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld~-~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~  254 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLDA-TNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKE  254 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhccc-chhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHh
Confidence            45566777777777666655321 122222222223445677788888888776653  3332211   11         


Q ss_pred             -HHHHHhcCChHHHHHHHHHHHhc---CCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHH
Q 035645          122 -IKGAFRRGQFDDAFCFFSEIKIK---GHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPI-SRCFDLVTDGLK  196 (217)
Q Consensus       122 -l~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~  196 (217)
                       -.-..+.|++..|.+.|.+.+..   ...|+...|-....+..+.|+.++|+.--++..+.+  |. ...|..-..++.
T Consensus       255 ~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD--~syikall~ra~c~l  332 (486)
T KOG0550|consen  255 RGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID--SSYIKALLRRANCHL  332 (486)
T ss_pred             hhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC--HHHHHHHHHHHHHHH
Confidence             12246778888888888887653   345566677777777778888888887776655432  11 122333344555


Q ss_pred             hcCCchHHHHHHHHHhhh
Q 035645          197 NCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~  214 (217)
                      ..++|++|.+-++...++
T Consensus       333 ~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  333 ALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHhh
Confidence            667777777777666554

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.51  E-value=0.061  Score=39.01  Aligned_cols=79  Identities=23%  Similarity=0.270  Sum_probs=49.6

Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCcccHH
Q 035645           45 LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE-----DGHNPFPSLYA  119 (217)
Q Consensus        45 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  119 (217)
                      ..++..++..+...|+++.+.+.++++.... +-+...|..++.+|.+.|+...|+..|+++.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            3455566666666777777777777766542 23556677777777777777777777666554     36666666555


Q ss_pred             HHHHH
Q 035645          120 PIIKG  124 (217)
Q Consensus       120 ~ll~~  124 (217)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            55554

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.47  E-value=0.36  Score=39.21  Aligned_cols=83  Identities=12%  Similarity=0.029  Sum_probs=51.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChh-----------h
Q 035645          119 APIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISR-----------C  187 (217)
Q Consensus       119 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-----------~  187 (217)
                      -.+...+.+...+.-|-++|.+|-.         ...+++.....++|++|+.+-+...+.  .||..           -
T Consensus       751 ~~~a~ylk~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~Dr  819 (1081)
T KOG1538|consen  751 LLCATYLKKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDR  819 (1081)
T ss_pred             HHHHHHHhhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhh
Confidence            3333344445555556666665532         235667778889999999888765542  33332           3


Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHh
Q 035645          188 FDLVTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      |...-++|.++|+..+|.++++.+.
T Consensus       820 FeEAqkAfhkAGr~~EA~~vLeQLt  844 (1081)
T KOG1538|consen  820 FEEAQKAFHKAGRQREAVQVLEQLT  844 (1081)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHhh
Confidence            4455667788888888888876654

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.47  E-value=0.1  Score=37.45  Aligned_cols=88  Identities=17%  Similarity=0.083  Sum_probs=42.3

Q ss_pred             hcCChHHHHHHHHHHHhcCCC--CCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcC-CCC-ChhhHHHHHHHHHhcCCch
Q 035645          127 RRGQFDDAFCFFSEIKIKGHP--PNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG-LTP-ISRCFDLVTDGLKNCGKHD  202 (217)
Q Consensus       127 ~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~  202 (217)
                      +.|++..|..-|....+....  -....+--|..++...|++++|..+|..+.+.- -.| -+.++-.|..+..+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            344455555555555544211  112233345555555555555555555554321 111 1234455555555555555


Q ss_pred             HHHHHHHHHhhh
Q 035645          203 LAEKIEQLEVSL  214 (217)
Q Consensus       203 ~a~~~~~~~~~~  214 (217)
                      +|...++...+.
T Consensus       233 ~A~atl~qv~k~  244 (262)
T COG1729         233 EACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHHH
Confidence            555555554443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.44  E-value=0.2  Score=35.94  Aligned_cols=97  Identities=18%  Similarity=0.154  Sum_probs=52.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCC--CCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCC-Cc-chhhHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGS--DPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGS-CA-DVSTYKILI   87 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~-~~~~~~~ll   87 (217)
                      .|+..+..+ +.|++..|...|...++...  .-....+--|..++...|++++|..+|..+.+.-. .| -+..+-.|.
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            455555444 44556666666666665421  11233344566666666666666666666654311 11 124455555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 035645           88 PAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      ....+.|+.++|..+|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            5666666666666666666554

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.37  E-value=0.024  Score=43.02  Aligned_cols=98  Identities=12%  Similarity=0.032  Sum_probs=61.8

Q ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHHHhc----CC-CCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH----c-CCCCCh
Q 035645          116 SLYAPIIKGAFRRGQFDDAFCFFSEIKIK----GH-PPNRPVYTTLITMCGRGGRFVEAANYLMEMTE----M-GLTPIS  185 (217)
Q Consensus       116 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~-~~~~~~  185 (217)
                      .++..+-.++.-.|+++.|.+.|+.....    |- ......+-.|...|.-..++++|+.++.+-..    . ...-..
T Consensus       236 RA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~  315 (639)
T KOG1130|consen  236 RAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGEL  315 (639)
T ss_pred             HhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhH
Confidence            34566666677777777777777654322    21 11234455566666666777888877765432    1 112244


Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          186 RCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      ..+.+|..+|...|..++|..+.+...+
T Consensus       316 RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  316 RACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            5788888888888999988888766554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.34  E-value=0.35  Score=37.56  Aligned_cols=132  Identities=16%  Similarity=0.128  Sum_probs=95.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHH
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDG-HNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITM  159 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  159 (217)
                      .+|-..++...+..-.+.|..+|-+..+.+ +.++...+++++..++ .|+...|..+|+.=... ++.+..--+-.+..
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            345566666667777888999999999888 5577888888888766 67788889998865443 23334444566777


Q ss_pred             HhcCCCHHHHHHHHHHHHHcCCCCC--hhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          160 CGRGGRFVEAANYLMEMTEMGLTPI--SRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      +...++-+.|..+|+....+ +.-+  ..+|..+|..=..-|+...+..+-+++..+-
T Consensus       476 Li~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~  532 (660)
T COG5107         476 LIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELV  532 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHc
Confidence            88889999999999865532 1122  4578888888888899888887777766543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.34  E-value=0.39  Score=38.09  Aligned_cols=162  Identities=13%  Similarity=0.078  Sum_probs=105.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCCC-----hhhHHHHHHHHHh----cCchhHHHHHHHHHHhcCCCcchhh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQ-GSDPD-----LETFNSLIETICK----SGEVEFCVEMYYSVCKLGSCADVST   82 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~-~~~~~-----~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~   82 (217)
                      +..++...+=.|+-+.+++.+.+..+. ++.-.     .-+|...+..+..    ....+.|.++++.+.+.  -|+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHH
Confidence            344555566678888999888887653 22211     1223333333332    45678899999999874  466655


Q ss_pred             HH-HHHHHHHhcCCHHHHHHHHHHHHhCC---CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH
Q 035645           83 YK-ILIPAVSKAGMIDEAFRLLHNLVEDG---HNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLIT  158 (217)
Q Consensus        83 ~~-~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  158 (217)
                      |. .-.+.+...|++++|.+.|+......   .......+--+.-.+.-.++|++|.+.|..+.+.. .-+..+|.-+..
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a  347 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHH
Confidence            54 34455667899999999999765421   11233445566777888999999999999998752 223444444433


Q ss_pred             H-HhcCCCH-------HHHHHHHHHHH
Q 035645          159 M-CGRGGRF-------VEAANYLMEMT  177 (217)
Q Consensus       159 ~-~~~~g~~-------~~a~~~~~~~~  177 (217)
                      + +...|+.       ++|.++|.+..
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            3 3466777       88888888875

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.27  E-value=0.13  Score=37.89  Aligned_cols=48  Identities=15%  Similarity=0.150  Sum_probs=25.5

Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645          130 QFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      ++++++.++..=++.|+-||..+++.+++.+.+.+++.+|.++...|.
T Consensus       115 ~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  115 DPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             ChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            344555555555555555555555555555555555555555554444

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.26  E-value=0.32  Score=37.19  Aligned_cols=172  Identities=13%  Similarity=0.078  Sum_probs=102.8

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhH-------------HH
Q 035645           19 GLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTY-------------KI   85 (217)
Q Consensus        19 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------------~~   85 (217)
                      ++.-.|+.+.|.++--..++... .+....-.--.++.-.++.+.++..|++..+.+  |+...-             ..
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld~-~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~  254 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLDA-TNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKE  254 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhccc-chhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHh
Confidence            34456788888777666655431 133333233334555677888888888876643  443221             22


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC---CCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHh---HHHHHHHH
Q 035645           86 LIPAVSKAGMIDEAFRLLHNLVED---GHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRP---VYTTLITM  159 (217)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~~li~~  159 (217)
                      -.+-..+.|.+.+|.+.|.+.+..   +..++...|.....+..+.|+.++|+.--+...+.    |..   .+..-..+
T Consensus       255 ~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i----D~syikall~ra~c  330 (486)
T KOG0550|consen  255 RGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI----DSSYIKALLRRANC  330 (486)
T ss_pred             hhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc----CHHHHHHHHHHHHH
Confidence            222345678888898888887754   34455666777778888889999888887776643    322   22222344


Q ss_pred             HhcCCCHHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHh
Q 035645          160 CGRGGRFVEAANYLMEMTEMGLTP-ISRCFDLVTDGLKN  197 (217)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~  197 (217)
                      +...++|++|.+-++...+..-.+ +..+......++.+
T Consensus       331 ~l~le~~e~AV~d~~~a~q~~~s~e~r~~l~~A~~aLkk  369 (486)
T KOG0550|consen  331 HLALEKWEEAVEDYEKAMQLEKDCEIRRTLREAQLALKK  369 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHH
Confidence            455678888888887766543222 23344444444443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.23  E-value=0.29  Score=38.36  Aligned_cols=141  Identities=15%  Similarity=0.200  Sum_probs=88.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCC------------------
Q 035645           15 LLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGS------------------   76 (217)
Q Consensus        15 ~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~------------------   76 (217)
                      .+|.-.-+..+...-.+.-++..+.  .|+..+.-+++ +--......++.++|++..+.|-                  
T Consensus       173 ~IMq~AWRERnp~aRIkaA~eALei--~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkAgE~~lg~s~~~~~~g~~~e~  249 (539)
T PF04184_consen  173 EIMQKAWRERNPQARIKAAKEALEI--NPDCADAYILL-AEEEASTIVEAEELLRQAVKAGEASLGKSQFLQHHGHFWEA  249 (539)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHh--hhhhhHHHhhc-ccccccCHHHHHHHHHHHHHHHHHhhchhhhhhcccchhhh
Confidence            4555566777777777777777663  34443322222 11123446677777766543320                  


Q ss_pred             --Ccc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 035645           77 --CAD----VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHN-PFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN  149 (217)
Q Consensus        77 --~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~  149 (217)
                        ..+    ..+-..+..++-+.|+.++|.+.+++|.+..-. ....+...|+.++...+.+.++..++.+..+...+.+
T Consensus       250 ~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkS  329 (539)
T PF04184_consen  250 WHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKS  329 (539)
T ss_pred             hhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCch
Confidence              011    222344666777889999999999999865322 2344778899999999999999999998754333222


Q ss_pred             -HhHHHHHHH
Q 035645          150 -RPVYTTLIT  158 (217)
Q Consensus       150 -~~~~~~li~  158 (217)
                       ...|+..+-
T Consensus       330 Ati~YTaALL  339 (539)
T PF04184_consen  330 ATICYTAALL  339 (539)
T ss_pred             HHHHHHHHHH
Confidence             356665543

The molecular function of this protein is uncertain.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.07  E-value=0.28  Score=34.03  Aligned_cols=153  Identities=15%  Similarity=0.033  Sum_probs=83.3

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhcCCC--cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh
Q 035645           50 SLIETICKSGEVEFCVEMYYSVCKLGSC--ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR  127 (217)
Q Consensus        50 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  127 (217)
                      .....+.+.|++++|++.|+.+......  --....-.++.++.+.|+++.|...++++.+.........+...+.+.+.
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~   89 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSY   89 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHH
Confidence            3445567889999999999999865221  12345667888899999999999999998876322222233333343332


Q ss_pred             cCChHHHHHHHHHHHhcCCCC-----CHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCch
Q 035645          128 RGQFDDAFCFFSEIKIKGHPP-----NRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHD  202 (217)
Q Consensus       128 ~g~~~~a~~~~~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (217)
                      ........       .....+     -...+..++.-|-.+....+|...+..+.+.   .-.. --.+..-|.+.|.+.
T Consensus        90 ~~~~~~~~-------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~---la~~-e~~ia~~Y~~~~~y~  158 (203)
T PF13525_consen   90 YKQIPGIL-------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR---LAEH-ELYIARFYYKRGKYK  158 (203)
T ss_dssp             HHHHHHHH--------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH---HHHH-HHHHHHHHHCTT-HH
T ss_pred             HHhCccch-------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH---HHHH-HHHHHHHHHHcccHH
Confidence            22211110       000000     1235556666666666667776666555431   0011 123555666777777


Q ss_pred             HHHHHHHHHhh
Q 035645          203 LAEKIEQLEVS  213 (217)
Q Consensus       203 ~a~~~~~~~~~  213 (217)
                      .|..-++.+.+
T Consensus       159 aA~~r~~~v~~  169 (203)
T PF13525_consen  159 AAIIRFQYVIE  169 (203)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666665554

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.05  E-value=0.015  Score=29.24  Aligned_cols=28  Identities=18%  Similarity=0.311  Sum_probs=14.5

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          188 FDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      +..+..+|.+.|++++|+++++...+..
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~   31 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALALD   31 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            4445555555555555555555554443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.94  E-value=0.045  Score=27.47  Aligned_cols=28  Identities=11%  Similarity=0.181  Sum_probs=15.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQ   39 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~   39 (217)
                      +|..+...|.+.|++++|.++|++.++.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444555555555555555555555544

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.90  E-value=0.23  Score=31.61  Aligned_cols=92  Identities=16%  Similarity=0.111  Sum_probs=65.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCCCH---hHHHHHHHHHhcC
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK-GHPPNR---PVYTTLITMCGRG  163 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~~---~~~~~li~~~~~~  163 (217)
                      -++...|+.+.|++.|.+....- +-...+||.-..++--.|+.++|++=+++..+. |-. ..   ..|..-...|...
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHh
Confidence            35677888888888888877653 345678888888888888888888888887664 322 22   2233333455667


Q ss_pred             CCHHHHHHHHHHHHHcCC
Q 035645          164 GRFVEAANYLMEMTEMGL  181 (217)
Q Consensus       164 g~~~~a~~~~~~~~~~~~  181 (217)
                      |+.+.|..=|...-+.|-
T Consensus       129 g~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLGS  146 (175)
T ss_pred             CchHHHHHhHHHHHHhCC
Confidence            888888888887777764

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.86  E-value=0.25  Score=31.56  Aligned_cols=67  Identities=21%  Similarity=0.183  Sum_probs=48.7

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH  111 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  111 (217)
                      +.......+......|+-++-.+++..+.+. -.+++...-.+..+|.+.|+..++.+++.+.-+.|+
T Consensus        85 ~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   85 LSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             --HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            3455667777888888888888888888653 457888888999999999999999999999998885

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=95.84  E-value=0.43  Score=34.22  Aligned_cols=82  Identities=10%  Similarity=-0.031  Sum_probs=54.1

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhh---HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVST---YKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAP  120 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  120 (217)
                      +...+-.....+.+.|++++|++.|+.+...-.. +...   .-.+..++.+.+++++|...+++..+.........|..
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 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPF-GPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVL  109 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHH
Confidence            3333334455567789999999999999875322 2222   24566778899999999999999988743333334544


Q ss_pred             HHHHHH
Q 035645          121 IIKGAF  126 (217)
Q Consensus       121 ll~~~~  126 (217)
                      .+.+.+
T Consensus       110 Y~~g~~  115 (243)
T PRK10866        110 YMRGLT  115 (243)
T ss_pred             HHHHHh
Confidence            555543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.77  E-value=0.38  Score=33.08  Aligned_cols=193  Identities=15%  Similarity=0.098  Sum_probs=138.8

Q ss_pred             cCCHHHHHHHHHHHhhCCCC-CChhhHHHHHHHHHhcCchhHHHHHHHHHHhc-CCCcchhhHHHHHHHHHhcCCHHHHH
Q 035645           23 AGYLESAKQMVNKMIKQGSD-PDLETFNSLIETICKSGEVEFCVEMYYSVCKL-GSCADVSTYKILIPAVSKAGMIDEAF  100 (217)
Q Consensus        23 ~g~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~  100 (217)
                      .+....+...+......... .....+......+...+.+..+...+...... ........+......+...+....+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            35566666666666654322 13567778888889999999999998888652 23445667778888888889999999


Q ss_pred             HHHHHHHhCCCCCCcccHHHHHH-HHHhcCChHHHHHHHHHHHhcCC--CCCHhHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645          101 RLLHNLVEDGHNPFPSLYAPIIK-GAFRRGQFDDAFCFFSEIKIKGH--PPNRPVYTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~ll~-~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      ..+.........+ ......... .+...|+++.+...+........  ......+......+...++.+.+...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            9999988764333 222333333 78899999999999999855321  1233444445555677899999999999988


Q ss_pred             HcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          178 EMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       178 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ..........+..+...+...++++.|...+.......+
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  233 (291)
T COG0457         195 KLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDP  233 (291)
T ss_pred             hhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCc
Confidence            754221467788889999999999999999888776543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.75  E-value=0.46  Score=33.84  Aligned_cols=117  Identities=10%  Similarity=0.036  Sum_probs=69.9

Q ss_pred             hcCchhHHHHHHHHHHhc---C--CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCCc-ccHHHHHHHHH
Q 035645           57 KSGEVEFCVEMYYSVCKL---G--SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE----DGHNPFP-SLYAPIIKGAF  126 (217)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~---~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~-~~~~~ll~~~~  126 (217)
                      +..++++|+++|++....   +  ..--...+..+-..+.+...+++|-..+.+-..    ..-.++. ..|...|-.+.
T Consensus       122 env~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L  201 (308)
T KOG1585|consen  122 ENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYL  201 (308)
T ss_pred             hcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHh
Confidence            345566677777665321   1  011124455666667777777776655543321    1111221 23556666677


Q ss_pred             hcCChHHHHHHHHHHHhcC---CCCCHhHHHHHHHHHhcCCCHHHHHHHHH
Q 035645          127 RRGQFDDAFCFFSEIKIKG---HPPNRPVYTTLITMCGRGGRFVEAANYLM  174 (217)
Q Consensus       127 ~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~~  174 (217)
                      -..++..|..+++.--+.+   -+.+..+...|+.+| ..|+.+++.+++.
T Consensus       202 ~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  202 YAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             hHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHHc
Confidence            7789999999999854432   123567888888887 6688888777653

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.74  E-value=0.64  Score=35.47  Aligned_cols=157  Identities=14%  Similarity=0.041  Sum_probs=75.8

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc-hhhHHHHHHHHHhcCCHHHHH
Q 035645           22 NAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD-VSTYKILIPAVSKAGMIDEAF  100 (217)
Q Consensus        22 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~  100 (217)
                      -.|+.+.|.+-|+.|.... +....-...|.-..-+.|..+.|.+.-++.-..  -|. .-.....+...+..|+|+.|+
T Consensus       132 ~eG~~~~Ar~kfeAMl~dP-EtRllGLRgLyleAqr~GareaAr~yAe~Aa~~--Ap~l~WA~~AtLe~r~~~gdWd~Al  208 (531)
T COG3898         132 LEGDYEDARKKFEAMLDDP-ETRLLGLRGLYLEAQRLGAREAARHYAERAAEK--APQLPWAARATLEARCAAGDWDGAL  208 (531)
T ss_pred             hcCchHHHHHHHHHHhcCh-HHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhh--ccCCchHHHHHHHHHHhcCChHHHH
Confidence            3466666666666665420 001111222333334556666666665555432  222 244566777777778888887


Q ss_pred             HHHHHHHhCC-CCCCcc--cHHHHHHHH--Hh-cCChHHHHHHHHHHHhcCCCCCHhH-HHHHHHHHhcCCCHHHHHHHH
Q 035645          101 RLLHNLVEDG-HNPFPS--LYAPIIKGA--FR-RGQFDDAFCFFSEIKIKGHPPNRPV-YTTLITMCGRGGRFVEAANYL  173 (217)
Q Consensus       101 ~~~~~~~~~~-~~~~~~--~~~~ll~~~--~~-~g~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~a~~~~  173 (217)
                      ++++.-+... +.++..  .-..|+.+-  .. .-+...|.+.-.+..+  +.||..- -..-..++.+.|+..++-.++
T Consensus       209 kLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~il  286 (531)
T COG3898         209 KLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKIL  286 (531)
T ss_pred             HHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHH
Confidence            7777654432 122221  111222111  11 1123333333333322  2444322 222345667777777777777


Q ss_pred             HHHHHcCCCC
Q 035645          174 MEMTEMGLTP  183 (217)
Q Consensus       174 ~~~~~~~~~~  183 (217)
                      +.+-+....|
T Consensus       287 E~aWK~ePHP  296 (531)
T COG3898         287 ETAWKAEPHP  296 (531)
T ss_pred             HHHHhcCCCh
Confidence            7776655444

>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=95.73  E-value=0.011  Score=38.37  Aligned_cols=82  Identities=12%  Similarity=0.143  Sum_probs=38.3

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCh
Q 035645           52 IETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQF  131 (217)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~  131 (217)
                      +..+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++..       +..-...++..|.+.|.+
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~l~   86 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHGLY   86 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTTSH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcchH
Confidence            4444445555555555555554433344555555555555555555555444410       112223344555555555


Q ss_pred             HHHHHHHHH
Q 035645          132 DDAFCFFSE  140 (217)
Q Consensus       132 ~~a~~~~~~  140 (217)
                      +++.-++.+
T Consensus        87 ~~a~~Ly~~   95 (143)
T PF00637_consen   87 EEAVYLYSK   95 (143)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHHH
Confidence            555555443

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.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.72  E-value=0.28  Score=31.26  Aligned_cols=92  Identities=17%  Similarity=0.121  Sum_probs=68.6

Q ss_pred             HHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcc---cHHHHHHHHHhcCC
Q 035645           54 TICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPS---LYAPIIKGAFRRGQ  130 (217)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~ll~~~~~~g~  130 (217)
                      +.+..|+.+.|++.|.+.... .+-....||.-..++--.|+.++|.+=+++..+..-.-+..   .|..--..|-..|+
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            567889999999999988764 23367889999999999999999999998887653222222   23333345677889


Q ss_pred             hHHHHHHHHHHHhcCC
Q 035645          131 FDDAFCFFSEIKIKGH  146 (217)
Q Consensus       131 ~~~a~~~~~~~~~~~~  146 (217)
                      -+.|..=|....+.|.
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            9999998888777663

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.72  E-value=0.63  Score=38.27  Aligned_cols=56  Identities=14%  Similarity=0.153  Sum_probs=31.8

Q ss_pred             CCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHH
Q 035645          146 HPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQL  210 (217)
Q Consensus       146 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (217)
                      ++.+....-.+.+++.+.|.-++|.+.+-+   .+. |     ...+..|...++|.+|.++.+.
T Consensus       848 Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr---~s~-p-----kaAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  848 LPEDSELLPVMADMFTSVGMCDQAVEAYLR---RSL-P-----KAAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             cCcccchHHHHHHHHHhhchHHHHHHHHHh---ccC-c-----HHHHHHHHHHHHHHHHHHHHHh
Confidence            344555666677777777777777666532   221 1     2344556666666666665543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.71  E-value=0.42  Score=39.82  Aligned_cols=102  Identities=13%  Similarity=0.096  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 035645           63 FCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIK  142 (217)
Q Consensus        63 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  142 (217)
                      +-...++.+.+.|+. +...-..|+.+|.+.++.++..++.+... .|..  ..-....+..+-+.+-.++|..+-....
T Consensus       415 nLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~  490 (933)
T KOG2114|consen  415 NLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFK  490 (933)
T ss_pred             HHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhc
Confidence            333333444444332 33334455555555555555544444332 1111  1123334455555555555554444332


Q ss_pred             hcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHH
Q 035645          143 IKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEM  176 (217)
Q Consensus       143 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  176 (217)
                      .     +......++.   ..|++++|.+.+..+
T Consensus       491 ~-----he~vl~ille---~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  491 K-----HEWVLDILLE---DLHNYEEALRYISSL  516 (933)
T ss_pred             c-----CHHHHHHHHH---HhcCHHHHHHHHhcC
Confidence            1     2233333333   356677777766554

>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=95.67  E-value=0.4  Score=32.55  Aligned_cols=112  Identities=10%  Similarity=0.077  Sum_probs=67.8

Q ss_pred             HHHHHHhhCCCCCC-hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc--hhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 035645           31 QMVNKMIKQGSDPD-LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD--VSTYKILIPAVSKAGMIDEAFRLLHNLV  107 (217)
Q Consensus        31 ~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~  107 (217)
                      .-++...+..++-+ ...+..+...|.+.|+.+.|++.|.++.+....+.  ...+-.++......+++..+.....+..
T Consensus        21 ~elk~~~~n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   21 AELKDAKSNLGKESIRMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            33444444433333 34677888888888888888888888876544433  3556778888888888888887777665


Q ss_pred             hCCCCC-CcccHH--HHHH--HHHhcCChHHHHHHHHHHH
Q 035645          108 EDGHNP-FPSLYA--PIIK--GAFRRGQFDDAFCFFSEIK  142 (217)
Q Consensus       108 ~~~~~~-~~~~~~--~ll~--~~~~~g~~~~a~~~~~~~~  142 (217)
                      ..-..+ |...-+  ....  .+...+++..|-..|-+..
T Consensus       101 ~~~~~~~d~~~~nrlk~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  101 SLIEKGGDWERRNRLKVYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHhccchHHHHHHHHHHHHHHHHHhchHHHHHHHHHccC
Confidence            431111 111111  1111  2234678888888777664

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.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.65  E-value=0.57  Score=34.23  Aligned_cols=150  Identities=10%  Similarity=0.036  Sum_probs=91.3

Q ss_pred             HHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChH
Q 035645           53 ETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFD  132 (217)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~  132 (217)
                      ......|++.+|...|+....... -+...--.+..+|...|+.+.|..++..+....-.........-|..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~-~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAP-ENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCc-ccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            345667888888888887765422 2355566777788888888888888887654422222222223345555555555


Q ss_pred             HHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCC-CCChhhHHHHHHHHHhcCCchHHH
Q 035645          133 DAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGL-TPISRCFDLVTDGLKNCGKHDLAE  205 (217)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~  205 (217)
                      +...+-...-..  +-|...--.+...+...|+.+.|.+.+-.+.+.+. .-|...-..+++.|.--|.-+.+.
T Consensus       221 ~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~  292 (304)
T COG3118         221 EIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLV  292 (304)
T ss_pred             CHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHH
Confidence            555555544433  22566666777778888888888777766654322 234455667777777666554433

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=95.65  E-value=0.25  Score=32.08  Aligned_cols=102  Identities=18%  Similarity=0.219  Sum_probs=69.9

Q ss_pred             HHHHHhhCCCCCChh--hHHHHHHHHHhcCchhHHHHHHHHHHhcC-----CCcchhhHHHHHHHHHhcCC-HHHHHHHH
Q 035645           32 MVNKMIKQGSDPDLE--TFNSLIETICKSGEVEFCVEMYYSVCKLG-----SCADVSTYKILIPAVSKAGM-IDEAFRLL  103 (217)
Q Consensus        32 ~~~~m~~~~~~~~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~ll~~~~~~~~-~~~a~~~~  103 (217)
                      ....|.+.+..++..  ..+.++.-....+.+...+.+++.+....     -..+...|++++.+.++..- ---+..+|
T Consensus        24 ~~~y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf  103 (145)
T PF13762_consen   24 HLPYMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLF  103 (145)
T ss_pred             HHHHhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHH
Confidence            344455555555543  35667777777788888777777764211     12356789999999876665 34567788


Q ss_pred             HHHHhCCCCCCcccHHHHHHHHHhcCChHH
Q 035645          104 HNLVEDGHNPFPSLYAPIIKGAFRRGQFDD  133 (217)
Q Consensus       104 ~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~  133 (217)
                      +.+.+.+..+++.-|..++.++.+-...+.
T Consensus       104 ~~Lk~~~~~~t~~dy~~li~~~l~g~~~~~  133 (145)
T PF13762_consen  104 NFLKKNDIEFTPSDYSCLIKAALRGYFHDS  133 (145)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHcCCCCcc
Confidence            888887788888889999988877644443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.59  E-value=0.04  Score=26.27  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=11.0

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHH
Q 035645           48 FNSLIETICKSGEVEFCVEMYYS   70 (217)
Q Consensus        48 ~~~ll~~~~~~~~~~~a~~~~~~   70 (217)
                      |+.|...|.+.|++++|+++|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            34444455555555555555544

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.58  E-value=0.029  Score=26.79  Aligned_cols=25  Identities=8%  Similarity=0.042  Sum_probs=14.3

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHh
Q 035645          188 FDLVTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      +..|...|.+.|++++|.++++...
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4556666666666666666666533

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=95.57  E-value=0.18  Score=30.06  Aligned_cols=62  Identities=8%  Similarity=0.131  Sum_probs=44.3

Q ss_pred             CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645           25 YLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus        25 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      +.=++.+-++.+....+.|++....+.+++|.+.+++..|+++++-.+.. ...+...|..++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~l   83 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYIL   83 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHH
Confidence            44456677777777788888888888888888888888888888877632 112344555544

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.

>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=95.54  E-value=0.42  Score=31.98  Aligned_cols=33  Identities=12%  Similarity=0.302  Sum_probs=17.1

Q ss_pred             HHHHHHhhCCCCCChhhHHHHHHHHHhcCchhH
Q 035645           31 QMVNKMIKQGSDPDLETFNSLIETICKSGEVEF   63 (217)
Q Consensus        31 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~   63 (217)
                      +.++.+.+.+++|+...+..+++.+.+.|++..
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~   47 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ   47 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            334444445555555555555555555555443

>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=95.53  E-value=0.45  Score=32.27  Aligned_cols=95  Identities=19%  Similarity=0.196  Sum_probs=69.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--cccHHHHHHHHHhcCChHHHHHHHHHHHhc---CCCCCH----h
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPF--PSLYAPIIKGAFRRGQFDDAFCFFSEIKIK---GHPPNR----P  151 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~~~~~----~  151 (217)
                      ..+..+...|.+.|+.++|.+.|.++.+....+.  ...+-.+|+.....+++..+.....+....   |-.++.    .
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            5688899999999999999999999988754443  345678889999999999999988877543   221221    2


Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645          152 VYTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus       152 ~~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      .|..+  .+...+++..|-+.|-+..
T Consensus       117 ~~~gL--~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGL--ANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHH--HHHHhchHHHHHHHHHccC
Confidence            22222  2345789999988887665

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.

>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=95.49  E-value=0.44  Score=31.88  Aligned_cols=132  Identities=17%  Similarity=0.146  Sum_probs=69.5

Q ss_pred             HHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 035645           66 EMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG  145 (217)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  145 (217)
                      +..+.+.+.+++|+...+..+++.+.+.|++.    .+.++...++-+|.......+-.+..  ....+.++--+|... 
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~----~L~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR-   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFS----QLHQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR-   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH----HHHHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH-
Confidence            44555566677777777777777777777654    34444555555665554444333222  222333333333322 


Q ss_pred             CCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          146 HPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       146 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      +   ...+..++..+...|++-+|.++.+.....    +......++++-.+.++...-..+++..
T Consensus        88 L---~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff  146 (167)
T PF07035_consen   88 L---GTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFF  146 (167)
T ss_pred             h---hhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            0   013455666666777777777777654321    1112244556655666555555554443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.47  E-value=0.044  Score=25.55  Aligned_cols=30  Identities=13%  Similarity=0.090  Sum_probs=19.4

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          187 CFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +|..+..+|...|++++|.+.+++..+++|
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p   32 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALELDP   32 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHCc
Confidence            456666666777777777777776666654

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 ....

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.31  E-value=0.4  Score=39.44  Aligned_cols=113  Identities=13%  Similarity=0.106  Sum_probs=85.6

Q ss_pred             cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHH
Q 035645           78 ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLI  157 (217)
Q Consensus        78 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  157 (217)
                      ...-+.+--+.-+...|+..+|.++-.+++    -||-..|-.-+.+++..++|++-+++-+..+      ++.-|.-++
T Consensus       682 f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFV  751 (829)
T KOG2280|consen  682 FVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFV  751 (829)
T ss_pred             cccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHH
Confidence            344455666677778899999988877764    5788889889999999999998777666443      245677888


Q ss_pred             HHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHH
Q 035645          158 TMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQ  209 (217)
Q Consensus       158 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (217)
                      .+|.+.|+.++|.+++.+...         +.-...+|.+.|++.+|.++.-
T Consensus       752 e~c~~~~n~~EA~KYiprv~~---------l~ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  752 EACLKQGNKDEAKKYIPRVGG---------LQEKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             HHHHhcccHHHHhhhhhccCC---------hHHHHHHHHHhccHHHHHHHHH
Confidence            999999999999998865332         1156778888888888887653

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.17  E-value=0.5  Score=30.62  Aligned_cols=80  Identities=15%  Similarity=0.011  Sum_probs=51.8

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhcCCCc---chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 035645           52 IETICKSGEVEFCVEMYYSVCKLGSCA---DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR  128 (217)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (217)
                      .....+.|++++|.+.|+.+... .+.   ...+--.++.+|.+.+++++|...++++.+.+.......|...+.+++..
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~   95 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYY   95 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHH
Confidence            33445678888888888888654 222   23455567777888888888888888887775333345566666666554


Q ss_pred             CChH
Q 035645          129 GQFD  132 (217)
Q Consensus       129 g~~~  132 (217)
                      ...+
T Consensus        96 ~~~~   99 (142)
T PF13512_consen   96 EQDE   99 (142)
T ss_pred             HHhh
Confidence            4433

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.15  E-value=0.063  Score=24.86  Aligned_cols=30  Identities=10%  Similarity=0.087  Sum_probs=18.9

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          187 CFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .+..+..++...|++++|.+.++...++.|
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p   32 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDP   32 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCc
Confidence            455566666677777777777776666554

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 ....

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=95.06  E-value=0.37  Score=28.83  Aligned_cols=64  Identities=11%  Similarity=0.057  Sum_probs=46.4

Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 035645          130 QFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDG  194 (217)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  194 (217)
                      +.-++.+-+..+....+.|++....+.+++|-+.+++..|.++|+-.+.+. ..+...|..+++-
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-~~~~~~y~~~lqe   85 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-GAHKEIYPYILQE   85 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cCchhhHHHHHHH
Confidence            444566667777777788888888999999999999999999988776332 2244566666654

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.

>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=94.97  E-value=0.64  Score=30.79  Aligned_cols=55  Identities=16%  Similarity=0.059  Sum_probs=33.8

Q ss_pred             HHHHhcCchhHHHHHHHHHHhcCCCcchhh-HHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 035645           53 ETICKSGEVEFCVEMYYSVCKLGSCADVST-YKILIPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      ..-.+.++.+++..+++.+.-  ..|.... -..-...+...|+|.+|..+|+++.+.
T Consensus        18 ~~al~~~~~~D~e~lL~ALrv--LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   18 SVALRLGDPDDAEALLDALRV--LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HHHHccCChHHHHHHHHHHHH--hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            334456777788888777755  2343322 222333466778888888888887654

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.88  E-value=2  Score=36.18  Aligned_cols=177  Identities=12%  Similarity=0.090  Sum_probs=114.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHH----HHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSL----IETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l----l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      ....-+..+.+...++.|..+-+.-   +  .+..+...+    .+-+.+.|++++|...|-+-+.. +.|+     .++
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~---~--~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi  404 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQ---H--LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVI  404 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhc---C--CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHH
Confidence            3455667777777788887775442   2  234444444    44456789999999998777543 3332     345


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFV  167 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  167 (217)
                      .-|....++.+-..+++.+.+.|+. +..--+.|+.+|.+.++.++-.++.+... .|.-  ..-....+..+.+.+-.+
T Consensus       405 ~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~  480 (933)
T KOG2114|consen  405 KKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLD  480 (933)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHH
Confidence            5666777788888889999998854 44555789999999999999888877544 2221  112445666677777777


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          168 EAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      +|..+-.+...     +......++   -..+++++|.++++.+
T Consensus       481 ~a~~LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  481 EAELLATKFKK-----HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            77766554332     223333333   3457788888877654

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.86  E-value=0.47  Score=28.70  Aligned_cols=60  Identities=7%  Similarity=0.176  Sum_probs=39.1

Q ss_pred             HHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645           28 SAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus        28 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +..+-++.+....+.|++......+.+|.+.+++..|+++++-++.. ..+....|..++.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            46667777777788888888888888888888888888888887643 2222225655543

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 ....

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=94.79  E-value=0.96  Score=37.29  Aligned_cols=92  Identities=12%  Similarity=0.057  Sum_probs=47.6

Q ss_pred             CCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCC----------
Q 035645          112 NPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGL----------  181 (217)
Q Consensus       112 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~----------  181 (217)
                      +-+....-.+..++.+.|.-++|.+.|-+..   . |     ...+..|...++|.+|.++-+...-..+          
T Consensus       849 pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s---~-p-----kaAv~tCv~LnQW~~avelaq~~~l~qv~tliak~aaq  919 (1189)
T KOG2041|consen  849 PEDSELLPVMADMFTSVGMCDQAVEAYLRRS---L-P-----KAAVHTCVELNQWGEAVELAQRFQLPQVQTLIAKQAAQ  919 (1189)
T ss_pred             CcccchHHHHHHHHHhhchHHHHHHHHHhcc---C-c-----HHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHH
Confidence            3344555566677777777777766665322   1 1     1334555666667666666554321100          


Q ss_pred             -CCChhhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          182 -TPISRCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       182 -~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                       -.+.. ..--|..+.++|.+=.|-+++..|.+
T Consensus       920 ll~~~~-~~eaIe~~Rka~~~~daarll~qmae  951 (1189)
T KOG2041|consen  920 LLADAN-HMEAIEKDRKAGRHLDAARLLSQMAE  951 (1189)
T ss_pred             HHhhcc-hHHHHHHhhhcccchhHHHHHHHHhH
Confidence             00111 11234556667766666666655543

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.66  E-value=1.2  Score=32.55  Aligned_cols=156  Identities=10%  Similarity=0.081  Sum_probs=99.6

Q ss_pred             CCCCCChhhHHHHHHHHHhc----C------------CHHHHHHHHHHHhh-CCCCCChhhHHHHHHHHHh-cCc-hhHH
Q 035645            4 KGFNPPVRGRDLLVQGLLNA----G------------YLESAKQMVNKMIK-QGSDPDLETFNSLIETICK-SGE-VEFC   64 (217)
Q Consensus         4 ~g~~~~~~~~~~ll~~~~~~----g------------~~~~a~~~~~~m~~-~~~~~~~~~~~~ll~~~~~-~~~-~~~a   64 (217)
                      .|.+++..-+..+++.+...    +            .+.+|+.+|+..-- ..+--|..+...+++.... .+. ...-
T Consensus       106 ~g~~Lt~~Dli~FL~~~i~~~~~~k~~~Y~~LVk~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~al  185 (292)
T PF13929_consen  106 MGCELTKEDLISFLKLVIINLSSNKSFNYWDLVKRNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNAL  185 (292)
T ss_pred             cCCCCcHHHHHHHHHHHHhccccccchHHHHHHHhhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhH
Confidence            46666666666666653322    2            23334444442211 2244577788888888776 222 2222


Q ss_pred             HHHHHHHH-hcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCcccHHHHHHHHHhcCChHHHHHHHHH--
Q 035645           65 VEMYYSVC-KLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED-GHNPFPSLYAPIIKGAFRRGQFDDAFCFFSE--  140 (217)
Q Consensus        65 ~~~~~~~~-~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~--  140 (217)
                      .++.+-+. ..+..++..+...++..+++.++|.+-.++++..... +..-|...|..+|+.....|+..-...+..+  
T Consensus       186 YEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~Gh  265 (292)
T PF13929_consen  186 YEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGH  265 (292)
T ss_pred             HHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCC
Confidence            23333332 3345678888999999999999999999999987765 5567889999999999999998877776654  


Q ss_pred             ---HHhcCCCCCHhHHHHHHHH
Q 035645          141 ---IKIKGHPPNRPVYTTLITM  159 (217)
Q Consensus       141 ---~~~~~~~~~~~~~~~li~~  159 (217)
                         +++.++..+...-..+-..
T Consensus       266 LLwikR~~V~v~~~L~~~L~~L  287 (292)
T PF13929_consen  266 LLWIKRNNVDVTDELRSQLSEL  287 (292)
T ss_pred             eEEeeecCCcCCHHHHHHHHHH
Confidence               2334555555554444333

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.66  E-value=0.19  Score=30.30  Aligned_cols=72  Identities=14%  Similarity=0.171  Sum_probs=45.3

Q ss_pred             HHHHhcCChH--HHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 035645          123 KGAFRRGQFD--DAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGL  195 (217)
Q Consensus       123 ~~~~~~g~~~--~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (217)
                      ..+....+.|  +..+-+..+....+.|++.+..+.+.+|.+.+++..|.++|+-++.+. .+....|..+++-+
T Consensus        16 ~~~F~~~~iD~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~lqEl   89 (108)
T PF02284_consen   16 EKYFNRPDIDGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYILQEL   89 (108)
T ss_dssp             HHHHH-TT--HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHHHHH
T ss_pred             HHHhCCccccHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHHHHH
Confidence            3444444333  566666666677788999999999999999999999999998877432 23333777776543

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.57  E-value=0.79  Score=37.80  Aligned_cols=114  Identities=15%  Similarity=0.153  Sum_probs=87.7

Q ss_pred             CChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHH
Q 035645           43 PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPII  122 (217)
Q Consensus        43 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  122 (217)
                      -..-+.+--+.-+..-|+..+|.++-.+.+    -||...|-.-+.+++..++|++-+++-+..+      ++.-|.-+.
T Consensus       682 f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFV  751 (829)
T KOG2280|consen  682 FVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFV  751 (829)
T ss_pred             cccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHH
Confidence            344455666667788899999988876664    3799999999999999999998766654432      256688899


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHH
Q 035645          123 KGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLME  175 (217)
Q Consensus       123 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  175 (217)
                      .+|.+.|+.++|...+......         .-...+|.+.|++.+|.++--+
T Consensus       752 e~c~~~~n~~EA~KYiprv~~l---------~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  752 EACLKQGNKDEAKKYIPRVGGL---------QEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHhcccHHHHhhhhhccCCh---------HHHHHHHHHhccHHHHHHHHHH
Confidence            9999999999999988754321         1567888899999888877654

>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=94.51  E-value=0.013  Score=38.03  Aligned_cols=129  Identities=12%  Similarity=0.206  Sum_probs=86.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcC
Q 035645           15 LLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAG   94 (217)
Q Consensus        15 ~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~   94 (217)
                      .++..+.+.+.+.....+++.+...+...+....+.++..|++.++.+...++++.       .+..-...++..|.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhcc
Confidence            46777788899999999999999877667788999999999999888888888762       12233456778888888


Q ss_pred             CHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCC
Q 035645           95 MIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGR  165 (217)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  165 (217)
                      .++++.-++.++....-         .+..+...++++.|.+...+      .++...|..+++.+...+.
T Consensus        85 l~~~a~~Ly~~~~~~~~---------al~i~~~~~~~~~a~e~~~~------~~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   85 LYEEAVYLYSKLGNHDE---------ALEILHKLKDYEEAIEYAKK------VDDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             SHHHHHHHHHCCTTHTT---------CSSTSSSTHCSCCCTTTGGG------CSSSHHHHHHHHHHCTSTC
T ss_pred             hHHHHHHHHHHcccHHH---------HHHHHHHHccHHHHHHHHHh------cCcHHHHHHHHHHHHhcCc
Confidence            88888887776533211         01113344555555533332      2356777777777766554

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.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=94.48  E-value=2  Score=34.21  Aligned_cols=180  Identities=10%  Similarity=0.031  Sum_probs=124.3

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      |-....+++..++.+..+.-+..+..+|..-|  -+...+..++.+|.+. ..++-..+|+++.+..+. |...-..|..
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            44556788889999999999999999998865  3677888999999888 678888999998886443 4444445555


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCC--C---cccHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCCCHhHHHHHHHHHhc
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNP--F---PSLYAPIIKGAFRRGQFDDAFCFFSEIKIK-GHPPNRPVYTTLITMCGR  162 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~--~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~  162 (217)
                      .|-+ ++.+.+..+|.+...+-++-  +   ...|..+...-  -.+.|....+..++... |...-...+.-+-.-|..
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            5554 88888888888877553221  1   12344443321  34566666776666543 444455677777788889


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 035645          163 GGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLK  196 (217)
Q Consensus       163 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  196 (217)
                      ..++.+|.+++..+.+.+ .-|..+-..++.-+.
T Consensus       218 ~eN~~eai~Ilk~il~~d-~k~~~ar~~~i~~lR  250 (711)
T COG1747         218 NENWTEAIRILKHILEHD-EKDVWARKEIIENLR  250 (711)
T ss_pred             ccCHHHHHHHHHHHhhhc-chhhhHHHHHHHHHH
Confidence            999999999999888655 445555555555544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.24  E-value=1.6  Score=32.08  Aligned_cols=142  Identities=15%  Similarity=0.142  Sum_probs=94.3

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHH
Q 035645           19 GLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDE   98 (217)
Q Consensus        19 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~   98 (217)
                      .....|++..|..+|......... +...--.+..+|...|+.+.|..++..+...--.........-+..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            456778999999999988876433 4666778888999999999999999888653222222223344555666665555


Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc--CCCCCHhHHHHHHHHHhcCC
Q 035645           99 AFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK--GHPPNRPVYTTLITMCGRGG  164 (217)
Q Consensus        99 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g  164 (217)
                      ...+-.+.-..  +-|...-..+...+...|+.++|.+.+-.+.+.  |.. |...-..++..+.--|
T Consensus       222 ~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g  286 (304)
T COG3118         222 IQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFG  286 (304)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcC
Confidence            55555555432  235566667788888999999998887776554  332 4455556666555545

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.19  E-value=0.17  Score=23.44  Aligned_cols=22  Identities=23%  Similarity=0.295  Sum_probs=8.4

Q ss_pred             HHHHHHHhcCchhHHHHHHHHH
Q 035645           50 SLIETICKSGEVEFCVEMYYSV   71 (217)
Q Consensus        50 ~ll~~~~~~~~~~~a~~~~~~~   71 (217)
                      .+..+|...|++++|+..|++.
T Consensus         6 ~~g~~~~~~~~~~~A~~~~~~a   27 (34)
T PF00515_consen    6 NLGNAYFQLGDYEEALEYYQRA   27 (34)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhCCchHHHHHHHHH
Confidence            3333334444444444444333

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 ....

>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=94.17  E-value=0.13  Score=23.77  Aligned_cols=30  Identities=10%  Similarity=0.049  Sum_probs=18.8

Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          187 CFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +|..+...|...|++++|.+.++...+++|
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~   32 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNP   32 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            455566666666666666666666665543

...

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=94.00  E-value=1.2  Score=30.80  Aligned_cols=75  Identities=9%  Similarity=0.062  Sum_probs=55.8

Q ss_pred             chhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCcccHHHHHHHHHhcCChHHHH
Q 035645           60 EVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED---GHNPFPSLYAPIIKGAFRRGQFDDAF  135 (217)
Q Consensus        60 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~ll~~~~~~g~~~~a~  135 (217)
                      .-+.|.+.|-.+...+.--++.....|...|. ..+.+++..++....+.   +-.+|+..+..|+..+.+.|+++.|.
T Consensus       121 ~d~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  121 GDQEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             CcHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            34678888888877665545555555555555 66789999998887754   33577889999999999999999875

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.00  E-value=2.1  Score=32.75  Aligned_cols=171  Identities=13%  Similarity=0.088  Sum_probs=109.3

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcC---CCcchhhHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCCccc
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLG---SCADVSTYKILIPAVSK---AGMIDEAFRLLHNLVEDGHNPFPSL  117 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~  117 (217)
                      +..+...++-+|....+++..+++.+.+....   +.-+..+-....-++.+   .|+.++|.+++..+......+++.+
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            34444566667999999999999999997641   11123333455566777   8999999999999666656788889


Q ss_pred             HHHHHHHHHh---------cCChHHHHHHHHHHHhcCCCCCHh---HHHHHHHHHhcCCC-HHHHHHHH---HHHH-HcC
Q 035645          118 YAPIIKGAFR---------RGQFDDAFCFFSEIKIKGHPPNRP---VYTTLITMCGRGGR-FVEAANYL---MEMT-EMG  180 (217)
Q Consensus       118 ~~~ll~~~~~---------~g~~~~a~~~~~~~~~~~~~~~~~---~~~~li~~~~~~g~-~~~a~~~~---~~~~-~~~  180 (217)
                      |..+.+.|..         ....++|...|.+.-+.  .||..   -+.+|+........ -.+..++-   ..+. +.|
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         12367788777765433  34432   22233333222111 11222222   2222 333


Q ss_pred             C---CCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          181 L---TPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       181 ~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .   ..+-..+..++.++.-.|+.+.|.+..+.+..+.|
T Consensus       298 ~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~  336 (374)
T PF13281_consen  298 SLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKP  336 (374)
T ss_pred             cccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC
Confidence            2   34555778899999999999999999999887754

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.89  E-value=0.19  Score=24.42  Aligned_cols=25  Identities=16%  Similarity=0.224  Sum_probs=12.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKM   36 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m   36 (217)
                      +++.+...|...|++++|..++++.
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHH
Confidence            4444555555555555555555444

>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=93.80  E-value=1.1  Score=30.93  Aligned_cols=79  Identities=11%  Similarity=-0.032  Sum_probs=57.7

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH---cCCCCChhhHHHHHHHHHhcCCc
Q 035645          125 AFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE---MGLTPISRCFDLVTDGLKNCGKH  201 (217)
Q Consensus       125 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~  201 (217)
                      ..+.| -+.|.+.|-.+...+.--++.....|...|. ..+.+++..++.+..+   .+-.+|+..+..|+..+.+.|++
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 WSRFG-DQEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccC-cHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            34444 4567777877877765556666666665555 6788899998888774   33367888999999999999999


Q ss_pred             hHHH
Q 035645          202 DLAE  205 (217)
Q Consensus       202 ~~a~  205 (217)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            8875

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.73  E-value=2.3  Score=32.13  Aligned_cols=192  Identities=11%  Similarity=0.092  Sum_probs=99.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCC---C-cchhhHHHHHHHHH
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGS---C-ADVSTYKILIPAVS   91 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~-~~~~~~~~ll~~~~   91 (217)
                      ...+..+.|+|+...+........  .++...+..+...  ..++++++....+.....-.   . .....|......+.
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~   79 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLV   79 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            356778889999866665554432  2344455555443  77888888888777643211   0 11223333333333


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh-----cCChHHHHHH---HHHHHh--cCCCCCHhHHHHHHHHHh
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR-----RGQFDDAFCF---FSEIKI--KGHPPNRPVYTTLITMCG  161 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-----~g~~~~a~~~---~~~~~~--~~~~~~~~~~~~li~~~~  161 (217)
                      +...+.+..++.+-......  +......++.....     .++++.-..+   =..+..  ........+|..+.+.+.
T Consensus        80 ~lq~L~Elee~~~~~~~~~~--~~~~~~~l~~~W~~Rl~~~~~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~~a~~aR  157 (352)
T PF02259_consen   80 KLQQLVELEEIIELKSNLSQ--NPQDLKSLLKRWRSRLPNMQDDFSVWEPILSLRRLVLSLILLPEELAETWLKFAKLAR  157 (352)
T ss_pred             HHhHHHHHHHHHHHHHhhcc--cHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHH
Confidence            33333333333332211100  01111111111110     1122111111   111111  112234567888888899


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCC---ChhhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          162 RGGRFVEAANYLMEMTEMGLTP---ISRCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       162 ~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      +.|+++.|...+..+...+..+   ++...-.-++.+...|+.++|.+.++....
T Consensus       158 k~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  158 KAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999999998887644222   334445556667778888888888766554

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=93.73  E-value=3.3  Score=34.06  Aligned_cols=24  Identities=13%  Similarity=0.092  Sum_probs=12.7

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQ   31 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~   31 (217)
                      |....+.+-+..|...|.+++|.+
T Consensus       554 ~~evp~~~~m~q~Ieag~f~ea~~  577 (1081)
T KOG1538|consen  554 AVEVPQSAPMYQYIERGLFKEAYQ  577 (1081)
T ss_pred             cccccccccchhhhhccchhhhhc
Confidence            334444455555566666666544

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=93.50  E-value=0.21  Score=38.25  Aligned_cols=130  Identities=12%  Similarity=0.049  Sum_probs=90.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHh----hCCCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHHh----cCC-Ccchhh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMI----KQGSDP-DLETFNSLIETICKSGEVEFCVEMYYSVCK----LGS-CADVST   82 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~----~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~-~~~~~~   82 (217)
                      |..|...|.-.|+|+.|+...+.-.    +-|-.. -...+..+.+++.-.|+++.|.+.|+.-..    .|- ......
T Consensus       198 ~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQs  277 (639)
T KOG1130|consen  198 YGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQS  277 (639)
T ss_pred             hcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHH
Confidence            4444445555688999887766432    223222 345788899999999999999999886642    221 123456


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 035645           83 YKILIPAVSKAGMIDEAFRLLHNLVED-----GHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIK  142 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  142 (217)
                      +.+|.+.|.-..++++|+.++.+-+..     +.......|.+|-.++...|..++|+.+...-.
T Consensus       278 cYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  278 CYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            778888898889999999888764421     122345678889999999999999988776543

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=93.39  E-value=2.3  Score=31.06  Aligned_cols=88  Identities=15%  Similarity=0.029  Sum_probs=49.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh---
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK---   92 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~---   92 (217)
                      =|++++..++|.+++...-+--+.--+.-.......|-.|.+.+++..+.++-..-.+..-.-+..-|..+...|..   
T Consensus        89 GIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VL  168 (309)
T PF07163_consen   89 GIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVL  168 (309)
T ss_pred             hHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHH
Confidence            36677777777777766554433222223334444555577777777777766655443222233346665555544   


Q ss_pred             --cCCHHHHHHHH
Q 035645           93 --AGMIDEAFRLL  103 (217)
Q Consensus        93 --~~~~~~a~~~~  103 (217)
                        .|.+++|+++.
T Consensus       169 lPLG~~~eAeelv  181 (309)
T PF07163_consen  169 LPLGHFSEAEELV  181 (309)
T ss_pred             hccccHHHHHHHH
Confidence              47777777665

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

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=93.31  E-value=0.32  Score=23.57  Aligned_cols=25  Identities=28%  Similarity=0.332  Sum_probs=11.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHH
Q 035645           82 TYKILIPAVSKAGMIDEAFRLLHNL  106 (217)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~  106 (217)
                      +++.+...|...|++++|..++++.
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHH
Confidence            3444555555555555555555444

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=93.31  E-value=1.6  Score=30.20  Aligned_cols=90  Identities=13%  Similarity=0.073  Sum_probs=56.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCc-----ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcC
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFP-----SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRG  163 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  163 (217)
                      -+.+.|++++|..-|.+.+..- ++..     ..|..-..++.+.+.++.|+.--.+.++.+.. .......-..+|.+.
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek~  181 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEKM  181 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHhh
Confidence            4667788888888888877653 2221     23444456677778888877777766665321 122222334466677


Q ss_pred             CCHHHHHHHHHHHHHcC
Q 035645          164 GRFVEAANYLMEMTEMG  180 (217)
Q Consensus       164 g~~~~a~~~~~~~~~~~  180 (217)
                      ..+++|++=++.+.+..
T Consensus       182 ek~eealeDyKki~E~d  198 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESD  198 (271)
T ss_pred             hhHHHHHHHHHHHHHhC
Confidence            77888888888777654

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=93.31  E-value=1.7  Score=30.52  Aligned_cols=76  Identities=17%  Similarity=0.179  Sum_probs=47.8

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCcccHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG--HNPFPSLYAPIIK  123 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~  123 (217)
                      |.+..++.+.+.++..+++...+.-.+.. +.|...-..++..++-.|+|++|..-++-.-...  ..+-..+|..+|.
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir   80 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIR   80 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            34555667777788888888877666543 2355666778888888888888877666554331  1222344555444

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.25  E-value=0.089  Score=24.74  Aligned_cols=17  Identities=24%  Similarity=0.278  Sum_probs=6.4

Q ss_pred             hHHHHHHHHHhcCCHHH
Q 035645           82 TYKILIPAVSKAGMIDE   98 (217)
Q Consensus        82 ~~~~ll~~~~~~~~~~~   98 (217)
                      +|+.+...|...|++++
T Consensus        15 a~~nla~~~~~~g~~~~   31 (34)
T PF13431_consen   15 AYNNLANLYLNQGDYEE   31 (34)
T ss_pred             HHHHHHHHHHHCcCHHh
Confidence            33333333333333333

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.13  E-value=0.33  Score=22.27  Aligned_cols=17  Identities=18%  Similarity=0.284  Sum_probs=6.1

Q ss_pred             HHHhcCchhHHHHHHHH
Q 035645           54 TICKSGEVEFCVEMYYS   70 (217)
Q Consensus        54 ~~~~~~~~~~a~~~~~~   70 (217)
                      ++...|++++|++.|++
T Consensus        10 ~~~~~~~~~~A~~~~~~   26 (34)
T PF07719_consen   10 AYYQLGNYEEAIEYFEK   26 (34)
T ss_dssp             HHHHTT-HHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHH
Confidence            33333333333333333

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 ....

>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=93.10  E-value=2.6  Score=30.94  Aligned_cols=162  Identities=14%  Similarity=0.075  Sum_probs=99.9

Q ss_pred             HHhcCCHHHHHHHHHHHhhCC--CCCCh------hhHHHHHHHHHhcC-chhHHHHHHHHHHhc--------CCCcc---
Q 035645           20 LLNAGYLESAKQMVNKMIKQG--SDPDL------ETFNSLIETICKSG-EVEFCVEMYYSVCKL--------GSCAD---   79 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~~--~~~~~------~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~---   79 (217)
                      ..+.|+++.|..++.+.....  ..|+.      ..|+.-... .+.+ +++.|...+++..+.        ...|+   
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l-~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~e   81 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSL-LSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSE   81 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHH-HHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHH
Confidence            357899999999999987642  23332      123333333 3445 888888877766432        11222   


Q ss_pred             --hhhHHHHHHHHHhcCCHH---HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHH
Q 035645           80 --VSTYKILIPAVSKAGMID---EAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYT  154 (217)
Q Consensus        80 --~~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  154 (217)
                        ..++..++.+|...+..+   +|.++++.+.+.. +-.+.++..-+..+.+.++.+++.+++..|... +......+.
T Consensus        82 lr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~-~~~~e~~~~  159 (278)
T PF08631_consen   82 LRLSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS-VDHSESNFD  159 (278)
T ss_pred             HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh-cccccchHH
Confidence              356778888888877765   4566666664432 223556667778888899999999999999876 221334444


Q ss_pred             HHHHHH---hcCCCHHHHHHHHHHHHHcCCCCCh
Q 035645          155 TLITMC---GRGGRFVEAANYLMEMTEMGLTPIS  185 (217)
Q Consensus       155 ~li~~~---~~~g~~~~a~~~~~~~~~~~~~~~~  185 (217)
                      ..+..+   ... ....+...+..+....+.|..
T Consensus       160 ~~l~~i~~l~~~-~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  160 SILHHIKQLAEK-SPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHHHHHhh-CcHHHHHHHHHHHHHHhCCCh
Confidence            444443   333 345666777666644444444

It is also involved in sporulation [].

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=93.03  E-value=0.36  Score=36.09  Aligned_cols=54  Identities=13%  Similarity=-0.013  Sum_probs=35.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIK  142 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  142 (217)
                      +-|.+.|.+++|++.|..-.... +.+..++..-..+|.+...+..|+.--....
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Ai  158 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAI  158 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHH
Confidence            34666777777777777655442 2366777777777777777776665554444

>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=92.98  E-value=1.8  Score=28.74  Aligned_cols=113  Identities=13%  Similarity=0.177  Sum_probs=65.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHH-HHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcC
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFN-SLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAG   94 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~   94 (217)
                      ++..-.+.++.+.+..++..+.-.  .|...... .-...+...|+|.+|+++|+.+....  |.......|+..|....
T Consensus        16 ~~~~al~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~   91 (160)
T PF09613_consen   16 VLSVALRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYAL   91 (160)
T ss_pred             HHHHHHccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHc
Confidence            344455678999999999998764  34433222 33445788999999999999997653  44444445555554432


Q ss_pred             CHHHHHHH-HHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHH
Q 035645           95 MIDEAFRL-LHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFC  136 (217)
Q Consensus        95 ~~~~a~~~-~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~  136 (217)
                      . +..++. -++..+.+-.|+..   .+++.+....+...|..
T Consensus        92 ~-D~~Wr~~A~evle~~~d~~a~---~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   92 G-DPSWRRYADEVLESGADPDAR---ALVRALLARADLEPAHE  130 (160)
T ss_pred             C-ChHHHHHHHHHHhcCCChHHH---HHHHHHHHhccccchhh
Confidence            2 222222 33455554333322   35555555555444444

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=92.81  E-value=0.2  Score=23.49  Aligned_cols=22  Identities=23%  Similarity=0.427  Sum_probs=16.6

Q ss_pred             ChhhHHHHHHHHHhcCchhHHH
Q 035645           44 DLETFNSLIETICKSGEVEFCV   65 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~   65 (217)
                      +...|+.+...|...|++++|+
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            6677777777777888777765

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.74  E-value=2.1  Score=28.95  Aligned_cols=122  Identities=13%  Similarity=0.167  Sum_probs=52.8

Q ss_pred             hcCchhHHHHHHHHHHhcCCCcch-hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcc-cHHHH--HHHHHhcCChH
Q 035645           57 KSGEVEFCVEMYYSVCKLGSCADV-STYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPS-LYAPI--IKGAFRRGQFD  132 (217)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l--l~~~~~~g~~~  132 (217)
                      +.+..++|+..|..+.+.|...-+ .............|+...|...|++.-...-.|-.. -..-|  .-.+...|.++
T Consensus        70 ~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy~  149 (221)
T COG4649          70 QENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSYD  149 (221)
T ss_pred             HcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccHH
Confidence            444555555555555544332111 111122233444555555555555555443222221 00111  11233455555


Q ss_pred             HHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          133 DAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      ....-.+-+...+-+.....-..|.-+-.+.|++.+|.+.|..+..
T Consensus       150 dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         150 DVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            5555555444333222223333444444556666666666655553

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=92.74  E-value=3.9  Score=32.08  Aligned_cols=192  Identities=11%  Similarity=0.028  Sum_probs=110.5

Q ss_pred             HHhcCCHHHHHHHHHHHhhC--CCCC------------ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC----cchh
Q 035645           20 LLNAGYLESAKQMVNKMIKQ--GSDP------------DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC----ADVS   81 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~--~~~~------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~   81 (217)
                      +.+.+.+++|.+.+..-.++  +-.|            |-..=+..+.++...|++.++..+++++...-++    -+..
T Consensus        89 ~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d  168 (549)
T PF07079_consen   89 AYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSD  168 (549)
T ss_pred             HHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHH
Confidence            34678899999988777654  3222            1122246778889999999999999988765333    6788


Q ss_pred             hHHHHHHHHHhcCC---------------HHHHHHHHHHHHhC------CCCCCcccHHHHHHHHHhcC-----ChHHHH
Q 035645           82 TYKILIPAVSKAGM---------------IDEAFRLLHNLVED------GHNPFPSLYAPIIKGAFRRG-----QFDDAF  135 (217)
Q Consensus        82 ~~~~ll~~~~~~~~---------------~~~a~~~~~~~~~~------~~~~~~~~~~~ll~~~~~~g-----~~~~a~  135 (217)
                      +|+.++-.+++.=-               ++.+.-..+++...      .+.|-......++....-..     -+-.+.
T Consensus       169 ~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l  248 (549)
T PF07079_consen  169 MYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQIL  248 (549)
T ss_pred             HHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHH
Confidence            89987777665411               11222222222211      12233333333333322211     112222


Q ss_pred             HHHHHHHhcCCCCCH-hHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCC----ChhhHHHHHHHHHhcCCchHHHHHHHH
Q 035645          136 CFFSEIKIKGHPPNR-PVYTTLITMCGRGGRFVEAANYLMEMTEMGLTP----ISRCFDLVTDGLKNCGKHDLAEKIEQL  210 (217)
Q Consensus       136 ~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (217)
                      ..|   .+.-+.|+- -+...++..+..  +.+++..+-+.+....+.+    -..+|..++....+.++..+|.+.+..
T Consensus       249 ~~W---e~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~l  323 (549)
T PF07079_consen  249 ENW---ENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLAL  323 (549)
T ss_pred             HHH---HhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            333   233344552 333444455444  5566666665555433222    235788889999999999999999988


Q ss_pred             HhhhcC
Q 035645          211 EVSLRS  216 (217)
Q Consensus       211 ~~~~~~  216 (217)
                      ...++|
T Consensus       324 L~~ldp  329 (549)
T PF07079_consen  324 LKILDP  329 (549)
T ss_pred             HHhcCC
Confidence            887765

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=92.70  E-value=3.3  Score=32.83  Aligned_cols=127  Identities=16%  Similarity=0.150  Sum_probs=79.5

Q ss_pred             HHHHHHHHhcCCHHHHHH-HHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           14 DLLVQGLLNAGYLESAKQ-MVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~-~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      ..-|.-....|++-.|-+ ++..++...-.|+....  ....+...|+++.+...+...... +.....+..+++....+
T Consensus       293 ~~si~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l--~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~  369 (831)
T PRK15180        293 TLSITKQLADGDIIAASQQLFAALRNQQQDPVLIQL--RSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHG  369 (831)
T ss_pred             HHHHHHHhhccCHHHHHHHHHHHHHhCCCCchhhHH--HHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhc
Confidence            333444556677766544 44444444333444333  333456678888888888776543 33456777888888888


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           93 AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      .+++++|..+-..|+...+.. +.......-..-..|-+|++...|+.+...
T Consensus       370 l~r~~~a~s~a~~~l~~eie~-~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~  420 (831)
T PRK15180        370 LARWREALSTAEMMLSNEIED-EEVLTVAAGSADALQLFDKSYHYWKRVLLL  420 (831)
T ss_pred             hhhHHHHHHHHHHHhccccCC-hhheeeecccHHHHhHHHHHHHHHHHHhcc
Confidence            889999988888888766542 333333333344567788888888776543

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.60  E-value=4  Score=33.26  Aligned_cols=132  Identities=17%  Similarity=0.141  Sum_probs=75.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      ...+.+...+.+.|..++|+++-         +|...   -.....+.|+++.|.++..+..      +..-|..|.++.
T Consensus       615 ~~rt~va~Fle~~g~~e~AL~~s---------~D~d~---rFelal~lgrl~iA~~la~e~~------s~~Kw~~Lg~~a  676 (794)
T KOG0276|consen  615 EIRTKVAHFLESQGMKEQALELS---------TDPDQ---RFELALKLGRLDIAFDLAVEAN------SEVKWRQLGDAA  676 (794)
T ss_pred             hhhhhHHhHhhhccchHhhhhcC---------CChhh---hhhhhhhcCcHHHHHHHHHhhc------chHHHHHHHHHH
Confidence            45667777777788777776652         12211   1223345677777766654442      344577777777


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHH
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAA  170 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  170 (217)
                      .+.+++..|.+.|.....         |..|+-.+...|+.+....+-....+.|.. |     ....++...|+++++.
T Consensus       677 l~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~~-N-----~AF~~~~l~g~~~~C~  741 (794)
T KOG0276|consen  677 LSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGKN-N-----LAFLAYFLSGDYEECL  741 (794)
T ss_pred             hhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhccc-c-----hHHHHHHHcCCHHHHH
Confidence            777777777777765432         344555666666666555555555555432 1     2222344566666666


Q ss_pred             HHHHH
Q 035645          171 NYLME  175 (217)
Q Consensus       171 ~~~~~  175 (217)
                      +++..
T Consensus       742 ~lLi~  746 (794)
T KOG0276|consen  742 ELLIS  746 (794)
T ss_pred             HHHHh
Confidence            66543

>PRK11906 transcriptional regulator; Provisional

Probab=92.48  E-value=4.3  Score=31.92  Aligned_cols=79  Identities=15%  Similarity=0.077  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHH
Q 035645           97 DEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFVEAANYLME  175 (217)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~  175 (217)
                      .+|.++-++..+.+ +.|..+...+-.+....++++.|...|+.....  .|| ..+|......+.-.|+.++|.+.+++
T Consensus       321 ~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~  397 (458)
T PRK11906        321 QKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDK  397 (458)
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            34555555555554 345555555555556666666666666666554  333 33444444444456666666666666


Q ss_pred             HHH
Q 035645          176 MTE  178 (217)
Q Consensus       176 ~~~  178 (217)
                      ..+
T Consensus       398 alr  400 (458)
T PRK11906        398 SLQ  400 (458)
T ss_pred             Hhc
Confidence            444

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.17  E-value=5.6  Score=32.50  Aligned_cols=97  Identities=16%  Similarity=0.081  Sum_probs=49.5

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHH
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAA  170 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  170 (217)
                      .+.|+++.|.++..+..      +..-|..|-++..+.|++..|.+.|.....         |..|+-.+...|+-+...
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            35566666665544332      344566666666666666666666664432         334444455555555444


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHH
Q 035645          171 NYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIE  208 (217)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (217)
                      .+-....+.| +.|     .-..+|...|+++++.+++
T Consensus       713 ~la~~~~~~g-~~N-----~AF~~~~l~g~~~~C~~lL  744 (794)
T KOG0276|consen  713 VLASLAKKQG-KNN-----LAFLAYFLSGDYEECLELL  744 (794)
T ss_pred             HHHHHHHhhc-ccc-----hHHHHHHHcCCHHHHHHHH
Confidence            4444444444 221     2223334445555555554

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=92.15  E-value=7.9  Score=34.20  Aligned_cols=115  Identities=15%  Similarity=0.128  Sum_probs=64.3

Q ss_pred             CcchhhHHHHH----HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHh-
Q 035645           77 CADVSTYKILI----PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRP-  151 (217)
Q Consensus        77 ~~~~~~~~~ll----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-  151 (217)
                      .|+...+..+.    .-+.+...+++|.-.|+..-+         ....+.+|..+|+|.+|+.+...+...   -+.. 
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            34554444433    333445666666666654322         123466777777777777777765421   1221 


Q ss_pred             -HHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          152 -VYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       152 -~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                       +-..|+.-+...+++-+|-++..+....        ....+..|++...|++|.++....
T Consensus      1000 ~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen 1000 ILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAKEWEEALRVASKA 1052 (1265)
T ss_pred             HHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHhHHHHHHHHHHhc
Confidence             2256777777888888888777655431        223444455556666666655443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=91.97  E-value=5.4  Score=31.92  Aligned_cols=165  Identities=13%  Similarity=0.055  Sum_probs=116.6

Q ss_pred             CChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHH
Q 035645           43 PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPII  122 (217)
Q Consensus        43 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  122 (217)
                      .|....-+++..+.++-.+.-+..+-.+|...|  -+...|..++.+|... ..+.-..+|+++.+..+. |...-..|.
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa  139 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELA  139 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHH
Confidence            355556677888888888888888888888754  5778888999999888 677788999988887642 333333444


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCC-----CCHhHHHHHHHHHhcCCCHHHHHHHHHHHH-HcCCCCChhhHHHHHHHHH
Q 035645          123 KGAFRRGQFDDAFCFFSEIKIKGHP-----PNRPVYTTLITMCGRGGRFVEAANYLMEMT-EMGLTPISRCFDLVTDGLK  196 (217)
Q Consensus       123 ~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~  196 (217)
                      ..|- .++.+.+...|.+....=++     .-...|..++..  -..+.+....+..++. +.|...-...+.-+-.-|.
T Consensus       140 ~~yE-kik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         140 DKYE-KIKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHHH-HhchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            4444 48888888999888765221     012466666553  2456777777777776 3555556667778888899


Q ss_pred             hcCCchHHHHHHHHHhhh
Q 035645          197 NCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~  214 (217)
                      ...++++|.+++.-+.++
T Consensus       217 ~~eN~~eai~Ilk~il~~  234 (711)
T COG1747         217 ENENWTEAIRILKHILEH  234 (711)
T ss_pred             cccCHHHHHHHHHHHhhh
Confidence            999999999999855544

>PHA02875 ankyrin repeat protein; Provisional

Probab=91.94  E-value=4.5  Score=31.51  Aligned_cols=62  Identities=21%  Similarity=0.295  Sum_probs=28.7

Q ss_pred             CCCCCCChhh--HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChh--hHHHHHHHHHhcCchhHHHHHH
Q 035645            3 DKGFNPPVRG--RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLE--TFNSLIETICKSGEVEFCVEMY   68 (217)
Q Consensus         3 ~~g~~~~~~~--~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--~~~~ll~~~~~~~~~~~a~~~~   68 (217)
                      +.|..|+...  ..+.+..++..|+.+-+    +.+.+.|..|+..  .....+...+..|+.+.+..++
T Consensus        23 ~~g~~~n~~~~~g~tpL~~A~~~~~~~~v----~~Ll~~ga~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll   88 (413)
T PHA02875         23 DIGINPNFEIYDGISPIKLAMKFRDSEAI----KLLMKHGAIPDVKYPDIESELHDAVEEGDVKAVEELL   88 (413)
T ss_pred             HCCCCCCccCCCCCCHHHHHHHcCCHHHH----HHHHhCCCCccccCCCcccHHHHHHHCCCHHHHHHHH
Confidence            3455554432  33445555666766533    3334445444322  1122344445566665544444

>PRK11906 transcriptional regulator; Provisional

Probab=91.90  E-value=5.2  Score=31.51  Aligned_cols=160  Identities=13%  Similarity=0.098  Sum_probs=105.1

Q ss_pred             hhH--HHHHHHHHhc-----CCHHHHHHHHHHHhh-CCCCCC-hhhHHHHHHHHHh---------cCchhHHHHHHHHHH
Q 035645           11 RGR--DLLVQGLLNA-----GYLESAKQMVNKMIK-QGSDPD-LETFNSLIETICK---------SGEVEFCVEMYYSVC   72 (217)
Q Consensus        11 ~~~--~~ll~~~~~~-----g~~~~a~~~~~~m~~-~~~~~~-~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~   72 (217)
                      ..|  ...+.+....     -..+.|..+|.+... +...|+ ...|..+..++..         ..+..+|.++-++..
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            456  5666665552     235678888999882 234454 4455544444332         223456777777777


Q ss_pred             hcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH--
Q 035645           73 KLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNR--  150 (217)
Q Consensus        73 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~--  150 (217)
                      +.+. -|......+..+..-.++.+.|..+|++....+ +....+|......+.-.|+.++|.+.+++..+.  .|..  
T Consensus       332 eld~-~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~  407 (458)
T PRK11906        332 DITT-VDGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRK  407 (458)
T ss_pred             hcCC-CCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhH
Confidence            7643 377777788888888888999999999998875 333456666666777899999999999996654  3432  


Q ss_pred             -hHHHHHHHHHhcCCCHHHHHHHHHH
Q 035645          151 -PVYTTLITMCGRGGRFVEAANYLME  175 (217)
Q Consensus       151 -~~~~~li~~~~~~g~~~~a~~~~~~  175 (217)
                       ......++.|+..+ .+.+.+++-+
T Consensus       408 ~~~~~~~~~~~~~~~-~~~~~~~~~~  432 (458)
T PRK11906        408 AVVIKECVDMYVPNP-LKNNIKLYYK  432 (458)
T ss_pred             HHHHHHHHHHHcCCc-hhhhHHHHhh
Confidence             33334455666554 6777777644

>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=91.86  E-value=1.1  Score=25.67  Aligned_cols=47  Identities=11%  Similarity=-0.050  Sum_probs=24.7

Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCC--hhhHHHHHHHHHhcCCchHHHHHH
Q 035645          162 RGGRFVEAANYLMEMTEMGLTPI--SRCFDLVTDGLKNCGKHDLAEKIE  208 (217)
Q Consensus       162 ~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~  208 (217)
                      ..++.++|+..|....+.-..|.  ..++..++.+|+.-|+++++.++.
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555566666655554322221  125555666666666666655554

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

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=91.69  E-value=4  Score=29.84  Aligned_cols=126  Identities=10%  Similarity=0.058  Sum_probs=81.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCC-----C-CCC-------hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQG-----S-DPD-------LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD   79 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~-----~-~~~-------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~   79 (217)
                      .....+.+.-..||..|++.-++-.+.=     . .++       ......=|.+++..++|.+++...-+--+.--+..
T Consensus        38 Le~Aad~LvV~rdF~aal~tCerglqsL~~~a~~ee~~~~~~evK~sLcvvGIQALAEmnrWreVLsWvlqyYq~pEklP  117 (309)
T PF07163_consen   38 LEEAADLLVVHRDFQAALETCERGLQSLASDADAEEPAGSSLEVKCSLCVVGIQALAEMNRWREVLSWVLQYYQVPEKLP  117 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchhhhhhhhhhhhHHHHHHHhhHHHHHHHHHHHhcCcccCC
Confidence            3444445556788988888887765421     1 111       11233457889999999998877554433222233


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH-----hcCChHHHHHHH
Q 035645           80 VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF-----RRGQFDDAFCFF  138 (217)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-----~~g~~~~a~~~~  138 (217)
                      ..+....|-.|++.+++..+.++-..-...--.-+...|..++..|.     =.|.+++|+++.
T Consensus       118 pkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  118 PKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHhccccHHHHHHHH
Confidence            45677788889999999998888776654321222334777766654     458888888877

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

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=91.51  E-value=2.8  Score=29.50  Aligned_cols=77  Identities=19%  Similarity=0.245  Sum_probs=58.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc--CCCcchhhHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL--GSCADVSTYKILIPA   89 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~ll~~   89 (217)
                      |.+..+..+.+.+.+.+++...++-++.. +.|...-..++..++-.|+|++|..-++-.-..  ...+-..+|..++.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            55667888899999999999998877763 336667778999999999999999888766442  223345667666654

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=91.48  E-value=9.5  Score=33.75  Aligned_cols=22  Identities=27%  Similarity=0.108  Sum_probs=12.7

Q ss_pred             HHHHHHHHhcCCchHHHHHHHH
Q 035645          189 DLVTDGLKNCGKHDLAEKIEQL  210 (217)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~  210 (217)
                      ..|+.-+...++.-+|-++...
T Consensus      1003 ~~L~s~L~e~~kh~eAa~il~e 1024 (1265)
T KOG1920|consen 1003 EELVSRLVEQRKHYEAAKILLE 1024 (1265)
T ss_pred             HHHHHHHHHcccchhHHHHHHH
Confidence            4455556666666666665543

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=91.36  E-value=2.3  Score=31.24  Aligned_cols=60  Identities=10%  Similarity=0.096  Sum_probs=42.2

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLV  107 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  107 (217)
                      +++...+.|..+|.+.+|.++.++..... +.+...+-.++..+...|+--.+.+.++++.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            44556677777888888888887776642 3466667777788888887777776666654

>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=91.31  E-value=4.5  Score=29.70  Aligned_cols=198  Identities=10%  Similarity=0.038  Sum_probs=110.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhC--------CCCCC-----hhhHHHHHHHHHhcCchh---HHHHHHHHHHhcCC
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQ--------GSDPD-----LETFNSLIETICKSGEVE---FCVEMYYSVCKLGS   76 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~--------~~~~~-----~~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~   76 (217)
                      ||.-...+.+..+++.|..++++..+.        ...|+     ..+...++.+|...+..+   +|.++.+.+.+. .
T Consensus        39 yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~  117 (278)
T PF08631_consen   39 YNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRLLESE-Y  117 (278)
T ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-C
Confidence            444444443333888888877765432        12222     245667888888877655   455566666443 2


Q ss_pred             CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc--CChHHHHHHHHHHHhcCCCCCHh-HH
Q 035645           77 CADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR--GQFDDAFCFFSEIKIKGHPPNRP-VY  153 (217)
Q Consensus        77 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~--g~~~~a~~~~~~~~~~~~~~~~~-~~  153 (217)
                      +-...++-.-+..+.+.++.+.+.+.+.+|...- ......+..++..+...  .....|...+..+....+.|... ..
T Consensus       118 ~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~  196 (278)
T PF08631_consen  118 GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQWL  196 (278)
T ss_pred             CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChhHHH
Confidence            2235666677777777899999999999998762 32445566666665222  23445666666665443444443 11


Q ss_pred             HH-HH---HHHhcCC------CHHHHHHHHHHHHH-cCCCCChhhHHHH-------HHHHHhcCCchHHHHHHHHHh
Q 035645          154 TT-LI---TMCGRGG------RFVEAANYLMEMTE-MGLTPISRCFDLV-------TDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       154 ~~-li---~~~~~~g------~~~~a~~~~~~~~~-~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      .. ++   -...+.+      +.+...+++....+ .+.+.+..+-.++       ...+.+.++++.|.+.++...
T Consensus       197 e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  197 EKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            11 11   1112221      24455555554332 2333343332222       334557899999999998654

It is also involved in sporulation [].

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.16  E-value=3.4  Score=28.00  Aligned_cols=121  Identities=13%  Similarity=0.116  Sum_probs=56.7

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCcc-cHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHh-HHHHH--HHHHhcCCCHH
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNPFPS-LYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRP-VYTTL--ITMCGRGGRFV  167 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~l--i~~~~~~g~~~  167 (217)
                      +.+..++|+.-|..+.+.|...-+. ..--........|+...|...|.+.-.....|-.. -..-|  .-.+...|-++
T Consensus        70 ~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy~  149 (221)
T COG4649          70 QENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSYD  149 (221)
T ss_pred             HcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccHH
Confidence            4445566666666666554322111 11112233445566666666666655443333221 11111  11234556666


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHh
Q 035645          168 EAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      ....-.+-+...+-+.-...-..|..+-.+.|++..|.+.|+.+.
T Consensus       150 dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia  194 (221)
T COG4649         150 DVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIA  194 (221)
T ss_pred             HHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHH
Confidence            655555554433323333344455555556666666666665543

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=91.16  E-value=0.68  Score=23.28  Aligned_cols=25  Identities=28%  Similarity=0.660  Sum_probs=16.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCC
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQG   40 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~   40 (217)
                      +..+|...|+.+.|.+++++....|
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcC
Confidence            5566677777777777777666543

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=90.42  E-value=0.48  Score=21.50  Aligned_cols=25  Identities=16%  Similarity=-0.039  Sum_probs=13.3

Q ss_pred             HHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          190 LVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      .+..++.+.|++++|.+.++.+.+.
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHH
Confidence            3444555555555555555555443

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=90.35  E-value=3.2  Score=26.36  Aligned_cols=36  Identities=6%  Similarity=0.117  Sum_probs=17.8

Q ss_pred             hhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHH
Q 035645           37 IKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVC   72 (217)
Q Consensus        37 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   72 (217)
                      ...++.|++......+++|.+.+++..|+++|+-++
T Consensus        76 ~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK  111 (149)
T KOG4077|consen   76 FDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIK  111 (149)
T ss_pred             hccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            333444555555555555555555555555554443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.93  E-value=5  Score=27.95  Aligned_cols=88  Identities=13%  Similarity=0.095  Sum_probs=52.4

Q ss_pred             HHhcCchhHHHHHHHHHHhcCCCcc-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 035645           55 ICKSGEVEFCVEMYYSVCKLGSCAD-----VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRG  129 (217)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g  129 (217)
                      +...|++++|..-|.+.+.. .++.     ...|..-..++.+.+.++.|+.--....+.+ +....+..--..+|.+..
T Consensus       105 ~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEKME  182 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHhhh
Confidence            45667777777777776653 1211     2344555556677777777776666666554 112223333345677777


Q ss_pred             ChHHHHHHHHHHHhc
Q 035645          130 QFDDAFCFFSEIKIK  144 (217)
Q Consensus       130 ~~~~a~~~~~~~~~~  144 (217)
                      .+++|++=|+.+.+.
T Consensus       183 k~eealeDyKki~E~  197 (271)
T KOG4234|consen  183 KYEEALEDYKKILES  197 (271)
T ss_pred             hHHHHHHHHHHHHHh
Confidence            777777777777665

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=89.77  E-value=1.2  Score=20.41  Aligned_cols=25  Identities=20%  Similarity=0.244  Sum_probs=12.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 035645           83 YKILIPAVSKAGMIDEAFRLLHNLV  107 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~  107 (217)
                      |..+...|...|++++|...|++..
T Consensus         4 ~~~lg~~y~~~~~~~~A~~~~~~a~   28 (34)
T PF13181_consen    4 YYNLGKIYEQLGDYEEALEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHHTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444444555555555555555443

...

>PF09797 NatB_MDM20: N-acetyltransferase B complex (NatB) non catalytic subunit; InterPro: IPR019183 This is the non-catalytic subunit of the N-terminal acetyltransferase B complex (NatB)

Probab=89.68  E-value=4  Score=31.34  Aligned_cols=128  Identities=16%  Similarity=0.094  Sum_probs=69.6

Q ss_pred             HHHHHHHHhcCCHH---HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 035645           84 KILIPAVSKAGMID---EAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMC  160 (217)
Q Consensus        84 ~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  160 (217)
                      ..++..+.+.++..   +|..+++...... +.+...--.+++.|...|..+.|...|..+.-+.+.-|+..+..+ .-+
T Consensus       184 ~~Ll~~~~~~~~~~~l~~Ai~lLE~~l~~s-~~n~~~~LlLvrlY~~LG~~~~A~~~~~~L~iK~IQ~DTL~h~~~-~r~  261 (365)
T PF09797_consen  184 HSLLDLYSKTKDSEYLLQAIALLEHALKKS-PHNYQLKLLLVRLYSLLGAGSLALEHYESLDIKNIQLDTLGHLIL-DRL  261 (365)
T ss_pred             HHHHHHhhccCCHHHHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHhcChHHHHHHHhHHHHH-HHH
Confidence            44555555555544   5667777766654 445556667889999999999999999987555454444333322 222


Q ss_pred             hcCCCHHHHH-HHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          161 GRGGRFVEAA-NYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       161 ~~~g~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      ...|....+. ..+......-..-...+=..++.+| +.|.+.+..++.+.-.++
T Consensus       262 ~~~~~~~~~~~~~~~~~~~fy~~~~~~~~e~i~~af-~~gsysKi~ef~~F~~rL  315 (365)
T PF09797_consen  262 STLGPFKSAPENLLENALKFYDNSEKETPEFIIKAF-ENGSYSKIEEFIEFRERL  315 (365)
T ss_pred             hccCcccccchHHHHHHHHHHHHHHHHHHHHHHHHH-hCCCchhHHHHHHHHHHH
Confidence            2233333322 3333322110011112223344444 667777777776654443

The NatB complex catalyses the acetylation of the amino-terminal methionine residue of all proteins beginning with Met-Asp or Met-Glu and of some proteins beginning with Met-Asn or Met-Met. In Saccharomyces cerevisiae (Baker's yeast) this subunit is called MDM20 and in Schizosaccharomyces pombe (Fission yeast) it is called Arm1. NatB acetylates the Tpm1 protein and regulates and tropomyocin-actin interactions. This subunit is required by the NatB complex for the N-terminal acetylation of Tpm1 [].

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=89.38  E-value=11  Score=30.95  Aligned_cols=179  Identities=16%  Similarity=0.091  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHHhhCCCCCChhhHHH--HHHH-HHhcCchhHHHHHHHHHHh-------cCCCcchhhHHHHHHHHHhcC-
Q 035645           26 LESAKQMVNKMIKQGSDPDLETFNS--LIET-ICKSGEVEFCVEMYYSVCK-------LGSCADVSTYKILIPAVSKAG-   94 (217)
Q Consensus        26 ~~~a~~~~~~m~~~~~~~~~~~~~~--ll~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~ll~~~~~~~-   94 (217)
                      ...+.++++...+.|.. .......  .... +....+.+.|+..|+...+       .|   +.....-+..+|.+.. 
T Consensus       228 ~~~a~~~~~~~a~~g~~-~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHS-EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhcch-HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            45677788777776532 1111111  2222 4456788888888888765       33   3345566666676643 


Q ss_pred             ----CHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh-cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH--hcCCCHH
Q 035645           95 ----MIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR-RGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMC--GRGGRFV  167 (217)
Q Consensus        95 ----~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~--~~~g~~~  167 (217)
                          +.+.|..++.+.-+.| .|+....-..+.-... ..+...|.++|....+.|..+ ...+-++.-..  ....+..
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~-A~~~la~~y~~G~gv~r~~~  381 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHIL-AIYRLALCYELGLGVERNLE  381 (552)
T ss_pred             CccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChH-HHHHHHHHHHhCCCcCCCHH
Confidence                5677888888888777 3443332222222222 245678888888888887542 22222222111  2344677


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHh
Q 035645          168 EAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      .|..++++.-+.| .|...--...+..+.. +..+.+.-.+..+.
T Consensus       382 ~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a  424 (552)
T KOG1550|consen  382 LAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLA  424 (552)
T ss_pred             HHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHH
Confidence            8888888888777 3332212223333333 55555554444433

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=89.37  E-value=3.5  Score=31.16  Aligned_cols=88  Identities=13%  Similarity=0.012  Sum_probs=52.4

Q ss_pred             HHHHhcCchhHHHHHHHHHHhcCCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCh
Q 035645           53 ETICKSGEVEFCVEMYYSVCKLGSCA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQF  131 (217)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~  131 (217)
                      +-|.+.|.+++|++.|.+-...  .| +.+++..-..+|.+..++-.|..=.......+ ..-..+|.--..+-...|..
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~  181 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhH
Confidence            3467788888888888877653  34 77778777888888888777665555544332 11122333333333344455


Q ss_pred             HHHHHHHHHHHh
Q 035645          132 DDAFCFFSEIKI  143 (217)
Q Consensus       132 ~~a~~~~~~~~~  143 (217)
                      .+|.+-++....
T Consensus       182 ~EAKkD~E~vL~  193 (536)
T KOG4648|consen  182 MEAKKDCETVLA  193 (536)
T ss_pred             HHHHHhHHHHHh
Confidence            555554444443

>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=89.24  E-value=2.2  Score=24.50  Aligned_cols=46  Identities=13%  Similarity=0.114  Sum_probs=24.2

Q ss_pred             hcCchhHHHHHHHHHHhcCCCcc--hhhHHHHHHHHHhcCCHHHHHHH
Q 035645           57 KSGEVEFCVEMYYSVCKLGSCAD--VSTYKILIPAVSKAGMIDEAFRL  102 (217)
Q Consensus        57 ~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~  102 (217)
                      ..++.++|+..|....+.-..+.  ..++..++.+|+..|++++++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556666666666544322221  13455566666666666655544

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

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=89.20  E-value=2.1  Score=27.18  Aligned_cols=60  Identities=12%  Similarity=0.135  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 035645          133 DAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTD  193 (217)
Q Consensus       133 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (217)
                      +..+-+..+....+.|++.....-+.+|-+.+++..|.++|+-++.+- .+....|-.+++
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K~-g~~k~~Y~y~v~  126 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDKC-GAQKQVYPYYVK  126 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHhc-ccHHHHHHHHHH
Confidence            445555556666778888888888888888888888888887776432 233334555443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=89.05  E-value=9  Score=29.67  Aligned_cols=122  Identities=12%  Similarity=0.053  Sum_probs=67.1

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc-CCCcchhhH--HHHHHHHHh---c
Q 035645           20 LLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL-GSCADVSTY--KILIPAVSK---A   93 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~--~~ll~~~~~---~   93 (217)
                      .-+.|..+.|.+.-+..-+.- +.-...+...+...+..|+|+.|+++.+.-... -+.++..--  -.|+.+-..   .
T Consensus       164 Aqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ld  242 (531)
T COG3898         164 AQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLD  242 (531)
T ss_pred             HHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhc
Confidence            446788888888888776542 224567889999999999999999999876543 233333211  112111100   1


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCccc-HHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           94 GMIDEAFRLLHNLVEDGHNPFPSL-YAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      -+...|...-.+..+  +.|+... -..-..++.+.|+..++-.+++.+-+.
T Consensus       243 adp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~  292 (531)
T COG3898         243 ADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA  292 (531)
T ss_pred             CChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc
Confidence            122333333322222  2333321 122335566666666666666665544

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=88.93  E-value=4.3  Score=27.90  Aligned_cols=33  Identities=21%  Similarity=0.227  Sum_probs=22.3

Q ss_pred             CCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          146 HPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       146 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      ..|++.+|..++.++...|+.++|.++..++..
T Consensus       140 ~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~  172 (193)
T PF11846_consen  140 RRPDPNVYQRYALALALLGDPEEARQWLARARR  172 (193)
T ss_pred             hCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            356667777777777777777777766666665

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>smart00028 TPR Tetratricopeptide repeats

Probab=88.92  E-value=0.8  Score=19.87  Aligned_cols=26  Identities=12%  Similarity=0.036  Sum_probs=12.6

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          188 FDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      +..+...+...|+++.|...++...+
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~   29 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALE   29 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            33444444555555555555544443

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.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.81  E-value=6  Score=27.33  Aligned_cols=92  Identities=15%  Similarity=0.027  Sum_probs=52.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCC--cccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCC
Q 035645           87 IPAVSKAGMIDEAFRLLHNLVEDGHNPF--PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGG  164 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  164 (217)
                      ...+...+++++|...++........-+  ..+--.|.+.....|.+|+|+..+......+.  .......-.+.+...|
T Consensus        96 Ak~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg  173 (207)
T COG2976          96 AKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKG  173 (207)
T ss_pred             HHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcC
Confidence            3446667777777777776654311111  11122334556677777777777776554432  2223333456677777


Q ss_pred             CHHHHHHHHHHHHHcC
Q 035645          165 RFVEAANYLMEMTEMG  180 (217)
Q Consensus       165 ~~~~a~~~~~~~~~~~  180 (217)
                      +-++|..-|......+
T Consensus       174 ~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         174 DKQEARAAYEKALESD  189 (207)
T ss_pred             chHHHHHHHHHHHHcc
Confidence            7777777777776654

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.67  E-value=1.5  Score=22.00  Aligned_cols=22  Identities=14%  Similarity=0.305  Sum_probs=10.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHH
Q 035645          121 IIKGAFRRGQFDDAFCFFSEIK  142 (217)
Q Consensus       121 ll~~~~~~g~~~~a~~~~~~~~  142 (217)
                      +..+|...|+.+.|.++++++.
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl   26 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVI   26 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHH
Confidence            3344444444444444444444

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.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.62  E-value=12  Score=30.63  Aligned_cols=154  Identities=17%  Similarity=0.172  Sum_probs=92.9

Q ss_pred             HHhcCCHHHHHHHHHHHhh-------CCCCCChhhHHHHHHHHHhcC-----chhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645           20 LLNAGYLESAKQMVNKMIK-------QGSDPDLETFNSLIETICKSG-----EVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~-------~~~~~~~~~~~~ll~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      +....+++.|+..|+.+.+       .|   ......-+..+|.+..     +.+.|..+|...-+.|. |+...+-..+
T Consensus       259 ~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~  334 (552)
T KOG1550|consen  259 YGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGN-PDAQYLLGVL  334 (552)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCC-chHHHHHHHH
Confidence            4456789999999998876       44   3345566677776643     56779999988877764 3443332222


Q ss_pred             HHHHh-cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH--hcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCC
Q 035645           88 PAVSK-AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF--RRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGG  164 (217)
Q Consensus        88 ~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  164 (217)
                      ..... ..+...|.++|...-+.|..+ ..-+..++-...  ...+.+.|..+++...+.| .|...--...+..+.. +
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~~-A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~  411 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHIL-AIYRLALCYELGLGVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-G  411 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCChH-HHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-c
Confidence            22222 246789999999999888432 222222221111  3347888999999988887 3332222223333444 6


Q ss_pred             CHHHHHHHHHHHHHcC
Q 035645          165 RFVEAANYLMEMTEMG  180 (217)
Q Consensus       165 ~~~~a~~~~~~~~~~~  180 (217)
                      +++.+.-.+..+...|
T Consensus       412 ~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  412 RYDTALALYLYLAELG  427 (552)
T ss_pred             cccHHHHHHHHHHHhh
Confidence            6666666665555544

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=88.61  E-value=11  Score=29.89  Aligned_cols=196  Identities=14%  Similarity=0.086  Sum_probs=91.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHH-------HHHHHHHh----cCchhHHHHHHHHHHhcCCCc
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFN-------SLIETICK----SGEVEFCVEMYYSVCKLGSCA   78 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~-------~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~   78 (217)
                      ..+|..++....+.++...|.+.+.-+..-  .|+...-.       .+-+..+.    .-+...-+.+|+......+..
T Consensus       298 i~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDr  375 (549)
T PF07079_consen  298 IDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDR  375 (549)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccH
Confidence            356788888888999999998888877653  23322111       11122221    111223344444444332211


Q ss_pred             chhhHHHHH---HHHHhcCC-HHHHHHHHHHHHhCCCCCCcccHHHHH----HHHHh---cCChHHHHHHHHHHHhcCCC
Q 035645           79 DVSTYKILI---PAVSKAGM-IDEAFRLLHNLVEDGHNPFPSLYAPII----KGAFR---RGQFDDAFCFFSEIKIKGHP  147 (217)
Q Consensus        79 ~~~~~~~ll---~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~ll----~~~~~---~g~~~~a~~~~~~~~~~~~~  147 (217)
                       ...-.-|+   .-+.+.|. -++|.++++..++-. +.|..+-|.+.    .+|..   ...+..-..+-.-+.+.|++
T Consensus       376 -qQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~  453 (549)
T PF07079_consen  376 -QQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLT  453 (549)
T ss_pred             -HHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCC
Confidence             11111222   22344444 556666666655431 12222222111    11211   12333334444444455555


Q ss_pred             CCH----hHHHHHHHH--HhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          148 PNR----PVYTTLITM--CGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       148 ~~~----~~~~~li~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      |-.    ..-|.|.++  +...|++.++.-.-..+.+  +.|++.+|..+.-++....++++|..+++.+
T Consensus       454 ~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  454 PITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             cccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            432    233333322  3355666666544443333  4566666666666666666666666666543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=88.10  E-value=10  Score=29.10  Aligned_cols=131  Identities=13%  Similarity=0.074  Sum_probs=84.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---C--CCcccHHHHHHHHHhcCChHHHHHHHHHHHh----cCCCCCHhH
Q 035645           82 TYKILIPAVSKAGMIDEAFRLLHNLVEDGH---N--PFPSLYAPIIKGAFRRGQFDDAFCFFSEIKI----KGHPPNRPV  152 (217)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~~  152 (217)
                      ...++..++...+.++++.+.|+...+...   .  ....+|..+-..|.+..++++|.-+..+..+    .++..=..-
T Consensus       124 ~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~k  203 (518)
T KOG1941|consen  124 VSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLK  203 (518)
T ss_pred             hhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHH
Confidence            344566777778889999999888765321   1  2345788899999999999998877766532    233211122


Q ss_pred             HHH-----HHHHHhcCCCHHHHHHHHHHHH----HcCCCC-ChhhHHHHHHHHHhcCCchHHHHHHHHHh
Q 035645          153 YTT-----LITMCGRGGRFVEAANYLMEMT----EMGLTP-ISRCFDLVTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       153 ~~~-----li~~~~~~g~~~~a~~~~~~~~----~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      |..     |..++-..|+.-.|.+.-++..    ..|-.+ .......+.+.|...|+.|.|..-++.+.
T Consensus       204 yr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  204 YRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            222     3345556677777766666654    344333 23355678889999999998887766544

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=87.61  E-value=13  Score=29.74  Aligned_cols=120  Identities=8%  Similarity=0.058  Sum_probs=79.5

Q ss_pred             HHhcCchhHHH-HHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHH
Q 035645           55 ICKSGEVEFCV-EMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDD  133 (217)
Q Consensus        55 ~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~  133 (217)
                      -...|+...|- +++.-+......|+.....+  ..+...|+++.+...+...... +.....+...+++...+.|++++
T Consensus       299 ~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~--~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~  375 (831)
T PRK15180        299 QLADGDIIAASQQLFAALRNQQQDPVLIQLRS--VIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWRE  375 (831)
T ss_pred             HhhccCHHHHHHHHHHHHHhCCCCchhhHHHH--HHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHH
Confidence            33456665554 45555555434455444333  3466789999998887766543 23456678889999999999999


Q ss_pred             HHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          134 AFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      |..+-.-|....+. ++..........-..|-++++.-.|+.+..
T Consensus       376 a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~  419 (831)
T PRK15180        376 ALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLL  419 (831)
T ss_pred             HHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhc
Confidence            99999888877554 444444333344566778888888888764

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=87.10  E-value=2.8  Score=21.49  Aligned_cols=31  Identities=16%  Similarity=0.260  Sum_probs=15.8

Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCChhhHHHHH
Q 035645          162 RGGRFVEAANYLMEMTEMGLTPISRCFDLVT  192 (217)
Q Consensus       162 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  192 (217)
                      +.|-.+++...++.|.+.|+..+...|..++
T Consensus        14 ~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   14 RRGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             HcCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            4444445555555555555555555444443

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=86.99  E-value=1.7  Score=28.43  Aligned_cols=66  Identities=12%  Similarity=0.194  Sum_probs=47.9

Q ss_pred             HHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHH
Q 035645           31 QMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMID   97 (217)
Q Consensus        31 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~   97 (217)
                      ++.+.+.+.|.+++.. -..++..+.+.++.-.|.++|+++.+.+...+..|-..-++.+...|-+.
T Consensus         7 ~~~~~lk~~glr~T~q-R~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Glv~   72 (145)
T COG0735           7 DAIERLKEAGLRLTPQ-RLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGLVH   72 (145)
T ss_pred             HHHHHHHHcCCCcCHH-HHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCCEE
Confidence            4455566777765543 34566777777777889999999988877777777777778888887664

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=86.57  E-value=3  Score=21.36  Aligned_cols=31  Identities=10%  Similarity=0.335  Sum_probs=15.0

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCChhhHHHHH
Q 035645           22 NAGYLESAKQMVNKMIKQGSDPDLETFNSLI   52 (217)
Q Consensus        22 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll   52 (217)
                      +.|-.+++..++++|.+.|+..+...+..++
T Consensus        14 ~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   14 RRGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             HcCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            4444445555555555555544444444433

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=86.50  E-value=12  Score=28.24  Aligned_cols=64  Identities=17%  Similarity=0.139  Sum_probs=43.4

Q ss_pred             cccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC---CHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          115 PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPP---NRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       115 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      ..+|..+++.+-+.|+++.|...+..+...+..+   ++...-.-.+.+-..|+..+|...++...+
T Consensus       146 ~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  146 AETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4567777888888888888888888776643111   233444445566667788888887777665

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG4567 consensus GTPase-activating protein [General function prediction only]

Probab=86.21  E-value=8.5  Score=28.68  Aligned_cols=43  Identities=12%  Similarity=0.206  Sum_probs=24.8

Q ss_pred             HHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 035645           66 EMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE  108 (217)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  108 (217)
                      ++|+.+...++.|.-.+|.=+.-.+++.=.+.+.+.+|+.+..
T Consensus       264 EL~~~L~~~~i~PqfyaFRWitLLLsQEF~lpDvi~lWDsl~s  306 (370)
T KOG4567|consen  264 ELWRHLEEKEIHPQFYAFRWITLLLSQEFPLPDVIRLWDSLLS  306 (370)
T ss_pred             HHHHHHHhcCCCccchhHHHHHHHHhccCCchhHHHHHHHHhc
Confidence            4555555555666655555555555555555666666666554

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.54  E-value=11  Score=26.99  Aligned_cols=162  Identities=15%  Similarity=0.100  Sum_probs=80.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHh----hCCCCCChh-hHHHHHHHHHhcCchhHHHHHHHHHHhc----C-CCcchhhHHHHH
Q 035645           18 QGLLNAGYLESAKQMVNKMI----KQGSDPDLE-TFNSLIETICKSGEVEFCVEMYYSVCKL----G-SCADVSTYKILI   87 (217)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~m~----~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~ll   87 (217)
                      +.|--..+|+.|=..|.+.-    +.|-+.|.. +|....++ .+..++++|.+.++..++.    | +..-....-.+.
T Consensus        42 n~yklaK~w~~AG~aflkaA~~h~k~~skhDaat~YveA~~c-ykk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~ia  120 (288)
T KOG1586|consen   42 NMYKLAKNWSAAGDAFLKAADLHLKAGSKHDAATTYVEAANC-YKKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIA  120 (288)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHH-hhccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHH
Confidence            33444445555555444432    233333443 33334443 3445777766666655432    1 111112223455


Q ss_pred             HHHHhc-CCHHHHHHHHHHHHhC--CCCCCc---ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHH---HH-
Q 035645           88 PAVSKA-GMIDEAFRLLHNLVED--GHNPFP---SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTT---LI-  157 (217)
Q Consensus        88 ~~~~~~-~~~~~a~~~~~~~~~~--~~~~~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~---li-  157 (217)
                      ..|-.. .++++|+..|++.-+.  |-..+.   ..+..+....+..+++.+|+++|+++....+..+.--|+.   ++ 
T Consensus       121 EiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~Kdyflk  200 (288)
T KOG1586|consen  121 EIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLK  200 (288)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHH
Confidence            555443 6677788777776542  112222   2333444555778899999999999876644433333332   11 


Q ss_pred             HHHhc--CCCHHHHHHHHHHHHHcC
Q 035645          158 TMCGR--GGRFVEAANYLMEMTEMG  180 (217)
Q Consensus       158 ~~~~~--~g~~~~a~~~~~~~~~~~  180 (217)
                      .++|+  ..+.-.+...+++..+..
T Consensus       201 AgLChl~~~D~v~a~~ALeky~~~d  225 (288)
T KOG1586|consen  201 AGLCHLCKADEVNAQRALEKYQELD  225 (288)
T ss_pred             HHHHhHhcccHHHHHHHHHHHHhcC
Confidence            11222  244445555555555543

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=85.45  E-value=8.2  Score=25.39  Aligned_cols=68  Identities=15%  Similarity=0.035  Sum_probs=39.4

Q ss_pred             HhcCchhHHHHHHHHHHhcCCCcch-hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 035645           56 CKSGEVEFCVEMYYSVCKLGSCADV-STYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR  128 (217)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (217)
                      ...++++++..+++.|.-  ..|+. ..-..-.-.+...|+|++|.++|+++.+.+   ....|..-+.++|-.
T Consensus        21 L~~~d~~D~e~lLdALrv--LrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~---~~~p~~kAL~A~CL~   89 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRV--LRPNLKELDMFDGWLLIARGNYDEAARILRELLSSA---GAPPYGKALLALCLN   89 (153)
T ss_pred             HhcCCHHHHHHHHHHHHH--hCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC---CCchHHHHHHHHHHH
Confidence            346777888888877754  23433 222223334667788888888888877654   122344444444443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=85.43  E-value=5.9  Score=32.49  Aligned_cols=32  Identities=31%  Similarity=0.356  Sum_probs=0.0

Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 035645          162 RGGRFVEAANYLMEMTEMGLTPISRCFDLVTD  193 (217)
Q Consensus       162 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  193 (217)
                      +.|++.+|.+.+-.+......|...-...|.+
T Consensus       507 ~~~~~~~Aa~~Lv~Ll~~~~~Pk~f~~~LL~d  538 (566)
T PF07575_consen  507 DEGDFREAASLLVSLLKSPIAPKSFWPLLLCD  538 (566)
T ss_dssp             --------------------------------
T ss_pred             hhhhHHHHHHHHHHHHCCCCCcHHHHHHHHHH
Confidence            34777777777777777666666554444443

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.

>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=85.06  E-value=1.4  Score=28.15  Aligned_cols=33  Identities=24%  Similarity=0.521  Sum_probs=23.0

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 035645          126 FRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMC  160 (217)
Q Consensus       126 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  160 (217)
                      -..|.-..|..+|+.|++.|-+||  .|+.|+...
T Consensus       106 R~ygsk~DaY~VF~kML~~G~pPd--dW~~Ll~~a  138 (140)
T PF11663_consen  106 RAYGSKTDAYAVFRKMLERGNPPD--DWDALLKEA  138 (140)
T ss_pred             hhhccCCcHHHHHHHHHhCCCCCc--cHHHHHHHh
Confidence            345666677888888888887776  466666543

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 [].

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=84.76  E-value=16  Score=28.11  Aligned_cols=195  Identities=14%  Similarity=0.093  Sum_probs=117.9

Q ss_pred             HHhcCCHHHHHHHHHHHhhC--CCCCChhhHHHHHHHHHhcCchhHHHHHHHH----HHhcC-CCcchhhHHHHHHHHHh
Q 035645           20 LLNAGYLESAKQMVNKMIKQ--GSDPDLETFNSLIETICKSGEVEFCVEMYYS----VCKLG-SCADVSTYKILIPAVSK   92 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~----~~~~~-~~~~~~~~~~ll~~~~~   92 (217)
                      +....+.++|+..|.+-..+  +..-.-.++..+..+.++.|.+++++..--.    ..+.. -..-...|..+..++-+
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            34567788888888776543  1111234566777888888888876654221    11100 01123456666666666


Q ss_pred             cCCHHHHHHHHHHHHhC-CCCC---CcccHHHHHHHHHhcCChHHHHHHHHHHHhcC-----CCCCHhHHHHHHHHHhcC
Q 035645           93 AGMIDEAFRLLHNLVED-GHNP---FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG-----HPPNRPVYTTLITMCGRG  163 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~  163 (217)
                      ..++.+++.+-..-... |..|   .-....++-.++...+.++++++.|+...+.-     ......+|..|-..|.+.
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            66666666655443322 2222   11334456677778888999999998875431     122346888999999999


Q ss_pred             CCHHHHHHHHHHHHH----cCCCCChhhHH-----HHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          164 GRFVEAANYLMEMTE----MGLTPISRCFD-----LVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       164 g~~~~a~~~~~~~~~----~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      .++++|.-+..+..+    .++.--..-|.     .+.-++...|....|.+.-+...++
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~kl  235 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKL  235 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            999999877766542    33222222233     3456788888888888776655443

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=84.66  E-value=14  Score=27.38  Aligned_cols=24  Identities=17%  Similarity=0.324  Sum_probs=16.2

Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHH
Q 035645          154 TTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus       154 ~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      .-++..+.+.|.+.+|..+...+.
T Consensus       129 ~Kli~l~y~~~~YsdalalIn~ll  152 (421)
T COG5159         129 CKLIYLLYKTGKYSDALALINPLL  152 (421)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHH
Confidence            346667778888888777665543

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=84.63  E-value=8.9  Score=25.10  Aligned_cols=93  Identities=13%  Similarity=0.051  Sum_probs=49.6

Q ss_pred             HHhcCCCcch--hhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---C--CCCcccHHHHHHHHHhcCC-hHHHHHHHHHHH
Q 035645           71 VCKLGSCADV--STYKILIPAVSKAGMIDEAFRLLHNLVEDG---H--NPFPSLYAPIIKGAFRRGQ-FDDAFCFFSEIK  142 (217)
Q Consensus        71 ~~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~--~~~~~~~~~ll~~~~~~g~-~~~a~~~~~~~~  142 (217)
                      |.+.+..++.  ...|.++.-....+.......+++.+....   +  ..+...|.+++.+.++..- --.+..+|.-++
T Consensus        28 ~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk  107 (145)
T PF13762_consen   28 MQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLK  107 (145)
T ss_pred             hhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHH
Confidence            3444444444  335566666666677777666666653211   0  1234456666666655544 334455555555


Q ss_pred             hcCCCCCHhHHHHHHHHHhcC
Q 035645          143 IKGHPPNRPVYTTLITMCGRG  163 (217)
Q Consensus       143 ~~~~~~~~~~~~~li~~~~~~  163 (217)
                      +.+.+++..-|..+|+++.+.
T Consensus       108 ~~~~~~t~~dy~~li~~~l~g  128 (145)
T PF13762_consen  108 KNDIEFTPSDYSCLIKAALRG  128 (145)
T ss_pred             HcCCCCCHHHHHHHHHHHHcC
Confidence            555556666666666655443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.35  E-value=13  Score=26.70  Aligned_cols=53  Identities=11%  Similarity=0.213  Sum_probs=31.3

Q ss_pred             CChHHHHHHHHHHHhc--CCCCCHhHHHHH---HHHHhcCCCHHHHHHHHHHHHHcCC
Q 035645          129 GQFDDAFCFFSEIKIK--GHPPNRPVYTTL---ITMCGRGGRFVEAANYLMEMTEMGL  181 (217)
Q Consensus       129 g~~~~a~~~~~~~~~~--~~~~~~~~~~~l---i~~~~~~g~~~~a~~~~~~~~~~~~  181 (217)
                      .+++.|+..|+..-+.  |-..+...--++   ...-+..+++.+|+++|++.....+
T Consensus       128 ~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~  185 (288)
T KOG1586|consen  128 QDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSL  185 (288)
T ss_pred             HHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            5666677766665442  222222222233   3334577899999999998876543

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=83.77  E-value=9.8  Score=24.90  Aligned_cols=65  Identities=14%  Similarity=-0.029  Sum_probs=41.1

Q ss_pred             HHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChH
Q 035645           67 MYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFD  132 (217)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~  132 (217)
                      +...+.+.|.+++.. -..++..+.+.+..-.|.++++++.+.+...+..|...-++.+...|-+.
T Consensus         8 ~~~~lk~~glr~T~q-R~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Glv~   72 (145)
T COG0735           8 AIERLKEAGLRLTPQ-RLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGLVH   72 (145)
T ss_pred             HHHHHHHcCCCcCHH-HHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCCEE
Confidence            344556666665442 34566666666666778888888887765555555555667777776543

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=83.66  E-value=8.7  Score=26.39  Aligned_cols=60  Identities=17%  Similarity=0.045  Sum_probs=39.0

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHh-cCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 035645           50 SLIETICKSGEVEFCVEMYYSVCK-LGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        50 ~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      ..+.......+.+......+...+ ....|+..+|..++.++...|+.++|.++..++...
T Consensus       113 ~~l~~~~~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  113 ALLLLARLPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             HHHHhhcCCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            333333344444444433333321 225688888999999999999999998888888765

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=83.63  E-value=7.8  Score=23.61  Aligned_cols=51  Identities=18%  Similarity=0.223  Sum_probs=23.2

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcC
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG  180 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  180 (217)
                      .+.+.|++++|..+.+.+    ..||...|-+|-.  .+.|.-+.+..-+..|...|
T Consensus        48 SLmNrG~Yq~Al~l~~~~----~~pdlepw~ALce--~rlGl~s~l~~rl~rla~sg   98 (115)
T TIGR02508        48 SLMNRGDYQSALQLGNKL----CYPDLEPWLALCE--WRLGLGSALESRLNRLAASG   98 (115)
T ss_pred             HHHccchHHHHHHhcCCC----CCchHHHHHHHHH--HhhccHHHHHHHHHHHHhCC
Confidence            344455555555554433    2445555544432  24444444444444444443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=82.56  E-value=2.5  Score=22.20  Aligned_cols=26  Identities=12%  Similarity=0.143  Sum_probs=14.0

Q ss_pred             HHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          191 VTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +.-++.+.|++++|.+..+.+.+.+|
T Consensus         7 lAig~ykl~~Y~~A~~~~~~lL~~eP   32 (53)
T PF14853_consen    7 LAIGHYKLGEYEKARRYCDALLEIEP   32 (53)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhhCC
Confidence            44455556666666666655555544

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=82.33  E-value=12  Score=24.71  Aligned_cols=54  Identities=11%  Similarity=0.028  Sum_probs=39.1

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCChhh-HHHHHHHHHhcCchhHHHHHHHHHHhcC
Q 035645           20 LLNAGYLESAKQMVNKMIKQGSDPDLET-FNSLIETICKSGEVEFCVEMYYSVCKLG   75 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~   75 (217)
                      -...++++++..+++.|.-.  .|+..- -..-...+...|+|++|+++|+.+.+.+
T Consensus        20 aL~~~d~~D~e~lLdALrvL--rP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        20 ALRSADPYDAQAMLDALRVL--RPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HHhcCCHHHHHHHHHHHHHh--CCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            34579999999999998763  343322 2223344678999999999999998764

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=81.92  E-value=41  Score=32.65  Aligned_cols=150  Identities=12%  Similarity=-0.004  Sum_probs=84.1

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhcC--CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh
Q 035645           50 SLIETICKSGEVEFCVEMYYSVCKLG--SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR  127 (217)
Q Consensus        50 ~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  127 (217)
                      .+..+-.+++.+.+|+..+++-....  .......|..+...|...+++|+...+......     +.. ...-|.....
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a-----~~s-l~~qil~~e~ 1461 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFA-----DPS-LYQQILEHEA 1461 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc-----Ccc-HHHHHHHHHh
Confidence            34445667788888888888731110  011223344455588888888887776654111     122 2334555677


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHhcCCchHHHH
Q 035645          128 RGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISR-CFDLVTDGLKNCGKHDLAEK  206 (217)
Q Consensus       128 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~  206 (217)
                      .|++..|...|+.+.+.+ ++...+++-++......|.++.+....+.....- .+... -++.=+++--+.++++..+.
T Consensus      1462 ~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~~e~ 1539 (2382)
T KOG0890|consen 1462 SGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLLES 1539 (2382)
T ss_pred             hccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhhhh
Confidence            888888888888887763 2235667766666666677666665444433221 11111 12222333356666665555


Q ss_pred             H
Q 035645          207 I  207 (217)
Q Consensus       207 ~  207 (217)
                      .
T Consensus      1540 ~ 1540 (2382)
T KOG0890|consen 1540 Y 1540 (2382)
T ss_pred             h
Confidence            4

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=81.45  E-value=19  Score=26.52  Aligned_cols=202  Identities=12%  Similarity=0.118  Sum_probs=126.7

Q ss_pred             CCCCCCChhhHHHHHHH-HHhcCCHHHHHHHHHHHhhCCCCCCh---hhHHHHHHHHHhcCchhHHHHHHHHHHh---cC
Q 035645            3 DKGFNPPVRGRDLLVQG-LLNAGYLESAKQMVNKMIKQGSDPDL---ETFNSLIETICKSGEVEFCVEMYYSVCK---LG   75 (217)
Q Consensus         3 ~~g~~~~~~~~~~ll~~-~~~~g~~~~a~~~~~~m~~~~~~~~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~   75 (217)
                      +.+-.||+..=|..-.. -.+...+++|+.-|++..+...+-..   .+...++..+.+.+++++..+.|.++..   +.
T Consensus        19 ds~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSA   98 (440)
T KOG1464|consen   19 DSNSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSA   98 (440)
T ss_pred             ccCCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHH
Confidence            45667777664442221 12345799999999998874322222   2345678889999999999999988852   22


Q ss_pred             CC--cchhhHHHHHHHHHhcCCHHHHHHHHHHHHh----C-CCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc----
Q 035645           76 SC--ADVSTYKILIPAVSKAGMIDEAFRLLHNLVE----D-GHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK----  144 (217)
Q Consensus        76 ~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~-~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----  144 (217)
                      +.  -+....|++++..+...+.+-...+++.-++    . +-..--.|-+.+-..|...|.+.+...+++++..+    
T Consensus        99 VTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~e  178 (440)
T KOG1464|consen   99 VTRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTE  178 (440)
T ss_pred             HhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccc
Confidence            22  2456678888877777776665555544322    1 11112234456777888888888888888887653    


Q ss_pred             -CCC------CCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH-cCCCCChhhHHHHHHHH-----HhcCCchHHH
Q 035645          145 -GHP------PNRPVYTTLITMCGRGGRFVEAANYLMEMTE-MGLTPISRCFDLVTDGL-----KNCGKHDLAE  205 (217)
Q Consensus       145 -~~~------~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~-----~~~~~~~~a~  205 (217)
                       |-.      --...|..=|+.|....+-.+...+++.... ..-.|.+.... +|+-|     .+.|+|++|.
T Consensus       179 dGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~Ah  251 (440)
T KOG1464|consen  179 DGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAH  251 (440)
T ss_pred             cCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHH
Confidence             110      1136777888888888888888888877664 23346555444 33333     3566776664

>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]

Probab=81.40  E-value=19  Score=30.18  Aligned_cols=91  Identities=23%  Similarity=0.314  Sum_probs=57.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhC--CCCCChhhHHHHHHHHHhcCchhH------HHHHHHHHHhcCCCcchhhHHHH
Q 035645           15 LLVQGLLNAGYLESAKQMVNKMIKQ--GSDPDLETFNSLIETICKSGEVEF------CVEMYYSVCKLGSCADVSTYKIL   86 (217)
Q Consensus        15 ~ll~~~~~~g~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~~~~~~~~~------a~~~~~~~~~~~~~~~~~~~~~l   86 (217)
                      ++..+|...|++.++.++++.+...  |-+.-...+|..++...+.|.++-      |.+.++   ...+.-|..||..+
T Consensus        33 sl~eacv~n~~~~rs~~ll~s~~~~~~~~k~~l~~~nlyi~~~~q~~sf~l~~~~~~~~~~lq---~a~ln~d~~t~all  109 (1117)
T COG5108          33 SLFEACVYNGDFLRSKQLLKSFIDHNKGDKILLPMINLYIREIIQRGSFELTDVLSNAKELLQ---QARLNGDSLTYALL  109 (1117)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCcCCeeehhHHHHHHHHHHhcCCccHHHHHHHHHHHHH---HhhcCCcchHHHHH
Confidence            7888888888888888888887643  333345667778888888887653      222222   23344577777777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh
Q 035645           87 IPAVSKAGMIDEAFRLLHNLVE  108 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~  108 (217)
                      +.+-..--+-.-..-++.++..
T Consensus       110 ~~~sln~t~~~l~~pvl~~~i~  131 (1117)
T COG5108         110 CQASLNPTQRQLGLPVLHELIH  131 (1117)
T ss_pred             HHhhcChHhHHhccHHHHHHHH
Confidence            7665554334444455555554

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=81.39  E-value=6.7  Score=21.33  Aligned_cols=20  Identities=20%  Similarity=0.298  Sum_probs=8.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHH
Q 035645           86 LIPAVSKAGMIDEAFRLLHN  105 (217)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~  105 (217)
                      +|.++...|++++|.++.++
T Consensus        29 vI~gllqlg~~~~a~eYi~~   48 (62)
T PF14689_consen   29 VIYGLLQLGKYEEAKEYIKE   48 (62)
T ss_dssp             HHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHH
Confidence            34444444444444444433

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=81.22  E-value=17  Score=25.85  Aligned_cols=84  Identities=21%  Similarity=0.190  Sum_probs=42.4

Q ss_pred             cCCHHHHHHHHHHHhhCCCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHH
Q 035645           23 AGYLESAKQMVNKMIKQGSDP-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFR  101 (217)
Q Consensus        23 ~g~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  101 (217)
                      .|-+..|.-=|.+...  +.| -+.+||.+.--+...|+++.|.+.|+...+....-+-...|.-| ++.-.|+++-|.+
T Consensus        78 lGL~~LAR~DftQaLa--i~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~  154 (297)
T COG4785          78 LGLRALARNDFSQALA--IRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQD  154 (297)
T ss_pred             hhHHHHHhhhhhhhhh--cCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHH
Confidence            3444444444444443  233 34466666666677777777777777776643222222222222 2334466666655


Q ss_pred             HHHHHHhC
Q 035645          102 LLHNLVED  109 (217)
Q Consensus       102 ~~~~~~~~  109 (217)
                      =+-+.-+.
T Consensus       155 d~~~fYQ~  162 (297)
T COG4785         155 DLLAFYQD  162 (297)
T ss_pred             HHHHHHhc
Confidence            55544443

>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=81.05  E-value=15  Score=25.14  Aligned_cols=89  Identities=12%  Similarity=0.104  Sum_probs=40.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhC-----CCCCCh-hhHHHHHHHHHhcCc-----------hhHHHHHHHHHHhcC
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQ-----GSDPDL-ETFNSLIETICKSGE-----------VEFCVEMYYSVCKLG   75 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~-----~~~~~~-~~~~~ll~~~~~~~~-----------~~~a~~~~~~~~~~~   75 (217)
                      |...+.-+++..+..++.+++++..+.     .+.|+. .++..+..+|...+.           +++|.+.|++...  
T Consensus        31 WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~--  108 (186)
T PF06552_consen   31 WGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVD--  108 (186)
T ss_dssp             HHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHh--
Confidence            333444444444444444444444321     234443 345555555443321           3445555555544  


Q ss_pred             CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 035645           76 SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        76 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      ..|+..+|+.-+....      +|-++..++.+.
T Consensus       109 ~~P~ne~Y~ksLe~~~------kap~lh~e~~~~  136 (186)
T PF06552_consen  109 EDPNNELYRKSLEMAA------KAPELHMEIHKQ  136 (186)
T ss_dssp             H-TT-HHHHHHHHHHH------THHHHHHHHHHS
T ss_pred             cCCCcHHHHHHHHHHH------hhHHHHHHHHHH
Confidence            3577777777766643      344555555444

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.

>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]

Probab=80.95  E-value=22  Score=29.83  Aligned_cols=74  Identities=19%  Similarity=0.209  Sum_probs=52.5

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhc--CCCcchhhHHHHHHHHHhcCCHH------HHHHHHHHHHhCCCCCCcccHHHH
Q 035645           50 SLIETICKSGEVEFCVEMYYSVCKL--GSCADVSTYKILIPAVSKAGMID------EAFRLLHNLVEDGHNPFPSLYAPI  121 (217)
Q Consensus        50 ~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~ll~~~~~~~~~~------~a~~~~~~~~~~~~~~~~~~~~~l  121 (217)
                      +|+.+|...|++-.+.++++.....  |-+.-...+|..++-+.+.|.++      .|.+.+++..   +..|..||..+
T Consensus        33 sl~eacv~n~~~~rs~~ll~s~~~~~~~~k~~l~~~nlyi~~~~q~~sf~l~~~~~~~~~~lq~a~---ln~d~~t~all  109 (1117)
T COG5108          33 SLFEACVYNGDFLRSKQLLKSFIDHNKGDKILLPMINLYIREIIQRGSFELTDVLSNAKELLQQAR---LNGDSLTYALL  109 (1117)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCcCCeeehhHHHHHHHHHHhcCCccHHHHHHHHHHHHHHhh---cCCcchHHHHH
Confidence            7889999999999999999888643  33334567888888888888764      3444444443   44577788777


Q ss_pred             HHHHH
Q 035645          122 IKGAF  126 (217)
Q Consensus       122 l~~~~  126 (217)
                      +.+..
T Consensus       110 ~~~sl  114 (1117)
T COG5108         110 CQASL  114 (1117)
T ss_pred             HHhhc
Confidence            76643

>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=80.90  E-value=2.3  Score=27.29  Aligned_cols=25  Identities=20%  Similarity=0.545  Sum_probs=13.2

Q ss_pred             HHHHHHHHHHhCCCCCCcccHHHHHHH
Q 035645           98 EAFRLLHNLVEDGHNPFPSLYAPIIKG  124 (217)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (217)
                      +|..+|..|++.|.+||  .|+.|+..
T Consensus       113 DaY~VF~kML~~G~pPd--dW~~Ll~~  137 (140)
T PF11663_consen  113 DAYAVFRKMLERGNPPD--DWDALLKE  137 (140)
T ss_pred             cHHHHHHHHHhCCCCCc--cHHHHHHH
Confidence            34556666666665443  34455443

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 [].

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=80.09  E-value=17  Score=25.01  Aligned_cols=24  Identities=17%  Similarity=0.239  Sum_probs=16.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHh
Q 035645           85 ILIPAVSKAGMIDEAFRLLHNLVE  108 (217)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~  108 (217)
                      ..+..|.+.|.+++|.+++++..+
T Consensus       116 ~aV~VCm~~g~Fk~A~eiLkr~~~  139 (200)
T cd00280         116 QAVAVCMENGEFKKAEEVLKRLFS  139 (200)
T ss_pred             HHHHHHHhcCchHHHHHHHHHHhc
Confidence            344567777777777777777665

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	217
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-10
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-05
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	4e-07

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 69.1 bits (167), Expect = 7e-14
 Identities = 19/119 (15%), Positives = 35/119 (29%), Gaps = 4/119 (3%)

Query: 73  KLGSCADVSTYKILIPAVSKAGMIDEAFRLL---HNLVEDGHNPFPSLYAPIIKGAFRRG 129
           +                      +  A  LL   H   +        +Y  ++ G  R+G
Sbjct: 120 QAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQG 179

Query: 130 QFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAAN-YLMEMTEMGLTPISRC 187
            F +       +K  G  P+   Y   +   GR  +        L +M++ GL   +  
Sbjct: 180 AFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALF 238

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 59.1 bits (141), Expect = 2e-10
 Identities = 19/168 (11%), Positives = 49/168 (29%), Gaps = 4/168 (2%)

Query: 16  LVQGLLNAGYLESAKQMVNK---MIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVC 72
             +  L    L  A  ++       ++     L+ +N+++    + G  +  V + + V 
Sbjct: 133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK 192

Query: 73  KLGSCADVSTYKILIPAVSKAGMIDEAF-RLLHNLVEDGHNPFPSLYAPIIKGAFRRGQF 131
             G   D+ +Y   +  + +         R L  + ++G        A ++    R    
Sbjct: 193 DAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVL 252

Query: 132 DDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEM 179
                      +    P     + L+         V      + +  +
Sbjct: 253 KAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTL 300

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 46.0 bits (107), Expect = 5e-06
 Identities = 13/134 (9%), Positives = 45/134 (33%), Gaps = 1/134 (0%)

Query: 1   MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE 60
              K     +   + ++ G    G  +    ++  +   G  PDL ++ + ++ + +  +
Sbjct: 156 QRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQ 215

Query: 61  VEFCVEMY-YSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYA 119
               +E     + + G         +L+    +A ++    ++          P P   +
Sbjct: 216 DAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTS 275

Query: 120 PIIKGAFRRGQFDD 133
            +++  + +     
Sbjct: 276 KLLRDVYAKDGRVS 289

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 43.7 bits (101), Expect = 2e-05
 Identities = 18/115 (15%), Positives = 30/115 (26%), Gaps = 8/115 (6%)

Query: 81  STYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDA---FCF 137
                L+        +D          +   +          K      Q   A      
Sbjct: 93  EQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVV 152

Query: 138 FSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVT 192
               + K       +Y  ++    R G F E    L  + + GLTP     DL++
Sbjct: 153 HHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTP-----DLLS 202

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 48.6 bits (115), Expect = 4e-07
 Identities = 25/175 (14%), Positives = 56/175 (32%), Gaps = 9/175 (5%)

Query: 7   NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETI-CKSGEVEFCV 65
            P ++   +  + L +    ++    +++ + +  D    TF  +  +I       +  +
Sbjct: 62  APELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAAL 121

Query: 66  EMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE-DGHNPFPSLYAPIIKG 124
              +    L   A      + +  + K   +D A + L  + + D       L    +  
Sbjct: 122 RTLHQGDSLECMA------MTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSL 175

Query: 125 AFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEM 179
           A    +  DA+  F E+      P   +           GR+  A   L E  + 
Sbjct: 176 AAGGEKLQDAYYIFQEM-ADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK 229

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	217
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.93
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.92
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.91
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.91
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.85
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.84
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.83
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.82
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.81
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.81
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.81
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.81
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.81
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.8
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.8
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.8
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.8
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.79
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.79
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.77
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.75
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.75
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.75
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.75
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.73
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.73
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.73
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.72
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.72
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.71
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.71
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.71
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.71
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.7
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.7
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.7
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.69
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.69
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.68
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.67
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.66
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.66
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.66
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.66
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.65
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.65
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.65
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.64
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.63
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.62
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.61
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.6
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.6
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.6
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.59
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.59
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.57
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.55
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.52
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.51
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.51
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.48
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.47
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.45
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.44
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.44
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.44
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.43
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.42
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.42
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.42
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.41
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.41
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.4
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.4
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.4
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.39
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.39
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.39
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.39
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.37
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.37
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.36
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.36
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.36
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.35
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.33
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.33
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.32
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.32
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.31
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.31
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.29
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.29
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.28
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.28
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.28
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.27
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.27
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.27
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.25
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.24
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.24
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.23
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.23
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.22
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.22
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.22
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.17
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.17
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.15
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.14
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.12
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.12
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.11
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.1
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.09
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.09
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.09
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.08
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.07
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	99.07
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.07
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.07
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.06
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.06
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.05
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.05
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.04
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.04
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.01
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.0
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.0
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.99
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.99
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.99
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.97
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.93
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.92
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.91
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.9
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.88
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.87
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.87
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.87
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.85
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.85
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.84
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.83
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.83
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.82
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.82
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.82
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.82
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.81
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.81
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.81
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.81
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.81
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.79
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.78
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.78
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.76
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.74
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.73
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.72
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.71
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.71
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.69
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.69
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.67
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.64
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.64
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.64
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.62
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.62
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.58
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.56
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.56
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.55
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.55
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.54
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.54
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.53
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.53
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.52
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.48
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.48
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.47
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.47
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.43
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.36
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.35
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.33
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.3
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.21
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.19
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.16
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.11
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.1
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.08
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.06
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.98
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.93
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.91
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.85
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.84
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.82
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.81
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.76
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.76
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.74
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.73
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.64
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.54
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.51
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.5
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.49
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.37
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.37
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.2
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.1
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.99
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.96
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.9
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.75
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.64
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.63
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.57
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.37
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.27
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.27
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.18
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.09
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	96.03
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.85
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	95.8
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.77
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.48
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.32
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	95.09
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	94.27
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	94.24
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.13
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	93.1
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.61
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	92.16
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	92.1
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	92.09
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	91.74
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.61
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	91.39
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	90.93
3hra_A	201	Ankyrin repeat family protein; structural protein;	89.52
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	89.16
3jxi_A	260	Vanilloid receptor-related osmotically activated p	88.56
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	88.54
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	88.4
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	87.75
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	87.69
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	87.55
2p58_C	116	Putative type III secretion protein YSCG; type III	87.18
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	84.79
2d2s_A	235	Exocyst complex component EXO84; tethering complex	84.35
2p58_C	116	Putative type III secretion protein YSCG; type III	84.34
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	84.11
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	83.64
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	83.19
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	83.07
2etb_A	256	Transient receptor potential cation channel subfam	82.87
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	82.49
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	82.06
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	81.74
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	81.53
1mzb_A	136	Ferric uptake regulation protein; ferric uptake re	81.04
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	80.92
2d2s_A	235	Exocyst complex component EXO84; tethering complex	80.55
2fe3_A	145	Peroxide operon regulator; oxidative stress regula	80.48
3eyy_A	145	Putative iron uptake regulatory protein; NUR, nick	80.39

>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=3.7e-41  Score=259.78  Aligned_cols=197  Identities=13%  Similarity=0.138  Sum_probs=183.0

Q ss_pred             CCCCCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCc---------hhHHHHHHHHH
Q 035645            2 SDKGFNPPV-RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE---------VEFCVEMYYSV   71 (217)
Q Consensus         2 ~~~g~~~~~-~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~---------~~~a~~~~~~~   71 (217)
                      ++++..++. ..++.+|++|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.+.         +++|.++|++|
T Consensus        17 ~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M   96 (501)
T 4g26_A           17 KKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQM   96 (501)
T ss_dssp             -------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHH
T ss_pred             HHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHH
Confidence            455665554 45899999999999999999999999999999999999999999987654         68899999999


Q ss_pred             HhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHh
Q 035645           72 CKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRP  151 (217)
Q Consensus        72 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  151 (217)
                      .+.|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..
T Consensus        97 ~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~  176 (501)
T 4g26_A           97 IVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEP  176 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 035645          152 VYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNC  198 (217)
Q Consensus       152 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (217)
                      ||++||.+|++.|++++|.+++++|.+.|..|+..||+.++..|+..
T Consensus       177 ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          177 ELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999864

>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=1.8e-37  Score=239.27  Aligned_cols=188  Identities=17%  Similarity=0.173  Sum_probs=164.6

Q ss_pred             HHHHHHHHHHhhCCCCCChh-hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCC---------H
Q 035645           27 ESAKQMVNKMIKQGSDPDLE-TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGM---------I   96 (217)
Q Consensus        27 ~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---------~   96 (217)
                      ..+..+.+++.+.+..+.+. .++.+|++|++.|++++|+++|++|.+.|+.||..|||+||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            34556667777777766554 6889999999999999999999999999999999999999999998765         6


Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHH
Q 035645           97 DEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEM  176 (217)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  176 (217)
                      ++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          177 TEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       177 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      .+.|+.||..||+.|+.+|++.|+.++|.++++.|.+.
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~  204 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDL  204 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999864

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.93  E-value=3.4e-23  Score=163.55  Aligned_cols=205  Identities=12%  Similarity=0.009  Sum_probs=142.3

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      .+..+|+.++..|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..+|+.++
T Consensus       371 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  448 (597)
T 2xpi_A          371 EKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLG  448 (597)
T ss_dssp             TSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHH
Confidence            345667777777777777777777777776542 2356677777777777777777777777776542 23566777777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC--HhHHHHHHHHHh
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK----GHPPN--RPVYTTLITMCG  161 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~  161 (217)
                      .+|.+.|++++|.++|+++.+.. +.+..+|+.++..+.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.
T Consensus       449 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~  527 (597)
T 2xpi_A          449 MQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYR  527 (597)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHH
Confidence            77777777777777777776653 335666777777777777777777777777654    55565  567777777777


Q ss_pred             cCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          162 RGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       162 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +.|++++|.+.++++.+.+ +.+..+|..+..+|.+.|++++|.+.++.+.++.|
T Consensus       528 ~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p  581 (597)
T 2xpi_A          528 KLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAISP  581 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCC
Confidence            7777777777777777654 33566777777777777777777777777766654

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.92  E-value=1.9e-22  Score=159.33  Aligned_cols=207  Identities=7%  Similarity=-0.073  Sum_probs=159.9

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCC---------------------------------CCChhhHHHHHH
Q 035645            7 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGS---------------------------------DPDLETFNSLIE   53 (217)
Q Consensus         7 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~---------------------------------~~~~~~~~~ll~   53 (217)
                      +++..+|+.++..|.+.|++++|.++|+++.+.+.                                 +.+..+++.++.
T Consensus       302 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~  381 (597)
T 2xpi_A          302 EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGI  381 (597)
T ss_dssp             GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHH
Confidence            35667777777777777777777777777664321                                 235667777778


Q ss_pred             HHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHH
Q 035645           54 TICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDD  133 (217)
Q Consensus        54 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~  133 (217)
                      +|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|+.++.+|.+.|++++
T Consensus       382 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~  459 (597)
T 2xpi_A          382 YYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILL  459 (597)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHH
Confidence            8888888888888888877642 2356788888888888888888888888887764 4567788888888888888888


Q ss_pred             HHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHc----CCCCC--hhhHHHHHHHHHhcCCchHHHHH
Q 035645          134 AFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEM----GLTPI--SRCFDLVTDGLKNCGKHDLAEKI  207 (217)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~a~~~  207 (217)
                      |.++|+++.+.. +.+..+|+.++..+.+.|++++|.++|+++.+.    +..|+  ..+|..+..+|.+.|++++|.++
T Consensus       460 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~  538 (597)
T 2xpi_A          460 ANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDA  538 (597)
T ss_dssp             HHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            888888887763 346788888888888999999999998888765    66677  67888899999999999999999


Q ss_pred             HHHHhhhcC
Q 035645          208 EQLEVSLRS  216 (217)
Q Consensus       208 ~~~~~~~~~  216 (217)
                      ++.+.+..|
T Consensus       539 ~~~~~~~~p  547 (597)
T 2xpi_A          539 LNQGLLLST  547 (597)
T ss_dssp             HHHHHHHSS
T ss_pred             HHHHHHhCC
Confidence            888877654

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.91  E-value=3.3e-24  Score=172.26  Aligned_cols=163  Identities=10%  Similarity=0.097  Sum_probs=130.7

Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHH---hcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHH
Q 035645           45 LETFNSLIETICKSGEVEFCVEMYYSVC---KLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPI  121 (217)
Q Consensus        45 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (217)
                      ..||+++|++|++.|++++|.++|++|.   ..|+.||..|||+||++|++.|++++|.++|++|.+.|+.||..||+++
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            4589999999999999999999998875   4578999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCh-HHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCC------hhhHHHHHHH
Q 035645          122 IKGAFRRGQF-DDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPI------SRCFDLVTDG  194 (217)
Q Consensus       122 l~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~  194 (217)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|++++....+.    .+.+..+++ ..++.|+      ..+...|.+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl  281 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDV  281 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHHH
Confidence            9999999985 78999999999999999999999988655443    333333333 3344443      4566677777


Q ss_pred             HHhcCC---------chHHHHHHHHHh
Q 035645          195 LKNCGK---------HDLAEKIEQLEV  212 (217)
Q Consensus       195 ~~~~~~---------~~~a~~~~~~~~  212 (217)
                      |.+.+.         .++-.+.|+...
T Consensus       282 ~s~d~~~s~pk~~~~~~~L~~~~~~Ql  308 (1134)
T 3spa_A          282 YAKDGRVSYPKLHLPLKTLQCLFEKQL  308 (1134)
T ss_dssp             HCCCSCCCCCCCSSCHHHHHHHHHHHH
T ss_pred             HccCCCCcCccccCCHHHHHHHHHHHH
Confidence            776552         245555555444

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.91  E-value=2.7e-24  Score=172.74  Aligned_cols=150  Identities=12%  Similarity=0.114  Sum_probs=128.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhh---CCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIK---QGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKIL   86 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (217)
                      ..|||++|++|++.|++++|.++|++|.+   .|+.||..|||+||++|++.|++++|.++|++|.+.|+.||..|||++
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            46899999999999999999999988864   589999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCH-HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC------HhHHHHHHHH
Q 035645           87 IPAVSKAGMI-DEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN------RPVYTTLITM  159 (217)
Q Consensus        87 l~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~li~~  159 (217)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|+.++.+..+.+-++.    .+++ ..++.|+      ..+...|.+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~----Vrkv-~P~f~p~~~~~~~~~t~~LL~dl  281 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKA----VHKV-KPTFSLPPQLPPPVNTSKLLRDV  281 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHH----HGGG-CCCCCCCCCCCCCCCCCTTTHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHH----HHHh-CcccCCCCCCcccccchHHHHHH
Confidence            9999999984 7899999999999999999999999876665543333    3333 2234443      5566677777


Q ss_pred             HhcCC
Q 035645          160 CGRGG  164 (217)
Q Consensus       160 ~~~~g  164 (217)
                      |.+.+
T Consensus       282 ~s~d~  286 (1134)
T 3spa_A          282 YAKDG  286 (1134)
T ss_dssp             HCCCS
T ss_pred             HccCC
Confidence            87665

>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=99.85  E-value=1.5e-18  Score=130.30  Aligned_cols=202  Identities=15%  Similarity=0.110  Sum_probs=152.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ..+|+.+...+.+.|++++|...|+++.+.+ +.+...+..+...+...|++++|+..|++..+.. +.+..++..+..+
T Consensus       169 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  246 (388)
T 1w3b_A          169 AVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACV  246 (388)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHH
Confidence            3455555566666666666666666665542 2244555566666666666666666666665532 2246778888889


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHH
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEA  169 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  169 (217)
                      +.+.|++++|...|+++.+.+ +.+..+|..+...+.+.|++++|...|+++.+. .+.+..++..+...+...|++++|
T Consensus       247 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A  324 (388)
T 1w3b_A          247 YYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEA  324 (388)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999988864 335668888999999999999999999998876 345788899999999999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          170 ANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .+.++++.+.. +.+..++..+..++.+.|++++|.+.++.+.++.|
T Consensus       325 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p  370 (388)
T 1w3b_A          325 VRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP  370 (388)
T ss_dssp             HHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            99999988753 34567888999999999999999999999887765

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.84  E-value=8.7e-19  Score=121.70  Aligned_cols=201  Identities=17%  Similarity=0.089  Sum_probs=163.0

Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHH
Q 035645            6 FNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKI   85 (217)
Q Consensus         6 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (217)
                      ++++...+..+...+.+.|++++|...|++..+.. +.+...+..+..++.+.|++++|+..|++..+.. +.+...+..
T Consensus         1 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~   78 (217)
T 2pl2_A            1 MQTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMV   78 (217)
T ss_dssp             ---CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHH
Confidence            36788899999999999999999999999999864 3478889999999999999999999999998864 235678899


Q ss_pred             HHHHHHhc-----------CCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHH
Q 035645           86 LIPAVSKA-----------GMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYT  154 (217)
Q Consensus        86 ll~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  154 (217)
                      +..++...           |++++|...|++..+.+ +-+...+..+..++...|++++|...|++..+..  .+...+.
T Consensus        79 lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~  155 (217)
T 2pl2_A           79 LSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRS  155 (217)
T ss_dssp             HHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHH
T ss_pred             HHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHH
Confidence            99999999           99999999999998874 3456788899999999999999999999998886  6889999


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHh
Q 035645          155 TLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       155 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      .+..++...|++++|...|++..+.. +.+...+..+..++...|++++|.+.++...
T Consensus       156 ~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          156 ALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            99999999999999999999998865 3456788899999999999999999987653

>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=99.83  E-value=8.7e-18  Score=126.22  Aligned_cols=199  Identities=15%  Similarity=0.110  Sum_probs=118.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      +..+...+...|++++|.+.|+++.+.. +.+..+|..+...+.+.|++++|+..|+++.+.. +.+...+..+...+..
T Consensus       138 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~  215 (388)
T 1w3b_A          138 RSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKE  215 (388)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHH
Confidence            3334444444444444444444444331 1133444455555555555555555555554432 1133445555555555


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHH
Q 035645           93 AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANY  172 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  172 (217)
                      .|++++|...+++..+.. +.+..++..+..++.+.|++++|...|+.+.+.. +.+..+|..+...+.+.|++++|.+.
T Consensus       216 ~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~  293 (388)
T 1w3b_A          216 ARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDC  293 (388)
T ss_dssp             TTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            555555555555554432 2235566777777777777888877777777653 22466777777777788888888888


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          173 LMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ++++.+.. +.+..++..+...+.+.|++++|.+.++.+.+..|
T Consensus       294 ~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  336 (388)
T 1w3b_A          294 YNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFP  336 (388)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCT
T ss_pred             HHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            87777654 44666777788888888888888888877766543

>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=99.82  E-value=4.9e-18  Score=129.72  Aligned_cols=204  Identities=15%  Similarity=0.101  Sum_probs=175.6

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      .+...+..+...+.+.|++++|..+|+++.+.. +.+..++..+..++...|++++|+..|+++.+.+ +.+..++..+.
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            356778999999999999999999999998763 4478899999999999999999999999998864 33578899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCc---ccHHHH------------HHHHHhcCChHHHHHHHHHHHhcCCCCCHhH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFP---SLYAPI------------IKGAFRRGQFDDAFCFFSEIKIKGHPPNRPV  152 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  152 (217)
                      .+|.+.|++++|...|+++.+.+ +.+.   ..+..+            ...+...|++++|...|+.+.+.. +.+..+
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  179 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAEL  179 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHH
Confidence            99999999999999999999864 2233   555555            444899999999999999998763 447889


Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          153 YTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       153 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +..+..++...|++++|.+.|+++.+.. +.+..++..+..+|...|++++|.+.++.+.+..|
T Consensus       180 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  242 (450)
T 2y4t_A          180 RELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ  242 (450)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999998754 35678899999999999999999999999887654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.81  E-value=1.9e-17  Score=119.91  Aligned_cols=200  Identities=11%  Similarity=0.087  Sum_probs=164.1

Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHH
Q 035645            6 FNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDP-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYK   84 (217)
Q Consensus         6 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (217)
                      -+|+..++..+...+...|+.++|.+.++++...+..| +...+..+...+...|++++|++.+++      +.+...+.
T Consensus        61 ~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~  134 (291)
T 3mkr_A           61 SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMA  134 (291)
T ss_dssp             SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHH
T ss_pred             CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHH
Confidence            34567788889999999999999999999998876555 455666777899999999999999987      45778899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHH----HHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 035645           85 ILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPI----IKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMC  160 (217)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l----l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  160 (217)
                      .+..++.+.|++++|...|+++.+.+  |+.. ...+    +..+...|++++|..+|+++.+. .+.+...++.+..++
T Consensus       135 ~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~-~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~  210 (291)
T 3mkr_A          135 MTVQILLKLDRLDLARKELKKMQDQD--EDAT-LTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACH  210 (291)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--TTCH-HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC--cCcH-HHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHH
Confidence            99999999999999999999998764  4432 2223    23344558999999999999887 456788999999999


Q ss_pred             hcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchH-HHHHHHHHhhhcC
Q 035645          161 GRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDL-AEKIEQLEVSLRS  216 (217)
Q Consensus       161 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~~  216 (217)
                      .+.|++++|.+.+++..+.. +-+..++..++..+...|+.++ +.++++.+.++.|
T Consensus       211 ~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P  266 (291)
T 3mkr_A          211 MAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHR  266 (291)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            99999999999999988765 3466788899999999999976 6789888887765

>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=99.81  E-value=3.6e-17  Score=115.65  Aligned_cols=203  Identities=15%  Similarity=0.076  Sum_probs=175.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ...|..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.|+++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            5678889999999999999999999998764 3467889999999999999999999999998764 3367889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCC-CcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHH
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNP-FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVE  168 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  168 (217)
                      +...|++++|.+.++++.+.+..| +...+..+...+...|++++|...+.+..+.. +.+...+..+...+...|++++
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            999999999999999998733334 45678888999999999999999999998763 3357889999999999999999


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          169 AANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      |...++...+.. +.+...+..+...+...|+.++|.++++.+.+..|
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p  240 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYP  240 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC
Confidence            999999988754 35667888999999999999999999999887654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.81  E-value=6.3e-17  Score=112.20  Aligned_cols=205  Identities=11%  Similarity=-0.011  Sum_probs=175.3

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +...|..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.+++..+.. +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            46778899999999999999999999998764 3467889999999999999999999999998763 336778899999


Q ss_pred             HHHhc-CCHHHHHHHHHHHHhCCCCCC-cccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCH
Q 035645           89 AVSKA-GMIDEAFRLLHNLVEDGHNPF-PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRF  166 (217)
Q Consensus        89 ~~~~~-~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  166 (217)
                      .+... |++++|...++++.+.+..|+ ...+..+...+...|++++|...+.++.+.. +.+...+..+...+...|++
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            99999 999999999999988322333 5678889999999999999999999998763 33578899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          167 VEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ++|.+.+++..+.....+...+..+...+...|+.+.|..+++.+.+..|
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p  213 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFP  213 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCC
Confidence            99999999998765325667788888899999999999999998876654

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.81  E-value=9.2e-18  Score=117.91  Aligned_cols=204  Identities=12%  Similarity=0.059  Sum_probs=160.2

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      .+...|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|++.+++..+.. +.+..++..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHH
Confidence            355678888889999999999999999998864 3478889999999999999999999999998763 33678889999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFV  167 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  167 (217)
                      ..+...|++++|...+++..+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999998765 4467788899999999999999999999998763 346788999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          168 EAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +|.+.+++..+.. +.+..++..+..++...|++++|.+.++...++.|
T Consensus       177 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p  224 (243)
T 2q7f_A          177 EALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQP  224 (243)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCc
Confidence            9999999998764 34577899999999999999999999999887764

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.81  E-value=2.5e-17  Score=116.53  Aligned_cols=202  Identities=13%  Similarity=0.087  Sum_probs=173.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC--cc----hhhH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC--AD----VSTY   83 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~   83 (217)
                      ...|..+...+...|++++|...|++..+..  .+...+..+..++...|++++|++.+++..+....  ++    ..++
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            4678889999999999999999999999876  68889999999999999999999999998764211  11    5788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCC------------------------C-CCCcccHHHHHHHHHhcCChHHHHHHH
Q 035645           84 KILIPAVSKAGMIDEAFRLLHNLVEDG------------------------H-NPFPSLYAPIIKGAFRRGQFDDAFCFF  138 (217)
Q Consensus        84 ~~ll~~~~~~~~~~~a~~~~~~~~~~~------------------------~-~~~~~~~~~ll~~~~~~g~~~~a~~~~  138 (217)
                      ..+...+...|++++|...|++..+..                        . +.+...+..+...+...|++++|...+
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  162 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAY  162 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            999999999999999999999988732                        1 223457888889999999999999999


Q ss_pred             HHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          139 SEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       139 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      ++..... +.+..++..+...+...|++++|.+.+++..+.. +.+..++..+..++...|++++|.+.++...++.
T Consensus       163 ~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          163 TEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            9998764 3468899999999999999999999999998865 3457789999999999999999999999988775

>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=99.80  E-value=3.4e-17  Score=125.08  Aligned_cols=204  Identities=13%  Similarity=0.035  Sum_probs=171.5

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcch---hhH
Q 035645            7 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADV---STY   83 (217)
Q Consensus         7 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~   83 (217)
                      +.+..+|..+..++...|++++|...|+++.+.+ +.+..++..+..+|.+.|++++|.+.|+++.+... .+.   ..+
T Consensus        57 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~  134 (450)
T 2y4t_A           57 PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNP-SENEEKEAQ  134 (450)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCC-CHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CChhhHHHH
Confidence            3467889999999999999999999999999875 33678899999999999999999999999987532 233   555


Q ss_pred             HHH------------HHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHh
Q 035645           84 KIL------------IPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRP  151 (217)
Q Consensus        84 ~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  151 (217)
                      ..+            ...+.+.|++++|...|+++.+.. +.+..++..+..++.+.|++++|...|..+.+.. +.+..
T Consensus       135 ~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~  212 (450)
T 2y4t_A          135 SQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTE  212 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH
Confidence            555            444899999999999999998764 4567789999999999999999999999998763 44688


Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCC-hhhHHHH------------HHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          152 VYTTLITMCGRGGRFVEAANYLMEMTEMGLTPI-SRCFDLV------------TDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       152 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ++..+...+...|++++|.+.|+++.+..  |+ ...+..+            ...|.+.|++++|.+.++.+.+..|
T Consensus       213 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p  288 (450)
T 2y4t_A          213 AFYKISTLYYQLGDHELSLSEVRECLKLD--QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEP  288 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999998754  43 3344444            8899999999999999999887654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.80  E-value=8.1e-18  Score=125.35  Aligned_cols=203  Identities=17%  Similarity=0.088  Sum_probs=151.3

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +...|..+...+.+.|++++|...|+++.+.. +.+..++..+..++...|++++|+..|++..+.. +.+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            45567788888888888888888888887753 3367778888888888888888888888887653 234677778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCC------------------------------------------CC---CcccHHHHHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGH------------------------------------------NP---FPSLYAPIIK  123 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~------------------------------------------~~---~~~~~~~ll~  123 (217)
                      +|...|++++|...|+++.+...                                          .|   +..++..+..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            88888888888887777654310                                          11   4556777778


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchH
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDL  203 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (217)
                      .+...|++++|...|++..+.. +.+..+|..+..++...|++++|.+.|++..+.. +.+..++..+..+|.+.|++++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHH
Confidence            8888888888888888877653 3357788888888888888888888888877654 2346677888888888888888


Q ss_pred             HHHHHHHHhhhc
Q 035645          204 AEKIEQLEVSLR  215 (217)
Q Consensus       204 a~~~~~~~~~~~  215 (217)
                      |.+.++.+.++.
T Consensus       300 A~~~~~~al~~~  311 (365)
T 4eqf_A          300 AVSNFLTALSLQ  311 (365)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC
Confidence            888888777654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.80  E-value=1.6e-17  Score=123.76  Aligned_cols=171  Identities=11%  Similarity=0.005  Sum_probs=135.6

Q ss_pred             CChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHH
Q 035645           43 PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPII  122 (217)
Q Consensus        43 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  122 (217)
                      .+...+..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|...|++..+.. +.+..++..+.
T Consensus        63 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  140 (365)
T 4eqf_A           63 KDWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALA  140 (365)
T ss_dssp             TTCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            356678999999999999999999999998764 3467889999999999999999999999998875 44577899999


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCC------------------------------------------CC---CHhHHHHHH
Q 035645          123 KGAFRRGQFDDAFCFFSEIKIKGH------------------------------------------PP---NRPVYTTLI  157 (217)
Q Consensus       123 ~~~~~~g~~~~a~~~~~~~~~~~~------------------------------------------~~---~~~~~~~li  157 (217)
                      ..+...|++++|...++++.+...                                          .|   +..++..+.
T Consensus       141 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          141 VSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            999999999999999988765310                                          01   456677777


Q ss_pred             HHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          158 TMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       158 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ..+...|++++|.+.+++..+.. +.+..++..+..+|...|++++|.+.++.+.++.|
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  278 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQP  278 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            77777777777777777777654 33456777777777777777777777777766543

>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=99.80  E-value=7.9e-17  Score=117.96  Aligned_cols=204  Identities=13%  Similarity=0.066  Sum_probs=123.6

Q ss_pred             ChhhHHHHHHHHHhcC-CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            9 PVRGRDLLVQGLLNAG-YLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      +...|..+...+...| ++++|...|++..+.. +.+...|..+..++...|++++|+..|++..+.. +.+...+..+.
T Consensus        89 ~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~  166 (330)
T 3hym_B           89 NPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIG  166 (330)
T ss_dssp             STHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHH
Confidence            3445666666666666 6666666666666543 2245556666666666666666666666665542 12344555566


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcC--------CCCCHhHHHHHHHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG--------HPPNRPVYTTLITM  159 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--------~~~~~~~~~~li~~  159 (217)
                      ..+...|++++|...+++..+.. +.+..++..+...+...|++++|...++...+..        .+.+..++..+...
T Consensus       167 ~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~  245 (330)
T 3hym_B          167 LEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHV  245 (330)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHH
Confidence            66666666666666666666553 3344566666666666777777776666665421        12234566666666


Q ss_pred             HhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          160 CGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +...|++++|.+.+++..+.. +.+..++..+..++.+.|++++|.+.++...++.|
T Consensus       246 ~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  301 (330)
T 3hym_B          246 CRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRR  301 (330)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCS
T ss_pred             HHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCC
Confidence            667777777777776666543 22445666666667777777777777666655543

>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=99.79  E-value=4.4e-16  Score=115.84  Aligned_cols=203  Identities=14%  Similarity=0.087  Sum_probs=154.7

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +...+..+...+.+.|++++|...|+++.+.. +.+..++..+..++...|++++|+..|+++.+.. +.+..++..+..
T Consensus        63 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~  140 (368)
T 1fch_A           63 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAV  140 (368)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            35668888899999999999999999998864 3477788899999999999999999999988764 336778888889


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCC-----------------------------------------------C---CcccH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHN-----------------------------------------------P---FPSLY  118 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~-----------------------------------------------~---~~~~~  118 (217)
                      ++...|++++|...++++.+....                                               |   +..++
T Consensus       141 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~  220 (368)
T 1fch_A          141 SFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQ  220 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHH
Confidence            999999999998888887764311                                               1   24556


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 035645          119 APIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNC  198 (217)
Q Consensus       119 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (217)
                      ..+...+.+.|++++|...+.++.... +.+..++..+...+...|++++|.+.+++..+.. +.+..++..+..+|.+.
T Consensus       221 ~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~  298 (368)
T 1fch_A          221 CGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINL  298 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHC
Confidence            667777777788888888877776652 3346677777777777888888888887777653 23456777777788888


Q ss_pred             CCchHHHHHHHHHhhhc
Q 035645          199 GKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       199 ~~~~~a~~~~~~~~~~~  215 (217)
                      |++++|.+.++.+.++.
T Consensus       299 g~~~~A~~~~~~al~~~  315 (368)
T 1fch_A          299 GAHREAVEHFLEALNMQ  315 (368)
T ss_dssp             TCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            88888888777776554

>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=99.79  E-value=3.2e-16  Score=114.76  Aligned_cols=205  Identities=9%  Similarity=-0.038  Sum_probs=175.9

Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHH
Q 035645            5 GFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYK   84 (217)
Q Consensus         5 g~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (217)
                      +.+.+...+..+...+...|++++|.++++++.+.. +.+...+..++.++...|++++|...++++.+.. +.+..++.
T Consensus        17 ~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~   94 (330)
T 3hym_B           17 GLQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWF   94 (330)
T ss_dssp             ---CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHH
T ss_pred             hchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHH
Confidence            456677888899999999999999999999998764 3466777888899999999999999999998753 33678899


Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcC
Q 035645           85 ILIPAVSKAG-MIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRG  163 (217)
Q Consensus        85 ~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  163 (217)
                      .+...+...| ++++|...|++..+.. +.+..+|..+...+...|++++|...+....+.. +.+...+..+...+...
T Consensus        95 ~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  172 (330)
T 3hym_B           95 AVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLT  172 (330)
T ss_dssp             HHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHH
Confidence            9999999999 9999999999999875 4456789999999999999999999999998763 33467788899999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          164 GRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       164 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      |++++|.+.+++..+.. +.+..++..+...+...|++++|.+.++...+.
T Consensus       173 ~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  222 (330)
T 3hym_B          173 NNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEK  222 (330)
T ss_dssp             TCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            99999999999998765 345678999999999999999999999988765

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.77  E-value=5.7e-16  Score=114.50  Aligned_cols=204  Identities=14%  Similarity=0.085  Sum_probs=174.3

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      ++..+..+...+...|++++|...|+++.+.. +.+..++..+..++...|++++|+..|+++.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            45678889999999999999999999998864 3467899999999999999999999999998763 236688999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCC--CCcccHHHH------------HHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHN--PFPSLYAPI------------IKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYT  154 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l------------l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  154 (217)
                      ++...|++++|...|++..+....  .+...+..+            ...+...|++++|...+..+.+.. +.+...+.
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            999999999999999999876410  234445444            578899999999999999998763 34678899


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          155 TLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       155 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .+...+...|++++|.+.+++..+.. +.+..++..+...+...|++++|.+.++...+..|
T Consensus       159 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  219 (359)
T 3ieg_A          159 LRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ  219 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc
Confidence            99999999999999999999998764 45678899999999999999999999998877654

>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=99.75  E-value=3.4e-16  Score=114.46  Aligned_cols=204  Identities=14%  Similarity=0.045  Sum_probs=148.6

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +...+......+...|++++|..+|+++.+.. +.+...+..+..++...|++++|...++++.+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            44566777888888888888888888887753 3366777888888888888888888888887753 335677778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCC------------------------------------------------CCCcccHHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGH------------------------------------------------NPFPSLYAP  120 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~------------------------------------------------~~~~~~~~~  120 (217)
                      .+...|++++|...+++..+...                                                +.+..++..
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  177 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHAS  177 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHH
Confidence            88888888888888777665421                                                113345566


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 035645          121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGK  200 (217)
Q Consensus       121 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (217)
                      +...+...|++++|...+..+.+.. +.+..++..+...+...|++++|.+.+++..+.. +.+..++..+..++...|+
T Consensus       178 la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~  255 (327)
T 3cv0_A          178 LGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQ  255 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcc
Confidence            6667777888888888888776653 3356777777788888888888888888777654 2345677778888888888


Q ss_pred             chHHHHHHHHHhhhcC
Q 035645          201 HDLAEKIEQLEVSLRS  216 (217)
Q Consensus       201 ~~~a~~~~~~~~~~~~  216 (217)
                      +++|.+.++...+..|
T Consensus       256 ~~~A~~~~~~a~~~~~  271 (327)
T 3cv0_A          256 YDLAAKQLVRAIYMQV  271 (327)
T ss_dssp             HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCC
Confidence            8888888877765543

>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=99.75  E-value=8e-16  Score=114.46  Aligned_cols=201  Identities=11%  Similarity=0.017  Sum_probs=160.1

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCC------------
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGS------------   76 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~------------   76 (217)
                      +...|..+...+.+.|++++|...++++.+.. +.+..++..+..++...|++++|++.++++.+...            
T Consensus        97 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  175 (368)
T 1fch_A           97 HMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEG  175 (368)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC-----
T ss_pred             CHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHH
Confidence            45667777778888888888888888777653 33666777777777777777777777776654211            


Q ss_pred             -----------------------------------Cc---chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccH
Q 035645           77 -----------------------------------CA---DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLY  118 (217)
Q Consensus        77 -----------------------------------~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  118 (217)
                                                         .|   +..++..+..++.+.|++++|...+++..+.. +.+..++
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~  254 (368)
T 1fch_A          176 AGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLW  254 (368)
T ss_dssp             ----------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             hhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHH
Confidence                                               12   46778889999999999999999999998764 4456789


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCC----------ChhhH
Q 035645          119 APIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTP----------ISRCF  188 (217)
Q Consensus       119 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~----------~~~~~  188 (217)
                      ..+...+...|++++|...|+.+.+.. +.+..++..+..++...|++++|.+.|++..+.....          ...+|
T Consensus       255 ~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~  333 (368)
T 1fch_A          255 NKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIW  333 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHH
Confidence            999999999999999999999998763 3467899999999999999999999999988643111          25789


Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHh
Q 035645          189 DLVTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      ..+..+|...|+.++|.+++++..
T Consensus       334 ~~l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          334 STLRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             HHHHHHHHHHTCGGGHHHHHTTCH
T ss_pred             HHHHHHHHHhCChHhHHHhHHHHH
Confidence            999999999999999999876443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.75  E-value=6.7e-16  Score=111.78  Aligned_cols=193  Identities=13%  Similarity=0.106  Sum_probs=160.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCc-chhhHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCA-DVSTYKILIPA   89 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~   89 (217)
                      .....+..+|...|+++.|...++.    .-+|+..++..+...+...++.++|++.++++...+..| +...+..+..+
T Consensus        35 e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~  110 (291)
T 3mkr_A           35 ERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASI  110 (291)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHH
Confidence            3556678899999999999986654    245677888999999999999999999999998766545 45667777899


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHH---HHHHHHHhcCCCH
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVY---TTLITMCGRGGRF  166 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~---~~li~~~~~~g~~  166 (217)
                      +...|++++|.+.+++      +.+..++..+...+.+.|++++|...++.+.+..  |+....   ...+..+...|++
T Consensus       111 ~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~  182 (291)
T 3mkr_A          111 YFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKL  182 (291)
T ss_dssp             HHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHH
T ss_pred             HHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHH
Confidence            9999999999999987      4567789999999999999999999999998873  453211   2334555567999


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          167 VEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ++|..+|+++.+.. +.+...++.+..++.+.|++++|++.++.+.+++|
T Consensus       183 ~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p  231 (291)
T 3mkr_A          183 QDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDS  231 (291)
T ss_dssp             HHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99999999999874 56788899999999999999999999999988776

>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=99.75  E-value=9e-16  Score=112.20  Aligned_cols=170  Identities=11%  Similarity=0.027  Sum_probs=131.4

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIK  123 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (217)
                      +...+..+...+...|++++|..+|+++.+.. +.+..++..+..++...|++++|...+++..+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            45567788889999999999999999998764 3367888899999999999999999999998874 446678888999


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCC------------------------------------------------CCCHhHHHH
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGH------------------------------------------------PPNRPVYTT  155 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~------------------------------------------------~~~~~~~~~  155 (217)
                      .+...|++++|...++.+.....                                                +.+..++..
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  177 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHAS  177 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHH
Confidence            99999999999998888765311                                                123456666


Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          156 LITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       156 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +...+...|++++|.+.+++..+.. +.+..++..+...+...|++++|.+.++.+.+..|
T Consensus       178 la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~  237 (327)
T 3cv0_A          178 LGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDINP  237 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            6777777777777777777777654 23456677777777777778877777777665543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.73  E-value=2.5e-15  Score=101.29  Aligned_cols=167  Identities=17%  Similarity=0.089  Sum_probs=127.2

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +...|..+...+.+.|++++|.+.|++..+.. +-+..++..+..++.+.|++++|+..+....... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            55678888888888888888888888887754 2366778888888888888888888888887653 234566777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVE  168 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  168 (217)
                      .+...++++.|...+.+..+.. +.+...+..+...+.+.|++++|.+.|++..+.. +.+..+|..+..++.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            7888888888888888877654 3456677777888888888888888888877653 3356778888888888888888


Q ss_pred             HHHHHHHHHHc
Q 035645          169 AANYLMEMTEM  179 (217)
Q Consensus       169 a~~~~~~~~~~  179 (217)
                      |.+.|++..+.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            88888887764

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.73  E-value=6.7e-15  Score=108.75  Aligned_cols=205  Identities=13%  Similarity=0.024  Sum_probs=168.8

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC--cchhhHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC--ADVSTYKI   85 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~   85 (217)
                      .+...+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++|...|++..+....  .+...+..
T Consensus        35 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~  113 (359)
T 3ieg_A           35 DNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQ  113 (359)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHH
Confidence            356789999999999999999999999998764 336788999999999999999999999999875320  23444444


Q ss_pred             H------------HHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHH
Q 035645           86 L------------IPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVY  153 (217)
Q Consensus        86 l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  153 (217)
                      +            ...+...|++++|...++++.+.. +.+..++..+...+...|++++|...+....+.. +.+..++
T Consensus       114 l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  191 (359)
T 3ieg_A          114 LVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAF  191 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHH
Confidence            4            578899999999999999998765 4567788999999999999999999999998763 4468899


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHH------------HHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          154 TTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFD------------LVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       154 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~------------~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ..+...+...|++++|.+.+++..+... .+...+.            .+...+.+.|++++|.+.++...+..|
T Consensus       192 ~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~  265 (359)
T 3ieg_A          192 YKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEP  265 (359)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            9999999999999999999999987542 2222222            336778999999999999998877654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.73  E-value=3.2e-16  Score=113.80  Aligned_cols=208  Identities=15%  Similarity=0.155  Sum_probs=168.2

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhC-------CCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc------C
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ-------GSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL------G   75 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~   75 (217)
                      +..++..+...+...|++++|..+++++.+.       ..+....++..+...+...|++++|...+++..+.      +
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            4677889999999999999999999998873       22335667888999999999999999999988754      2


Q ss_pred             C-CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCC-CcccHHHHHHHHHhcCChHHHHHHHHHHHhc---
Q 035645           76 S-CADVSTYKILIPAVSKAGMIDEAFRLLHNLVED------GHNP-FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK---  144 (217)
Q Consensus        76 ~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---  144 (217)
                      - +....++..+...+...|++++|...+++..+.      +..| ...++..+...+...|++++|...+++....   
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            2 234577889999999999999999999988754      2122 3457888899999999999999999998764   


Q ss_pred             ---CCCC-CHhHHHHHHHHHhcCCCHHHHHHHHHHHHHc-----------------------------------------
Q 035645          145 ---GHPP-NRPVYTTLITMCGRGGRFVEAANYLMEMTEM-----------------------------------------  179 (217)
Q Consensus       145 ---~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----------------------------------------  179 (217)
                         +..| ...++..+...+...|++++|.+.+++..+.                                         
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               2122 2467888999999999999999999998752                                         


Q ss_pred             -------CCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          180 -------GLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       180 -------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                             .-+.+..++..+..+|.+.|++++|.+.++...++.+
T Consensus       266 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~  309 (311)
T 3nf1_A          266 WYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRK  309 (311)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC
T ss_pred             HHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhh
Confidence                   1122446788999999999999999999999887754

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.72  E-value=1.6e-15  Score=105.18  Aligned_cols=170  Identities=12%  Similarity=0.072  Sum_probs=150.2

Q ss_pred             CCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHH
Q 035645           42 DPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPI  121 (217)
Q Consensus        42 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (217)
                      +++...+..+...+.+.|++++|+..|++..+.. +.+...+..+..++.+.|++++|...+++..+.+ +.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            5677888999999999999999999999998753 3367889999999999999999999999999875 4456788899


Q ss_pred             HHHHHhc-----------CChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHH
Q 035645          122 IKGAFRR-----------GQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDL  190 (217)
Q Consensus       122 l~~~~~~-----------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (217)
                      ..++...           |++++|...+++..+.. +-+...+..+..++...|++++|...|++..+..  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            9999999           99999999999998863 2357889999999999999999999999999887  78888999


Q ss_pred             HHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          191 VTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +..+|...|++++|.+.++...++.|
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P  182 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAP  182 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99999999999999999999988765

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.72  E-value=2.5e-15  Score=107.32  Aligned_cols=202  Identities=13%  Similarity=-0.057  Sum_probs=163.6

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +..+|..+...+...|++++|...|+++.+.. +.+..++..+..++...|++++|+..|++..+.. +.+..++..+..
T Consensus        42 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~  119 (275)
T 1xnf_A           42 RAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGI  119 (275)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHH
Confidence            46678889999999999999999999998864 3368889999999999999999999999998753 236788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVE  168 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  168 (217)
                      ++.+.|++++|...|+++.+..  |+.......+..+...|++++|...+....... +++...+ .++..+...++.++
T Consensus       120 ~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~  195 (275)
T 1xnf_A          120 ALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQT  195 (275)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHH
Confidence            9999999999999999998763  444445555566677899999999998877652 3344444 46777788888899


Q ss_pred             HHHHHHHHHHcCCCC---ChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          169 AANYLMEMTEMGLTP---ISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       169 a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      |.+.+....+.....   +..++..+..+|.+.|++++|.+.++...+..|
T Consensus       196 a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  246 (275)
T 1xnf_A          196 LMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  246 (275)
T ss_dssp             HHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCc
Confidence            999998877543211   257888999999999999999999999988765

>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=99.71  E-value=6e-14  Score=100.41  Aligned_cols=188  Identities=12%  Similarity=-0.047  Sum_probs=87.8

Q ss_pred             hHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh----cCchhHHHHHHHHHHhcCCCcchhhH
Q 035645           12 GRDLLVQGLLN----AGYLESAKQMVNKMIKQGSDPDLETFNSLIETICK----SGEVEFCVEMYYSVCKLGSCADVSTY   83 (217)
Q Consensus        12 ~~~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (217)
                      .+..+...+..    .+++++|...|++..+.+   +...+..+...|..    .+++++|+..|++..+.+   +...+
T Consensus        40 a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~  113 (273)
T 1ouv_A           40 GCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGC  113 (273)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHH
Confidence            34444444444    444444444444444433   34444444444444    444555555544444432   33444


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCHhHHHH
Q 035645           84 KILIPAVSK----AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR----RGQFDDAFCFFSEIKIKGHPPNRPVYTT  155 (217)
Q Consensus        84 ~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~  155 (217)
                      ..+...|..    .+++++|...|++..+.+   +...+..+...+..    .+++++|...|+...+.+   +...+..
T Consensus       114 ~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~  187 (273)
T 1ouv_A          114 ASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFN  187 (273)
T ss_dssp             HHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            444444444    455555555555444433   23334444444444    455555555555444432   2344444


Q ss_pred             HHHHHhc----CCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCCchHHHHHHHHHhhh
Q 035645          156 LITMCGR----GGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKN----CGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       156 li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~  214 (217)
                      +...+..    .+++++|.+.+++..+.+.   ...+..+...|.+    .+++++|.+.++...++
T Consensus       188 lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~---~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~  251 (273)
T 1ouv_A          188 AGNMYHHGEGATKNFKEALARYSKACELEN---GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKL  251 (273)
T ss_dssp             HHHHHHHTCSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCCccHHHHHHHHHHHHhCCC---HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHc
Confidence            4444444    5555555555555444331   3344445555555    55555555555555444

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.71  E-value=2.6e-15  Score=116.31  Aligned_cols=202  Identities=12%  Similarity=-0.013  Sum_probs=99.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ..++..+...+...|++++|...++++.+...  +...+..+..++...|++++|...++++.+.. +.+..++..+...
T Consensus       237 ~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  313 (514)
T 2gw1_A          237 AISLEHTGIFKFLKNDPLGAHEDIKKAIELFP--RVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQM  313 (514)
T ss_dssp             HHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCc--cHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHH
Confidence            44455555556666666666666665554322  24445555555555555555555555554431 1233444444444


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCC---------------------------------CCCcccHHHHHHHHHhcCChHHHHH
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGH---------------------------------NPFPSLYAPIIKGAFRRGQFDDAFC  136 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~---------------------------------~~~~~~~~~ll~~~~~~g~~~~a~~  136 (217)
                      +...|++++|...+++..+...                                 +.+..++..+...+...|++++|..
T Consensus       314 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  393 (514)
T 2gw1_A          314 NFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALK  393 (514)
T ss_dssp             HHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHH
Confidence            4455555555555444444321                                 2233444445555555555555555


Q ss_pred             HHHHHHhcCCC-CC----HhHHHHHHHHHhc---CCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHH
Q 035645          137 FFSEIKIKGHP-PN----RPVYTTLITMCGR---GGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIE  208 (217)
Q Consensus       137 ~~~~~~~~~~~-~~----~~~~~~li~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (217)
                      .+..+...... ++    ..++..+...+..   .|++++|.+.++...+.. +.+..++..+..++.+.|++++|.+.+
T Consensus       394 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~  472 (514)
T 2gw1_A          394 QYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLF  472 (514)
T ss_dssp             HHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            55544432100 11    1245555555555   555555555555555432 223444555555555555665555555


Q ss_pred             HHHhhhc
Q 035645          209 QLEVSLR  215 (217)
Q Consensus       209 ~~~~~~~  215 (217)
                      +...++.
T Consensus       473 ~~a~~~~  479 (514)
T 2gw1_A          473 EESADLA  479 (514)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHhc
Confidence            5555443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.71  E-value=3.8e-14  Score=103.36  Aligned_cols=205  Identities=12%  Similarity=0.013  Sum_probs=165.1

Q ss_pred             CChhhHHHHHHHHH-------hcCCH-------HHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHh
Q 035645            8 PPVRGRDLLVQGLL-------NAGYL-------ESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCK   73 (217)
Q Consensus         8 ~~~~~~~~ll~~~~-------~~g~~-------~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~   73 (217)
                      .+...|..++..+.       +.|++       ++|..+|++..+.-.+-+...|..++..+.+.|++++|..+|++..+
T Consensus        48 ~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  127 (308)
T 2ond_A           48 HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA  127 (308)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            35567777777765       35886       99999999999841233566899999999999999999999999988


Q ss_pred             cCCCcc-hh-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH-hcCChHHHHHHHHHHHhcCCCCCH
Q 035645           74 LGSCAD-VS-TYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF-RRGQFDDAFCFFSEIKIKGHPPNR  150 (217)
Q Consensus        74 ~~~~~~-~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~g~~~~a~~~~~~~~~~~~~~~~  150 (217)
                      .  .|+ .. +|..+...+.+.|++++|..+|++..+.+ +.+...|........ ..|++++|..+|+...+.. +.+.
T Consensus       128 ~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~  203 (308)
T 2ond_A          128 I--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIP  203 (308)
T ss_dssp             S--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCH
T ss_pred             c--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcH
Confidence            4  454 33 79999999999999999999999999864 334445544433322 3799999999999988762 3467


Q ss_pred             hHHHHHHHHHhcCCCHHHHHHHHHHHHHcC-CCC--ChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          151 PVYTTLITMCGRGGRFVEAANYLMEMTEMG-LTP--ISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       151 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ..|..++..+.+.|++++|..+|++..... +.|  ....|..++....+.|+.+.|..+++.+.+..|
T Consensus       204 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p  272 (308)
T 2ond_A          204 EYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFR  272 (308)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcc
Confidence            899999999999999999999999999863 455  356788889999999999999999999887665

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.71  E-value=1.2e-14  Score=98.02  Aligned_cols=169  Identities=14%  Similarity=0.086  Sum_probs=148.5

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIK  123 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (217)
                      ++..|..+...|.+.|++++|++.|++..+.. +-+..++..+..+|.+.|++++|...+....... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            67789999999999999999999999998864 2367889999999999999999999999998765 345667888889


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchH
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDL  203 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (217)
                      .+...++++.|...+....... +.+...+..+...+.+.|++++|.+.|++..+.. +.+..++..+..+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            9999999999999999988763 3467889999999999999999999999999865 3466789999999999999999


Q ss_pred             HHHHHHHHhhhcC
Q 035645          204 AEKIEQLEVSLRS  216 (217)
Q Consensus       204 a~~~~~~~~~~~~  216 (217)
                      |.+.++...+++|
T Consensus       160 A~~~~~~al~~~p  172 (184)
T 3vtx_A          160 AVKYFKKALEKEE  172 (184)
T ss_dssp             HHHHHHHHHHTTH
T ss_pred             HHHHHHHHHhCCc
Confidence            9999999988765

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.70  E-value=6.3e-15  Score=105.20  Aligned_cols=204  Identities=9%  Similarity=0.027  Sum_probs=135.6

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC--hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPD--LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      ...+..+...+...|++++|...+++..+.+..|+  ...|..+..++...|++++|+..|++..+.. +.+..++..+.
T Consensus        37 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~  115 (272)
T 3u4t_A           37 PYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIG  115 (272)
T ss_dssp             STTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHH
Confidence            44677777777777777777777777776321111  2236677777777777777777777776643 22456677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCC--
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGR--  165 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~--  165 (217)
                      ..|...|++++|...|++..+.. +.+..++..+...+...+++++|...|+...+.. +.+...+..+...+...|+  
T Consensus       116 ~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~  193 (272)
T 3u4t_A          116 SYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDT  193 (272)
T ss_dssp             HHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcch
Confidence            77777777777777777776653 3344555555524444557777777777776652 2235666666666666666  


Q ss_pred             -HHHHHHHHHHHHHcC-CCCC------hhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          166 -FVEAANYLMEMTEMG-LTPI------SRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       166 -~~~a~~~~~~~~~~~-~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                       +++|...+++..+.. -.|+      ..+|..+...|...|++++|.+.++...++.|
T Consensus       194 ~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p  252 (272)
T 3u4t_A          194 KQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDP  252 (272)
T ss_dssp             SSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             hhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc
Confidence             667777777766421 1233      24677788888889999999999988887765

>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=99.70  E-value=8.9e-14  Score=99.50  Aligned_cols=192  Identities=10%  Similarity=-0.007  Sum_probs=169.5

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh----cCchhHHHHHHHHHHhcCCCcchhhHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICK----SGEVEFCVEMYYSVCKLGSCADVSTYK   84 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (217)
                      +..++..+...+...|++++|.+.|++..+.   -+...+..+...|..    .+++++|+..|++..+.+   +...+.
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            5677888999999999999999999999883   356788889999999    999999999999998865   678888


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCHhHHHHH
Q 035645           85 ILIPAVSK----AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR----RGQFDDAFCFFSEIKIKGHPPNRPVYTTL  156 (217)
Q Consensus        85 ~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  156 (217)
                      .+...|..    .+++++|...|++..+.+   +..++..+...|..    .+++++|...|++..+.+   +...+..+
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   67788889999999    999999999999999875   56778888


Q ss_pred             HHHHhc----CCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCCchHHHHHHHHHhhhc
Q 035645          157 ITMCGR----GGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKN----CGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       157 i~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  215 (217)
                      ...+..    .+++++|.+.|++..+.+   +...+..+...|..    .+++++|.+.++...+..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~  216 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE  216 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC
Confidence            888887    999999999999998865   45678889999999    999999999999887654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.70  E-value=2.4e-15  Score=116.46  Aligned_cols=167  Identities=15%  Similarity=0.066  Sum_probs=144.4

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIK  123 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (217)
                      +..++..+...+...|++++|...|+++.+..  |+..++..+..++...|++++|...+++..+.. +.+..++..+..
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  312 (514)
T 2gw1_A          236 LAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQ  312 (514)
T ss_dssp             HHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHH
Confidence            56678888999999999999999999998864  348889999999999999999999999998875 446778999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchH
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDL  203 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (217)
                      .+...|++++|...++...+.. +.+..++..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++
T Consensus       313 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  390 (514)
T 2gw1_A          313 MNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDK  390 (514)
T ss_dssp             HHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHH
Confidence            9999999999999999998764 3357788999999999999999999999988754 3356788889999999999999


Q ss_pred             HHHHHHHHhhhc
Q 035645          204 AEKIEQLEVSLR  215 (217)
Q Consensus       204 a~~~~~~~~~~~  215 (217)
                      |.+.++.+.+..
T Consensus       391 A~~~~~~a~~~~  402 (514)
T 2gw1_A          391 ALKQYDLAIELE  402 (514)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            999998887654

>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=99.69  E-value=1e-14  Score=113.70  Aligned_cols=205  Identities=15%  Similarity=0.047  Sum_probs=119.9

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      |+...|..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|+..|++..+.. +.+..++..+.
T Consensus       274 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la  351 (537)
T 3fp2_A          274 PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLA  351 (537)
T ss_dssp             CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHH
T ss_pred             CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            344455555556666666666666666655542 2245556666666666666666666666665532 12345566666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCC-----CCCHhHHHHHHHHHhc
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGH-----PPNRPVYTTLITMCGR  162 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-----~~~~~~~~~li~~~~~  162 (217)
                      .++...|++++|...+++..+.. +.+..++..+...+...|++++|...|+.+.+...     ......+......+..
T Consensus       352 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~  430 (537)
T 3fp2_A          352 CLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILAR  430 (537)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHH
Confidence            66666666666666666665543 23344566666666666666666666666544310     0011122333344444


Q ss_pred             C----------CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          163 G----------GRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       163 ~----------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .          |++++|...+++..+.. +.+..++..+..+|.+.|++++|.+.++...++.|
T Consensus       431 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  493 (537)
T 3fp2_A          431 QSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILAR  493 (537)
T ss_dssp             HHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            4          66666666666666543 23456778888888888888888888888777654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.69  E-value=2e-14  Score=102.56  Aligned_cols=202  Identities=11%  Similarity=0.061  Sum_probs=162.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc--hhhHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD--VSTYKIL   86 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l   86 (217)
                      |...+......+...|++++|...|++..+... .+...+..+..++...|++++|+..+++..+....|+  ..+|..+
T Consensus         2 n~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~l   80 (272)
T 3u4t_A            2 NDDVEFRYADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYY   80 (272)
T ss_dssp             ---CHHHHHHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHH
Confidence            345666778889999999999999999988642 3566899999999999999999999999987432222  2348899


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCH
Q 035645           87 IPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRF  166 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  166 (217)
                      ...+...|++++|...|++..+.. +.+..++..+...+...|++++|...+++..+. .+.+...+..+...+...+++
T Consensus        81 g~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~  158 (272)
T 3u4t_A           81 GKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP-TTTDPKVFYELGQAYYYNKEY  158 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS-SCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc-CCCcHHHHHHHHHHHHHHHHH
Confidence            999999999999999999998865 445678999999999999999999999998876 234567777777344445699


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC---chHHHHHHHHHhhh
Q 035645          167 VEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGK---HDLAEKIEQLEVSL  214 (217)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~  214 (217)
                      ++|.+.|++..+.. +.+...+..+..++...|+   +++|...++...+.
T Consensus       159 ~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  208 (272)
T 3u4t_A          159 VKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEV  208 (272)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHH
Confidence            99999999998864 2346677888888888888   88898888877655

>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=99.68  E-value=2.5e-16  Score=118.02  Aligned_cols=179  Identities=14%  Similarity=0.125  Sum_probs=62.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcC---------------
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLG---------------   75 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---------------   75 (217)
                      .+|..+..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|+..++...+..               
T Consensus        33 ~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~~~~~~i~~~Li~~Y~K  106 (449)
T 1b89_A           33 AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAK  106 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCccchhHHHHHHHHHH
Confidence            45666666666666666666666432      344555555555555666666655444443320               


Q ss_pred             -----------CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           76 -----------SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        76 -----------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                                 -.|+..+|+.+...|...|++++|..+|..+         ..|..++.++.+.|++++|.+.+.++   
T Consensus       107 lg~l~e~e~f~~~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA---  174 (449)
T 1b89_A          107 TNRLAELEEFINGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA---  174 (449)
T ss_dssp             --CHHHHTTTTTCC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH---
T ss_pred             hCCHHHHHHHHcCCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc---
Confidence                       0134445555555555555555555555544         34666666666666666666666655   


Q ss_pred             CCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          145 GHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       145 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                         .++.+|..++.+|...|+++.|......     +..++.-...++..|.+.|++++|..+++....++
T Consensus       175 ---~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le  237 (449)
T 1b89_A          175 ---NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLE  237 (449)
T ss_dssp             ---TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST
T ss_pred             ---CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc
Confidence               1566677777777777777776443332     22222224457777777788888888877776654

>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=99.67  E-value=6.1e-14  Score=98.99  Aligned_cols=176  Identities=10%  Similarity=0.024  Sum_probs=149.8

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCc-chhhHHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCA-DVSTYKIL   86 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l   86 (217)
                      .+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.|+++.+.+..| +...+..+
T Consensus        69 ~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l  147 (252)
T 2ho1_A           69 SSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENL  147 (252)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHH
Confidence            356788899999999999999999999998764 3377889999999999999999999999998733334 56788889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCH
Q 035645           87 IPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRF  166 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  166 (217)
                      ..++...|++++|...+++..+.. +.+..++..+...+...|++++|...+....+.. +.+...+..+...+...|++
T Consensus       148 a~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~  225 (252)
T 2ho1_A          148 GLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDR  225 (252)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCH
Confidence            999999999999999999998764 3456788899999999999999999999998763 34677888999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCChhhH
Q 035645          167 VEAANYLMEMTEMGLTPISRCF  188 (217)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~  188 (217)
                      ++|.+.++++.+..  |+...+
T Consensus       226 ~~A~~~~~~~~~~~--p~~~~~  245 (252)
T 2ho1_A          226 DTAASYGLQLKRLY--PGSLEY  245 (252)
T ss_dssp             HHHHHHHHHHHHHC--TTSHHH
T ss_pred             HHHHHHHHHHHHHC--CCCHHH
Confidence            99999999998764  544433

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.66  E-value=4.2e-14  Score=99.12  Aligned_cols=169  Identities=12%  Similarity=0.054  Sum_probs=148.2

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      .+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+.
T Consensus        55 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a  132 (243)
T 2q7f_A           55 EDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLG  132 (243)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            357788899999999999999999999998764 3477889999999999999999999999998764 34677889999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFV  167 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  167 (217)
                      ..+.+.|++++|...+++..+.. +.+...+..+...+.+.|++++|...+....+.. +.+..++..+...+...|+++
T Consensus       133 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  210 (243)
T 2q7f_A          133 TVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENRE  210 (243)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHH
Confidence            99999999999999999998764 4467788899999999999999999999998763 346788999999999999999


Q ss_pred             HHHHHHHHHHHcC
Q 035645          168 EAANYLMEMTEMG  180 (217)
Q Consensus       168 ~a~~~~~~~~~~~  180 (217)
                      +|.+.+++..+..
T Consensus       211 ~A~~~~~~~~~~~  223 (243)
T 2q7f_A          211 KALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHccC
Confidence            9999999998864

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.66  E-value=4.8e-14  Score=97.53  Aligned_cols=170  Identities=9%  Similarity=-0.029  Sum_probs=146.4

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIK  123 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (217)
                      +...+..+...+...|++++|.+.|++..+.. +.+...+..+...+...|++++|...+++..+.. +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            56678889999999999999999999998753 3357789999999999999999999999998764 445678889999


Q ss_pred             HHHhc-CChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCc
Q 035645          124 GAFRR-GQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKH  201 (217)
Q Consensus       124 ~~~~~-g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (217)
                      .+... |++++|...++.+.+.+..|+ ...+..+...+...|++++|.+.+++..+.. +.+...+..+..++...|++
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            99999 999999999999988433333 6788899999999999999999999998764 33577889999999999999


Q ss_pred             hHHHHHHHHHhhhcC
Q 035645          202 DLAEKIEQLEVSLRS  216 (217)
Q Consensus       202 ~~a~~~~~~~~~~~~  216 (217)
                      ++|.+.++...+..|
T Consensus       164 ~~A~~~~~~~~~~~~  178 (225)
T 2vq2_A          164 GDADYYFKKYQSRVE  178 (225)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhCC
Confidence            999999998877654

>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=99.66  E-value=9e-17  Score=120.36  Aligned_cols=160  Identities=15%  Similarity=0.197  Sum_probs=28.3

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHH
Q 035645           22 NAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFR  101 (217)
Q Consensus        22 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  101 (217)
                      +.|++++|.++++++      +++.+|..+..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|..
T Consensus        15 ~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            678899999999998      23459999999999999999999999653      577789999999999999999999


Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCC
Q 035645          102 LLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGL  181 (217)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  181 (217)
                      .++..++.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|++++|..+|..+     
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            87776654  3446667777777777777777776664       245556666666666666666666666543     


Q ss_pred             CCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          182 TPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       182 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                          ..|..++.++.+.|++++|.+.++++
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA  174 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA  174 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc
Confidence                24555555555555555555555444

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.66  E-value=4.6e-15  Score=114.45  Aligned_cols=196  Identities=11%  Similarity=0.030  Sum_probs=156.9

Q ss_pred             ChhhHHHHHHHHHhcCCH-HHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYL-ESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~-~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      +...|..+...+...|++ ++|.+.|++..+.. +-+...|..+..+|.+.|++++|++.|++..+.  .|+..++..+.
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg  177 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLS  177 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHH
Confidence            567788888888889999 99999999888764 235778888889999999999999999988874  46678888888


Q ss_pred             HHHHhc---------CCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc--------CChHHHHHHHHHHHhcCCC--C
Q 035645           88 PAVSKA---------GMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR--------GQFDDAFCFFSEIKIKGHP--P  148 (217)
Q Consensus        88 ~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~--------g~~~~a~~~~~~~~~~~~~--~  148 (217)
                      .++...         |++++|...|++..+.. +.+...|..+..++...        |++++|...|+...+....  .
T Consensus       178 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~  256 (474)
T 4abn_A          178 MVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASS  256 (474)
T ss_dssp             HHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGG
T ss_pred             HHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCccc
Confidence            888888         88999999999888764 34567788888888888        8899999999988875210  3


Q ss_pred             CHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHH
Q 035645          149 NRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQ  209 (217)
Q Consensus       149 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (217)
                      +...|..+..++...|++++|.+.|++..+.. +-+...+..+..++...|++++|.+.+.
T Consensus       257 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          257 NPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            67888888889999999999999998888754 2345567788888888888888876543

>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=99.65  E-value=4.8e-14  Score=105.59  Aligned_cols=197  Identities=9%  Similarity=0.015  Sum_probs=165.3

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCc-hhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE-VEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      ...|+.+...+.+.|++++|+..+++.++.. +-+...|+.+..++...|+ +++|+..|++..+... -+...|+.+..
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-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHH
Confidence            4568888899999999999999999999864 2367889999999999997 9999999999988643 36788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhc-CCCHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGR-GGRFV  167 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~  167 (217)
                      ++...|++++|+..|++..+.+ +-+..+|..+..++.+.|++++|+..++++.+... -+...|+.+..++.. .|..+
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-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcch
Confidence            9999999999999999999875 44678899999999999999999999999988743 367899999999988 66657


Q ss_pred             HH-----HHHHHHHHHcCCCCChhhHHHHHHHHHhcC--CchHHHHHHHHH
Q 035645          168 EA-----ANYLMEMTEMGLTPISRCFDLVTDGLKNCG--KHDLAEKIEQLE  211 (217)
Q Consensus       168 ~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~  211 (217)
                      +|     .+.+++..+.. +-+...|..+...+...|  ++++|.+.++.+
T Consensus       253 eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~  302 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL  302 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh
Confidence            77     47888887754 235568888888888888  688888888765

>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=99.65  E-value=5.5e-14  Score=105.27  Aligned_cols=203  Identities=9%  Similarity=0.072  Sum_probs=169.4

Q ss_pred             ChhhHHHHHHHHHhcCC-HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGY-LESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      +...|+.+..++...|+ +++|+..|++.++.... +...|..+..++...|++++|+..|+++.+... -+...|..+.
T Consensus       130 ~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP-~~~~a~~~lg  207 (382)
T 2h6f_A          130 NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQ  207 (382)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCc-cCHHHHHHHH
Confidence            46779999999999997 99999999999986533 788999999999999999999999999988643 3678899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh-cCChHHH-----HHHHHHHHhcCCCCCHhHHHHHHHHHh
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR-RGQFDDA-----FCFFSEIKIKGHPPNRPVYTTLITMCG  161 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~g~~~~a-----~~~~~~~~~~~~~~~~~~~~~li~~~~  161 (217)
                      .++.+.|++++|+..|+++++.+ +-+..+|+.+..++.+ .|..++|     +..+.+..... +-+...|+.+...+.
T Consensus       208 ~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~  285 (382)
T 2h6f_A          208 WVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQ  285 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT
T ss_pred             HHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH
Confidence            99999999999999999999875 4467889999999999 6665777     58888887763 335789999999999


Q ss_pred             cCC--CHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC---------CchHHHHHHHHH-hhhcCC
Q 035645          162 RGG--RFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCG---------KHDLAEKIEQLE-VSLRSV  217 (217)
Q Consensus       162 ~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---------~~~~a~~~~~~~-~~~~~v  217 (217)
                      ..|  ++++|.+.+.++ +.. ..+...+..+..+|.+.|         ..++|.++++.+ .+++|+
T Consensus       286 ~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~DP~  351 (382)
T 2h6f_A          286 DRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKDTI  351 (382)
T ss_dssp             TTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTTCGG
T ss_pred             ccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHhCch
Confidence            888  689999999887 322 345667888999998874         258999999998 777763

>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=99.65  E-value=4.2e-14  Score=94.82  Aligned_cols=166  Identities=17%  Similarity=0.050  Sum_probs=127.4

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ...|..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3456777788888888888888888877653 3366778888888888888888888888887653 3356777788888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHH
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEA  169 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  169 (217)
                      +...|++++|...+++..+.. +.+...+..+...+...|++++|...+....+.. +.+..++..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            888888888888888877664 3456677777888888888888888888877663 33567777888888888888888


Q ss_pred             HHHHHHHHHc
Q 035645          170 ANYLMEMTEM  179 (217)
Q Consensus       170 ~~~~~~~~~~  179 (217)
                      .+.+++..+.
T Consensus       164 ~~~~~~~~~~  173 (186)
T 3as5_A          164 LPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            8888877654

>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=99.64  E-value=1.1e-13  Score=107.91  Aligned_cols=200  Identities=15%  Similarity=0.032  Sum_probs=168.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVS   91 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   91 (217)
                      +|..+...+...|++++|...+++..+.  .|+...+..+...+...|++++|+..|++..+.. +.+..++..+...+.
T Consensus       245 ~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  321 (537)
T 3fp2_A          245 ALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYF  321 (537)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHH
Confidence            5777778889999999999999999986  4568889999999999999999999999998764 336788999999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHH
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAAN  171 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  171 (217)
                      ..|++++|...+++..+.+ +.+..++..+...+...|++++|...+..+.+.. +.+..++..+...+...|++++|.+
T Consensus       322 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  399 (537)
T 3fp2_A          322 ILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIK  399 (537)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHH
Confidence            9999999999999998865 3456789999999999999999999999998773 3457789999999999999999999


Q ss_pred             HHHHHHHcCCC-----CChhhHHHHHHHHHhc----------CCchHHHHHHHHHhhhcC
Q 035645          172 YLMEMTEMGLT-----PISRCFDLVTDGLKNC----------GKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       172 ~~~~~~~~~~~-----~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~  216 (217)
                      .+++..+....     .....+.....++...          |++++|.+.++...+..|
T Consensus       400 ~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p  459 (537)
T 3fp2_A          400 QYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDP  459 (537)
T ss_dssp             HHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCC
Confidence            99998754311     1122244556777777          999999999999887664

>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=99.63  E-value=1.4e-13  Score=92.20  Aligned_cols=168  Identities=17%  Similarity=0.097  Sum_probs=145.1

Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 035645           45 LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKG  124 (217)
Q Consensus        45 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (217)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...+++..+.. +.+..++..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            4567778889999999999999999987653 3467888999999999999999999999998764 4456788889999


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHH
Q 035645          125 AFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLA  204 (217)
Q Consensus       125 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (217)
                      +...|++++|...++.+.... +.+...+..+...+...|++++|.+.+++..+.. +.+..++..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999998763 4467889999999999999999999999998765 34577899999999999999999


Q ss_pred             HHHHHHHhhhcC
Q 035645          205 EKIEQLEVSLRS  216 (217)
Q Consensus       205 ~~~~~~~~~~~~  216 (217)
                      .+.++...+..|
T Consensus       164 ~~~~~~~~~~~~  175 (186)
T 3as5_A          164 LPHFKKANELDE  175 (186)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCC
Confidence            999998876643

>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=99.62  E-value=8.9e-14  Score=111.83  Aligned_cols=166  Identities=10%  Similarity=0.095  Sum_probs=120.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +..+|+.+...+.+.|++++|++.|++.++... -+..+|..+..+|.+.|++++|+..|++..+.. +-+..+|..+..
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 HADSLNNLANIKREQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            356677888888888888888888888776532 256677778888888888888888888777643 124567777888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVE  168 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  168 (217)
                      +|.+.|++++|.+.|++..+.+ +-+..+|+.+..++...|++++|...|++..+.. +-+...+..+..++...|++++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHH
Confidence            8888888888888888777654 3345677777777888888888888887777652 2246677777777777788877


Q ss_pred             HHHHHHHHHH
Q 035645          169 AANYLMEMTE  178 (217)
Q Consensus       169 a~~~~~~~~~  178 (217)
                      |.+.+++..+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777777664

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.61  E-value=1.8e-13  Score=97.61  Aligned_cols=189  Identities=9%  Similarity=-0.046  Sum_probs=152.2

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCC---CChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCH
Q 035645           20 LLNAGYLESAKQMVNKMIKQGSD---PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMI   96 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~   96 (217)
                      ....|++++|...++++.+....   .+..++..+...+...|++++|+..|++..+.. +.+..++..+..++...|++
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            34568899999999999986321   246678899999999999999999999998864 33678899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHH
Q 035645           97 DEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEM  176 (217)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  176 (217)
                      ++|...|++..+.. +.+..++..+...+.+.|++++|...++.+.+.  .|+.......+..+...|++++|...+++.
T Consensus        94 ~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           94 DAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            99999999999864 445788999999999999999999999999876  344444445555567779999999999888


Q ss_pred             HHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          177 TEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       177 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      .... +++... ..+...+...++.++|.+.++...+.
T Consensus       171 ~~~~-~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~  206 (275)
T 1xnf_A          171 FEKS-DKEQWG-WNIVEFYLGNISEQTLMERLKADATD  206 (275)
T ss_dssp             HHHS-CCCSTH-HHHHHHHTTSSCHHHHHHHHHHHCCS
T ss_pred             HhcC-CcchHH-HHHHHHHHHhcCHHHHHHHHHHHhcc
Confidence            7654 334443 44777788888888999888776543

>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=99.60  E-value=2.4e-14  Score=102.34  Aligned_cols=194  Identities=13%  Similarity=0.094  Sum_probs=121.7

Q ss_pred             hcCCHHHHHHHHHHHhh-------CCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc------CC-CcchhhHHHHH
Q 035645           22 NAGYLESAKQMVNKMIK-------QGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL------GS-CADVSTYKILI   87 (217)
Q Consensus        22 ~~g~~~~a~~~~~~m~~-------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~ll   87 (217)
                      ..|++++|...+++..+       ...+....++..+...+...|++++|+..+++..+.      +- +....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            34555555555554443       121223456666777777777777777777766543      11 12345666777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC------C-CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc------CCCC-CHhHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVED------G-HNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK------GHPP-NRPVY  153 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~------~~~~-~~~~~  153 (217)
                      ..|...|++++|...+++..+.      . .+....++..+...+...|++++|...+.+..+.      +-.| ...++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            7777777777777777766543      1 1122445666667777777777777777766543      1112 24566


Q ss_pred             HHHHHHHhcCCCHHHHHHHHHHHHHc------------------------------------------------CCCCCh
Q 035645          154 TTLITMCGRGGRFVEAANYLMEMTEM------------------------------------------------GLTPIS  185 (217)
Q Consensus       154 ~~li~~~~~~g~~~~a~~~~~~~~~~------------------------------------------------~~~~~~  185 (217)
                      ..+...+...|++++|.+.+++..+.                                                ..+...
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  252 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVN  252 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHH
Confidence            66677777777777777777666542                                                112234


Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          186 RCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      .++..+..+|...|++++|.++++...+.+
T Consensus       253 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~  282 (283)
T 3edt_B          253 TTLRSLGALYRRQGKLEAAHTLEDCASRNR  282 (283)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            578889999999999999999999887654

>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=99.60  E-value=1.1e-13  Score=111.34  Aligned_cols=168  Identities=13%  Similarity=0.127  Sum_probs=147.5

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIK  123 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (217)
                      +..+++.+..++.+.|++++|++.|++..+.. +-+..+++.+..+|.+.|++++|...|++..+.+ +-+..+|..+..
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-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            46789999999999999999999999998853 2257889999999999999999999999998875 345778999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchH
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDL  203 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (217)
                      ++...|++++|.+.|++..+.. +-+...|+.+..++...|++++|.+.|++..+.. +-+...+..+..++...|++++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHH
Confidence            9999999999999999998763 2357899999999999999999999999999865 2356789999999999999999


Q ss_pred             HHHHHHHHhhhc
Q 035645          204 AEKIEQLEVSLR  215 (217)
Q Consensus       204 a~~~~~~~~~~~  215 (217)
                      |.+.++...++.
T Consensus       164 A~~~~~kal~l~  175 (723)
T 4gyw_A          164 YDERMKKLVSIV  175 (723)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC
Confidence            999998887653

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.60  E-value=1.2e-13  Score=97.43  Aligned_cols=169  Identities=13%  Similarity=0.087  Sum_probs=144.5

Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCC----cccH
Q 035645           45 LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH--NPF----PSLY  118 (217)
Q Consensus        45 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~  118 (217)
                      ...+..+...+...|++++|+..|++..+..  .+..++..+..++...|++++|...+++..+...  .++    ..++
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            4577888999999999999999999998876  7889999999999999999999999999886531  112    4788


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcC------------------------CCC-CHhHHHHHHHHHhcCCCHHHHHHHH
Q 035645          119 APIIKGAFRRGQFDDAFCFFSEIKIKG------------------------HPP-NRPVYTTLITMCGRGGRFVEAANYL  173 (217)
Q Consensus       119 ~~ll~~~~~~g~~~~a~~~~~~~~~~~------------------------~~~-~~~~~~~li~~~~~~g~~~~a~~~~  173 (217)
                      ..+...+...|++++|...|.+.....                        ..| +...+..+...+...|++++|.+.+
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  162 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAY  162 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            899999999999999999999988732                        122 3567888899999999999999999


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          174 MEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       174 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ++..+.. +.+..++..+..++...|++++|.+.++...+..|
T Consensus       163 ~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~  204 (258)
T 3uq3_A          163 TEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP  204 (258)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCH
Confidence            9998765 34677899999999999999999999999887654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.59  E-value=2.5e-13  Score=104.79  Aligned_cols=186  Identities=8%  Similarity=-0.105  Sum_probs=159.2

Q ss_pred             HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCch-hHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHH
Q 035645           26 LESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEV-EFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLH  104 (217)
Q Consensus        26 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  104 (217)
                      ++++...+++..... +.+...+..+..++...|++ ++|++.|++..+.. +.+..+|..+..+|...|++++|...|+
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            556666777665542 34788899999999999999 99999999998763 2357889999999999999999999999


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHhc---------CChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcC--------CCHH
Q 035645          105 NLVEDGHNPFPSLYAPIIKGAFRR---------GQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRG--------GRFV  167 (217)
Q Consensus       105 ~~~~~~~~~~~~~~~~ll~~~~~~---------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--------g~~~  167 (217)
                      +..+..  |+..++..+...+...         |++++|...+++..+.. +.+...|..+..++...        |+++
T Consensus       162 ~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            999874  6678888999999999         99999999999998873 33688999999999888        9999


Q ss_pred             HHHHHHHHHHHcCCC--CChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          168 EAANYLMEMTEMGLT--PISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       168 ~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      +|.+.|++..+....  -+...|..+..+|...|++++|.+.++...+++|
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p  289 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDP  289 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            999999999986421  3778899999999999999999999999988765

>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=99.59  E-value=3.8e-13  Score=93.68  Aligned_cols=197  Identities=12%  Similarity=-0.027  Sum_probs=152.6

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      .|...+......+...|++++|...|++..+...+++...+..+..++...|++++|++.|++..+... .+..++..+.
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            456788889999999999999999999999876546888888899999999999999999999987532 3567889999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCc-------ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC---HhHHHHHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFP-------SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN---RPVYTTLI  157 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li  157 (217)
                      .++...|++++|...+++..+.. +.+.       .+|..+-..+...|++++|...|++..+.  .|+   ...+..+.
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            99999999999999999998764 2234       45777888889999999999999999875  444   46777777


Q ss_pred             HHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          158 TMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       158 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ..+...|     ...++++...+ ..+...|.....  ...+.+++|...++...++.|
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~~--~~~~~~~~A~~~~~~a~~l~p  211 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA-SSNKEKYASEKA--KADAAFKKAVDYLGEAVTLSP  211 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHHH--HHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHHH--HHHHHHHHHHHHHHHHhhcCC
Confidence            7775443     34455555443 233444444433  345668999999999888765

>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=1.7e-12  Score=90.35  Aligned_cols=154  Identities=12%  Similarity=0.019  Sum_probs=101.7

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIK  123 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (217)
                      |+..+......+...|++++|+..|++..+...+++...+..+..++...|++++|...|++..+.+ +.+..+|..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHH
Confidence            4566666777777777777777777777665433555566667777777777777777777777654 234556777777


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCH-------hHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCC---hhhHHHHHH
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGHPPNR-------PVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPI---SRCFDLVTD  193 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~  193 (217)
                      ++...|++++|...+++..+.. +.+.       ..|..+...+...|++++|.+.|++..+..  |+   ...+..+..
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT--SKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS--CHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC--CCcccHHHHHHHHH
Confidence            7777777777777777776652 1233       446667777777777777777777776643  43   345666666


Q ss_pred             HHHhcCCc
Q 035645          194 GLKNCGKH  201 (217)
Q Consensus       194 ~~~~~~~~  201 (217)
                      +|...|+.
T Consensus       162 ~~~~~~~~  169 (228)
T 4i17_A          162 LFYNNGAD  169 (228)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66555543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.55  E-value=7.3e-12  Score=97.89  Aligned_cols=203  Identities=12%  Similarity=-0.006  Sum_probs=161.0

Q ss_pred             ChhhHHHHHHHHHh-------cCCHH-------HHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc
Q 035645            9 PVRGRDLLVQGLLN-------AGYLE-------SAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL   74 (217)
Q Consensus         9 ~~~~~~~ll~~~~~-------~g~~~-------~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   74 (217)
                      +...|......+.+       .|+++       +|..++++..+.-.+-+...|..++..+.+.|++++|..+|+++.+.
T Consensus       271 ~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~  350 (530)
T 2ooe_A          271 HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI  350 (530)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc
Confidence            56677777777775       79987       89999999986323346788999999999999999999999999884


Q ss_pred             CCCcc--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHH-HHhcCChHHHHHHHHHHHhcCCCCCHh
Q 035645           75 GSCAD--VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKG-AFRRGQFDDAFCFFSEIKIKGHPPNRP  151 (217)
Q Consensus        75 ~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~  151 (217)
                        .|+  ...|..++..+.+.|++++|..+|++..+.. +.+...|...... +...|+.++|..+|+...+.. +.+..
T Consensus       351 --~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~  426 (530)
T 2ooe_A          351 --EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPE  426 (530)
T ss_dssp             --SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHH
T ss_pred             --cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHH
Confidence              454  2578999999999999999999999998763 2223333332222 346899999999999988762 33688


Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHcCC-CCC--hhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          152 VYTTLITMCGRGGRFVEAANYLMEMTEMGL-TPI--SRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       152 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      .|..++..+.+.|+.++|..+|++....+. .|+  ...|...+......|+.+.+.++.+++.+.-
T Consensus       427 ~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          427 YVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             HHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            999999999999999999999999987642 332  3478788888889999999999998887654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.52  E-value=8.7e-13  Score=95.48  Aligned_cols=203  Identities=11%  Similarity=-0.069  Sum_probs=150.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCCCC-hhhHHHHHHHHHhcCchhHHHHHHHHHHhcC----CCc-ch
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GSDPD-LETFNSLIETICKSGEVEFCVEMYYSVCKLG----SCA-DV   80 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~   80 (217)
                      ..|......|...|++++|...|++..+.    |-+++ ..+|+.+..+|.+.|++++|+..|++..+..    -.. -.
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            35788888899999999999999988653    32222 5688999999999999999999999886531    111 13


Q ss_pred             hhHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCCC-C----cccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH----
Q 035645           81 STYKILIPAVSKA-GMIDEAFRLLHNLVEDGHNP-F----PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNR----  150 (217)
Q Consensus        81 ~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~----  150 (217)
                      .+++.+..+|... |++++|...|++..+..... +    ..++..+...+.+.|++++|...|+...........    
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            5788999999996 99999999999987542110 1    346888899999999999999999999876432221    


Q ss_pred             --hHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCCh------hhHHHHHHHHH--hcCCchHHHHHHHHHhhhc
Q 035645          151 --PVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPIS------RCFDLVTDGLK--NCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       151 --~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~  215 (217)
                        ..|..+..++...|++++|...|++..+..  |+.      ..+..++.++.  ..+++++|.+.++.+..++
T Consensus       198 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~  270 (292)
T 1qqe_A          198 LKDYFLKKGLCQLAATDAVAAARTLQEGQSED--PNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLD  270 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCC
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccH
Confidence              156778888999999999999999877532  321      13445666665  4567888888887665554

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.51  E-value=1.8e-12  Score=97.17  Aligned_cols=203  Identities=9%  Similarity=-0.014  Sum_probs=144.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhC--CCC---C-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhc----CCCc-
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQ--GSD---P-DLETFNSLIETICKSGEVEFCVEMYYSVCKL----GSCA-   78 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~--~~~---~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-   78 (217)
                      ..+|..+...+...|+++.|...+++..+.  ...   + ...+++.+..+|...|++++|+..|++..+.    +-.+ 
T Consensus       143 a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  222 (383)
T 3ulq_A          143 AEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQL  222 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHH
Confidence            356788888888889999988888887652  111   1 2346777888888889999999888877643    1111 


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC
Q 035645           79 DVSTYKILIPAVSKAGMIDEAFRLLHNLVED----GH-NPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK----GHPPN  149 (217)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~~  149 (217)
                      ...++..+..+|...|++++|...+++..+.    +. +....++..+...+.+.|++++|...+++....    +-+..
T Consensus       223 ~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  302 (383)
T 3ulq_A          223 MGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIY  302 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            1247788888888999999999888887762    22 233557788888888999999999888877543    11112


Q ss_pred             HhHHHHHHHHHhcCCC---HHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          150 RPVYTTLITMCGRGGR---FVEAANYLMEMTEMGLTPI-SRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       150 ~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      ...+..+...+...|+   +++|..++++.   +..|+ ...+..+...|...|++++|.+.++...++.
T Consensus       303 ~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          303 LSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            3345667777888888   66666666544   33333 3467789999999999999999999887654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.51  E-value=2.8e-11  Score=88.16  Aligned_cols=200  Identities=10%  Similarity=0.007  Sum_probs=155.5

Q ss_pred             hhhHHHHHHHHHhc----CCH----HHHHHHHHHHhhCCCCCChhhHHHHHHHHHh-------cCch-------hHHHHH
Q 035645           10 VRGRDLLVQGLLNA----GYL----ESAKQMVNKMIKQGSDPDLETFNSLIETICK-------SGEV-------EFCVEM   67 (217)
Q Consensus        10 ~~~~~~ll~~~~~~----g~~----~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-------~~~~-------~~a~~~   67 (217)
                      ...|...+..-.+.    ++.    ++|..+|++..... +-+...|..+...+..       .|++       ++|..+
T Consensus         8 ~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~   86 (308)
T 2ond_A            8 VDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANI   86 (308)
T ss_dssp             HHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHH
Confidence            34566666665443    233    78889999998753 3477788888877753       5776       899999


Q ss_pred             HHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-cc-cHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 035645           68 YYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPF-PS-LYAPIIKGAFRRGQFDDAFCFFSEIKIKG  145 (217)
Q Consensus        68 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  145 (217)
                      |++..+.-.+.+...|..++..+.+.|++++|..+|++..+.  .|+ .. +|..+...+.+.|++++|..+|++..+..
T Consensus        87 ~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  164 (308)
T 2ond_A           87 YERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA  164 (308)
T ss_dssp             HHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            999987312235568999999999999999999999999985  444 33 79999999999999999999999998764


Q ss_pred             CCCCHhHHHHHHHHH-hcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          146 HPPNRPVYTTLITMC-GRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       146 ~~~~~~~~~~li~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                       +++...|....... ...|++++|.++|+...+.. +-+...+..++..+.+.|+.++|..+++...+.
T Consensus       165 -p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~  232 (308)
T 2ond_A          165 -RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  232 (308)
T ss_dssp             -TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHS
T ss_pred             -CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence             23455555444332 23799999999999998753 235678889999999999999999999998874

>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=99.48  E-value=8.1e-12  Score=79.03  Aligned_cols=129  Identities=19%  Similarity=0.268  Sum_probs=73.8

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF  126 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (217)
                      .+..+...+...|++++|..+++++.+.. +.+...+..+...+...|++++|...++++.+.+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            34555666666666666666666665542 2244555556666666666666666666665543 223445555556666


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          127 RRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       127 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      ..|++++|...++.+.... +.+..++..+...+...|++++|.+.++++.+
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            6666666666666655442 22345555555556666666666666655544

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.47  E-value=1.3e-11  Score=87.72  Aligned_cols=190  Identities=9%  Similarity=-0.004  Sum_probs=142.6

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC---hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC--cchhhH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPD---LETFNSLIETICKSGEVEFCVEMYYSVCKLGSC--ADVSTY   83 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~   83 (217)
                      +...+-.....+.+.|++++|...|+++.+.... +   ...+..+..++.+.|++++|+..|++..+....  ....++
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            4566778888899999999999999999886422 3   567888999999999999999999999875321  124567


Q ss_pred             HHHHHHHHh--------cCCHHHHHHHHHHHHhCCCCCCcccH-----------------HHHHHHHHhcCChHHHHHHH
Q 035645           84 KILIPAVSK--------AGMIDEAFRLLHNLVEDGHNPFPSLY-----------------APIIKGAFRRGQFDDAFCFF  138 (217)
Q Consensus        84 ~~ll~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~ll~~~~~~g~~~~a~~~~  138 (217)
                      ..+..++..        .|++++|...|++..+.. +.+....                 ..+...+.+.|++++|...|
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  171 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTY  171 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            788888888        999999999999998764 2233333                 45578889999999999999


Q ss_pred             HHHHhcCCCC--CHhHHHHHHHHHhcC----------CCHHHHHHHHHHHHHcCCCCCh----hhHHHHHHHHHhcCCch
Q 035645          139 SEIKIKGHPP--NRPVYTTLITMCGRG----------GRFVEAANYLMEMTEMGLTPIS----RCFDLVTDGLKNCGKHD  202 (217)
Q Consensus       139 ~~~~~~~~~~--~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~  202 (217)
                      +.+.+.....  ....+..+..++...          |++++|...|+++.+..  |+.    .....+...+.+.++++
T Consensus       172 ~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~l~~~~~~~~~~~  249 (261)
T 3qky_A          172 EAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF--PDSPLLRTAEELYTRARQRLTELE  249 (261)
T ss_dssp             HHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHHHHhh
Confidence            9998763221  245677777777765          89999999999998754  544    23444444444444443

>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=99.45  E-value=1.6e-12  Score=92.79  Aligned_cols=170  Identities=14%  Similarity=0.157  Sum_probs=136.7

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhC------CCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhc------C
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ------GSDP-DLETFNSLIETICKSGEVEFCVEMYYSVCKL------G   75 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~------~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~   75 (217)
                      ...++..+...+...|++++|...+++..+.      +-.| ...++..+..++...|++++|++.|++..+.      .
T Consensus        42 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  121 (283)
T 3edt_B           42 VATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGK  121 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCC
Confidence            4567889999999999999999999998754      2222 4567889999999999999999999988754      1


Q ss_pred             -CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCC-CcccHHHHHHHHHhcCChHHHHHHHHHHHhc---
Q 035645           76 -SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED------GHNP-FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK---  144 (217)
Q Consensus        76 -~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---  144 (217)
                       .+....++..+...+...|++++|...+++..+.      +..| ...++..+...+...|++++|...+.+..+.   
T Consensus       122 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~  201 (283)
T 3edt_B          122 FHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHE  201 (283)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence             1234678889999999999999999999998764      1122 3457888999999999999999999988653   


Q ss_pred             ---------------------------------------------CCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          145 ---------------------------------------------GHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       145 ---------------------------------------------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                                                                   ..+....++..+...+...|++++|.+++++..+
T Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          202 KEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             hcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                                                         1112245788889999999999999999988765

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.44  E-value=2.2e-11  Score=91.18  Aligned_cols=201  Identities=8%  Similarity=0.023  Sum_probs=148.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CC-CC-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhc----CCCc-
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GS-DP-DLETFNSLIETICKSGEVEFCVEMYYSVCKL----GSCA-   78 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~~-~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-   78 (217)
                      ..++..+...+...|+++.|...+++..+.    +. .+ ...+++.+..+|...|++++|++.|++..+.    +..+ 
T Consensus       141 a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~  220 (378)
T 3q15_A          141 AEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRF  220 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            456788888999999999999999887652    11 11 2456778888999999999999999887642    1111 


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcC----CCCC
Q 035645           79 DVSTYKILIPAVSKAGMIDEAFRLLHNLVE-----DGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG----HPPN  149 (217)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~----~~~~  149 (217)
                      ...+++.+..+|...|++++|...+++..+     .. +....++..+...+.+.|++++|...+++..+..    -+..
T Consensus       221 ~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  299 (378)
T 3q15_A          221 IAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFY  299 (378)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            235678888899999999999999998876     33 2235678888899999999999999999887642    1222


Q ss_pred             HhHHHHHHHHHhcCCC---HHHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          150 RPVYTTLITMCGRGGR---FVEAANYLMEMTEMGLTPI-SRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       150 ~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      ...+..+...+...++   +++|...+++   .+..|+ ...+..+...|...|++++|.+.++...+.
T Consensus       300 ~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          300 KELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            3456666677778888   6666666654   333333 346778999999999999999999888764

>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=99.44  E-value=2.7e-11  Score=76.57  Aligned_cols=130  Identities=17%  Similarity=0.214  Sum_probs=79.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVS   91 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   91 (217)
                      .|..+...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|...++++.+.+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            45556666666666666666666665543 2245556666666666666666666666665543 224455666666666


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      ..|++++|...++++.+.. +.+..++..+...+.+.|++++|...+.++...
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            6666666666666666543 233455666666666666666666666666543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.44  E-value=6.3e-12  Score=91.06  Aligned_cols=171  Identities=15%  Similarity=0.176  Sum_probs=138.7

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhc-------CCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC------C
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKL-------GSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED------G  110 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~  110 (217)
                      +..++..+...+...|++++|...|+++.+.       ..+....++..+...|...|++++|...+++..+.      +
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            4567888999999999999999999998763       23335677889999999999999999999988754      2


Q ss_pred             C-CCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc------CCCC-CHhHHHHHHHHHhcCCCHHHHHHHHHHHHHc---
Q 035645          111 H-NPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK------GHPP-NRPVYTTLITMCGRGGRFVEAANYLMEMTEM---  179 (217)
Q Consensus       111 ~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~------~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---  179 (217)
                      - +....++..+...+...|++++|...+.+..+.      +..| ...++..+...+...|++++|.+.+++..+.   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            1 223567888999999999999999999998764      2222 3567888999999999999999999998764   


Q ss_pred             ---CCCC-ChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          180 ---GLTP-ISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       180 ---~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                         +..| ...++..+..+|...|++++|.+.++.+.+.
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  224 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTR  224 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence               2123 3457889999999999999999999988764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.43  E-value=2.2e-12  Score=97.36  Aligned_cols=203  Identities=16%  Similarity=0.078  Sum_probs=155.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCh----hhHHHHHHHHHhcCchhHHHHHHHHHHhc----CC-Ccchh
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDL----ETFNSLIETICKSGEVEFCVEMYYSVCKL----GS-CADVS   81 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~   81 (217)
                      ..+..+...+...|++++|...|+++.+.+.. +.    ..+..+...+...|++++|+..+++..+.    +. +....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            34556777889999999999999999886322 33    47888899999999999999999988643    11 22456


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhC----C-CCCCcccHHHHHHHHHhcCC-----------------hHHHHHHHH
Q 035645           82 TYKILIPAVSKAGMIDEAFRLLHNLVED----G-HNPFPSLYAPIIKGAFRRGQ-----------------FDDAFCFFS  139 (217)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~ll~~~~~~g~-----------------~~~a~~~~~  139 (217)
                      ++..+...|...|++++|...+++..+.    + ......++..+...+...|+                 +++|...+.
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            7888999999999999999999987654    1 11224578888899999999                 999999988


Q ss_pred             HHHhc----CCCC-CHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCC-CC----hhhHHHHHHHHHhcCCchHHHHHHH
Q 035645          140 EIKIK----GHPP-NRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLT-PI----SRCFDLVTDGLKNCGKHDLAEKIEQ  209 (217)
Q Consensus       140 ~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~  209 (217)
                      +..+.    +..+ ...++..+...+...|++++|.+.+++..+.... ++    ..++..+...|...|++++|.+.++
T Consensus       208 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  287 (411)
T 4a1s_A          208 ENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYK  287 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            76542    1111 2357888889999999999999999988753211 11    2378889999999999999999998


Q ss_pred             HHhhh
Q 035645          210 LEVSL  214 (217)
Q Consensus       210 ~~~~~  214 (217)
                      ...++
T Consensus       288 ~al~~  292 (411)
T 4a1s_A          288 RTLAL  292 (411)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.42  E-value=3.1e-11  Score=86.94  Aligned_cols=181  Identities=10%  Similarity=0.043  Sum_probs=131.1

Q ss_pred             HHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCC-CcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 035645           29 AKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGS-CADVSTYKILIPAVSKAGMIDEAFRLLHNLV  107 (217)
Q Consensus        29 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  107 (217)
                      +...|++..+.+ .++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.+++|.
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            677777777655 45666667888889999999999999998866543 2366788889999999999999999999997


Q ss_pred             hCCCCC-----CcccHHHHHHH--HHhcC--ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          108 EDGHNP-----FPSLYAPIIKG--AFRRG--QFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       108 ~~~~~~-----~~~~~~~ll~~--~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      +.  .|     +..+...+..+  ....|  ++++|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+
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            75  45     24555666655  33334  899999999998765  34533444455578889999999999987664


Q ss_pred             cC-----C----CCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          179 MG-----L----TPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       179 ~~-----~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ..     -    +-|..+...+|......|+  +|.++++.+.++.|
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P  284 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDH  284 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTC
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCC
Confidence            31     0    2355566455555556676  88888888887765

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.42  E-value=4.7e-12  Score=95.54  Aligned_cols=206  Identities=16%  Similarity=0.089  Sum_probs=146.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CC-CCChhhHHHHHHHHHhcCc-----------------hhHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GS-DPDLETFNSLIETICKSGE-----------------VEFCVEM   67 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~~-~~~~~~~~~ll~~~~~~~~-----------------~~~a~~~   67 (217)
                      ...+..+...+...|++++|...+++..+.    +- +....++..+...|...|+                 +++|++.
T Consensus       126 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~  205 (411)
T 4a1s_A          126 AKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEF  205 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHH
Confidence            456777888888888888888888877653    11 1134467778888888888                 8888888


Q ss_pred             HHHHHhc----CCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----cccHHHHHHHHHhcCChHHHHHH
Q 035645           68 YYSVCKL----GSCA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHN-PF----PSLYAPIIKGAFRRGQFDDAFCF  137 (217)
Q Consensus        68 ~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~ll~~~~~~g~~~~a~~~  137 (217)
                      +++..+.    +..+ ...++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...
T Consensus       206 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  285 (411)
T 4a1s_A          206 YQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEH  285 (411)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHH
Confidence            8776432    1111 2357778888888899999999888887653211 11    22677888888899999999998


Q ss_pred             HHHHHhcCC--C---CCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHc----CC-CCChhhHHHHHHHHHhcCCchHHHHH
Q 035645          138 FSEIKIKGH--P---PNRPVYTTLITMCGRGGRFVEAANYLMEMTEM----GL-TPISRCFDLVTDGLKNCGKHDLAEKI  207 (217)
Q Consensus       138 ~~~~~~~~~--~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~  207 (217)
                      +++......  .   ....++..+...+...|++++|.+.+++..+.    +- .....++..+..+|...|++++|.+.
T Consensus       286 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  365 (411)
T 4a1s_A          286 YKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKY  365 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHH
Confidence            887764311  0   11467778888888999999999998887642    11 11234777888889999999999999


Q ss_pred             HHHHhhhc
Q 035645          208 EQLEVSLR  215 (217)
Q Consensus       208 ~~~~~~~~  215 (217)
                      ++...++.
T Consensus       366 ~~~al~~~  373 (411)
T 4a1s_A          366 AEQHLQLA  373 (411)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHHH
Confidence            88877653

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.42  E-value=7.4e-12  Score=94.01  Aligned_cols=205  Identities=13%  Similarity=0.110  Sum_probs=152.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCC-CChhhHHHHHHHHHhcCc--------------------hhHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GSD-PDLETFNSLIETICKSGE--------------------VEFC   64 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~~~-~~~~~~~~ll~~~~~~~~--------------------~~~a   64 (217)
                      ..++..+...+...|++++|...+++..+.    +.. ....++..+...+...|+                    +++|
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A  166 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAA  166 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHH
Confidence            456778888899999999999998887653    111 114477788888999999                    9999


Q ss_pred             HHHHHHHHhc----CCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----cccHHHHHHHHHhcCChHHH
Q 035645           65 VEMYYSVCKL----GSCA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHN-PF----PSLYAPIIKGAFRRGQFDDA  134 (217)
Q Consensus        65 ~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~ll~~~~~~g~~~~a  134 (217)
                      .+.+++..+.    +..| ...++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|
T Consensus       167 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  246 (406)
T 3sf4_A          167 VDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  246 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHH
Confidence            9998876532    1112 2356888889999999999999999887643111 11    23788888999999999999


Q ss_pred             HHHHHHHHhc----CCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHHc----CCCC-ChhhHHHHHHHHHhcCCchHH
Q 035645          135 FCFFSEIKIK----GHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMTEM----GLTP-ISRCFDLVTDGLKNCGKHDLA  204 (217)
Q Consensus       135 ~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a  204 (217)
                      ...+.+....    +..+. ..++..+...+...|++++|.+.+++..+.    +-.+ ...++..+...|...|++++|
T Consensus       247 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  326 (406)
T 3sf4_A          247 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQA  326 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHH
Confidence            9999887643    11111 467888889999999999999999887742    1111 145788899999999999999


Q ss_pred             HHHHHHHhhh
Q 035645          205 EKIEQLEVSL  214 (217)
Q Consensus       205 ~~~~~~~~~~  214 (217)
                      .+.++...++
T Consensus       327 ~~~~~~al~~  336 (406)
T 3sf4_A          327 MHFAEKHLEI  336 (406)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999887654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.41  E-value=3.2e-11  Score=85.65  Aligned_cols=172  Identities=9%  Similarity=-0.035  Sum_probs=135.4

Q ss_pred             CChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCCccc
Q 035645           43 PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD---VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH--NPFPSL  117 (217)
Q Consensus        43 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~  117 (217)
                      .+...+-.+...+.+.|++++|+..|+++.+... .+   ...+..+..++.+.|++++|...|++..+...  +....+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGR-THEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCS-CSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-CCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            3566777888889999999999999999987532 23   57788899999999999999999999987631  112346


Q ss_pred             HHHHHHHHHh--------cCChHHHHHHHHHHHhcCCCCCHhHH-----------------HHHHHHHhcCCCHHHHHHH
Q 035645          118 YAPIIKGAFR--------RGQFDDAFCFFSEIKIKGHPPNRPVY-----------------TTLITMCGRGGRFVEAANY  172 (217)
Q Consensus       118 ~~~ll~~~~~--------~g~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~li~~~~~~g~~~~a~~~  172 (217)
                      +..+..++..        .|++++|...|++..+... .+....                 ..+...+...|++++|...
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  170 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYP-NHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVT  170 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCT-TCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCc-CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            6777788888        9999999999999987632 123333                 4567888999999999999


Q ss_pred             HHHHHHcCCCC--ChhhHHHHHHHHHhc----------CCchHHHHHHHHHhhhcC
Q 035645          173 LMEMTEMGLTP--ISRCFDLVTDGLKNC----------GKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       173 ~~~~~~~~~~~--~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~  216 (217)
                      |++..+.....  ....+..+..+|...          |++++|.+.++.+.+..|
T Consensus       171 ~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p  226 (261)
T 3qky_A          171 YEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP  226 (261)
T ss_dssp             HHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC
Confidence            99998754221  345778888888866          889999999998887654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.41  E-value=1.9e-10  Score=88.35  Aligned_cols=206  Identities=12%  Similarity=-0.047  Sum_probs=149.3

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhC--------CCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcC----
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ--------GSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLG----   75 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~--------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----   75 (217)
                      .....||.+...+...|++++|++.|++..+.        ..+....+|+.+..+|...|++++|...+++..+..    
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            34567999999999999999999999987542        122245689999999999999999999999875421    


Q ss_pred             --CCc-chhhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCCCCcccHHHHHHH---HHhcCChHHHHHHHHHHHhcCCC
Q 035645           76 --SCA-DVSTYKILIPAVSKA--GMIDEAFRLLHNLVEDGHNPFPSLYAPIIKG---AFRRGQFDDAFCFFSEIKIKGHP  147 (217)
Q Consensus        76 --~~~-~~~~~~~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~---~~~~g~~~~a~~~~~~~~~~~~~  147 (217)
                        ..+ ...++.....++...  +++++|...|++..+.+ +-+...+..+..+   +...++.++|.+.+++..+.. +
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p  206 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-P  206 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-S
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-C
Confidence              111 235566665566554  56899999999998764 2234445444444   455678889999999887763 2


Q ss_pred             CCHhHHHHHHHHHh----cCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          148 PNRPVYTTLITMCG----RGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       148 ~~~~~~~~li~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .+..++..+...+.    ..|++++|.+.+++..... +.+..++..+...|...|++++|.+.++...+..|
T Consensus       207 ~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p  278 (472)
T 4g1t_A          207 DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIP  278 (472)
T ss_dssp             SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCC
Confidence            34566666554443    4567889999999888765 44567888999999999999999999999887654

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.40  E-value=1.1e-09  Score=84.80  Aligned_cols=189  Identities=13%  Similarity=-0.016  Sum_probs=106.3

Q ss_pred             ChhhHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh----cCchhHHHHHHHHHHhcCCCcch
Q 035645            9 PVRGRDLLVQGLLN----AGYLESAKQMVNKMIKQGSDPDLETFNSLIETICK----SGEVEFCVEMYYSVCKLGSCADV   80 (217)
Q Consensus         9 ~~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~   80 (217)
                      +...+..+...|..    .+++++|...|++..+.|   +...+..+...|..    .+++++|.+.|++..+.|   +.
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            34445555555655    666777777777666553   44555666666666    666667777666665543   34


Q ss_pred             hhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCHhH
Q 035645           81 STYKILIPAVSK----AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR----RGQFDDAFCFFSEIKIKGHPPNRPV  152 (217)
Q Consensus        81 ~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~  152 (217)
                      ..+..+...|..    .+++++|..+|++..+.+   +...+..+...|..    .+++++|...|++..+.|   +...
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            445555556655    566666666666666554   33445555555554    556666666666655543   4455


Q ss_pred             HHHHHHHHhc----CCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCCchHHHHHHHHHh
Q 035645          153 YTTLITMCGR----GGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKN----CGKHDLAEKIEQLEV  212 (217)
Q Consensus       153 ~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~  212 (217)
                      +..+...|..    .+++++|.+.|++..+.|   +...+..+...|..    .+++++|.+.++...
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~  250 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSA  250 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            5555555554    556666666665555443   23344444444443    455555555555443

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.40  E-value=2e-11  Score=88.36  Aligned_cols=177  Identities=10%  Similarity=0.011  Sum_probs=135.5

Q ss_pred             CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc----CCCcc-hhhHHHHHHHHHhcCCHHHH
Q 035645           25 YLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL----GSCAD-VSTYKILIPAVSKAGMIDEA   99 (217)
Q Consensus        25 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~ll~~~~~~~~~~~a   99 (217)
                      ++++|...|++.               ...|...|++++|.+.|++..+.    |-+++ ..+|+.+..+|.+.|++++|
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            477777777665               45678899999999999988653    22222 46899999999999999999


Q ss_pred             HHHHHHHHhCCC---CC--CcccHHHHHHHHHhc-CChHHHHHHHHHHHhcCCCC-C----HhHHHHHHHHHhcCCCHHH
Q 035645          100 FRLLHNLVEDGH---NP--FPSLYAPIIKGAFRR-GQFDDAFCFFSEIKIKGHPP-N----RPVYTTLITMCGRGGRFVE  168 (217)
Q Consensus       100 ~~~~~~~~~~~~---~~--~~~~~~~ll~~~~~~-g~~~~a~~~~~~~~~~~~~~-~----~~~~~~li~~~~~~g~~~~  168 (217)
                      ...+++..+...   .+  ...+++.+..+|... |++++|...|++........ +    ..++..+...+.+.|++++
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            999998775311   11  134788889999996 99999999999987541110 1    3578889999999999999


Q ss_pred             HHHHHHHHHHcCCCCCh------hhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          169 AANYLMEMTEMGLTPIS------RCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       169 a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      |...|++..+.......      ..|..+..++...|++++|.+.++...++.|
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p  230 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDP  230 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC--
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            99999999875533222      1567788899999999999999998877654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.40  E-value=6e-12  Score=91.87  Aligned_cols=206  Identities=13%  Similarity=0.113  Sum_probs=128.3

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-CCC----hhhHHHHHHHHHhcCc--------------------hhHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGS-DPD----LETFNSLIETICKSGE--------------------VEFC   64 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~~~~~~~~--------------------~~~a   64 (217)
                      ...+..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    +++|
T Consensus        83 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A  162 (338)
T 3ro2_A           83 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAA  162 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHH
Confidence            34566666677777777777777776554210 011    2356666777777777                    7777


Q ss_pred             HHHHHHHHhc----CCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-C----CcccHHHHHHHHHhcCChHHH
Q 035645           65 VEMYYSVCKL----GSCA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHN-P----FPSLYAPIIKGAFRRGQFDDA  134 (217)
Q Consensus        65 ~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~ll~~~~~~g~~~~a  134 (217)
                      .+.+++..+.    +..+ ...++..+...+...|++++|...+++..+.... +    ...++..+...+...|++++|
T Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  242 (338)
T 3ro2_A          163 VDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  242 (338)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHH
Confidence            7777665321    1111 2345667777777778888888777776543100 1    122667777777888888888


Q ss_pred             HHHHHHHHhc----CCCC-CHhHHHHHHHHHhcCCCHHHHHHHHHHHHHc----CCC-CChhhHHHHHHHHHhcCCchHH
Q 035645          135 FCFFSEIKIK----GHPP-NRPVYTTLITMCGRGGRFVEAANYLMEMTEM----GLT-PISRCFDLVTDGLKNCGKHDLA  204 (217)
Q Consensus       135 ~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a  204 (217)
                      ...+.+....    +..+ ...++..+...+...|++++|.+.+++..+.    +-. ....++..+...|...|++++|
T Consensus       243 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  322 (338)
T 3ro2_A          243 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQA  322 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHH
Confidence            8887776542    1111 1456667777778888888888888776542    111 1134667778888888888888


Q ss_pred             HHHHHHHhhhc
Q 035645          205 EKIEQLEVSLR  215 (217)
Q Consensus       205 ~~~~~~~~~~~  215 (217)
                      .+.++...++.
T Consensus       323 ~~~~~~a~~~~  333 (338)
T 3ro2_A          323 MHFAEKHLEIS  333 (338)
T ss_dssp             HHHHHHHHHC-
T ss_pred             HHHHHHHHHHH
Confidence            88887776553

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.39  E-value=5.8e-11  Score=88.99  Aligned_cols=196  Identities=11%  Similarity=0.027  Sum_probs=149.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhC----CCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcC--C----CcchhhHH
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQ----GSDP-DLETFNSLIETICKSGEVEFCVEMYYSVCKLG--S----CADVSTYK   84 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~----~~~~~~~~   84 (217)
                      ....+...|++++|...+++..+.    +-.+ ...++..+...|...|++++|+..+++..+..  .    .....+++
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            455677899999999999999763    2112 34678889999999999999999999886431  1    11235788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCC-C----CcccHHHHHHHHHhcCChHHHHHHHHHHHhc----CC-CCCHhHHH
Q 035645           85 ILIPAVSKAGMIDEAFRLLHNLVEDGHN-P----FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK----GH-PPNRPVYT  154 (217)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~  154 (217)
                      .+..+|...|++++|...+++..+.... +    ...++..+...|...|++++|...+.+..+.    +. +....++.
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            8999999999999999999987753111 1    1247888999999999999999999998762    23 33467888


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHc----CCCCChhhHHHHHHHHHhcCC---chHHHHHHHHH
Q 035645          155 TLITMCGRGGRFVEAANYLMEMTEM----GLTPISRCFDLVTDGLKNCGK---HDLAEKIEQLE  211 (217)
Q Consensus       155 ~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~  211 (217)
                      .+...+...|++++|.+.+++..+.    +-+.....+..+...+...|+   +++|..+++..
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~  332 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK  332 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC
Confidence            9999999999999999999988743    212223346778888888998   77777776554

>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=99.39  E-value=3.2e-11  Score=97.01  Aligned_cols=173  Identities=10%  Similarity=-0.069  Sum_probs=143.0

Q ss_pred             HhcCCHHHHHHHHHHHh--------hCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           21 LNAGYLESAKQMVNKMI--------KQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        21 ~~~g~~~~a~~~~~~m~--------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      ...|++++|.+.+++..        +. .+.+...+..+..++.+.|++++|++.|++..+.. +.+...+..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            68899999999999998        33 23466788899999999999999999999998753 2367889999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHH
Q 035645           93 AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANY  172 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  172 (217)
                      .|++++|...|++..+.+ +.+...|..+..++.+.|++++ .+.|++..+.. +.+...|..+..++.+.|++++|.+.
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999999875 4457788999999999999999 99999998763 33678999999999999999999999


Q ss_pred             HHHHHHcCCCCC-hhhHHHHHHHHHhcCC
Q 035645          173 LMEMTEMGLTPI-SRCFDLVTDGLKNCGK  200 (217)
Q Consensus       173 ~~~~~~~~~~~~-~~~~~~l~~~~~~~~~  200 (217)
                      |++..+.+  |+ ...+..+..++...++
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            99877653  54 4567777777766554

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.39  E-value=8.3e-12  Score=93.75  Aligned_cols=207  Identities=13%  Similarity=0.078  Sum_probs=151.5

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----hhhHHHHHHHHHhcCchhHHHHHHHHHHhc----CCCc
Q 035645            7 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPD----LETFNSLIETICKSGEVEFCVEMYYSVCKL----GSCA   78 (217)
Q Consensus         7 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~   78 (217)
                      .+....+......+...|++++|...|++..+.+.. +    ...+..+...+...|++++|...+++....    +..|
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            445566777888899999999999999998876322 3    356778888999999999999999887532    2122


Q ss_pred             -chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----cccHHHHHHHHHhcCC--------------------hH
Q 035645           79 -DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHN-PF----PSLYAPIIKGAFRRGQ--------------------FD  132 (217)
Q Consensus        79 -~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~ll~~~~~~g~--------------------~~  132 (217)
                       ...++..+...+...|++++|...+++..+.... ++    ..++..+...+...|+                    ++
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             2457788888899999999999998887653100 11    3467788888888899                    88


Q ss_pred             HHHHHHHHHHhc----CCCC-CHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCC-CCC----hhhHHHHHHHHHhcCCch
Q 035645          133 DAFCFFSEIKIK----GHPP-NRPVYTTLITMCGRGGRFVEAANYLMEMTEMGL-TPI----SRCFDLVTDGLKNCGKHD  202 (217)
Q Consensus       133 ~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~  202 (217)
                      +|...+......    +..| ...++..+...+...|++++|.+.+++..+... .++    ..++..+...+...|+++
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            888888876432    1111 135777888888889999999999988774211 111    237788888899999999


Q ss_pred             HHHHHHHHHhhh
Q 035645          203 LAEKIEQLEVSL  214 (217)
Q Consensus       203 ~a~~~~~~~~~~  214 (217)
                      +|.+.++...++
T Consensus       245 ~A~~~~~~al~~  256 (406)
T 3sf4_A          245 TASEYYKKTLLL  256 (406)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999988877654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.39  E-value=3.9e-11  Score=82.45  Aligned_cols=175  Identities=11%  Similarity=-0.016  Sum_probs=125.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHH----------------HHHHHHhcCchhHHHHHHHHHHh
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNS----------------LIETICKSGEVEFCVEMYYSVCK   73 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~----------------ll~~~~~~~~~~~a~~~~~~~~~   73 (217)
                      ...+-.....+.+.|++++|...|++..+... -+...|..                +..++.+.|++++|+..|++..+
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   82 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIALNI-DRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQ   82 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCH-HHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34445556677899999999999999987531 14456666                88899999999999999999987


Q ss_pred             cCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC--hHHHHHHHHHHHhcCCCCCHh
Q 035645           74 LGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQ--FDDAFCFFSEIKIKGHPPNRP  151 (217)
Q Consensus        74 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~  151 (217)
                      .. +-+...+..+..++...|++++|...|++..+.+ +.+..++..+..++...|.  .+.+...+.....  ..|...
T Consensus        83 ~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  158 (208)
T 3urz_A           83 KA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQY  158 (208)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHH
T ss_pred             HC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhH
Confidence            63 2367888999999999999999999999998875 4456778888877766654  3445555555432  222233


Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHH
Q 035645          152 VYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLV  191 (217)
Q Consensus       152 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  191 (217)
                      .+.....++...|++++|...|++..+.  .|+......+
T Consensus       159 a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l  196 (208)
T 3urz_A          159 ARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence            3444555666789999999999988874  4766544443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.37  E-value=4.8e-11  Score=81.99  Aligned_cols=165  Identities=13%  Similarity=0.024  Sum_probs=125.7

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCc-chhhHHH----------------HHHHHHhcCCHHHHHHHHHHHHh
Q 035645           46 ETFNSLIETICKSGEVEFCVEMYYSVCKLGSCA-DVSTYKI----------------LIPAVSKAGMIDEAFRLLHNLVE  108 (217)
Q Consensus        46 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~----------------ll~~~~~~~~~~~a~~~~~~~~~  108 (217)
                      ..+......+.+.|++++|+..|++..+..  | +...+..                +..++.+.|++++|...|++..+
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   82 (208)
T 3urz_A            5 DEMLQKVSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQ   82 (208)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            334445567788999999999999998753  4 3455666                88999999999999999999998


Q ss_pred             CCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCC--HHHHHHHHHHHHHcCCCCChh
Q 035645          109 DGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGR--FVEAANYLMEMTEMGLTPISR  186 (217)
Q Consensus       109 ~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~  186 (217)
                      .+ +-+...+..+..++...|++++|...|++..+.. +.+..++..+...+...|+  ...+...++....  ..|...
T Consensus        83 ~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  158 (208)
T 3urz_A           83 KA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQY  158 (208)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHH
T ss_pred             HC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhH
Confidence            75 4467789999999999999999999999998863 3357888888888766554  3445555554432  223333


Q ss_pred             hHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          187 CFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .+.....++...|++++|...++...++.|
T Consensus       159 a~~~~g~~~~~~~~~~~A~~~~~~al~l~P  188 (208)
T 3urz_A          159 ARYRDGLSKLFTTRYEKARNSLQKVILRFP  188 (208)
T ss_dssp             HHHHHHHHHHHHHTHHHHHHHHHHHTTTSC
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            445566677788999999999999998876

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.37  E-value=2.3e-09  Score=83.03  Aligned_cols=188  Identities=12%  Similarity=-0.064  Sum_probs=106.1

Q ss_pred             hhhHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh----cCchhHHHHHHHHHHhcCCCcchh
Q 035645           10 VRGRDLLVQGLLN----AGYLESAKQMVNKMIKQGSDPDLETFNSLIETICK----SGEVEFCVEMYYSVCKLGSCADVS   81 (217)
Q Consensus        10 ~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~   81 (217)
                      ...+..+...|..    .+++++|.+.|++..+.|   +...+..+...|..    .+++++|+..|++..+.|   +..
T Consensus        75 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~  148 (490)
T 2xm6_A           75 TPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDS  148 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHH
Confidence            4455556666666    667777777777766654   44555556666665    566777777776665543   344


Q ss_pred             hHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCHhHH
Q 035645           82 TYKILIPAVSK----AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR----RGQFDDAFCFFSEIKIKGHPPNRPVY  153 (217)
Q Consensus        82 ~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~  153 (217)
                      .+..+...|..    .++.++|..+|++..+.+   +...+..+...|..    .++.++|...|++..+.|   +...+
T Consensus       149 a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  222 (490)
T 2xm6_A          149 GQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQ  222 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHH
Confidence            55555555555    556666666666666553   34455555555555    566666666666655543   33444


Q ss_pred             HHHHHHHhc----CCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCCchHHHHHHHHHh
Q 035645          154 TTLITMCGR----GGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKN----CGKHDLAEKIEQLEV  212 (217)
Q Consensus       154 ~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~  212 (217)
                      ..+...+..    .+++++|.++|++..+.|   +...+..+...|..    .++.++|.+.++...
T Consensus       223 ~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~  286 (490)
T 2xm6_A          223 LHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSA  286 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH
Confidence            445444443    455555655555555433   22334444444444    455555555555443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.36  E-value=4.5e-10  Score=87.78  Aligned_cols=184  Identities=9%  Similarity=0.006  Sum_probs=145.2

Q ss_pred             HHHHHHHHHHhhCCCCCChhhHHHHHHHHHh-------cCchh-------HHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           27 ESAKQMVNKMIKQGSDPDLETFNSLIETICK-------SGEVE-------FCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        27 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      .++..+|++..... +-+...|......+.+       .|+++       +|..+|++..+.-.+.+...|..++..+.+
T Consensus       255 ~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~  333 (530)
T 2ooe_A          255 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  333 (530)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            47788999988752 3477888888888775       68887       899999999863233467889999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCc--ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHH-HhcCCCHHHH
Q 035645           93 AGMIDEAFRLLHNLVEDGHNPFP--SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITM-CGRGGRFVEA  169 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~a  169 (217)
                      .|++++|..+|++..+.  .|+.  .+|...+..+.+.|++++|..+|....+.. +.+...|...... +...|++++|
T Consensus       334 ~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A  410 (530)
T 2ooe_A          334 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVA  410 (530)
T ss_dssp             TTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHH
T ss_pred             cCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHH
Confidence            99999999999999986  3442  478889999999999999999999998762 2223333332222 3358999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          170 ANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      ..+|+...+.. +-+...+..++..+.+.|+.++|..++++..+..
T Consensus       411 ~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~  455 (530)
T 2ooe_A          411 FKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  455 (530)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhcc
Confidence            99999988754 2356788999999999999999999999988753

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.36  E-value=4.8e-10  Score=77.88  Aligned_cols=186  Identities=12%  Similarity=0.058  Sum_probs=110.0

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-C-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcch--hhHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSD-P-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADV--STYK   84 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~   84 (217)
                      +...+..+...+.+.|++++|...|+++.+.... | ....+..+..++.+.|++++|+..|+++.+.......  ..+.
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            3455666778889999999999999999875322 1 1357788889999999999999999999875322111  2444


Q ss_pred             HHHHHHHh------------------cCCHHHHHHHHHHHHhCCCCCCc-ccHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 035645           85 ILIPAVSK------------------AGMIDEAFRLLHNLVEDGHNPFP-SLYAPIIKGAFRRGQFDDAFCFFSEIKIKG  145 (217)
Q Consensus        85 ~ll~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  145 (217)
                      .+..++.+                  .|++++|...|+++.+..  |+. .++.......          .+...+.   
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~----------~~~~~~~---  147 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLV----------FLKDRLA---  147 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHH----------HHHHHHH---
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHH----------HHHHHHH---
Confidence            44444443                  467778888888777653  332 2221111000          0000000   


Q ss_pred             CCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCC--ChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          146 HPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTP--ISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       146 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                           .....+...+.+.|++++|...|+++.+.....  ....+..+..++.+.|+.++|.+.++.+...
T Consensus       148 -----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          148 -----KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             -----HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             -----HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence                 011233455556666666666666666542111  1234556666666666666666666655543

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.36  E-value=1.5e-11  Score=89.68  Aligned_cols=93  Identities=15%  Similarity=0.128  Sum_probs=44.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----hhhHHHHHHHHHhcCchhHHHHHHHHHHhc----CCCc-chhhHH
Q 035645           14 DLLVQGLLNAGYLESAKQMVNKMIKQGSDPD----LETFNSLIETICKSGEVEFCVEMYYSVCKL----GSCA-DVSTYK   84 (217)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~   84 (217)
                      ......+...|++++|...|+++.+.... +    ...+..+...+...|++++|.+.+++..+.    +..| ...++.
T Consensus         9 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   87 (338)
T 3ro2_A            9 ALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASG   87 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHH
Confidence            33444555555555555555555543211 1    234445555555555555555555544321    1111 123444


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHH
Q 035645           85 ILIPAVSKAGMIDEAFRLLHNLV  107 (217)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~  107 (217)
                      .+...+...|++++|...+++..
T Consensus        88 ~l~~~~~~~g~~~~A~~~~~~al  110 (338)
T 3ro2_A           88 NLGNTLKVLGNFDEAIVCCQRHL  110 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHH
Confidence            55555555555555555555443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.35  E-value=3.6e-10  Score=78.50  Aligned_cols=151  Identities=11%  Similarity=-0.046  Sum_probs=94.1

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC-c-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcc----c
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC-A-DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPS----L  117 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~  117 (217)
                      +...+..+...+.+.|++++|+..|+++.+.... | ....+..+..++.+.|++++|...|+++.+..  |+..    +
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a   80 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYV   80 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHH
Confidence            3455666677888999999999999999875322 1 13567788899999999999999999988764  3321    3


Q ss_pred             HHHHHHHHHh------------------cCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          118 YAPIIKGAFR------------------RGQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       118 ~~~ll~~~~~------------------~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      +..+..++..                  .|++++|...|+.+.+.  .|+ ...+......          ..+...+. 
T Consensus        81 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l----------~~~~~~~~-  147 (225)
T 2yhc_A           81 MYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRL----------VFLKDRLA-  147 (225)
T ss_dssp             HHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHH----------HHHHHHHH-
T ss_pred             HHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHH----------HHHHHHHH-
Confidence            4344444443                  34566666666666554  122 1222111100          00000000 


Q ss_pred             cCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          179 MGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       179 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                             .....+...|.+.|++++|...++.+.+..|
T Consensus       148 -------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p  178 (225)
T 2yhc_A          148 -------KYEYSVAEYYTERGAWVAVVNRVEGMLRDYP  178 (225)
T ss_dssp             -------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             -------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCc
Confidence                   0123567788899999999999998887643

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.33  E-value=3.3e-10  Score=86.96  Aligned_cols=204  Identities=11%  Similarity=-0.004  Sum_probs=130.4

Q ss_pred             hhhHHHHHHHHHh----cCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHH
Q 035645           10 VRGRDLLVQGLLN----AGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKI   85 (217)
Q Consensus        10 ~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (217)
                      ...+..+...+..    .|++++|.+.+++..... +.+..++..+...|...|++++|+..|++..+.. +-+..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHH
Confidence            3445444444443    356778888888877653 3466778888888999999999999999887753 224556666


Q ss_pred             HHHHHHhc-------------------CCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 035645           86 LIPAVSKA-------------------GMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGH  146 (217)
Q Consensus        86 ll~~~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  146 (217)
                      +..+|...                   +..++|...+++..+.+ +.+..++..+...+...|++++|...|++..+...
T Consensus       287 lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~  365 (472)
T 4g1t_A          287 IGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKEL  365 (472)
T ss_dssp             HHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCC
Confidence            65555332                   23566777777777654 44567888899999999999999999999887644


Q ss_pred             CCCH--hHHHHHHH-HHhcCCCHHHHHHHHHHHHHcCC-----------------------CCChhhHHHHHHHHHhcCC
Q 035645          147 PPNR--PVYTTLIT-MCGRGGRFVEAANYLMEMTEMGL-----------------------TPISRCFDLVTDGLKNCGK  200 (217)
Q Consensus       147 ~~~~--~~~~~li~-~~~~~g~~~~a~~~~~~~~~~~~-----------------------~~~~~~~~~l~~~~~~~~~  200 (217)
                      .|..  ..+..+.. .....|++++|...|.+..+...                       +.+..+|..+..+|...|+
T Consensus       366 ~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~  445 (472)
T 4g1t_A          366 TPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEK  445 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            3322  12233322 23578999999998887764321                       2356789999999999999


Q ss_pred             chHHHHHHHHHhhhcC
Q 035645          201 HDLAEKIEQLEVSLRS  216 (217)
Q Consensus       201 ~~~a~~~~~~~~~~~~  216 (217)
                      +++|.+.+++..++.+
T Consensus       446 ~~~A~~~y~kALe~~~  461 (472)
T 4g1t_A          446 MQQADEDSERGLESGS  461 (472)
T ss_dssp             CC--------------
T ss_pred             HHHHHHHHHHHHhcCC
Confidence            9999999999887754

>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=99.33  E-value=1.1e-10  Score=92.05  Aligned_cols=154  Identities=11%  Similarity=-0.008  Sum_probs=117.8

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHH
Q 035645           23 AGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRL  102 (217)
Q Consensus        23 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~  102 (217)
                      .|++++|.+.+++..+.. +-+...+..+...+.+.|++++|++.|++..+.. +.+...+..+..+|...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478999999999988753 3367889999999999999999999999998753 23578899999999999999999999


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcC---CCHHHHHHHHHHHHHc
Q 035645          103 LHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRG---GRFVEAANYLMEMTEM  179 (217)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~~~~~  179 (217)
                      +++..+.+ +.+...+..+..++.+.|++++|.+.+++..+.. +.+...+..+...+...   |++++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99998874 4456788999999999999999999999998763 33578888999999999   9999999999999886


Q ss_pred             C
Q 035645          180 G  180 (217)
Q Consensus       180 ~  180 (217)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            6

>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=99.32  E-value=1.6e-10  Score=91.12  Aligned_cols=134  Identities=12%  Similarity=-0.012  Sum_probs=113.2

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +...|..+...+.+.|++++|.+.+++..+.. +.+...+..+..++...|++++|.+.|++..+.. +.+...+..+..
T Consensus        22 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~   99 (568)
T 2vsy_A           22 DFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQQASDAA-PEHPGIALWLGH   99 (568)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            46778889999999999999999999998864 3367788899999999999999999999998753 235678889999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc---CChHHHHHHHHHHHhcC
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR---GQFDDAFCFFSEIKIKG  145 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~---g~~~~a~~~~~~~~~~~  145 (217)
                      ++.+.|++++|.+.+++..+.+ +.+...+..+...+...   |++++|.+.+++..+.+
T Consensus       100 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A          100 ALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            9999999999999999988764 34567888888999999   99999999999988764

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.32  E-value=5.8e-10  Score=76.80  Aligned_cols=174  Identities=12%  Similarity=0.037  Sum_probs=105.2

Q ss_pred             HHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcC----CHHHHHHHHH
Q 035645           29 AKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAG----MIDEAFRLLH  104 (217)
Q Consensus        29 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~~  104 (217)
                      |.+.|++..+.|   +...+..+...|...+++++|++.|++..+.|   +...+..+...|.. +    ++++|..+|+
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            455666665543   55666666666666777777777777766543   44555556666655 5    6777777777


Q ss_pred             HHHhCCCCCCcccHHHHHHHHHh----cCChHHHHHHHHHHHhcCCC-CCHhHHHHHHHHHhc----CCCHHHHHHHHHH
Q 035645          105 NLVEDGHNPFPSLYAPIIKGAFR----RGQFDDAFCFFSEIKIKGHP-PNRPVYTTLITMCGR----GGRFVEAANYLME  175 (217)
Q Consensus       105 ~~~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~  175 (217)
                      +..+.+   +...+..+-..|..    .+++++|...|++..+.|.. .+...+..|...|..    .+++++|.++|++
T Consensus        78 ~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           78 KAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            766554   34555556666655    66777777777776665421 014566666666665    5667777777776


Q ss_pred             HHHcCCCCChhhHHHHHHHHHhc-C-----CchHHHHHHHHHhhh
Q 035645          176 MTEMGLTPISRCFDLVTDGLKNC-G-----KHDLAEKIEQLEVSL  214 (217)
Q Consensus       176 ~~~~~~~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~  214 (217)
                      ..+.  ..+...+..|...|... |     +.++|.+.+++..+.
T Consensus       155 A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~  197 (212)
T 3rjv_A          155 SSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLE  197 (212)
T ss_dssp             HHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHH
T ss_pred             HHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHc
Confidence            6654  12333455555555542 2     667777777666543

>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=99.31  E-value=4.2e-11  Score=80.05  Aligned_cols=78  Identities=15%  Similarity=0.099  Sum_probs=42.1

Q ss_pred             HHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHhcCCchHHHHHHHHHh
Q 035645          134 AFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTP-ISRCFDLVTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      |...++...+.. +.+...+..+...+...|++++|...|++..+....+ +...+..+..++...|+.++|...++...
T Consensus        93 a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A           93 ELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            455555554431 1235555556666666666666666666655543222 23355556666666666666666655443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.31  E-value=2.2e-10  Score=82.62  Aligned_cols=168  Identities=11%  Similarity=0.022  Sum_probs=134.9

Q ss_pred             CCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccH-HH
Q 035645           42 DPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLY-AP  120 (217)
Q Consensus        42 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~  120 (217)
                      +.+...+..+...+.+.|++++|...|++..+.. +-+...+..+..++.+.|++++|...+++.....  |+.... ..
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            4456677788888999999999999999998753 2356788899999999999999999999887653  443322 22


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHhcC
Q 035645          121 IIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTP-ISRCFDLVTDGLKNCG  199 (217)
Q Consensus       121 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~  199 (217)
                      ....+...++.+.|...+++..... +.+...+..+...+...|++++|.+.+.++.+..... +...+..+...|...|
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            3334667788888999999888763 3468899999999999999999999999999865322 2568899999999999


Q ss_pred             CchHHHHHHHHHhh
Q 035645          200 KHDLAEKIEQLEVS  213 (217)
Q Consensus       200 ~~~~a~~~~~~~~~  213 (217)
                      +.++|...+++...
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99999998877654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.29  E-value=5.4e-10  Score=80.51  Aligned_cols=172  Identities=10%  Similarity=0.028  Sum_probs=130.1

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-CCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCc-----ch
Q 035645            7 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGS-DPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCA-----DV   80 (217)
Q Consensus         7 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~   80 (217)
                      +++..++..+..++...|++++|++++.+.+..|. .-+...+..++..+.+.|+.+.|.+.+++|.+.  .|     +.
T Consensus        97 ~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d  174 (310)
T 3mv2_B           97 QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDN  174 (310)
T ss_dssp             CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--Cccccccch
Confidence            45566667888999999999999999999877654 236678889999999999999999999999874  46     35


Q ss_pred             hhHHHHHHHH--Hh--cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcC---------CC
Q 035645           81 STYKILIPAV--SK--AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG---------HP  147 (217)
Q Consensus        81 ~~~~~ll~~~--~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---------~~  147 (217)
                      .+...+..++  ..  .++.++|..+|+++.+.  .|+..+-..++.++.+.|++++|...++.+.+.-         -+
T Consensus       175 ~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p  252 (310)
T 3mv2_B          175 EMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVL  252 (310)
T ss_dssp             HHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHS
T ss_pred             HHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCC
Confidence            5555565553  22  34899999999998765  3543344455568999999999999999765430         13


Q ss_pred             CCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChh
Q 035645          148 PNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISR  186 (217)
Q Consensus       148 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  186 (217)
                      .|+.+...+|......|+  +|.+++.++.+..  |+..
T Consensus       253 ~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~--P~hp  287 (310)
T 3mv2_B          253 YKPTFLANQITLALMQGL--DTEDLTNQLVKLD--HEHA  287 (310)
T ss_dssp             SHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT--CCCH
T ss_pred             CCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC--CCCh
Confidence            356777677666666776  8899999998854  6554

>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=99.29  E-value=8.8e-10  Score=92.69  Aligned_cols=183  Identities=13%  Similarity=0.135  Sum_probs=115.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ..+|..+..++.+.|++++|.+.|.+.      -|...|..++.++.+.|++++|++.+....+..  ++....+.++.+
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            566777888888888888888887553      366677778888888888888888887665533  233233346666


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHH
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEA  169 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  169 (217)
                      |.+.+++++...+.    +   .++...|..+...|...|++++|..+|...         ..|..+...+.+.|++++|
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            66666655433221    1   223344445555566666666666666643         2455566666666666666


Q ss_pred             HHHHHHHHHc------------------------CCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          170 ANYLMEMTEM------------------------GLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       170 ~~~~~~~~~~------------------------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .+.+++....                        ++..+...+..++..|.+.|.+++|.++++....+++
T Consensus      1241 IEaarKA~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Ler 1311 (1630)
T 1xi4_A         1241 VDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLER 1311 (1630)
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCh
Confidence            6555443211                        1233555677888889999999999999988766543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.28  E-value=1.2e-09  Score=81.34  Aligned_cols=203  Identities=16%  Similarity=0.059  Sum_probs=147.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCC--C-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC--c--ch
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQ----GSD--P-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC--A--DV   80 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~--~~   80 (217)
                      ++..+...+...|++++|...+++....    +..  | ....+..+...+...|++++|...+++.......  +  ..
T Consensus        95 ~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  174 (373)
T 1hz4_A           95 SLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQL  174 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHH
Confidence            3566778889999999999999987652    222  2 2345667888899999999999999988653221  1  23


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCc-ccHH-----HHHHHHHhcCChHHHHHHHHHHHhcCCCCC---Hh
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFP-SLYA-----PIIKGAFRRGQFDDAFCFFSEIKIKGHPPN---RP  151 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~-----~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~  151 (217)
                      .++..+...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...+.........++   ..
T Consensus       175 ~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~  254 (373)
T 1hz4_A          175 QCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQG  254 (373)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHH
Confidence            56778888899999999999999988754212211 1222     233447799999999999998765432211   23


Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHH----cCCCCCh-hhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          152 VYTTLITMCGRGGRFVEAANYLMEMTE----MGLTPIS-RCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       152 ~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      .+..+...+...|++++|.+.++....    .|..++. .++..+..++...|+.++|.+.++....+
T Consensus       255 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          255 QWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            566778889999999999999988764    2322233 36777888899999999999999877654

>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=99.28  E-value=4.1e-11  Score=78.04  Aligned_cols=111  Identities=11%  Similarity=-0.037  Sum_probs=53.2

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHH
Q 035645           22 NAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFR  101 (217)
Q Consensus        22 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  101 (217)
                      ..|++++|+..++...... +-+...+-.+...|.+.|++++|++.|++..+.. +-+..+|..+..+|.+.|++++|..
T Consensus         9 ~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~   86 (150)
T 4ga2_A            9 SKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVE   86 (150)
T ss_dssp             CHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHH
Confidence            3445555555555544321 1122334445555555555555555555554432 1134455555555555555555555


Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHH
Q 035645          102 LLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAF  135 (217)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~  135 (217)
                      .|++..+.+ +-+..+|..+...+.+.|++++|.
T Consensus        87 ~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa  119 (150)
T 4ga2_A           87 CYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRA  119 (150)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHH
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHH
Confidence            555555442 223344555555555555554433

>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=2.1e-10  Score=82.79  Aligned_cols=165  Identities=10%  Similarity=-0.028  Sum_probs=134.1

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHH-HHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYK-ILI   87 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~ll   87 (217)
                      +...+..+...+.+.|++++|...|++..+.. +-+...+..+...+.+.|++++|...++++...  .|+..... ...
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~  192 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQ  192 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHH
Confidence            44567778888899999999999999998864 336778999999999999999999999998764  34544333 333


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHhHHHHHHHHHhcCCCH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPP-NRPVYTTLITMCGRGGRF  166 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~  166 (217)
                      ..+...++.++|...+++..... +.+...+..+...+...|++++|...|..+....... +...+..+...+...|+.
T Consensus       193 ~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  271 (287)
T 3qou_A          193 IELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTG  271 (287)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTT
T ss_pred             HHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCC
Confidence            34667788888999999988875 4567789999999999999999999999998864321 267899999999999999


Q ss_pred             HHHHHHHHHHH
Q 035645          167 VEAANYLMEMT  177 (217)
Q Consensus       167 ~~a~~~~~~~~  177 (217)
                      ++|...+++..
T Consensus       272 ~~a~~~~r~al  282 (287)
T 3qou_A          272 DALASXYRRQL  282 (287)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CcHHHHHHHHH
Confidence            99998887654

>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=6.7e-11  Score=76.98  Aligned_cols=145  Identities=10%  Similarity=-0.028  Sum_probs=112.8

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhcCCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 035645           51 LIETICKSGEVEFCVEMYYSVCKLGSCA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRG  129 (217)
Q Consensus        51 ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g  129 (217)
                      |...+...|++++|+..++.....  .| +...+..+...|.+.|++++|.+.|++..+.+ +-+..+|..+..++.+.|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            344566778999999999988653  23 34567788999999999999999999999875 446788999999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHH-HHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 035645          130 QFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANY-LMEMTEMGLTPISRCFDLVTDGLKNCGK  200 (217)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (217)
                      ++++|...|+...+.. +-+..++..+...+.+.|+++++.+. +++..+.. +-+..+|......+...|+
T Consensus        80 ~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           80 NTDKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCCC
T ss_pred             chHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCc
Confidence            9999999999998863 23578899999999999999876665 57777754 2345667777777766664

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.27  E-value=6.9e-10  Score=83.05  Aligned_cols=195  Identities=10%  Similarity=-0.059  Sum_probs=145.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCC-CC----ChhhHHHHHHHHHhcCchhHHHHHHHHHHhc----C-CCc-chhhHH
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGS-DP----DLETFNSLIETICKSGEVEFCVEMYYSVCKL----G-SCA-DVSTYK   84 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~-~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~-~~~~~~   84 (217)
                      ....+...|++++|...+++..+.-. .+    ...++..+..+|...|+++.|+..+++..+.    + ..+ ...+++
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            34456789999999999999876411 12    2457788999999999999999999988642    1 111 246788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC----CCC-CCcccHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCCHhHHHH
Q 035645           85 ILIPAVSKAGMIDEAFRLLHNLVED----GHN-PFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK----GHPPNRPVYTT  155 (217)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~  155 (217)
                      .+..+|...|++++|...|++..+.    +.. ....++..+...+...|++++|...+.+....    +.+....++..
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            8999999999999999999987753    211 12346788889999999999999999998761    22333678888


Q ss_pred             HHHHHhcCCCHHHHHHHHHHHHHcCC----CCChhhHHHHHHHHHhcCC---chHHHHHHHH
Q 035645          156 LITMCGRGGRFVEAANYLMEMTEMGL----TPISRCFDLVTDGLKNCGK---HDLAEKIEQL  210 (217)
Q Consensus       156 li~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~  210 (217)
                      +...+.+.|++++|.+.+++..+...    +.....+..+...+...++   +++|...++.
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~  328 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK  328 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh
Confidence            99999999999999999999886322    2223356666667777777   6777766654

>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=99.27  E-value=2e-10  Score=76.67  Aligned_cols=165  Identities=11%  Similarity=0.022  Sum_probs=127.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ...+......+.+.|++++|...+++..+.. +-+...+..+..++...|++++|+..|++.....  |+...+......
T Consensus         6 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~   82 (176)
T 2r5s_A            6 DEQLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKL   82 (176)
T ss_dssp             CTTHHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHH
Confidence            3456777888999999999999999987653 3367889999999999999999999999987643  344333332212


Q ss_pred             -HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHhHHHHHHHHHhcCCCHH
Q 035645           90 -VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPP-NRPVYTTLITMCGRGGRFV  167 (217)
Q Consensus        90 -~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~  167 (217)
                       +...+...+|...+++..+.. +.+...+..+..++...|++++|...|+.+.+....+ +...+..+...+...|+.+
T Consensus        83 ~~~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  161 (176)
T 2r5s_A           83 ELHQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGN  161 (176)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSC
T ss_pred             HHHhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCC
Confidence             223233345788899888764 3457788999999999999999999999998874332 3568899999999999999


Q ss_pred             HHHHHHHHHHH
Q 035645          168 EAANYLMEMTE  178 (217)
Q Consensus       168 ~a~~~~~~~~~  178 (217)
                      +|...|++...
T Consensus       162 ~A~~~y~~al~  172 (176)
T 2r5s_A          162 AIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHH
T ss_pred             cHHHHHHHHHH
Confidence            99999987653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.25  E-value=1.7e-09  Score=80.64  Aligned_cols=202  Identities=14%  Similarity=0.071  Sum_probs=138.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-CCC----hhhHHHHHHHHHhcCchhHHHHHHHHHHhc----CCC--c-c
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGS-DPD----LETFNSLIETICKSGEVEFCVEMYYSVCKL----GSC--A-D   79 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~   79 (217)
                      .++.+...+...|++++|...+++...... .++    ..++..+...+...|++++|...+++..+.    +..  | .
T Consensus        55 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~  134 (373)
T 1hz4_A           55 ATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMH  134 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHH
Confidence            456677778888999999999888765211 111    233566777888899999999999887542    221  2 2


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--C--CcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHH
Q 035645           80 VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHN--P--FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN-RPVYT  154 (217)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~  154 (217)
                      ...+..+...+...|++++|...+++.......  +  ...++..+...+...|++++|...+++.......++ ...+.
T Consensus       135 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~  214 (373)
T 1hz4_A          135 EFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWI  214 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHH
Confidence            345667888888999999999999887754211  1  124567778888899999999999988765311111 11122


Q ss_pred             -----HHHHHHhcCCCHHHHHHHHHHHHHcCCCC---ChhhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          155 -----TLITMCGRGGRFVEAANYLMEMTEMGLTP---ISRCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       155 -----~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                           ..+..+...|++++|...+++.......+   ....+..+...+...|++++|.+.++...+
T Consensus       215 ~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          215 SNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNE  281 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                 23344678899999999998876533221   122456778888899999999998877654

>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=99.24  E-value=7.2e-09  Score=74.84  Aligned_cols=165  Identities=10%  Similarity=0.013  Sum_probs=124.1

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhcC-CCcch----hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-Cc----ccHH
Q 035645           50 SLIETICKSGEVEFCVEMYYSVCKLG-SCADV----STYKILIPAVSKAGMIDEAFRLLHNLVEDGHNP-FP----SLYA  119 (217)
Q Consensus        50 ~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~----~~~~  119 (217)
                      ..+..+...|++++|...+++..+.. ..|+.    ..+..+...+...+++++|...+++..+..... +.    .+++
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            34677889999999999999987632 22332    234456777777889999999999998753222 21    2688


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhc-----CCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHH----cCCCCC-hhhH
Q 035645          120 PIIKGAFRRGQFDDAFCFFSEIKIK-----GHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMTE----MGLTPI-SRCF  188 (217)
Q Consensus       120 ~ll~~~~~~g~~~~a~~~~~~~~~~-----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~-~~~~  188 (217)
                      .+..+|...|++++|...|.+..+.     +..+. ..++..+...|.+.|++++|.+.+++..+    .+..+. ..+|
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            8999999999999999999998741     11222 34788899999999999999999988774    222222 5688


Q ss_pred             HHHHHHHHhcCC-chHHHHHHHHHhhh
Q 035645          189 DLVTDGLKNCGK-HDLAEKIEQLEVSL  214 (217)
Q Consensus       189 ~~l~~~~~~~~~-~~~a~~~~~~~~~~  214 (217)
                      ..+..++.+.|+ +++|.+.++....+
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            899999999995 59999998887654

>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=99.24  E-value=2.4e-09  Score=73.38  Aligned_cols=128  Identities=7%  Similarity=-0.162  Sum_probs=106.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      ..+..+...+...|++++|...|++..    .|+...+..+..++...|++++|+..|++..+.. +.+...+..+..++
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            345667778889999999999998773    5688899999999999999999999999988763 34667888999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCc----------------ccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHNPFP----------------SLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      ...|++++|...|++..+.. +.+.                .++..+..++.+.|++++|...|+...+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            99999999999999988764 2222                56778888899999999999999988875

>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=99.23  E-value=4.7e-10  Score=81.67  Aligned_cols=192  Identities=12%  Similarity=0.026  Sum_probs=134.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhc----CCCc-ch
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GSDP-DLETFNSLIETICKSGEVEFCVEMYYSVCKL----GSCA-DV   80 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~   80 (217)
                      ..|+.....|...|++++|...|.+..+.    +-.+ -..+|+.+..+|.+.|++++|+..|++..+.    |-.. -.
T Consensus        37 ~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a  116 (307)
T 2ifu_A           37 SEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAA  116 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            35777788888889999999999887653    2111 1347778888888999999999999887543    2111 13


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---CC--CcccHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC-H
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDGH---NP--FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK----GHPPN-R  150 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~  150 (217)
                      .+++.+..+|.. |++++|...|++..+...   .+  ...++..+...+.+.|++++|...|++....    +..+. .
T Consensus       117 ~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  195 (307)
T 2ifu_A          117 MALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCY  195 (307)
T ss_dssp             HHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHH
Confidence            567788888888 999999999988765321   11  1356778888899999999999999887653    21111 2


Q ss_pred             hHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCCh------hhHHHHHHHHHhcCCchHHHHH
Q 035645          151 PVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPIS------RCFDLVTDGLKNCGKHDLAEKI  207 (217)
Q Consensus       151 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~  207 (217)
                      ..+..+..++...|++++|...|++.. .  .|+.      .....++.++ ..|+.+.+.++
T Consensus       196 ~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          196 KKCIAQVLVQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            356666777778899999999998887 3  2321      2344556655 56777766664

>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=99.23  E-value=4.8e-09  Score=72.20  Aligned_cols=165  Identities=15%  Similarity=0.057  Sum_probs=135.6

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC----chhHHHHHHHHHHhcCCCcchhhH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSG----EVEFCVEMYYSVCKLGSCADVSTY   83 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~   83 (217)
                      -+...+..+...|...+++++|.+.|++..+.|   +...+..+...|.. +    ++++|++.|++..+.|   +...+
T Consensus        16 g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~   88 (212)
T 3rjv_A           16 GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGE   88 (212)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            356778888999999999999999999998876   67778888888887 7    8999999999997754   56778


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHHHhCCCC-CCcccHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCHhHHH
Q 035645           84 KILIPAVSK----AGMIDEAFRLLHNLVEDGHN-PFPSLYAPIIKGAFR----RGQFDDAFCFFSEIKIKGHPPNRPVYT  154 (217)
Q Consensus        84 ~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~  154 (217)
                      ..+...|..    .+++++|..+|++..+.+.. .+...+..|-..|..    .+++++|...|+...+.  ..+...+.
T Consensus        89 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~  166 (212)
T 3rjv_A           89 IVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEY  166 (212)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHH
T ss_pred             HHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHH
Confidence            888888877    88999999999999887621 126778888888888    88999999999999876  23455777


Q ss_pred             HHHHHHhcC-C-----CHHHHHHHHHHHHHcCC
Q 035645          155 TLITMCGRG-G-----RFVEAANYLMEMTEMGL  181 (217)
Q Consensus       155 ~li~~~~~~-g-----~~~~a~~~~~~~~~~~~  181 (217)
                      .|...|... |     ++++|.++|+...+.|.
T Consensus       167 ~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          167 WAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            777777643 3     89999999999988874

>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=99.22  E-value=2.2e-10  Score=92.21  Aligned_cols=156  Identities=13%  Similarity=-0.017  Sum_probs=134.3

Q ss_pred             HhcCchhHHHHHHHHHH--------hcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh
Q 035645           56 CKSGEVEFCVEMYYSVC--------KLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR  127 (217)
Q Consensus        56 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~  127 (217)
                      ...|++++|++.+++..        +. .+.+...+..+..++.+.|++++|...|++..+.+ +.+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            77899999999999997        42 23456788899999999999999999999998864 4456789999999999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHH
Q 035645          128 RGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKI  207 (217)
Q Consensus       128 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  207 (217)
                      .|++++|...|++..+.. +.+...+..+..++.+.|++++ .+.|++..+.+ +-+...|..+..++.+.|++++|.+.
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999998763 2357889999999999999999 99999998865 33567899999999999999999999


Q ss_pred             HHHHhhhcC
Q 035645          208 EQLEVSLRS  216 (217)
Q Consensus       208 ~~~~~~~~~  216 (217)
                      ++.+.++.|
T Consensus       557 ~~~al~l~P  565 (681)
T 2pzi_A          557 LDEVPPTSR  565 (681)
T ss_dssp             HHTSCTTST
T ss_pred             HHhhcccCc
Confidence            998887765

>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=99.22  E-value=6.1e-10  Score=81.06  Aligned_cols=176  Identities=13%  Similarity=-0.004  Sum_probs=132.7

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc----CCCc-chhhHHHHHHHHHhcCCHH
Q 035645           23 AGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL----GSCA-DVSTYKILIPAVSKAGMID   97 (217)
Q Consensus        23 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~   97 (217)
                      .++++.|...|++.               ...|...|++++|...|.+..+.    +-.+ -..+|+.+..+|.+.|+++
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            47788888887765               45778889999999999887543    1111 1457889999999999999


Q ss_pred             HHHHHHHHHHhC----CCCCC--cccHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCC-CHhHHHHHHHHHhcCCCH
Q 035645           98 EAFRLLHNLVED----GHNPF--PSLYAPIIKGAFRRGQFDDAFCFFSEIKIK----GHPP-NRPVYTTLITMCGRGGRF  166 (217)
Q Consensus        98 ~a~~~~~~~~~~----~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~  166 (217)
                      +|...|++..+.    + .+.  ..++..+...|.. |++++|...|++....    |..+ ...++..+...+.+.|++
T Consensus        94 ~A~~~~~~Al~l~~~~g-~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~  171 (307)
T 2ifu_A           94 EAVQYIEKASVMYVENG-TPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKF  171 (307)
T ss_dssp             GGHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCH
Confidence            999999886643    2 222  3578888888988 9999999999987653    1111 146788899999999999


Q ss_pred             HHHHHHHHHHHHc----CCCCCh-hhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          167 VEAANYLMEMTEM----GLTPIS-RCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       167 ~~a~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ++|.+.|++..+.    +..+.. ..+..+..++...|++++|.+.++... +.|
T Consensus       172 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p  225 (307)
T 2ifu_A          172 DEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIP  225 (307)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TST
T ss_pred             HHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCC
Confidence            9999999988752    222222 367777788888899999999999877 544

>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=99.22  E-value=4.4e-09  Score=72.05  Aligned_cols=145  Identities=11%  Similarity=-0.000  Sum_probs=117.5

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF  126 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (217)
                      .+..+...+...|++++|+..|++..    .|+..++..+..++.+.|++++|...|++..+.. +.+...+..+..++.
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            35566778889999999999998774    5678899999999999999999999999998765 445678999999999


Q ss_pred             hcCChHHHHHHHHHHHhcCCC--------------C-CHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHH
Q 035645          127 RRGQFDDAFCFFSEIKIKGHP--------------P-NRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLV  191 (217)
Q Consensus       127 ~~g~~~~a~~~~~~~~~~~~~--------------~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  191 (217)
                      ..|++++|...|+...+....              | ....+..+..++...|++++|.+.|+...+.........+...
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~a  162 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKA  162 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHH
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcccccchHHHH
Confidence            999999999999999875321              1 1278889999999999999999999999876543344444455


Q ss_pred             HHHHH
Q 035645          192 TDGLK  196 (217)
Q Consensus       192 ~~~~~  196 (217)
                      +..+.
T Consensus       163 ~~~~~  167 (213)
T 1hh8_A          163 MECVW  167 (213)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55543

>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=99.17  E-value=7.4e-09  Score=87.30  Aligned_cols=147  Identities=15%  Similarity=0.165  Sum_probs=109.9

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIK  123 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (217)
                      +..+|..+..++...|++++|++.|.+.      -|...|..++.++.+.|++++|.+.+...++..  +++...+.++.
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~Laf 1175 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIF 1175 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHH
Confidence            4667777888888888888888888553      366677778888888888888888888776654  33334445778


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchH
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDL  203 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (217)
                      +|++.+++++...+.    +   .++...|..+...|...|++++|..+|...         ..|..+..+|.+.|+++.
T Consensus      1176 aYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~ 1239 (1630)
T 1xi4_A         1176 ALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQA 1239 (1630)
T ss_pred             HHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHH
Confidence            888888877544432    1   345666777888888999999999999874         378899999999999999


Q ss_pred             HHHHHHHHhhh
Q 035645          204 AEKIEQLEVSL  214 (217)
Q Consensus       204 a~~~~~~~~~~  214 (217)
                      |.+.+++..+.
T Consensus      1240 AIEaarKA~n~ 1250 (1630)
T 1xi4_A         1240 AVDGARKANST 1250 (1630)
T ss_pred             HHHHHHHhCCH
Confidence            99988776543

>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=99.17  E-value=3.2e-09  Score=76.68  Aligned_cols=164  Identities=9%  Similarity=0.054  Sum_probs=124.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCC-CCCCh----hhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC-cc----hhhHH
Q 035645           15 LLVQGLLNAGYLESAKQMVNKMIKQG-SDPDL----ETFNSLIETICKSGEVEFCVEMYYSVCKLGSC-AD----VSTYK   84 (217)
Q Consensus        15 ~ll~~~~~~g~~~~a~~~~~~m~~~~-~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~   84 (217)
                      ..+..+...|++++|..++++..+.. ..|+.    ..+..+...+...+++++|+..|++..+.... ++    ..+++
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            34677889999999999999988742 22232    13335677777888999999999999874222 22    23689


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC-----CCCC-CcccHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC-HhHH
Q 035645           85 ILIPAVSKAGMIDEAFRLLHNLVED-----GHNP-FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK----GHPPN-RPVY  153 (217)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~  153 (217)
                      .+..+|...|++++|...|++..+.     +..+ ...++..+...|.+.|++++|...+.+..+.    +..+. ..+|
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            9999999999999999999998741     1112 2347888999999999999999999987642    22222 5788


Q ss_pred             HHHHHHHhcCCC-HHHHHHHHHHHHH
Q 035645          154 TTLITMCGRGGR-FVEAANYLMEMTE  178 (217)
Q Consensus       154 ~~li~~~~~~g~-~~~a~~~~~~~~~  178 (217)
                      ..+..++...|+ +++|.+.+++...
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            899999999994 6999999988763

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.15  E-value=2e-08  Score=72.44  Aligned_cols=167  Identities=11%  Similarity=0.057  Sum_probs=123.5

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC---CC--cc
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD-----VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHN---PF--PS  116 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~--~~  116 (217)
                      .+...+..+...|++++|.+.++...+.....+     ...+..+...+...|++++|...+++..+....   +.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            445667788899999999999988876432211     123445666778889999999999998754221   11  34


Q ss_pred             cHHHHHHHHHhcCChHHHHHHHHHHHh---c-CCCC--CHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcC----CCC-Ch
Q 035645          117 LYAPIIKGAFRRGQFDDAFCFFSEIKI---K-GHPP--NRPVYTTLITMCGRGGRFVEAANYLMEMTEMG----LTP-IS  185 (217)
Q Consensus       117 ~~~~ll~~~~~~g~~~~a~~~~~~~~~---~-~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~-~~  185 (217)
                      +|+.+...|...|++++|...|.+..+   . +-.+  ...++..+...|...|++++|.+.+++..+..    ... -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            788889999999999999999998863   2 1111  12588899999999999999999999877432    111 15


Q ss_pred             hhHHHHHHHHHhcCCchHH-HHHHHHHhh
Q 035645          186 RCFDLVTDGLKNCGKHDLA-EKIEQLEVS  213 (217)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a-~~~~~~~~~  213 (217)
                      .+|..+..+|.+.|+.++| ...++....
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            6788899999999999999 777776654

>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=99.14  E-value=6.2e-10  Score=80.05  Aligned_cols=195  Identities=10%  Similarity=-0.080  Sum_probs=131.6

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      .+...+..+...+.+.|++++|...|++..+.. +.+...|..+..++.+.|++++|+..+++..+.. +.+...+..+.
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            356778889999999999999999999998863 2378889999999999999999999999998753 33577889999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFV  167 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  167 (217)
                      .++...|++++|...|++..+.+. .+...+...+....+..   ++. -+..........+......+.. + ..|+++
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~~~~~~~~~~---~~~-~~~~~~~~~~~~~~~i~~~l~~-l-~~~~~~  152 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLAK-EQRLNFGDDIPSALRIA---KKK-RWNSIEERRIHQESELHSYLTR-L-IAAERE  152 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHH-HTTCCCCSHHHHHHHHH---HHH-HHHHHHHTCCCCCCHHHHHHHH-H-HHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCc-cchhhHHHHHHHHHHHH---HHH-HHHHHHHHHHhhhHHHHHHHHH-H-HHHHHH
Confidence            999999999999999999876431 11111211222222111   111 1222223333444444444433 2 268888


Q ss_pred             HHHHHHHHHHHcCCCCChh-hHHHHHHHHHhc-CCchHHHHHHHHHhh
Q 035645          168 EAANYLMEMTEMGLTPISR-CFDLVTDGLKNC-GKHDLAEKIEQLEVS  213 (217)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~-~~~~~a~~~~~~~~~  213 (217)
                      +|.+.++...+.  .|+.. ....+...+.+. +.+++|.++|..+.+
T Consensus       153 ~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          153 RELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            998888776654  45433 333444444444 668889999887654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.12  E-value=9.9e-09  Score=74.10  Aligned_cols=165  Identities=7%  Similarity=-0.018  Sum_probs=123.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCh-----hhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC---cc--hhh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDL-----ETFNSLIETICKSGEVEFCVEMYYSVCKLGSC---AD--VST   82 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~--~~~   82 (217)
                      +...+..+...|++++|.+.+++..+.......     ..+..+...+...|++++|+..+++..+....   +.  ..+
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHH
Confidence            445677788999999999999988775322111     22344666678889999999999998753211   11  458


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCC-----cccHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC-Hh
Q 035645           83 YKILIPAVSKAGMIDEAFRLLHNLVED-GHNPF-----PSLYAPIIKGAFRRGQFDDAFCFFSEIKIK----GHPPN-RP  151 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~  151 (217)
                      ++.+...|...|++++|...|++..+. ...|+     ..++..+...|.+.|++++|...+++..+.    +.... ..
T Consensus       158 ~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~  237 (293)
T 2qfc_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            899999999999999999999998732 00112     258889999999999999999999987643    11111 57


Q ss_pred             HHHHHHHHHhcCCCHHHH-HHHHHHHH
Q 035645          152 VYTTLITMCGRGGRFVEA-ANYLMEMT  177 (217)
Q Consensus       152 ~~~~li~~~~~~g~~~~a-~~~~~~~~  177 (217)
                      +|..+...+...|++++| ...+++..
T Consensus       238 ~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          238 LYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            888999999999999999 77777655

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.12  E-value=3.5e-08  Score=71.50  Aligned_cols=202  Identities=9%  Similarity=0.074  Sum_probs=132.8

Q ss_pred             hHHHHHHHHHhcC--CHHHHHHHHHHHhhCCCCCChhhHHHHHHHH----Hhc---CchhHHHHHHHHHHhcCCCcchhh
Q 035645           12 GRDLLVQGLLNAG--YLESAKQMVNKMIKQGSDPDLETFNSLIETI----CKS---GEVEFCVEMYYSVCKLGSCADVST   82 (217)
Q Consensus        12 ~~~~ll~~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~----~~~---~~~~~a~~~~~~~~~~~~~~~~~~   82 (217)
                      .|+.--..+...|  +++++++.++.+.....+ +..+|+.--..+    ...   +++++++.+++.+.+.. +.+..+
T Consensus        69 aWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~-pkny~a  146 (306)
T 3dra_A           69 IWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSD-PKNHHV  146 (306)
T ss_dssp             HHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhC-CCCHHH
Confidence            3666556666666  777777777777765432 455555433333    333   56777777777776653 235666


Q ss_pred             HHHHHHHHHhcCCHH--HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC------hHHHHHHHHHHHhcCCCCCHhHHH
Q 035645           83 YKILIPAVSKAGMID--EAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQ------FDDAFCFFSEIKIKGHPPNRPVYT  154 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~------~~~a~~~~~~~~~~~~~~~~~~~~  154 (217)
                      |+.-.-++.+.+.++  ++++.++++.+.+ +-+..+|+.-...+.+.+.      ++++++.+..+.... +-|...|+
T Consensus       147 W~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~  224 (306)
T 3dra_A          147 WSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQNPSTWN  224 (306)
T ss_dssp             HHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCHHHHH
T ss_pred             HHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-CCCccHHH
Confidence            666666666677776  7777777777665 3355666666555666665      777777777776653 33677777


Q ss_pred             HHHHHHhcCCCHHH-HHHHHHHHHHcC--CCCChhhHHHHHHHHHhcCCchHHHHHHHHHhh-hcCC
Q 035645          155 TLITMCGRGGRFVE-AANYLMEMTEMG--LTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVS-LRSV  217 (217)
Q Consensus       155 ~li~~~~~~g~~~~-a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~v  217 (217)
                      .+-..+.+.|+... +..+..++.+.+  -..++..+..+..+|.+.|+.++|.++++.+.+ .+|+
T Consensus       225 y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~~Dpi  291 (306)
T 3dra_A          225 YLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSKYNPI  291 (306)
T ss_dssp             HHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGG
T ss_pred             HHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhccChH
Confidence            77777766666433 444555554432  134667888999999999999999999999886 6774

>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=99.11  E-value=7.2e-09  Score=67.91  Aligned_cols=96  Identities=10%  Similarity=0.049  Sum_probs=48.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVS   91 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   91 (217)
                      .|..+...+...|++++|...|++..+.. +.+..++..+..++...|++++|+..+++..+.. +.+..++..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            34445555555555555555555555432 1244455555555555555555555555554432 123444555555555


Q ss_pred             hcCCHHHHHHHHHHHHhC
Q 035645           92 KAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~  109 (217)
                      ..|++++|...|++..+.
T Consensus        93 ~~~~~~~A~~~~~~a~~~  110 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKV  110 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHh
Confidence            555555555555555443

>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=99.10  E-value=1.9e-08  Score=80.52  Aligned_cols=206  Identities=6%  Similarity=-0.123  Sum_probs=157.3

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHH-HHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCC---------Cc
Q 035645            9 PVRGRDLLVQGLLNAGYLESAK-QMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGS---------CA   78 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~-~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---------~~   78 (217)
                      +...|-..+..+.+.|+.+.|. .+|++.... .+.+...|...+...-+.|++++|.++|+++.....         .|
T Consensus       342 ~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p  420 (679)
T 4e6h_A          342 APEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDP  420 (679)
T ss_dssp             CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHST
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccC
Confidence            4566777777788889999996 999999864 344666777888888899999999999999876310         13


Q ss_pred             ------------chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc-CChHHHHHHHHHHHhcC
Q 035645           79 ------------DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR-GQFDDAFCFFSEIKIKG  145 (217)
Q Consensus        79 ------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-g~~~~a~~~~~~~~~~~  145 (217)
                                  ...+|...+....+.|..+.|..+|.+..+.-.......|...+..-.+. ++.+.|..+|+...+. 
T Consensus       421 ~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-  499 (679)
T 4e6h_A          421 TNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-  499 (679)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-
T ss_pred             cchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-
Confidence                        23468888888888999999999999998761122334454433333344 4599999999998876 


Q ss_pred             CCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCC--ChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          146 HPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTP--ISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       146 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .+-+...|...++.....|+.+.|..+|+........+  ....|...+.-=.+.|+.+.+.++.+++.+..|
T Consensus       500 ~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P  572 (679)
T 4e6h_A          500 FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFP  572 (679)
T ss_dssp             HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHST
T ss_pred             CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            44467778888888888999999999999988765322  345788888888899999999999999987654

>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=99.09  E-value=8.6e-09  Score=67.53  Aligned_cols=130  Identities=12%  Similarity=0.043  Sum_probs=82.4

Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 035645           45 LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKG  124 (217)
Q Consensus        45 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (217)
                      ...+..+...+...|++++|...|++..+.. +.+..++..+..++...|++++|...+++..+.. +.+..++..+..+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3445666667777777777777777776642 2245666777777777777777777777776653 3345566667777


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCHhHHHH--HHHHHhcCCCHHHHHHHHHHHH
Q 035645          125 AFRRGQFDDAFCFFSEIKIKGHPPNRPVYTT--LITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus       125 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~--li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      +...|++++|...+.+...... .+...+..  ....+...|++++|.+.+....
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            7777777777777777665421 23334422  2333556677777777666544

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.09  E-value=2e-09  Score=73.06  Aligned_cols=158  Identities=11%  Similarity=0.038  Sum_probs=107.1

Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc----CCCc-chhhHHHHHHHHHhcCC
Q 035645           21 LNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL----GSCA-DVSTYKILIPAVSKAGM   95 (217)
Q Consensus        21 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~   95 (217)
                      ...|++++|.+.++.+... ......++..+...+...|++++|...+++..+.    +..+ ...++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            4678999999966555432 2235667888888889999999999999887642    2222 34667788888888999


Q ss_pred             HHHHHHHHHHHHhC----CCCC--CcccHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCC-CHhHHHHHHHHHhcCC
Q 035645           96 IDEAFRLLHNLVED----GHNP--FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK----GHPP-NRPVYTTLITMCGRGG  164 (217)
Q Consensus        96 ~~~a~~~~~~~~~~----~~~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g  164 (217)
                      +++|...+++..+.    +-.+  ...++..+...+...|++++|...+.+....    +..+ -..++..+...+...|
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            99999888876643    2111  1345677778888888999988888877542    1111 1234567777788888


Q ss_pred             CHHHHHHHHHHHHHc
Q 035645          165 RFVEAANYLMEMTEM  179 (217)
Q Consensus       165 ~~~~a~~~~~~~~~~  179 (217)
                      ++++|.+.+++..+.
T Consensus       162 ~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          162 NLLEAQQHWLRARDI  176 (203)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            888888888766553

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.09  E-value=2.9e-09  Score=72.28  Aligned_cols=158  Identities=12%  Similarity=-0.017  Sum_probs=110.2

Q ss_pred             HhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCC-CCcccHHHHHHHHHhcCC
Q 035645           56 CKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE----DGHN-PFPSLYAPIIKGAFRRGQ  130 (217)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~-~~~~~~~~ll~~~~~~g~  130 (217)
                      ...|++++|.+.++.+... ......++..+...+...|++++|...+++..+    .+.. ....++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            4578888998865555432 223567788888889999999999999888765    1212 234577788888899999


Q ss_pred             hHHHHHHHHHHHhc----CCCC--CHhHHHHHHHHHhcCCCHHHHHHHHHHHHHc----CCC-CChhhHHHHHHHHHhcC
Q 035645          131 FDDAFCFFSEIKIK----GHPP--NRPVYTTLITMCGRGGRFVEAANYLMEMTEM----GLT-PISRCFDLVTDGLKNCG  199 (217)
Q Consensus       131 ~~~a~~~~~~~~~~----~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~  199 (217)
                      +++|...+.+....    +-.|  ....+..+...+...|++++|.+.+++..+.    +-. .-..++..+..++...|
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            99999988876543    2121  2456777888888899999999998887632    211 11234678888888999


Q ss_pred             CchHHHHHHHHHhhh
Q 035645          200 KHDLAEKIEQLEVSL  214 (217)
Q Consensus       200 ~~~~a~~~~~~~~~~  214 (217)
                      ++++|.+.++...++
T Consensus       162 ~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          162 NLLEAQQHWLRARDI  176 (203)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999888776654

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.08  E-value=1.5e-07  Score=72.24  Aligned_cols=190  Identities=11%  Similarity=0.003  Sum_probs=137.9

Q ss_pred             ChhhHHHHHHHHHhcC---CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhc----CchhHHHHHHHHHHhcCCCcchh
Q 035645            9 PVRGRDLLVQGLLNAG---YLESAKQMVNKMIKQGSDPDLETFNSLIETICKS----GEVEFCVEMYYSVCKLGSCADVS   81 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g---~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~   81 (217)
                      +...+..+...|...|   +.++|++.|++..+.| .++...+..+...|...    +++++|++.|++.. .   -+..
T Consensus       175 ~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~  249 (452)
T 3e4b_A          175 TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPA  249 (452)
T ss_dssp             CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTH
T ss_pred             CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHH
Confidence            3447778888888888   8889999999988876 34555556666677554    68889999998886 2   3556


Q ss_pred             hHHHHHHH-H--HhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC-----ChHHHHHHHHHHHhcCCCCCHhHH
Q 035645           82 TYKILIPA-V--SKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRG-----QFDDAFCFFSEIKIKGHPPNRPVY  153 (217)
Q Consensus        82 ~~~~ll~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~  153 (217)
                      .+..+... +  ...+++++|..+|++..+.|   +...+..+-..|. .|     ++++|...|+... .   -+...+
T Consensus       250 a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~  321 (452)
T 3e4b_A          250 SWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAAD  321 (452)
T ss_dssp             HHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHH
T ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHH
Confidence            66666666 3  45788999999999988776   5566666766666 55     8999999998776 3   356677


Q ss_pred             HHHHHHHhc----CCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCCchHHHHHHHHHhhh
Q 035645          154 TTLITMCGR----GGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKN----CGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       154 ~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~  214 (217)
                      ..|...|..    ..++++|.++|++..+.|.   ......|...|..    ..+.++|...++...+.
T Consensus       322 ~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~  387 (452)
T 3e4b_A          322 YYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQ  387 (452)
T ss_dssp             HHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHC
Confidence            777777765    3488999999988887663   3345566666653    45788888888776654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.07  E-value=1.1e-08  Score=63.53  Aligned_cols=97  Identities=20%  Similarity=0.209  Sum_probs=52.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      ..|..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|+..++++.+.. +.+..++..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            445555556666666666666666655432 2244455555555556666666666665555432 22344555555555


Q ss_pred             HhcCCHHHHHHHHHHHHhC
Q 035645           91 SKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~  109 (217)
                      ...|++++|...++++.+.
T Consensus        88 ~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHh
Confidence            5555555555555555543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=99.07  E-value=3.1e-09  Score=75.62  Aligned_cols=189  Identities=7%  Similarity=-0.090  Sum_probs=142.5

Q ss_pred             hcCCHHHHHHHHHHHhhCCCCCChhhHHHH-------HHHHHhcCchhHHHHHHHHHHhcCCCcc---------------
Q 035645           22 NAGYLESAKQMVNKMIKQGSDPDLETFNSL-------IETICKSGEVEFCVEMYYSVCKLGSCAD---------------   79 (217)
Q Consensus        22 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l-------l~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------   79 (217)
                      ..++...|.+.|.++.+... -....|..+       ...+...++..+++..+.+-.+  +.|+               
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 LPMSEARSLDLFTEITNYDE-SACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhCh-hhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            68999999999999998643 266788877       5666666677777766666544  2221               


Q ss_pred             -------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--H
Q 035645           80 -------VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN--R  150 (217)
Q Consensus        80 -------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--~  150 (217)
                             ....-.+...+...|++++|.++|..+...+  |+......+...+.+.+++++|+..|....... .|.  .
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                   1233456778889999999999999887654  433356666678999999999999998655432 111  2


Q ss_pred             hHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCC--hhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          151 PVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPI--SRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       151 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ..+..+..++.+.|++++|.+.|++.......|.  .........++.+.|+.++|..+|+.+.+.+|
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P  239 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHP  239 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            4677888999999999999999999875433253  34677788899999999999999999988776

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.07  E-value=1.1e-08  Score=64.35  Aligned_cols=118  Identities=9%  Similarity=0.016  Sum_probs=71.6

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      .+...|..+...+.+.|++++|...+++..+.. +.+...+..+..++...|++++|+..+++..+.. +.+...+..+.
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la   91 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKA   91 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHH
Confidence            345556667777777777777777777766543 2255666666667777777777777777666542 22455666666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR  128 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (217)
                      .++.+.|++++|...|++..+.. +.+...+..+..++...
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~  131 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQ  131 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHh
Confidence            66677777777777776666542 22233444444444433

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.07  E-value=1.4e-08  Score=62.94  Aligned_cols=96  Identities=19%  Similarity=0.280  Sum_probs=44.1

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHH
Q 035645           46 ETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGA  125 (217)
Q Consensus        46 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  125 (217)
                      ..+..+...+...|++++|.+.|+++.+.. +.+..++..+...+.+.|++++|...++++.+.. +.+..++..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            344444555555555555555555554432 1233444444445555555555555555444332 22233444444444


Q ss_pred             HhcCChHHHHHHHHHHHh
Q 035645          126 FRRGQFDDAFCFFSEIKI  143 (217)
Q Consensus       126 ~~~g~~~~a~~~~~~~~~  143 (217)
                      ...|++++|...++.+.+
T Consensus        88 ~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHH
Confidence            444444444444444433

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.06  E-value=1.1e-08  Score=63.99  Aligned_cols=119  Identities=11%  Similarity=0.020  Sum_probs=63.7

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHH
Q 035645           80 VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITM  159 (217)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  159 (217)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+....... +.+...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            3444555555555555555555555555432 2234455555555566666666666666555442 2234555556666


Q ss_pred             HhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCc
Q 035645          160 CGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKH  201 (217)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (217)
                      +...|++++|.+.+++..+.. +.+...+..+..++.+.|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            666666666666666655543 12344455555555555543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.06  E-value=1.1e-08  Score=64.37  Aligned_cols=94  Identities=11%  Similarity=0.082  Sum_probs=42.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      |......+.+.|++++|++.|++.++.. +.+...|..+..++.+.|++++|+..|++..+.. +.+...|..+..++..
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHH
Confidence            4444444444555555555554444432 1234444444444444444555444444444432 1123444444444444


Q ss_pred             cCCHHHHHHHHHHHHh
Q 035645           93 AGMIDEAFRLLHNLVE  108 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~  108 (217)
                      .|++++|...|++..+
T Consensus        94 ~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           94 MREWSKAQRAYEDALQ  109 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            4444444444444444

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.05  E-value=5.9e-09  Score=65.28  Aligned_cols=117  Identities=13%  Similarity=0.016  Sum_probs=58.3

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ...+..+...+...|+++.|...+++..+.. +.+...+..+..++...|++++|+..+++..+.. +.+...+..+..+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            3445555555555566666666665555432 2244455555555555555555555555554432 1234445555555


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRG  129 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g  129 (217)
                      +...|++++|...|++..+.. +.+...+..+..++.+.|
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLR  128 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHh
Confidence            555555555555555554432 122334444444444443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.05  E-value=3.6e-08  Score=64.02  Aligned_cols=96  Identities=13%  Similarity=-0.018  Sum_probs=50.4

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF  126 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (217)
                      .+..+...+.+.|++++|+..|++..... +.+...|..+..+|...|++++|...|++..+.+ +.+...|..+..++.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHH
Confidence            44445555555555555555555555432 1234455555555555555555555555555443 223445555555555


Q ss_pred             hcCChHHHHHHHHHHHhc
Q 035645          127 RRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus       127 ~~g~~~~a~~~~~~~~~~  144 (217)
                      ..|++++|...|+...+.
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            555555555555555543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.04  E-value=1.8e-08  Score=63.34  Aligned_cols=98  Identities=12%  Similarity=0.005  Sum_probs=50.4

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHH
Q 035645           80 VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITM  159 (217)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  159 (217)
                      ...+..+...+.+.|++++|...|++..+.. +.+..++..+...+...|++++|...+++..+.. +.+...+..+..+
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            3444455555555555555555555554432 2233445555555555555555555555554432 2234555555555


Q ss_pred             HhcCCCHHHHHHHHHHHHHc
Q 035645          160 CGRGGRFVEAANYLMEMTEM  179 (217)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~~  179 (217)
                      +...|++++|.+.|++..+.
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHh
Confidence            55556666666666555543

>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=2.2e-08  Score=62.97  Aligned_cols=96  Identities=10%  Similarity=0.026  Sum_probs=51.2

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF  126 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (217)
                      .+......|.+.|++++|++.|++..+.. +.+..+|..+..++.+.|++++|+..|++..+.+ +.+...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            44445555555566666666665555432 1244555555555555555555555555555443 223445555555555


Q ss_pred             hcCChHHHHHHHHHHHhc
Q 035645          127 RRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus       127 ~~g~~~~a~~~~~~~~~~  144 (217)
                      ..|++++|...|+...+.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            555555555555555543

>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=99.01  E-value=1.4e-08  Score=74.81  Aligned_cols=130  Identities=13%  Similarity=0.027  Sum_probs=72.9

Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc--------------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 035645           45 LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD--------------VSTYKILIPAVSKAGMIDEAFRLLHNLVEDG  110 (217)
Q Consensus        45 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  110 (217)
                      ...+..+...+.+.|++++|+..|++..+......              ..+|..+..+|.+.|++++|...+++..+..
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            44455555555555666666666655554321110              3556666666666666666666666666543


Q ss_pred             CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHH-HHHHHHH
Q 035645          111 HNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEA-ANYLMEM  176 (217)
Q Consensus       111 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a-~~~~~~~  176 (217)
                       +.+..+|..+..++...|++++|...|++..+.. +.+...+..+..++...|+.+++ ...++.|
T Consensus       227 -p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          227 -SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             2345556666666666666666666666665542 22455566666666666666655 3344444

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.00  E-value=1.7e-07  Score=71.83  Aligned_cols=191  Identities=9%  Similarity=-0.026  Sum_probs=134.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC---chhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSG---EVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      ..+..+...|...+.++++......+.+.-...++..+..+...|.+.|   +.++|++.|++..+.|. ++...+..+.
T Consensus       142 ~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg  220 (452)
T 3e4b_A          142 EAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVA  220 (452)
T ss_dssp             THHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHH
Confidence            3445555666666644443333222222111223447888888888899   89999999999988763 3555556677


Q ss_pred             HHHHhc----CCHHHHHHHHHHHHhCCCCCCcccHHHHHHH-H--HhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 035645           88 PAVSKA----GMIDEAFRLLHNLVEDGHNPFPSLYAPIIKG-A--FRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMC  160 (217)
Q Consensus        88 ~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  160 (217)
                      ..|...    +++++|..+|++.. .   .+...+..+-.. +  ...+++++|...|++..+.|   +...+..+...|
T Consensus       221 ~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y  293 (452)
T 3e4b_A          221 RVLGDATLGTPDEKTAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLY  293 (452)
T ss_dssp             HHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            777655    78999999999987 3   355666666666 4  56899999999999998876   567777777777


Q ss_pred             hcCC-----CHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCCchHHHHHHHHHhhh
Q 035645          161 GRGG-----RFVEAANYLMEMTEMGLTPISRCFDLVTDGLKN----CGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       161 ~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~  214 (217)
                      . .|     ++++|.++|++.. .   -+......|...|..    ..+.++|.+.+++..+.
T Consensus       294 ~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  351 (452)
T 3e4b_A          294 Y-EGKWVPADAKAAEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARN  351 (452)
T ss_dssp             H-HCSSSCCCHHHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTT
T ss_pred             H-cCCCCCCCHHHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhh
Confidence            6 44     9999999998776 3   355667777777766    34899999999887654

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=99.00  E-value=1.7e-08  Score=67.20  Aligned_cols=118  Identities=7%  Similarity=0.023  Sum_probs=50.1

Q ss_pred             cCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHH-HHhcCCh--HHH
Q 035645           58 SGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKG-AFRRGQF--DDA  134 (217)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~g~~--~~a  134 (217)
                      .|++++|+..+++..+.. +.+...+..+...|...|++++|...|++..+.+ +.+...+..+..+ +...|++  ++|
T Consensus        23 ~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A  100 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQT  100 (177)
T ss_dssp             ----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             ccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHH
Confidence            344444444444443321 1233444444444444455555544444444332 1223333444444 3444444  555


Q ss_pred             HHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          135 FCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      ...+....... +.+...+..+...+...|++++|...|++..+
T Consensus       101 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          101 RAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            55554444431 11234444444445555555555555554444

>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=98.99  E-value=2.1e-08  Score=73.96  Aligned_cols=142  Identities=8%  Similarity=-0.114  Sum_probs=83.8

Q ss_pred             CchhHHHHHHHHHHhcCCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--------------cccHHHHHH
Q 035645           59 GEVEFCVEMYYSVCKLGSCA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPF--------------PSLYAPIIK  123 (217)
Q Consensus        59 ~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~ll~  123 (217)
                      +++++|+..|+...+.  .| +...+..+...+.+.|++++|...|++..+......              ..+|..+..
T Consensus       127 ~~~~~A~~~~~~a~~~--~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~  204 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEE--KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAM  204 (336)
T ss_dssp             EEEECCCCGGGCCHHH--HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHH--HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHH
Confidence            4455555554443321  12 345566666666666777777777766665431111              256666666


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchH
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDL  203 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (217)
                      ++.+.|++++|...+....+.. +.+...+..+..++...|++++|...|++..+.. +-+...+..+..++.+.|+.++
T Consensus       205 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~  282 (336)
T 1p5q_A          205 CHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLA  282 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHH
Confidence            6667777777777776666552 2345666666666666777777777776666543 2234556666666666666666


Q ss_pred             H
Q 035645          204 A  204 (217)
Q Consensus       204 a  204 (217)
                      |
T Consensus       283 a  283 (336)
T 1p5q_A          283 R  283 (336)
T ss_dssp             H
T ss_pred             H
Confidence            6

>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=6.5e-09  Score=69.20  Aligned_cols=122  Identities=11%  Similarity=0.105  Sum_probs=98.9

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH-HHhcCCH--
Q 035645           20 LLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA-VSKAGMI--   96 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~--   96 (217)
                      +...|++++|...+++..+.. +.+...+..+..+|...|++++|+..|++..+.. +.+...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            345788999999999988764 3477889999999999999999999999998753 2356777788888 7789998  


Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           97 DEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      ++|...+++..+.+ +.+...+..+...+...|++++|...|....+.
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            99999999998874 345678888999999999999999999999876

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.99  E-value=3.1e-08  Score=64.29  Aligned_cols=104  Identities=11%  Similarity=-0.091  Sum_probs=85.1

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH
Q 035645           79 DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLIT  158 (217)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  158 (217)
                      +...+..+...+.+.|++++|...|++....+ +.+...|..+..++...|++++|...|++..... +.+...|..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            34677788888899999999999999988775 4467788888899999999999999999988763 235778888899


Q ss_pred             HHhcCCCHHHHHHHHHHHHHcCCCCChh
Q 035645          159 MCGRGGRFVEAANYLMEMTEMGLTPISR  186 (217)
Q Consensus       159 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~  186 (217)
                      ++...|++++|...|++..+..  |+..
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l~--~~~~  138 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQHS--NDEK  138 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--CCHH
Confidence            9999999999999999888754  5543

>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=98.97  E-value=4.1e-09  Score=68.30  Aligned_cols=112  Identities=13%  Similarity=0.041  Sum_probs=91.9

Q ss_pred             HHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 035645           66 EMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG  145 (217)
Q Consensus        66 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  145 (217)
                      ..|+++.+.. +.+...+..+...+.+.|++++|...|++....+ +.+...|..+..++...|++++|...|+......
T Consensus         8 ~~~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~   85 (148)
T 2vgx_A            8 GTIAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD   85 (148)
T ss_dssp             CSHHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            3455665532 2255677888899999999999999999998775 4467788889999999999999999999998763


Q ss_pred             CCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcC
Q 035645          146 HPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG  180 (217)
Q Consensus       146 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  180 (217)
                       +.+...+..+..++...|++++|.+.|+...+..
T Consensus        86 -p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A           86 -IXEPRFPFHAAECLLQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             -TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             -CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence             3357888899999999999999999999988643

>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=98.93  E-value=3e-09  Score=72.26  Aligned_cols=96  Identities=9%  Similarity=-0.017  Sum_probs=43.4

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCC-cc--------------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSC-AD--------------VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH  111 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  111 (217)
                      .+..+...+...|++++|+..|++..+.... |+              ..++..+..+|.+.|++++|...+++..+.. 
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-  118 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-  118 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-
Confidence            3444555555555555555555555442111 00              1344444444444455555554444444432 


Q ss_pred             CCCcccHHHHHHHHHhcCChHHHHHHHHHHHh
Q 035645          112 NPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKI  143 (217)
Q Consensus       112 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  143 (217)
                      +.+..++..+..++...|++++|...|+...+
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  150 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  150 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            22333444444444444444444444444443

>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=98.92  E-value=1.2e-08  Score=66.09  Aligned_cols=99  Identities=17%  Similarity=0.084  Sum_probs=73.7

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIK  123 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (217)
                      +...+..+...+.+.|++++|+..|++..... +.+...+..+..++...|++++|...|++....+ +.+...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            44566667777888888888888888877653 2356677777788888888888888888877664 335567777788


Q ss_pred             HHHhcCChHHHHHHHHHHHhc
Q 035645          124 GAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      ++...|++++|...|+...+.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            888888888888888877654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.91  E-value=1.8e-07  Score=70.90  Aligned_cols=197  Identities=10%  Similarity=0.006  Sum_probs=141.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCC----------------hhhHHHHHHHHHhcCchhHHHHHHHHHHhcC-CCcc
Q 035645           17 VQGLLNAGYLESAKQMVNKMIKQGSDPD----------------LETFNSLIETICKSGEVEFCVEMYYSVCKLG-SCAD   79 (217)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~m~~~~~~~~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~   79 (217)
                      ...+.+.|++++|.+.|..+.+......                ...+..+...|.+.|++++|.+.+..+.... ..++
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            4567889999999999999987532221                1236788999999999999999998875421 1112


Q ss_pred             h----hhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CcccHHHHHHHHHhcCChHHHHHHHHHHHhc--CC--
Q 035645           80 V----STYKILIPAVSKAGMIDEAFRLLHNLVED----GHNP-FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK--GH--  146 (217)
Q Consensus        80 ~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~~--  146 (217)
                      .    .+.+.+-..+...|+.++|..++......    +..+ -..++..+...+...|++++|..++......  +.  
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    23344444455678999999998886532    2222 2457788999999999999999999987643  11  


Q ss_pred             CC-CHhHHHHHHHHHhcCCCHHHHHHHHHHHHHc--CC-CC-C--hhhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          147 PP-NRPVYTTLITMCGRGGRFVEAANYLMEMTEM--GL-TP-I--SRCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       147 ~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~-~~-~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      .+ ...++..++..|...|++++|...+++....  .. .| .  ...+..+...+...|++++|.+.+....+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            12 2468888999999999999999999887632  11 12 1  24567777888889999999888766543

>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=98.90  E-value=1.6e-07  Score=57.48  Aligned_cols=98  Identities=16%  Similarity=0.077  Sum_probs=58.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ...+..+...+...|++++|...+++..... +.+...+..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3455566666666666666666666665542 2245556666666666666666666666665542 1234555566666


Q ss_pred             HHhcCCHHHHHHHHHHHHhC
Q 035645           90 VSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~  109 (217)
                      +...|++++|...+++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhhHHHHHHHHHHHHHc
Confidence            66666666666666666554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.88  E-value=8.6e-08  Score=58.18  Aligned_cols=94  Identities=14%  Similarity=0.065  Sum_probs=38.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC--CHhHHHHHHHHH
Q 035645           83 YKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPP--NRPVYTTLITMC  160 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~  160 (217)
                      +..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+.. +.  +...+..+..++
T Consensus         9 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~   86 (112)
T 2kck_A            9 YYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADAL   86 (112)
T ss_dssp             GGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHH
Confidence            3333444444444444444444443322 1122333344444444444444444444443331 11  233444444444


Q ss_pred             hcC-CCHHHHHHHHHHHHH
Q 035645          161 GRG-GRFVEAANYLMEMTE  178 (217)
Q Consensus       161 ~~~-g~~~~a~~~~~~~~~  178 (217)
                      ... |++++|.+.++...+
T Consensus        87 ~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           87 RYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             TTCSSCSHHHHHHHHHHGG
T ss_pred             HHHhCCHHHHHHHHHHHhh
Confidence            444 444444444444443

>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=98.87  E-value=2.3e-07  Score=56.77  Aligned_cols=96  Identities=15%  Similarity=0.084  Sum_probs=48.7

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHH
Q 035645           46 ETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGA  125 (217)
Q Consensus        46 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  125 (217)
                      ..+..+...+...|++++|...|++..... +.+...+..+..++...|++++|...+++..+.. +.+...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            344455555555555555555555554432 1234445555555555555555555555554432 22334444455555


Q ss_pred             HhcCChHHHHHHHHHHHh
Q 035645          126 FRRGQFDDAFCFFSEIKI  143 (217)
Q Consensus       126 ~~~g~~~~a~~~~~~~~~  143 (217)
                      ...|++++|...+....+
T Consensus        83 ~~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHT
T ss_pred             HHHhhHHHHHHHHHHHHH
Confidence            555555555555555444

>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=98.87  E-value=7.9e-08  Score=60.45  Aligned_cols=96  Identities=16%  Similarity=0.172  Sum_probs=51.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC--cc----hhhHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC--AD----VSTYKI   85 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~~   85 (217)
                      .+..+...+.+.|++++|++.|++.++.. +-+...|..+..+|.+.|++++|++.+++..+....  ++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            45555666666666666666666665542 224555666666666666666666666665442110  00    123444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 035645           86 LIPAVSKAGMIDEAFRLLHNLVE  108 (217)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~  108 (217)
                      +..++...|++++|++.|++...
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            55555555555555555555444

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.87  E-value=1e-07  Score=57.80  Aligned_cols=101  Identities=15%  Similarity=0.079  Sum_probs=87.5

Q ss_pred             CcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCC--ChhhHHHH
Q 035645          114 FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTP--ISRCFDLV  191 (217)
Q Consensus       114 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l  191 (217)
                      +...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|.+.+++..+.. +.  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            45677888899999999999999999998763 3467889999999999999999999999998764 23  57788999


Q ss_pred             HHHHHhc-CCchHHHHHHHHHhhhcC
Q 035645          192 TDGLKNC-GKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       192 ~~~~~~~-~~~~~a~~~~~~~~~~~~  216 (217)
                      ..++... |++++|.+.++......|
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhccc
Confidence            9999999 999999999999887764

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.85  E-value=8.9e-08  Score=61.37  Aligned_cols=94  Identities=14%  Similarity=-0.010  Sum_probs=47.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      +..+...+.+.|++++|...|++..... +.+...|..+..++.+.|++++|+..|++..... +.+...+..+..++..
T Consensus        21 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           21 LYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            4444445555555555555555555432 1244445555555555555555555555554432 1233444455555555


Q ss_pred             cCCHHHHHHHHHHHHh
Q 035645           93 AGMIDEAFRLLHNLVE  108 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~  108 (217)
                      .|++++|...|++..+
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

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.85  E-value=2.3e-08  Score=64.17  Aligned_cols=100  Identities=11%  Similarity=0.000  Sum_probs=85.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH
Q 035645           79 DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLIT  158 (217)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  158 (217)
                      +...+..+...+.+.|++++|...|++....+ +.+...|..+..++.+.|++++|...|+...... +.+...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            44567778888999999999999999998775 4467788889999999999999999999998864 335778888999


Q ss_pred             HHhcCCCHHHHHHHHHHHHHcC
Q 035645          159 MCGRGGRFVEAANYLMEMTEMG  180 (217)
Q Consensus       159 ~~~~~g~~~~a~~~~~~~~~~~  180 (217)
                      ++...|++++|.+.|+...+..
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999988653

>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=98.84  E-value=1.3e-07  Score=64.03  Aligned_cols=131  Identities=10%  Similarity=-0.067  Sum_probs=98.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-CC--------------hhhHHHHHHHHHhcCchhHHHHHHHHHHhcC
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSD-PD--------------LETFNSLIETICKSGEVEFCVEMYYSVCKLG   75 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~-~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   75 (217)
                      ..+..+...+.+.|++++|...|++..+.... |+              ...+..+..++.+.|++++|+..+++..+..
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            45677788899999999999999999875322 10              2688889999999999999999999998763


Q ss_pred             CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHH-HHHHHHHh
Q 035645           76 SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAF-CFFSEIKI  143 (217)
Q Consensus        76 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~-~~~~~~~~  143 (217)
                       +.+...+..+..++...|++++|...|++..+.. +.+..++..+..++...++.+++. ..+..+..
T Consensus       119 -p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          119 -KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             -cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence             3467889999999999999999999999998764 335567777777777777766665 44444443

>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=98.83  E-value=4.1e-07  Score=72.91  Aligned_cols=186  Identities=7%  Similarity=-0.074  Sum_probs=140.1

Q ss_pred             HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHH-HHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHH
Q 035645           26 LESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCV-EMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLH  104 (217)
Q Consensus        26 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  104 (217)
                      .+++..+|++.+.. .+-+...|-..+..+.+.|+.++|. ++|++.... .+.+...+-..+....+.|++++|..+|+
T Consensus       325 ~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iye  402 (679)
T 4e6h_A          325 KARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTIL  402 (679)
T ss_dssp             HHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            34567788888775 3447888988888888999999997 999999864 34456667788888999999999999999


Q ss_pred             HHHhCC---------CCCC------------cccHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCCCHhHHHHHHHHHhc
Q 035645          105 NLVEDG---------HNPF------------PSLYAPIIKGAFRRGQFDDAFCFFSEIKIK-GHPPNRPVYTTLITMCGR  162 (217)
Q Consensus       105 ~~~~~~---------~~~~------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~  162 (217)
                      .+.+..         ..|+            ..+|...+....+.|..+.|..+|....+. +. +....|...+..-.+
T Consensus       403 k~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~-~~~~lyi~~A~lE~~  481 (679)
T 4e6h_A          403 SCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKL-VTPDIYLENAYIEYH  481 (679)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGG-SCTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHH
Confidence            987631         0132            236888888888999999999999999876 21 123344433333334


Q ss_pred             C-CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          163 G-GRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       163 ~-g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      . ++.+.|.++|+...+. .+-+...+...++.....|+.+.|..+|++.....
T Consensus       482 ~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~  534 (679)
T 4e6h_A          482 ISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKI  534 (679)
T ss_dssp             TTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTS
T ss_pred             hCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence            4 4589999999999876 23345556678888888999999999999987654

>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=1.9e-07  Score=58.33  Aligned_cols=22  Identities=14%  Similarity=0.069  Sum_probs=8.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHh
Q 035645           16 LVQGLLNAGYLESAKQMVNKMI   37 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~   37 (217)
                      ....+.+.|++++|...|++..
T Consensus        10 ~g~~~~~~~~~~~A~~~~~~al   31 (126)
T 3upv_A           10 EGKEYFTKSDWPNAVKAYTEMI   31 (126)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHH
Confidence            3333333444444444443333

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.82  E-value=4e-07  Score=58.22  Aligned_cols=98  Identities=14%  Similarity=0.015  Sum_probs=55.4

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPD----LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYK   84 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (217)
                      +...+..+...+...|++++|...|++..+..  |+    ...+..+..++...|++++|+..+++..+.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            34455566666666666666666666665542  33    4455555556666666666666666655432 12344555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC
Q 035645           85 ILIPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      .+..++...|++++|...|++..+.
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            5555566666666666666655543

>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=98.82  E-value=1.8e-07  Score=58.46  Aligned_cols=94  Identities=14%  Similarity=0.093  Sum_probs=42.8

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF  126 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (217)
                      .+..+...+.+.|++++|+..|++..+.. +.+...|..+..++.+.|++++|...+++..+.+ +.+...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            34444444455555555555555544432 1133444444444555555555555554444432 222334444444444


Q ss_pred             hcCChHHHHHHHHHHH
Q 035645          127 RRGQFDDAFCFFSEIK  142 (217)
Q Consensus       127 ~~g~~~~a~~~~~~~~  142 (217)
                      ..|++++|...|++..
T Consensus        84 ~~~~~~~A~~~~~~al   99 (126)
T 3upv_A           84 AVKEYASALETLDAAR   99 (126)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHH
Confidence            4444444444444443

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.82  E-value=1.9e-07  Score=58.69  Aligned_cols=96  Identities=13%  Similarity=0.080  Sum_probs=51.9

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCC----cccHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH--NPF----PSLYAP  120 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~  120 (217)
                      .+..+...+.+.|++++|++.|++..+.. +.+..+|..+..+|.+.|++++|+..+++..+.+.  .++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            44556666666666666666666666542 22445566666666666666666666666554310  000    113344


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHh
Q 035645          121 IIKGAFRRGQFDDAFCFFSEIKI  143 (217)
Q Consensus       121 ll~~~~~~g~~~~a~~~~~~~~~  143 (217)
                      +-.++...|++++|.+.|++...
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            44445555555555555555443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.82  E-value=5.2e-07  Score=57.67  Aligned_cols=98  Identities=13%  Similarity=0.006  Sum_probs=66.6

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD----VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYA  119 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  119 (217)
                      +...+..+...+...|++++|+..|++..+.  .|+    ...+..+..++...|++++|...+++..+.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            4556667777777777788888777777664  344    4666667777777777777777777766553 22455666


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhc
Q 035645          120 PIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus       120 ~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      .+..++...|++++|...|++....
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            6667777777777777777776654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.81  E-value=2.2e-07  Score=60.95  Aligned_cols=99  Identities=9%  Similarity=-0.074  Sum_probs=73.0

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +...|..+...+.+.|++++|...|++..+.. +-+...|..+..+|.+.|++++|+..|++..+.. +.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45567777777888888888888888877653 2266677777778888888888888888777653 224667777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC
Q 035645           89 AVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      ++...|++++|...|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            888888888888888877765

>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=98.81  E-value=3.2e-07  Score=58.03  Aligned_cols=96  Identities=13%  Similarity=-0.023  Sum_probs=48.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ...|..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|+..+++..+.. +.+...+..+..+
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   86 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   86 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHH
Confidence            4445555555555555555555555555432 1234455555555555555555555555554432 1134445555555


Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 035645           90 VSKAGMIDEAFRLLHNLV  107 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~  107 (217)
                      +...|++++|...|++..
T Consensus        87 ~~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHH
Confidence            555555555555555544

>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=98.81  E-value=7.8e-08  Score=69.05  Aligned_cols=163  Identities=9%  Similarity=-0.044  Sum_probs=109.8

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIK  123 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (217)
                      +...+..+...+.+.|++++|+..|++..+.. +.+...+..+..++.+.|++++|...+++..+.+ +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            56678888899999999999999999998753 2367889999999999999999999999998774 445678889999


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchH
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDL  203 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (217)
                      ++...|++++|...|....+.... +...+...+....+   ..++. -+......-...+......+ ..+. .|+.++
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~~i~~~l-~~l~-~~~~~~  153 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALR---IAKKK-RWNSIEERRIHQESELHSYL-TRLI-AAERER  153 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHH---HHHHH-HHHHHHHTCCCCCCHHHHHH-HHHH-HHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHH---HHHHH-HHHHHHHHHHhhhHHHHHHH-HHHH-HHHHHH
Confidence            999999999999999988764210 11111111111111   11111 12222333333444443333 3332 577788


Q ss_pred             HHHHHHHHhhhc
Q 035645          204 AEKIEQLEVSLR  215 (217)
Q Consensus       204 a~~~~~~~~~~~  215 (217)
                      |.+.++...+++
T Consensus       154 A~~~~~~al~~~  165 (281)
T 2c2l_A          154 ELEECQRNHEGH  165 (281)
T ss_dssp             HHTTTSGGGTTT
T ss_pred             HHHHHHhhhccc
Confidence            777766655544

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.81  E-value=8.1e-06  Score=59.16  Aligned_cols=188  Identities=7%  Similarity=-0.022  Sum_probs=145.3

Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC--chhHHHHHHHHHHhcCCCcchhhHHHHHHHH----Hhc-
Q 035645           21 LNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSG--EVEFCVEMYYSVCKLGSCADVSTYKILIPAV----SKA-   93 (217)
Q Consensus        21 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~----~~~-   93 (217)
                      .+....++|++.++.++..... +...|+.--.++...+  +++++++.++.+...+.. +..+|+.--.++    ... 
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            3444557999999999986432 6677888888888888  999999999999886433 455666555555    555 


Q ss_pred             --CCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChH--HHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCC----
Q 035645           94 --GMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFD--DAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGR----  165 (217)
Q Consensus        94 --~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~--~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~----  165 (217)
                        +++++++.+++.+.+.+ +-+..+|+.--..+.+.|.++  ++++.+..+.+.... |-..|+.-...+...++    
T Consensus       122 ~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~  199 (306)
T 3dra_A          122 NDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATD  199 (306)
T ss_dssp             TCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCH
T ss_pred             ccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchh
Confidence              78999999999999875 456778888888888899988  999999999987543 77888888777777777    


Q ss_pred             --HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchH-HHHHHHHHhh
Q 035645          166 --FVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDL-AEKIEQLEVS  213 (217)
Q Consensus       166 --~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~  213 (217)
                        ++++.+.+++..... +-|...|+.+-..+.+.|+... +..+.....+
T Consensus       200 ~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~  249 (306)
T 3dra_A          200 NTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVD  249 (306)
T ss_dssp             HHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEE
T ss_pred             hhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHh
Confidence              899999999998865 4577788888888888887544 5556555443

>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=98.81  E-value=1.6e-07  Score=59.46  Aligned_cols=100  Identities=10%  Similarity=-0.103  Sum_probs=86.9

Q ss_pred             cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHH
Q 035645           78 ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLI  157 (217)
Q Consensus        78 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  157 (217)
                      .+...+..+...+...|++++|...|++..+.. +.+...|..+..++...|++++|...+....... +.+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            467788899999999999999999999988765 4456788999999999999999999999998764 33678899999


Q ss_pred             HHHhcCCCHHHHHHHHHHHHHc
Q 035645          158 TMCGRGGRFVEAANYLMEMTEM  179 (217)
Q Consensus       158 ~~~~~~g~~~~a~~~~~~~~~~  179 (217)
                      .++...|++++|...|++..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHH
Confidence            9999999999999999998854

>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=98.79  E-value=9.7e-08  Score=59.64  Aligned_cols=61  Identities=11%  Similarity=0.097  Sum_probs=30.3

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE  108 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  108 (217)
                      .+..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...+++..+
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~   66 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHh
Confidence            34445555555555555555555554432 22344444555555555555555555555443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.78  E-value=1.4e-07  Score=61.88  Aligned_cols=100  Identities=12%  Similarity=-0.030  Sum_probs=88.0

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH
Q 035645           79 DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLIT  158 (217)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  158 (217)
                      +...+..+...+.+.|++++|...|++..+.. +.+...|..+..++.+.|++++|...|+...+.. +.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            56778889999999999999999999998875 4467789999999999999999999999998874 335889999999


Q ss_pred             HHhcCCCHHHHHHHHHHHHHcC
Q 035645          159 MCGRGGRFVEAANYLMEMTEMG  180 (217)
Q Consensus       159 ~~~~~g~~~~a~~~~~~~~~~~  180 (217)
                      ++...|++++|.+.|++..+..
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC
Confidence            9999999999999999998754

>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=98.78  E-value=1.5e-07  Score=58.72  Aligned_cols=109  Identities=11%  Similarity=0.149  Sum_probs=86.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC--cc----hhhH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC--AD----VSTY   83 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~   83 (217)
                      ...|..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+....  ++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4568888999999999999999999998764 347788889999999999999999999998764321  11    6678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHH
Q 035645           84 KILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPI  121 (217)
Q Consensus        84 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (217)
                      ..+..++...|++++|...|++..+..  |+......+
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l  118 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKC  118 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHH
Confidence            888888899999999999998888753  444444333

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.76  E-value=2.2e-06  Score=62.96  Aligned_cols=201  Identities=10%  Similarity=0.031  Sum_probs=111.2

Q ss_pred             HHHHHHHHHhcC-CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhc-C-chhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           13 RDLLVQGLLNAG-YLESAKQMVNKMIKQGSDPDLETFNSLIETICKS-G-EVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        13 ~~~ll~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      |+.--..+...| .+++++.+++.+.....+ +..+|+.--.++.+. + ++++++++++++.+.. +.|..+|+--.-+
T Consensus        91 Wn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wv  168 (349)
T 3q7a_A           91 WQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWL  168 (349)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            454444455555 366666666666655332 555565555444444 4 5666666666665542 2244555544444


Q ss_pred             HHhcCCHH--------HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC-------hHHHHHHHHHHHhcCCCCCHhHHH
Q 035645           90 VSKAGMID--------EAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQ-------FDDAFCFFSEIKIKGHPPNRPVYT  154 (217)
Q Consensus        90 ~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~-------~~~a~~~~~~~~~~~~~~~~~~~~  154 (217)
                      +.+.+.++        ++++.++++.+.+ +-+..+|+..-..+.+.+.       ++++++.+.+..... +-|...|+
T Consensus       169 l~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~  246 (349)
T 3q7a_A          169 YSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWN  246 (349)
T ss_dssp             HHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            44444444        6666666666654 3355566666666655554       466666666665542 23556665


Q ss_pred             HHHHHHhcCCCH--------------------HHHHHHHHHHHHcC-----CCCChhhHHHHHHHHHhcCCchHHHHHHH
Q 035645          155 TLITMCGRGGRF--------------------VEAANYLMEMTEMG-----LTPISRCFDLVTDGLKNCGKHDLAEKIEQ  209 (217)
Q Consensus       155 ~li~~~~~~g~~--------------------~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  209 (217)
                      -+-..+.+.|+.                    ....+...++...+     -.+++.....+++.|...|+.++|.++++
T Consensus       247 Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~  326 (349)
T 3q7a_A          247 YLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFE  326 (349)
T ss_dssp             HHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            554444444432                    22222222222211     13566778889999999999999999998


Q ss_pred             HHh-hhcCC
Q 035645          210 LEV-SLRSV  217 (217)
Q Consensus       210 ~~~-~~~~v  217 (217)
                      .+. +.+||
T Consensus       327 ~l~~~~dpi  335 (349)
T 3q7a_A          327 KLSSEYDQM  335 (349)
T ss_dssp             HHHHTTCGG
T ss_pred             HHHhhhChH
Confidence            886 55654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.74  E-value=9.9e-08  Score=61.83  Aligned_cols=97  Identities=15%  Similarity=0.062  Sum_probs=50.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-CC----hhhHHHHHHHHHhcCchhHHHHHHHHHHhcC----CCc-ch
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSD-PD----LETFNSLIETICKSGEVEFCVEMYYSVCKLG----SCA-DV   80 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~-~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~   80 (217)
                      .++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|.+.+++..+..    ..+ ..
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            34556666666667777776666665542100 01    1245555556666666666666666553310    000 12


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLV  107 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~  107 (217)
                      .++..+...+...|++++|...+++..
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~  116 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHL  116 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            344455555555555555555555543

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.73  E-value=2.4e-07  Score=57.72  Aligned_cols=94  Identities=10%  Similarity=-0.067  Sum_probs=51.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhc
Q 035645           83 YKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGR  162 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  162 (217)
                      +..+...+.+.|++++|...|++..+.. +.+...|..+..++...|++++|...|++..+.. +.+...+..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            3344455555666666666666655543 2244455555555666666666666666555542 1234455555555556


Q ss_pred             CCCHHHHHHHHHHHHH
Q 035645          163 GGRFVEAANYLMEMTE  178 (217)
Q Consensus       163 ~g~~~~a~~~~~~~~~  178 (217)
                      .|++++|...+++..+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            6666666666655544

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.72  E-value=3.4e-07  Score=57.00  Aligned_cols=96  Identities=13%  Similarity=0.050  Sum_probs=63.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVS   91 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   91 (217)
                      .+..+...+.+.|++++|...|++..+.. +.+...|..+..++...|++++|+..|++..+... .+...+..+..++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            45555666677777777777777776643 22566666777777777777777777777766432 24556666777777


Q ss_pred             hcCCHHHHHHHHHHHHhC
Q 035645           92 KAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~  109 (217)
                      ..|++++|...+++..+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC-
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            777777777777776654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.71  E-value=1.6e-07  Score=60.85  Aligned_cols=61  Identities=18%  Similarity=0.056  Sum_probs=32.2

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCC-cc----hhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSC-AD----VSTYKILIPAVSKAGMIDEAFRLLHNLV  107 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~  107 (217)
                      ++..+...+...|++++|+..+++..+.... ++    ..++..+...+...|++++|...+++..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~   76 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTL   76 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555556666666666666666655432100 01    1245555555555666666665555544

>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=98.71  E-value=6.2e-07  Score=68.88  Aligned_cols=122  Identities=13%  Similarity=-0.070  Sum_probs=67.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC--------------hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPD--------------LETFNSLIETICKSGEVEFCVEMYYSVCKLGSC   77 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~   77 (217)
                      .|..+...+.+.|++++|...|++..+......              ...|..+..+|.+.|++++|+..|++..+.. +
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  348 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-S  348 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-C
Confidence            455566666667777777777776665321111              3555566666666666666666666665542 2


Q ss_pred             cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHH
Q 035645           78 ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAF  135 (217)
Q Consensus        78 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~  135 (217)
                      .+...|..+..+|...|++++|...|++..+.. +.+..++..+..++.+.++.+++.
T Consensus       349 ~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          349 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            244555566666666666666666666665543 223445555555555555555443

>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=98.69  E-value=2e-08  Score=77.58  Aligned_cols=125  Identities=10%  Similarity=0.013  Sum_probs=98.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVS   91 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   91 (217)
                      .+..+...+.+.|++++|.+.+++..+.. +.+..+|..+..+|.+.|++++|++.+++..+.. +.+..++..+..+|.
T Consensus         8 ~~~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~   85 (477)
T 1wao_1            8 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   85 (477)
T ss_dssp             TSSSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            34444556778899999999999998863 3368899999999999999999999999998863 235788999999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHH--HHhcCChHHHHHHHH
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKG--AFRRGQFDDAFCFFS  139 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~--~~~~g~~~~a~~~~~  139 (217)
                      ..|++++|.+.|++..+.. +.+...+..+..+  +.+.|++++|.+.++
T Consensus        86 ~~g~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           86 ALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHTCHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999998764 3344556666555  888899999999988

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.69  E-value=5e-07  Score=64.35  Aligned_cols=129  Identities=9%  Similarity=-0.077  Sum_probs=88.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc--hhhHHHHHHHH
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD--VSTYKILIPAV   90 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~   90 (217)
                      +-.....+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...+.. .|.  ...+..+..++
T Consensus       105 ~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          105 TMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHH
Confidence            3445666777888888888888877643  433355556667788888888888887554321 111  23667777788


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCC--cccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           91 SKAGMIDEAFRLLHNLVEDGHNPF--PSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      .+.|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            888888888888888775432243  234555667777888888888888888775

>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=1.5e-08  Score=78.28  Aligned_cols=124  Identities=12%  Similarity=0.066  Sum_probs=79.9

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 035645           49 NSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR  128 (217)
Q Consensus        49 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (217)
                      ..+...+.+.|++++|++.|++..+.. +.+..++..+..+|.+.|++++|...+++..+.. +.+..++..+..++...
T Consensus        10 ~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~   87 (477)
T 1wao_1           10 KTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMAL   87 (477)
T ss_dssp             SSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            334445667778888888888777652 2246777777788888888888888888877764 33456777777778888


Q ss_pred             CChHHHHHHHHHHHhcCCCCCHhHHHHHHHH--HhcCCCHHHHHHHHHH
Q 035645          129 GQFDDAFCFFSEIKIKGHPPNRPVYTTLITM--CGRGGRFVEAANYLME  175 (217)
Q Consensus       129 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~a~~~~~~  175 (217)
                      |++++|...|++..+.. +.+...+..+..+  +.+.|++++|.+.+++
T Consensus        88 g~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           88 GKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            88888888887776652 1233444444444  6666777777777653

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.64  E-value=1.2e-06  Score=54.75  Aligned_cols=100  Identities=16%  Similarity=0.006  Sum_probs=80.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCc---ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC---HhHHHHH
Q 035645           83 YKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFP---SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN---RPVYTTL  156 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l  156 (217)
                      +..+...+...|++++|...|++..+.. +.+.   ..+..+..++.+.|++++|...|........ .+   ...+..+
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~l   82 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYP-THDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TSTTHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCC-CCcccHHHHHHH
Confidence            4456677889999999999999998764 2233   4777888999999999999999999887632 23   5678888


Q ss_pred             HHHHhcCCCHHHHHHHHHHHHHcCCCCChh
Q 035645          157 ITMCGRGGRFVEAANYLMEMTEMGLTPISR  186 (217)
Q Consensus       157 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  186 (217)
                      ..++...|++++|...|+++.+..  |+..
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~~--p~~~  110 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQY--PGSD  110 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS--TTSH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC--CCCh
Confidence            889999999999999999998764  5443

>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=98.64  E-value=2.2e-05  Score=57.38  Aligned_cols=185  Identities=8%  Similarity=0.017  Sum_probs=138.6

Q ss_pred             HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC--chhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCC-HHHHHHH
Q 035645           26 LESAKQMVNKMIKQGSDPDLETFNSLIETICKSG--EVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGM-IDEAFRL  102 (217)
Q Consensus        26 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~  102 (217)
                      +++++.+++.+..... -+..+|+.-...+...+  .+++++.+++++.+... .|..+|+--.-++...|. ++++++.
T Consensus        90 l~~EL~~~~~~L~~~P-Kny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRVNP-KSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCC-CCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            6789999999987643 38888888777777777  48999999999988643 477888877777888888 6999999


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHhc--------------CChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcC-----
Q 035645          103 LHNLVEDGHNPFPSLYAPIIKGAFRR--------------GQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRG-----  163 (217)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~ll~~~~~~--------------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----  163 (217)
                      +.++.+.+ +-|..+|+.....+.+.              +.++++++.+....... +-|...|+-+-..+.+.     
T Consensus       168 ~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~  245 (331)
T 3dss_A          168 TDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCE  245 (331)
T ss_dssp             HHHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGG
T ss_pred             HHHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccc
Confidence            99999876 45677787776666655              45788999999888763 34678887655555544     


Q ss_pred             ------CCHHHHHHHHHHHHHcCCCCChhhHHHHHH-----HHHhcCCchHHHHHHHHHhhhcCC
Q 035645          164 ------GRFVEAANYLMEMTEMGLTPISRCFDLVTD-----GLKNCGKHDLAEKIEQLEVSLRSV  217 (217)
Q Consensus       164 ------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-----~~~~~~~~~~a~~~~~~~~~~~~v  217 (217)
                            +.++++.+.++++.+..  ||. .|..+..     +....|..+++...++.+.+++|+
T Consensus       246 ~~~~~~~~l~~el~~~~elle~~--pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~  307 (331)
T 3dss_A          246 LSVEKSTVLQSELESCKELQELE--PEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPM  307 (331)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHC--TTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGG
T ss_pred             cchHHHHHHHHHHHHHHHHHhhC--ccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcc
Confidence                  45789999999998754  554 2333222     223567788999999999999874

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.64  E-value=3.2e-06  Score=52.71  Aligned_cols=94  Identities=12%  Similarity=0.081  Sum_probs=53.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCCh---hhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc---hhhHHHHH
Q 035645           14 DLLVQGLLNAGYLESAKQMVNKMIKQGSDPDL---ETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD---VSTYKILI   87 (217)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll   87 (217)
                      ..+...+...|++++|...|++..+.... +.   ..+..+..++.+.|++++|+..|++..+.... +   ..++..+.
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la   83 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHH
Confidence            34455566666666666666666653211 22   35555666666666666666666666553211 2   34455556


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 035645           88 PAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      .++...|++++|...|++..+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            6666666666666666666554

>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=98.62  E-value=8.2e-07  Score=68.19  Aligned_cols=131  Identities=11%  Similarity=-0.000  Sum_probs=95.2

Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc--------------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 035645           45 LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD--------------VSTYKILIPAVSKAGMIDEAFRLLHNLVEDG  110 (217)
Q Consensus        45 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  110 (217)
                      ...+..+...+.+.|++++|+..|++..+......              ...|..+..+|.+.|++++|...+++.++..
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            44667778888889999999999988876421111              4678888888888899999988888888764


Q ss_pred             CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHH-HHHHHH
Q 035645          111 HNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAAN-YLMEMT  177 (217)
Q Consensus       111 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~-~~~~~~  177 (217)
                       +.+..+|..+..++...|++++|...|++..+.. +-+...+..+..++...++.+++.+ .+..|.
T Consensus       348 -p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          348 -SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             -CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             3456778888888888889999988888887653 2245677777777877787776653 344443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.62  E-value=2.1e-07  Score=57.51  Aligned_cols=85  Identities=16%  Similarity=0.087  Sum_probs=41.4

Q ss_pred             cCchhHHHHHHHHHHhcC--CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHH
Q 035645           58 SGEVEFCVEMYYSVCKLG--SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAF  135 (217)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~  135 (217)
                      .|++++|+..|++..+.+  -+.+..++..+..+|...|++++|...|++..+.. +-+..++..+..++.+.|++++|.
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            345555555555555432  11233445555555555555555555555555443 223444555555555555555555


Q ss_pred             HHHHHHHh
Q 035645          136 CFFSEIKI  143 (217)
Q Consensus       136 ~~~~~~~~  143 (217)
                      ..+.....
T Consensus        82 ~~~~~al~   89 (117)
T 3k9i_A           82 ELLLKIIA   89 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555544

>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=98.58  E-value=1.5e-06  Score=64.84  Aligned_cols=96  Identities=14%  Similarity=0.030  Sum_probs=50.1

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhc---------------CCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 035645           48 FNSLIETICKSGEVEFCVEMYYSVCKL---------------GSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHN  112 (217)
Q Consensus        48 ~~~ll~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  112 (217)
                      +..+...+.+.|++++|+..|++..+.               .-+.+..+|..+..+|.+.|++++|...+++..+.. +
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  304 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  304 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-c
Confidence            555666677777777777777766541               001123444555555555555555555555555432 2


Q ss_pred             CCcccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645          113 PFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus       113 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      .+..+|..+..++...|++++|...|++..+.
T Consensus       305 ~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          305 SNTKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            23344444555555555555555555554443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.56  E-value=1.2e-07  Score=58.56  Aligned_cols=87  Identities=11%  Similarity=0.153  Sum_probs=69.4

Q ss_pred             hcCCHHHHHHHHHHHHhCC--CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHH
Q 035645           92 KAGMIDEAFRLLHNLVEDG--HNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEA  169 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  169 (217)
                      ..|++++|...|++..+.+  -+.+..++..+..++...|++++|...|++..+.. +-+..++..+..++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            4688999999999998864  12345678889999999999999999999998774 33578888999999999999999


Q ss_pred             HHHHHHHHHc
Q 035645          170 ANYLMEMTEM  179 (217)
Q Consensus       170 ~~~~~~~~~~  179 (217)
                      .+.+++....
T Consensus        81 ~~~~~~al~~   90 (117)
T 3k9i_A           81 VELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999988864

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.56  E-value=2.4e-06  Score=64.71  Aligned_cols=163  Identities=10%  Similarity=0.005  Sum_probs=118.7

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhcCCCcc----------------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC
Q 035645           52 IETICKSGEVEFCVEMYYSVCKLGSCAD----------------VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH-NPF  114 (217)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~  114 (217)
                      ...+.+.|++++|++.|..+.+......                ...+..+...|...|++++|.+.+.+..+.-- .++
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            4567788999999999999976432211                12477899999999999999999998765311 111


Q ss_pred             c----ccHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHHc--CC--
Q 035645          115 P----SLYAPIIKGAFRRGQFDDAFCFFSEIKIK----GHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMTEM--GL--  181 (217)
Q Consensus       115 ~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~--  181 (217)
                      .    .+.+.+-..+...|+++.|..++......    +..+. ..++..+...+...|++++|..++.+....  +.  
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    12333334455678999999999887542    33333 467888999999999999999999988742  11  


Q ss_pred             CC-ChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          182 TP-ISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       182 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      .+ ...++..++..|...|++++|..+++.....
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~  204 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTA  204 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            11 2357889999999999999999999877654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.55  E-value=5.4e-07  Score=69.55  Aligned_cols=123  Identities=10%  Similarity=0.008  Sum_probs=58.9

Q ss_pred             HHhcCCHHHHHHHHHHHhhC---CCCC----ChhhHHHHHHHHHhcCchhHHHHHHHHHHhc-----CC-Ccc-hhhHHH
Q 035645           20 LLNAGYLESAKQMVNKMIKQ---GSDP----DLETFNSLIETICKSGEVEFCVEMYYSVCKL-----GS-CAD-VSTYKI   85 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~---~~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~   85 (217)
                      +...|++++|..++++.++.   -+.|    ...+++.|...|...|++++|..++++..+.     |. .|+ ..+++.
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            33456666666666555431   1111    2334555666666666666666665554321     10 111 244555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC-----CC--CCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 035645           86 LIPAVSKAGMIDEAFRLLHNLVED-----GH--NPFPSLYAPIIKGAFRRGQFDDAFCFFSEIK  142 (217)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~-----~~--~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  142 (217)
                      |...|...|++++|..++++..+.     |.  +....+.+.+-.++...+.+++|+.+|..++
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            666666666666666555554321     11  1111233344444445555555555555554

>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=98.55  E-value=1.1e-06  Score=65.55  Aligned_cols=125  Identities=11%  Similarity=-0.059  Sum_probs=101.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhC---------------CCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVED---------------GHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG  145 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---------------~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  145 (217)
                      ..+..+...+.+.|++++|...|++..+.               ..+.+..+|..+..++.+.|++++|...+++..+..
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            45778888999999999999999988761               112245678899999999999999999999998763


Q ss_pred             CCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHH
Q 035645          146 HPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKI  207 (217)
Q Consensus       146 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  207 (217)
                       +.+...+..+..++...|++++|.+.|++..+.. +-+...+..+..++...++.+++.+.
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k~  363 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEKA  363 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence             3367889999999999999999999999998764 23566777888888888877777654

>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=98.54  E-value=2.3e-06  Score=55.47  Aligned_cols=62  Identities=16%  Similarity=0.021  Sum_probs=31.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCC-CcccH----HHHHHHHHhcCChHHHHHHHHHHHh
Q 035645           82 TYKILIPAVSKAGMIDEAFRLLHNLVED-----GHNP-FPSLY----APIIKGAFRRGQFDDAFCFFSEIKI  143 (217)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~~-~~~~~----~~ll~~~~~~g~~~~a~~~~~~~~~  143 (217)
                      .|..+..++.+.|++++|+..+++.++.     .+.| +...|    ...-.++...|++++|+..|++..+
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            4555555555555555555555554443     0122 23344    5555555566666666666555543

>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=98.54  E-value=9.5e-05  Score=54.06  Aligned_cols=191  Identities=9%  Similarity=-0.011  Sum_probs=136.0

Q ss_pred             HhcCCHH-HHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCc----------hhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           21 LNAGYLE-SAKQMVNKMIKQGSDPDLETFNSLIETICKSGE----------VEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        21 ~~~g~~~-~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      .+.|.++ +|+++++.+...+.. +..+|+.--..+...+.          +++++.+++.+..... -+..+|+.-.-+
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~P-Kny~aW~hR~wl  117 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWL  117 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            3456654 799999999986432 55567654333333332          6789999999987643 367788877777


Q ss_pred             HHhcC--CHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC-hHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcC---
Q 035645           90 VSKAG--MIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQ-FDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRG---  163 (217)
Q Consensus        90 ~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---  163 (217)
                      +.+.+  .+++++.+++.+.+.+ +-+..+|+.--......|. ++++++.+..+.+..+ -|...|+.....+...   
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-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQ  195 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHHSCC
T ss_pred             HhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhhhc
Confidence            77877  4899999999999876 4567788877778888888 5899999999988754 3677787766555443   


Q ss_pred             -----------CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc-----------CCchHHHHHHHHHhhhcC
Q 035645          164 -----------GRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNC-----------GKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       164 -----------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~  216 (217)
                                 +.++++.+.+....... +-|...|+.+-..+.+.           +.++++.+.++.+.+..|
T Consensus       196 ~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~p  269 (331)
T 3dss_A          196 PDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEP  269 (331)
T ss_dssp             C------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             cccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCc
Confidence                       45788999998888754 34556666555555554           346677777777766554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.53  E-value=3.2e-06  Score=55.18  Aligned_cols=63  Identities=11%  Similarity=0.009  Sum_probs=36.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      ..|..+..+|.+.|++++|...+++..+.+ +.+...|..+..++...|++++|...|......
T Consensus        64 ~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           64 PLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            455556666666666666666666665543 233455555666666666666666666665544

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.53  E-value=8.3e-05  Score=54.69  Aligned_cols=184  Identities=6%  Similarity=-0.012  Sum_probs=138.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC-chhHHHHHHHHHHhcCCCcchhhHHHHHHHHH
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSG-EVEFCVEMYYSVCKLGSCADVSTYKILIPAVS   91 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   91 (217)
                      ++.+-....+.+..++|++++++++..... +..+|+.--..+...+ .+++++++++.+..... -+..+|+.-..++.
T Consensus        57 ~~~~r~~~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nP-Kny~aW~hR~wlL~  134 (349)
T 3q7a_A           57 MDYFRAIAAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNL-KSYQVWHHRLLLLD  134 (349)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHH
Confidence            344444445566678999999999986533 6677888777777778 59999999999987643 36677887777777


Q ss_pred             hc-C-CHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChH--------HHHHHHHHHHhcCCCCCHhHHHHHHHHHh
Q 035645           92 KA-G-MIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFD--------DAFCFFSEIKIKGHPPNRPVYTTLITMCG  161 (217)
Q Consensus        92 ~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~--------~a~~~~~~~~~~~~~~~~~~~~~li~~~~  161 (217)
                      +. + ++++++.+++++.+.+ +-+..+|+.-...+.+.|.++        ++++.+.++.+... -|...|+.....+.
T Consensus       135 ~l~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~  212 (349)
T 3q7a_A          135 RISPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRV  212 (349)
T ss_dssp             HHCCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHT
T ss_pred             HhcCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            76 6 8899999999999875 446667776666666666666        89999999988754 37889999888888


Q ss_pred             cCCC-------HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCc
Q 035645          162 RGGR-------FVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKH  201 (217)
Q Consensus       162 ~~g~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (217)
                      +.++       ++++++.+++..... +-|...|+.+-..+.+.|..
T Consensus       213 ~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~  258 (349)
T 3q7a_A          213 SRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLP  258 (349)
T ss_dssp             TSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCC
T ss_pred             hccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCC
Confidence            8876       688999998888765 34666777766666666654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.52  E-value=5.8e-07  Score=69.41  Aligned_cols=124  Identities=10%  Similarity=0.032  Sum_probs=88.3

Q ss_pred             HHhcCchhHHHHHHHHHHhc---CCCc----chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C--CCCCcccHHH
Q 035645           55 ICKSGEVEFCVEMYYSVCKL---GSCA----DVSTYKILIPAVSKAGMIDEAFRLLHNLVED-----G--HNPFPSLYAP  120 (217)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~---~~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~  120 (217)
                      +...|++++|+.++++..+.   -+.|    ...+++.|..+|...|++++|..++++.++.     |  .+....+++.
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            55788999999988877542   1112    2467888999999999999998888876532     2  1122357888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHh-----cCCC-CC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          121 IIKGAFRRGQFDDAFCFFSEIKI-----KGHP-PN-RPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       121 ll~~~~~~g~~~~a~~~~~~~~~-----~~~~-~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      |...|...|++++|..++++...     .|.. |+ ..+.+.+-.++...+.+++|..++..+++
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88889999999999988887653     2321 22 34556666777788888888888888774

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.48  E-value=6.2e-07  Score=66.11  Aligned_cols=112  Identities=10%  Similarity=0.012  Sum_probs=54.7

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAF  126 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~  126 (217)
                      .+..+...+.+.|++++|+..|++..+.  .|+...       +...++.+++...+.          ..+|..+..++.
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~~  241 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHHH
Confidence            3445556666677777777777776553  233221       111112222211110          124455555555


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          127 RRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       127 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      +.|++++|...+....+.. +.+...|..+..++...|++++|...|++..+
T Consensus       242 ~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             TTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555432 22345555555555555555555555555443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.48  E-value=4.1e-06  Score=54.69  Aligned_cols=69  Identities=17%  Similarity=0.082  Sum_probs=59.3

Q ss_pred             cccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChh
Q 035645          115 PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISR  186 (217)
Q Consensus       115 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  186 (217)
                      ..+|..+..++.+.|++++|...+....... +.+...|..+..++...|++++|...|++..+..  |+..
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~--p~~~  131 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH--PAAA  131 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--GGGH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC--CCCH
Confidence            4678889999999999999999999998863 3468899999999999999999999999998864  5443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.47  E-value=6.2e-07  Score=66.10  Aligned_cols=116  Identities=11%  Similarity=-0.040  Sum_probs=81.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMC  160 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  160 (217)
                      ..+..+...+.+.|++++|...|++.....  |+..       .+...|+.+++...+.          ...|..+..++
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~-------~~~~~~~~~~~~~~l~----------~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDF-------MFQLYGKYQDMALAVK----------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHH-------HHTCCHHHHHHHHHHH----------THHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccch-------hhhhcccHHHHHHHHH----------HHHHHHHHHHH
Confidence            445566666777777888887777766542  2211       1222333333332221          13788899999


Q ss_pred             hcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          161 GRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       161 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .+.|++++|...+++..+.. +.+...+..+..+|...|++++|.+.++...++.|
T Consensus       241 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p  295 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAP  295 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC
Confidence            99999999999999998865 34677899999999999999999999999887764

>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=3.2e-05  Score=61.01  Aligned_cols=175  Identities=10%  Similarity=0.017  Sum_probs=135.0

Q ss_pred             CCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCc----------hhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhc
Q 035645           24 GYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE----------VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKA   93 (217)
Q Consensus        24 g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~   93 (217)
                      ..-++|++.++++.+.... +..+|+.--.++...++          ++++++.++.+.+... -+..+|+.-.-++.+.
T Consensus        43 ~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~p-K~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           43 ELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHc
Confidence            4456789999999886433 66678776666666666          8999999999988643 3677888888888888


Q ss_pred             C--CHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC-ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcC-------
Q 035645           94 G--MIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRG-QFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRG-------  163 (217)
Q Consensus        94 ~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-------  163 (217)
                      +  +++++.+.++++.+.+ +-+..+|+.--.++.+.| .++++.+.+.++.+..+ -|...|+.....+...       
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-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC-CCccHHHHHHHHHHhhccccccc
Confidence            9  7799999999999876 446778888888888888 89999999999887643 3677888776665542       


Q ss_pred             -------CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchH
Q 035645          164 -------GRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDL  203 (217)
Q Consensus       164 -------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (217)
                             +.++++.+.+++..... +-|...|..+-..+.+.++.++
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                   56789999998888755 3366678887777777776443

>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=98.43  E-value=4.5e-06  Score=54.10  Aligned_cols=98  Identities=17%  Similarity=0.010  Sum_probs=60.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-C-----Cc-----ccHHHHHHHHHhcCChHHHHHHHHHHHhc-----
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHN-P-----FP-----SLYAPIIKGAFRRGQFDDAFCFFSEIKIK-----  144 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~-----~~-----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-----  144 (217)
                      ..+......+.+.|++++|...|++..+.... |     +.     ..|..+-.++.+.|++++|+..++..++.     
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~   91 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG   91 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccc
Confidence            44566677777888888888888887765311 0     11     15666666666677777777776666553     


Q ss_pred             CCCCC-HhHH----HHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          145 GHPPN-RPVY----TTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       145 ~~~~~-~~~~----~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      .+.|+ ...|    .....++...|++++|...|++..+
T Consensus        92 e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           92 ELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            11233 3455    5666666666666666666666554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.36  E-value=9e-05  Score=57.47  Aligned_cols=189  Identities=15%  Similarity=0.045  Sum_probs=123.0

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcC------------
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLG------------   75 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------------   75 (217)
                      .+...|-..+..+.+.|+++.|..++++....  +.+...|.    .|+...+.++.   ++.+.+.-            
T Consensus       211 ~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~  281 (493)
T 2uy1_A          211 YAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVF  281 (493)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---HHHHHHHTC----------C
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---HHHHHHHHHhhccchhhhhc
Confidence            34567777888888899999999999999887  33333322    22222222222   33332210            


Q ss_pred             CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc-CChHHHHHHHHHHHhcCCCCCHhHHH
Q 035645           76 SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR-GQFDDAFCFFSEIKIKGHPPNRPVYT  154 (217)
Q Consensus        76 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~  154 (217)
                      .......|...+....+.+..+.|..+|++. ... ..+..+|......-... ++.+.|..+|+...+.. +-++..+.
T Consensus       282 ~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~  358 (493)
T 2uy1_A          282 SKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKE  358 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHH
Confidence            0112355777777777788899999999998 321 12333443322222223 36999999999988762 22455667


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          155 TLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       155 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      ..++.....|+.+.|..+|+...     .....|...+.-=...|+.+.+.++++...+
T Consensus       359 ~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          359 EFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77887788899999999998862     2456677777766778999999998777663

>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=98.35  E-value=3.3e-05  Score=49.10  Aligned_cols=110  Identities=11%  Similarity=-0.073  Sum_probs=55.6

Q ss_pred             CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh----cCCHHHHH
Q 035645           25 YLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK----AGMIDEAF  100 (217)
Q Consensus        25 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~  100 (217)
                      ++++|.+.|++..+.| .|...    +...|...+..++|++.|++..+.|   +...+..+...|..    .+++++|.
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            4555666666655554 11222    4444444455555555555555432   34445555555555    45555555


Q ss_pred             HHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHHHHHHHHHHHhcC
Q 035645          101 RLLHNLVEDGHNPFPSLYAPIIKGAFR----RGQFDDAFCFFSEIKIKG  145 (217)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~  145 (217)
                      .+|++..+.|   +...+..+-..|..    .++.++|...|+...+.|
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            5555555543   33444444444444    455555555555554443

>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=98.33  E-value=2.9e-05  Score=49.34  Aligned_cols=113  Identities=11%  Similarity=-0.014  Sum_probs=88.1

Q ss_pred             cCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHH
Q 035645           58 SGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR----RGQFDD  133 (217)
Q Consensus        58 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~g~~~~  133 (217)
                      .+++++|++.|++..+.|. |+.  .  +...|...+.+++|.++|++..+.|   +...+..+-..|..    .+++++
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 KKDLKKAIQYYVKACELNE-MFG--C--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTC-TTH--H--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHcCCC-Hhh--h--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            3578889999998887762 222  2  6667777788888999999888875   56677777777877    788999


Q ss_pred             HHHHHHHHHhcCCCCCHhHHHHHHHHHhc----CCCHHHHHHHHHHHHHcCC
Q 035645          134 AFCFFSEIKIKGHPPNRPVYTTLITMCGR----GGRFVEAANYLMEMTEMGL  181 (217)
Q Consensus       134 a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~  181 (217)
                      |...|++..+.|   +...+..|...|..    .+++++|.++|++..+.|.
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999999888775   56677778888877    7889999999988887763

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.30  E-value=6.9e-07  Score=54.18  Aligned_cols=65  Identities=12%  Similarity=0.161  Sum_probs=43.1

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL   74 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   74 (217)
                      +...|..+...+.+.|++++|...|++..+.. +.+...+..+..++.+.|++++|+..+++..+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            44556666677777777777777777766543 225566666777777777777777777776653

>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=98.21  E-value=0.00015  Score=57.17  Aligned_cols=153  Identities=5%  Similarity=-0.087  Sum_probs=119.6

Q ss_pred             chhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCC----------HHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 035645           60 EVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGM----------IDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRG  129 (217)
Q Consensus        60 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g  129 (217)
                      ..++|++.++.+...+.. +..+|+.--.++...++          ++++.+.++.+.+.+ +-+..+|+.--.++.+.|
T Consensus        44 ~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcc
Confidence            346889999999885422 45667776667777776          899999999999875 446678888888888999


Q ss_pred             --ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCC-CHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc--------
Q 035645          130 --QFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGG-RFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNC--------  198 (217)
Q Consensus       130 --~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------  198 (217)
                        +++++.+.+.++.+... -+..+|+.-...+.+.| .++++.+.++++.+.. .-|...|+.....+.+.        
T Consensus       122 ~~~~~~el~~~~k~l~~d~-~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          122 EPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhhcc-ccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhcccccccc
Confidence              77999999999998753 37888988888888888 8999999999988765 34666777776666653        


Q ss_pred             ------CCchHHHHHHHHHhhhcC
Q 035645          199 ------GKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       199 ------~~~~~a~~~~~~~~~~~~  216 (217)
                            +.++++.+.++.+...+|
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~~~P  223 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFFTDP  223 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHCS
T ss_pred             cccccHHHHHHHHHHHHHHHhhCC
Confidence                  456888888888877665

>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=1.1e-05  Score=48.78  Aligned_cols=65  Identities=15%  Similarity=0.110  Sum_probs=47.1

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      +...+..+...+...|++++|++.|++..+.. +.+...+..+..++.+.|++++|...+++..+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            45566677777777888888888888777653 235666777777777888888888888777765

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.16  E-value=1.7e-05  Score=48.50  Aligned_cols=80  Identities=15%  Similarity=0.007  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645           98 EAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      +|...|++..+.. +.+...+..+...+...|++++|...|+...... +.+...|..+..++...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5778888888764 4456788889999999999999999999998763 3357788899999999999999999999887


Q ss_pred             Hc
Q 035645          178 EM  179 (217)
Q Consensus       178 ~~  179 (217)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            64

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.11  E-value=7e-05  Score=43.25  Aligned_cols=63  Identities=17%  Similarity=0.229  Sum_probs=34.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL   74 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   74 (217)
                      ..+..+...+...|++++|...+++..+.. +.+...+..+..++.+.|++++|+..|++..+.
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            445555555666666666666666655432 224445555555556666666666666555543

>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=5.1e-05  Score=43.86  Aligned_cols=63  Identities=24%  Similarity=0.275  Sum_probs=34.7

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 035645           46 ETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        46 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      ..+..+...+...|++++|+..|++..+.. +.+..++..+..++.+.|++++|...+++..+.
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            345555555566666666666666655432 123445555555556666666666666555543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.08  E-value=4.1e-05  Score=46.67  Aligned_cols=62  Identities=11%  Similarity=-0.022  Sum_probs=28.4

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 035645           80 VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIK  142 (217)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  142 (217)
                      ...+..+...+...|++++|...|++..+.+ +.+...|..+..++...|++++|...|+...
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444444444444455555554444444432 1223344444444555555555555554443

>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=98.06  E-value=3.2e-05  Score=50.05  Aligned_cols=97  Identities=10%  Similarity=0.075  Sum_probs=66.8

Q ss_pred             HhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCch----------hHHHHHHHHHHhcCCCcchhhHHHHHHHH
Q 035645           21 LNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEV----------EFCVEMYYSVCKLGSCADVSTYKILIPAV   90 (217)
Q Consensus        21 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~ll~~~   90 (217)
                      .+.+++++|.+.++...+.. +-+...|..+..++.+.+++          ++|+..|++..+... -+..+|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP-~~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP-KKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCc-CcHHHHHHHHHHH
Confidence            45567888888888888764 33777888777788877765          488888888877532 2456777888888


Q ss_pred             HhcC-----------CHHHHHHHHHHHHhCCCCCCcccHHHH
Q 035645           91 SKAG-----------MIDEAFRLLHNLVEDGHNPFPSLYAPI  121 (217)
Q Consensus        91 ~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l  121 (217)
                      .+.|           ++++|...|++..+.  .|+...|...
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~a  130 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKS  130 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            7764           677777777777665  3554444333

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.98  E-value=4.7e-05  Score=45.35  Aligned_cols=86  Identities=14%  Similarity=0.120  Sum_probs=65.4

Q ss_pred             CcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCC-CCChhhHHHHH
Q 035645          114 FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGL-TPISRCFDLVT  192 (217)
Q Consensus       114 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~  192 (217)
                      +...+..+...+...|++++|...|+...+.. +.+...|..+..++...|++++|.+.+++..+... .++......+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~l~   84 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSELQ   84 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHHHH
Confidence            46678888999999999999999999998764 23567889999999999999999999998875321 24555555555


Q ss_pred             HHHHhcCC
Q 035645          193 DGLKNCGK  200 (217)
Q Consensus       193 ~~~~~~~~  200 (217)
                      ..+...+.
T Consensus        85 ~~l~~~~~   92 (100)
T 3ma5_A           85 DAKLKAEG   92 (100)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHccc
Confidence            55554443

>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=97.93  E-value=5.7e-05  Score=48.85  Aligned_cols=99  Identities=13%  Similarity=-0.027  Sum_probs=69.2

Q ss_pred             HhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCH----------HHHHHHHHHHHhCCCCCCcccHHHHHHHH
Q 035645           56 CKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMI----------DEAFRLLHNLVEDGHNPFPSLYAPIIKGA  125 (217)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~ll~~~  125 (217)
                      .+.+.+++|...++...+.. +.+...|..+..++...+++          ++|+..|++..+.+ +-+..+|..+-.+|
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 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            45677889999999888764 23677888888888887765          48888888877764 33456777777887


Q ss_pred             HhcC-----------ChHHHHHHHHHHHhcCCCCCHhHHHHHHH
Q 035645          126 FRRG-----------QFDDAFCFFSEIKIKGHPPNRPVYTTLIT  158 (217)
Q Consensus       126 ~~~g-----------~~~~a~~~~~~~~~~~~~~~~~~~~~li~  158 (217)
                      ...|           ++++|...|++..+.  .|+...|...+.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~  132 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            7664           677777777777664  455444444433

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.91  E-value=0.00011  Score=43.76  Aligned_cols=62  Identities=13%  Similarity=0.102  Sum_probs=33.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVC   72 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   72 (217)
                      ...+..+...+.+.|++++|...|++..+... .+...|..+..+|...|++++|++.|++..
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETDP-DYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44455555555555555555555555554421 134455555555555555555555555544

>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=97.85  E-value=0.00019  Score=54.62  Aligned_cols=91  Identities=15%  Similarity=0.086  Sum_probs=55.5

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhcC---CCc----chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C--CCCCccc
Q 035645           52 IETICKSGEVEFCVEMYYSVCKLG---SCA----DVSTYKILIPAVSKAGMIDEAFRLLHNLVED-----G--HNPFPSL  117 (217)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~  117 (217)
                      +..+.+.|++++|+.++++..+..   +.|    ...+++.+..+|...|++++|..++++.+..     |  .+....+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            334455667777777777665321   112    2356777777777777777777777765531     1  1112345


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 035645          118 YAPIIKGAFRRGQFDDAFCFFSEIK  142 (217)
Q Consensus       118 ~~~ll~~~~~~g~~~~a~~~~~~~~  142 (217)
                      ++.|...|...|++++|..++++..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            6777777777777777777777654

>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=97.84  E-value=0.00011  Score=55.99  Aligned_cols=84  Identities=4%  Similarity=-0.155  Sum_probs=46.6

Q ss_pred             CchhHHHHHHHHHHhc---CCCc----chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC-CC-CcccHHHHHHH
Q 035645           59 GEVEFCVEMYYSVCKL---GSCA----DVSTYKILIPAVSKAGMIDEAFRLLHNLVED-----GH-NP-FPSLYAPIIKG  124 (217)
Q Consensus        59 ~~~~~a~~~~~~~~~~---~~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~-~~~~~~~ll~~  124 (217)
                      |++++|+.++++..+.   -+.|    ...+++.+..+|...|++++|..++++.++.     |. .| ...+++.|...
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            4566666666555321   1111    1255666666666666666666666665421     11 11 22356666666


Q ss_pred             HHhcCChHHHHHHHHHHH
Q 035645          125 AFRRGQFDDAFCFFSEIK  142 (217)
Q Consensus       125 ~~~~g~~~~a~~~~~~~~  142 (217)
                      |...|++++|..++++..
T Consensus       392 ~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHH
Confidence            777777777766666654

>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=97.82  E-value=7e-05  Score=56.98  Aligned_cols=85  Identities=8%  Similarity=-0.023  Sum_probs=66.3

Q ss_pred             CCHHHHHHHHHHHHhC---CCCC----CcccHHHHHHHHHhcCChHHHHHHHHHHHhc-----CC-CCC-HhHHHHHHHH
Q 035645           94 GMIDEAFRLLHNLVED---GHNP----FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK-----GH-PPN-RPVYTTLITM  159 (217)
Q Consensus        94 ~~~~~a~~~~~~~~~~---~~~~----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~li~~  159 (217)
                      |++++|..++++.++.   -+.|    ...+++.+..+|...|++++|..++++...-     |. .|+ ..+++.|...
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            5788888888876642   1122    2467899999999999999999999987542     31 233 5789999999


Q ss_pred             HhcCCCHHHHHHHHHHHHH
Q 035645          160 CGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~  178 (217)
                      |...|++++|..++++..+
T Consensus       392 ~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHH
Confidence            9999999999999998763

>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=97.81  E-value=0.00011  Score=55.84  Aligned_cols=91  Identities=9%  Similarity=0.061  Sum_probs=69.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCC---CCC----CcccHHHHHHHHHhcCChHHHHHHHHHHHhc-----C-CCCC-HhH
Q 035645           87 IPAVSKAGMIDEAFRLLHNLVEDG---HNP----FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK-----G-HPPN-RPV  152 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-----~-~~~~-~~~  152 (217)
                      +..+.+.|++++|..++++.++..   +.|    ...+++.+..+|...|++++|..++++...-     | -.|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            455667889999999999887541   112    2357888899999999999999999887532     2 1222 468


Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645          153 YTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus       153 ~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      ++.|...|...|++++|..++++..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            8889999999999999999988876

>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=97.76  E-value=0.0024  Score=47.22  Aligned_cols=144  Identities=10%  Similarity=0.002  Sum_probs=83.5

Q ss_pred             CCCChhhHHHHHHHHHh-----cCchhHHHHHHHHHHhcCCCcch-hhHHHHHHHHH----hcC-CHHHH---HHHHHHH
Q 035645           41 SDPDLETFNSLIETICK-----SGEVEFCVEMYYSVCKLGSCADV-STYKILIPAVS----KAG-MIDEA---FRLLHNL  106 (217)
Q Consensus        41 ~~~~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~----~~~-~~~~a---~~~~~~~  106 (217)
                      .+.+...|...+.+...     ..+..+|..+|++..+.  .|+- ..+..+.-+|.    ..+ .....   ...+...
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            35566777666655432     22346778888877763  3442 33332222221    111 11111   1112211


Q ss_pred             HhC-CCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCCh
Q 035645          107 VED-GHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPIS  185 (217)
Q Consensus       107 ~~~-~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  185 (217)
                      ... ..+.+..+|..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.+.+....+  |..
T Consensus       268 ~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~--P~~  343 (372)
T 3ly7_A          268 VTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLR--PGA  343 (372)
T ss_dssp             HTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CSH
T ss_pred             HhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCc
Confidence            111 114456677777666667788888888888887774  677777777777888888888888888777653  666


Q ss_pred             hhHHH
Q 035645          186 RCFDL  190 (217)
Q Consensus       186 ~~~~~  190 (217)
                      .+|..
T Consensus       344 ~t~~~  348 (372)
T 3ly7_A          344 NTLYW  348 (372)
T ss_dssp             HHHHH
T ss_pred             ChHHH
Confidence            65543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.76  E-value=0.0012  Score=51.28  Aligned_cols=173  Identities=9%  Similarity=-0.088  Sum_probs=110.9

Q ss_pred             HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 035645           26 LESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHN  105 (217)
Q Consensus        26 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  105 (217)
                      .+++..+|++++... +.+...|...+..+.+.|+.+.|..+|++....  +.+...+.    .|....+.++.   ++.
T Consensus       195 ~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~~~  264 (493)
T 2uy1_A          195 ESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---YGD  264 (493)
T ss_dssp             HHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---HHH
T ss_pred             HHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---HHH
Confidence            355778888888753 446788888888889999999999999999887  33333222    23222222222   222


Q ss_pred             HHhCC---------C---CCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhc-CCCHHHHHHH
Q 035645          106 LVEDG---------H---NPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGR-GGRFVEAANY  172 (217)
Q Consensus       106 ~~~~~---------~---~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~a~~~  172 (217)
                      +.+.-         .   .....+|...+....+.+..+.|..+|... .. ...+...|......-.. .++.+.|..+
T Consensus       265 l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~i  342 (493)
T 2uy1_A          265 LKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNI  342 (493)
T ss_dssp             HHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHH
T ss_pred             HHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHH
Confidence            22110         0   011245677777777788999999999998 32 12234444432222222 2369999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          173 LMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      |+...+.. +-+...+...++-....|+.+.|..+++..
T Consensus       343 fe~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          343 FSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99988753 122344556677778889999999998875

>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=97.74  E-value=0.00086  Score=49.55  Aligned_cols=137  Identities=12%  Similarity=-0.024  Sum_probs=94.9

Q ss_pred             CCcchhhHHHHHHHHHh--cC---CHHHHHHHHHHHHhCCCCCC-cccHHHHHHHHHh----cCC-hHHHH---HHHHHH
Q 035645           76 SCADVSTYKILIPAVSK--AG---MIDEAFRLLHNLVEDGHNPF-PSLYAPIIKGAFR----RGQ-FDDAF---CFFSEI  141 (217)
Q Consensus        76 ~~~~~~~~~~ll~~~~~--~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~----~g~-~~~a~---~~~~~~  141 (217)
                      .+.+...|...+.+...  .+   ...+|..+|++..+..  |+ ...|..+..++..    .+. .....   .-+...
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD--P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS--PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            45577888888877543  22   3478999999999874  44 3455544444321    111 11111   112211


Q ss_pred             Hh-cCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          142 KI-KGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       142 ~~-~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .. ...+.+..+|..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.++.+..++|
T Consensus       268 ~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P  341 (372)
T 3ly7_A          268 VTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRP  341 (372)
T ss_dssp             HTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             HhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            11 1224567888888777777899999999999999876  7888888889999999999999999999998887

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.73  E-value=0.0011  Score=54.27  Aligned_cols=101  Identities=16%  Similarity=0.141  Sum_probs=63.7

Q ss_pred             HHHHhcCCHHHHHH-HHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCH
Q 035645           18 QGLLNAGYLESAKQ-MVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMI   96 (217)
Q Consensus        18 ~~~~~~g~~~~a~~-~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~   96 (217)
                      ......++++.|.+ ++..+      |+......++..+.+.|.+++|+++.+.-       .     .-.......|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~~-------~-----~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPDQ-------D-----QKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCCH-------H-----HHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCCc-------c-----hheehhhhcCCH
Confidence            34456788888876 54221      11223366777777888888877665311       1     112334567888


Q ss_pred             HHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 035645           97 DEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIK  142 (217)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  142 (217)
                      ++|.++.+.+      .+...|..+...+.+.|+++.|.++|..+.
T Consensus       669 ~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          669 TLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            8887775433      345678888888888888888888887764

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.64  E-value=0.0049  Score=50.51  Aligned_cols=131  Identities=11%  Similarity=0.099  Sum_probs=85.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      ...++..+.+.|.++.|.++.+.-            ..-.....+.|++++|.++.+.+      .+...|..+...+.+
T Consensus       632 ~~~~~~~l~~~~~~~~a~~~~~~~------------~~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~  693 (814)
T 3mkq_A          632 LTKIARFLEGQEYYEEALNISPDQ------------DQKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQ  693 (814)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHCCCH------------HHHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCChHHheecCCCc------------chheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHH
Confidence            367777788888888888765321            11134456789999999886433      366789999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHH
Q 035645           93 AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANY  172 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  172 (217)
                      .++++.|.+.|.++..         |..+...+...|+.+....+-+.....|.      ++....++.+.|++++|.++
T Consensus       694 ~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~  758 (814)
T 3mkq_A          694 RFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK------FNLAFNAYWIAGDIQGAKDL  758 (814)
T ss_dssp             TTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc------hHHHHHHHHHcCCHHHHHHH
Confidence            9999999999998743         34455555556666665555555444431      23333334445555555555


Q ss_pred             HHHH
Q 035645          173 LMEM  176 (217)
Q Consensus       173 ~~~~  176 (217)
                      +.++
T Consensus       759 ~~~~  762 (814)
T 3mkq_A          759 LIKS  762 (814)
T ss_dssp             HHHT
T ss_pred             HHHc
Confidence            5443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.54  E-value=0.0005  Score=40.38  Aligned_cols=58  Identities=19%  Similarity=0.302  Sum_probs=36.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCChh-hHHHHHHHHHhcCchhHHHHHHHHHHhc
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLE-TFNSLIETICKSGEVEFCVEMYYSVCKL   74 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~   74 (217)
                      ....+.+.|++++|...+++..+.. +.+.. .+..+..++...|++++|+..|++..+.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3445556677777777777666542 22445 6666666666677777777777666654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.51  E-value=0.0076  Score=39.61  Aligned_cols=129  Identities=16%  Similarity=0.197  Sum_probs=93.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHH
Q 035645           18 QGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMID   97 (217)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~   97 (217)
                      ....+.|+++.|.++.+.+      -+...|..|.......|+++-|.+.|.+...         +..+.-.|...|+.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            3456789999999998876      3788999999999999999999999988754         556667788888888


Q ss_pred             HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHH
Q 035645           98 EAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEM  176 (217)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  176 (217)
                      +..++-+.....|      -++.....+...|+++++.++|.+..   .-|...      ......|-.+.|.++...+
T Consensus        78 ~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~---r~~eA~------~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           78 KLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGG---SLPLAY------AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTT---CHHHHH------HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCC---ChHHHH------HHHHHcCcHHHHHHHHHHh
Confidence            8777766665554      25667777888999999999987433   222111      1112255667777777655

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.50  E-value=0.00033  Score=41.21  Aligned_cols=57  Identities=14%  Similarity=0.167  Sum_probs=34.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCcc-cHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           87 IPAVSKAGMIDEAFRLLHNLVEDGHNPFPS-LYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      ...+.+.|++++|...|++..+.. +.+.. .+..+..++...|++++|...|+...+.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            445556666666666666666543 22334 5566666666666666666666666554

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.49  E-value=0.0012  Score=42.30  Aligned_cols=82  Identities=13%  Similarity=0.062  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC---ChHHHHHHHHHHHhcCCCC--CHhHHHHHHHHHhcCCCHHHHH
Q 035645           96 IDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRG---QFDDAFCFFSEIKIKGHPP--NRPVYTTLITMCGRGGRFVEAA  170 (217)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g---~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~  170 (217)
                      ...+.+-|.+..+.+ .++..+.-.+..++++.+   +.+++..+++...+.. .|  +...+-.+.-++.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            455566666665555 356666666667777766   5557777777776653 23  2344445556667777777777


Q ss_pred             HHHHHHHHc
Q 035645          171 NYLMEMTEM  179 (217)
Q Consensus       171 ~~~~~~~~~  179 (217)
                      +.++.+.+.
T Consensus        92 ~y~~~lL~i  100 (152)
T 1pc2_A           92 KYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            777777764

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.37  E-value=0.004  Score=37.16  Aligned_cols=67  Identities=7%  Similarity=0.046  Sum_probs=47.9

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCC------CCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQG------SDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL   74 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   74 (217)
                      .+...+-.+...+.+.|++..|...|+...+.-      -.+....+..+..++.+.|+++.|+..+++..+.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            455666777888888888888888888776531      1234566777777888888888888888777663

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.37  E-value=0.0019  Score=38.63  Aligned_cols=71  Identities=11%  Similarity=0.029  Sum_probs=55.5

Q ss_pred             CcccHHHHHHHHHhcCChHHHHHHHHHHHhcC------CCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChh
Q 035645          114 FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG------HPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISR  186 (217)
Q Consensus       114 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  186 (217)
                      +...+..+...+.+.|+++.|...|+...+..      -.+....+..+..++.+.|+++.|...+++..+.  .|+..
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l--~P~~~   80 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DPEHQ   80 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc--CCCCH
Confidence            44556678888999999999999999876531      1234678889999999999999999999998875  45543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.20  E-value=0.012  Score=37.62  Aligned_cols=83  Identities=11%  Similarity=0.054  Sum_probs=58.7

Q ss_pred             CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC---chhHHHHHHHHHHhcCCCc--chhhHHHHHHHHHhcCCHHHH
Q 035645           25 YLESAKQMVNKMIKQGSDPDLETFNSLIETICKSG---EVEFCVEMYYSVCKLGSCA--DVSTYKILIPAVSKAGMIDEA   99 (217)
Q Consensus        25 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a   99 (217)
                      ....+.+-|.+....|. ++..+.-.+..++++.+   +.++++.+++...+.. .|  ....+-.+.-++.+.+++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            34556666666666554 57777777777888877   6668888888887754 23  344555566677888888888


Q ss_pred             HHHHHHHHhC
Q 035645          100 FRLLHNLVED  109 (217)
Q Consensus       100 ~~~~~~~~~~  109 (217)
                      .+.++.+++.
T Consensus        91 ~~y~~~lL~i  100 (152)
T 1pc2_A           91 LKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            8888888876

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.10  E-value=0.0053  Score=35.86  Aligned_cols=68  Identities=12%  Similarity=0.032  Sum_probs=54.7

Q ss_pred             CCCcccHHHHHHHHHhcCC---hHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcC
Q 035645          112 NPFPSLYAPIIKGAFRRGQ---FDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG  180 (217)
Q Consensus       112 ~~~~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  180 (217)
                      +.+...+..+..++...++   .++|..++++..... +-+......+...+.+.|++++|...|+.+.+..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            3456677777777765554   799999999998874 3367888888899999999999999999999865

>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=96.99  E-value=0.021  Score=40.80  Aligned_cols=82  Identities=12%  Similarity=0.051  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHhcCCCcc---hhhHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc-CChHH
Q 035645           63 FCVEMYYSVCKLGSCAD---VSTYKILIPAVSKA-----GMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR-GQFDD  133 (217)
Q Consensus        63 ~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~-g~~~~  133 (217)
                      .|...+++..+.  .|+   -..|..+...|.+.     |+.++|...|++.++.+-.-+..++......+++. |+.++
T Consensus       181 ~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          181 AAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            444455555442  233   34555566556553     66666666666666543211244555555555553 66666


Q ss_pred             HHHHHHHHHhcCC
Q 035645          134 AFCFFSEIKIKGH  146 (217)
Q Consensus       134 a~~~~~~~~~~~~  146 (217)
                      +.+.+++......
T Consensus       259 a~~~L~kAL~a~p  271 (301)
T 3u64_A          259 FDEALDRALAIDP  271 (301)
T ss_dssp             HHHHHHHHHHCCG
T ss_pred             HHHHHHHHHcCCC
Confidence            6666666655433

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.96  E-value=0.019  Score=33.41  Aligned_cols=65  Identities=8%  Similarity=-0.019  Sum_probs=31.0

Q ss_pred             ChhhHHHHHHHHHhcCc---hhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 035645           44 DLETFNSLIETICKSGE---VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      +...+..+..++...++   .++|..++++..+.. +-+......+...+.+.|++++|+..|+++.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34444444444433332   455555555554432 113444445555555555555555555555544

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.90  E-value=0.014  Score=36.04  Aligned_cols=88  Identities=15%  Similarity=0.058  Sum_probs=45.7

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHH---HHHHHHHHHhcCCCC--CHhHHHHHHHHHhcCC
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDD---AFCFFSEIKIKGHPP--NRPVYTTLITMCGRGG  164 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~---a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g  164 (217)
                      -........+.+-|......| .++..+--.+..++.+..+...   ++.++..+...+ .|  .....-.+.-++.+.|
T Consensus        11 ~~~~~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg   88 (126)
T 1nzn_A           11 LVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLK   88 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTT
T ss_pred             cCCHHHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhh
Confidence            333344445555555554444 2444554455556666655444   666666655542 12  1223333445566666


Q ss_pred             CHHHHHHHHHHHHHc
Q 035645          165 RFVEAANYLMEMTEM  179 (217)
Q Consensus       165 ~~~~a~~~~~~~~~~  179 (217)
                      ++++|.+.++.+.+.
T Consensus        89 ~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           89 EYEKALKYVRGLLQT  103 (126)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHh
Confidence            666666666666653

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.75  E-value=0.055  Score=35.56  Aligned_cols=130  Identities=12%  Similarity=0.090  Sum_probs=93.1

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCh
Q 035645           52 IETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQF  131 (217)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~  131 (217)
                      .....+.|+++.|.++.+.+      .+...|..|.....+.|+++-|.+.|....+         +..+.-.|.-.|+.
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            44556789999999997766      3677899999999999999999999987642         55667777888998


Q ss_pred             HHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          132 DDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       132 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      +....+-+.....|      -++.....+...|+++++.++|.+   .|..|-.      .......|-.+.|.++.+.+
T Consensus        77 e~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~---~~r~~eA------~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           77 NKLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAE---GGSLPLA------YAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHH---TTCHHHH------HHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHH---CCChHHH------HHHHHHcCcHHHHHHHHHHh
Confidence            88777766665554      255666667778999999998854   3322221      12223356777777776543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.64  E-value=0.053  Score=33.96  Aligned_cols=130  Identities=15%  Similarity=0.175  Sum_probs=60.4

Q ss_pred             hHHHHHHH--HHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC------------
Q 035645           12 GRDLLVQG--LLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC------------   77 (217)
Q Consensus        12 ~~~~ll~~--~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~------------   77 (217)
                      +.-.|+.+  ..-.|.+++..++..+..++.   +..-+|-++--....-+-+-..++++.+-+. +.            
T Consensus         7 l~kkLmeAK~~ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki-FDis~C~NlKrVi~   82 (172)
T 1wy6_A            7 IIRKLMDAKKFLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY-FDLDKCQNLKSVVE   82 (172)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG-SCGGGCSCTHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhh-cCcHhhhcHHHHHH
Confidence            34445554  445688888888888887642   3334444443333333444444444444321 11            


Q ss_pred             ------cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 035645           78 ------ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGH  146 (217)
Q Consensus        78 ------~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  146 (217)
                            .+...+...++.+...|+-+...+++..+... .+|++.....+..+|.+.|+..+|.+++.+.-+.|+
T Consensus        83 C~~~~n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           83 CGVINNTLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHTTCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhcchHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence                  12333344444444444444444444443221 133444444444444444444444444444444443

>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=96.63  E-value=0.048  Score=34.77  Aligned_cols=103  Identities=11%  Similarity=0.062  Sum_probs=56.8

Q ss_pred             ChhhHHHHHHHHHhcCch------hHHHHHHHHHHhcCCCcchh-hHHHHHHH------HHhcCCHHHHHHHHHHHHhCC
Q 035645           44 DLETFNSLIETICKSGEV------EFCVEMYYSVCKLGSCADVS-TYKILIPA------VSKAGMIDEAFRLLHNLVEDG  110 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~ll~~------~~~~~~~~~a~~~~~~~~~~~  110 (217)
                      |..+|-..+...-+.|+.      ++..++|++.... ++|+.. .+...+..      +...++.++|.++|+.+++.+
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            444444444444444555      5666666666553 444321 11111111      122367777777777776543


Q ss_pred             CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 035645          111 HNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPP  148 (217)
Q Consensus       111 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  148 (217)
                      -.. ...|......=.+.|+.+.|..++......+.+|
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            223 5566666666677778888888877777665443

>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=96.57  E-value=0.058  Score=38.56  Aligned_cols=93  Identities=11%  Similarity=0.045  Sum_probs=71.7

Q ss_pred             HHHHHHHHHHHHhCCCCCC---cccHHHHHHHHHhc-----CChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcC-CCH
Q 035645           96 IDEAFRLLHNLVEDGHNPF---PSLYAPIIKGAFRR-----GQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRG-GRF  166 (217)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~  166 (217)
                      ...|...+++..+.+  |+   ...|..+...|.+.     |+.++|.+.|++....+..-+..++......+++. |+.
T Consensus       179 l~~A~a~lerAleLD--P~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDLW--PSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHHC--TTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHhC--CCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            356777777777653  44   56889999999995     99999999999998864322467788888888885 999


Q ss_pred             HHHHHHHHHHHHcCCC--CChhhHHH
Q 035645          167 VEAANYLMEMTEMGLT--PISRCFDL  190 (217)
Q Consensus       167 ~~a~~~~~~~~~~~~~--~~~~~~~~  190 (217)
                      +++.+.+++.......  |+....+.
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~lan~  282 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLLVI  282 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHHHH
Confidence            9999999999987766  66554443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.37  E-value=0.05  Score=33.59  Aligned_cols=84  Identities=11%  Similarity=0.012  Sum_probs=39.4

Q ss_pred             CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhH---HHHHHHHHHhcCCC-cchhhHHHHHHHHHhcCCHHHHH
Q 035645           25 YLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEF---CVEMYYSVCKLGSC-ADVSTYKILIPAVSKAGMIDEAF  100 (217)
Q Consensus        25 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~  100 (217)
                      .+..+.+-|......|. |+..+--.+..++.+.+....   ++.+++.+.+.+.+ ......-.+.-++.+.|++++|.
T Consensus        16 ~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~   94 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            34444444444443332 444444444455555544433   55555555543211 12222333444555566666666


Q ss_pred             HHHHHHHhC
Q 035645          101 RLLHNLVED  109 (217)
Q Consensus       101 ~~~~~~~~~  109 (217)
                      +.++.+++.
T Consensus        95 ~~~~~lL~~  103 (126)
T 1nzn_A           95 KYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666555554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.27  E-value=0.097  Score=32.82  Aligned_cols=68  Identities=18%  Similarity=0.180  Sum_probs=56.3

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHN  112 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  112 (217)
                      +...+...++.....|+-++-.+++..+.. +.+|+....-.+..+|.+.|+..+|.+++.+.-+.|++
T Consensus        90 ~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           90 LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            556677788888888999998888888644 35678888899999999999999999999999998853

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.27  E-value=0.061  Score=43.84  Aligned_cols=125  Identities=8%  Similarity=0.028  Sum_probs=79.5

Q ss_pred             HHHHHHHHhcCC-HHHHHHHHHHHhhCCCCCChhh--HHHHHHHHHhcCc-hhHHHHHHHHHHhc------CCCc-c---
Q 035645           14 DLLVQGLLNAGY-LESAKQMVNKMIKQGSDPDLET--FNSLIETICKSGE-VEFCVEMYYSVCKL------GSCA-D---   79 (217)
Q Consensus        14 ~~ll~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~--~~~ll~~~~~~~~-~~~a~~~~~~~~~~------~~~~-~---   79 (217)
                      ..++..+...|+ .+.|..+|+++.+..  |...+  ...++..+...++ --+|++++.+..+.      ...+ +   
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            445555655666 588999999998763  33332  2334444333332 22455555444321      1111 1   


Q ss_pred             -------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHH
Q 035645           80 -------VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEI  141 (217)
Q Consensus        80 -------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  141 (217)
                             ......=...|...|+++-|..+-++..... +.+-.+|..|..+|...|+++.|+-.+..+
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence                   1123333455777899999999999988763 334569999999999999999999999886

>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=96.18  E-value=0.12  Score=32.96  Aligned_cols=104  Identities=13%  Similarity=0.020  Sum_probs=75.9

Q ss_pred             CChhhHHHHHHHHHhcCCH------HHHHHHHHHHhhCCCCCChh-hHHHHHHH------HHhcCchhHHHHHHHHHHhc
Q 035645            8 PPVRGRDLLVQGLLNAGYL------ESAKQMVNKMIKQGSDPDLE-TFNSLIET------ICKSGEVEFCVEMYYSVCKL   74 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~------~~a~~~~~~m~~~~~~~~~~-~~~~ll~~------~~~~~~~~~a~~~~~~~~~~   74 (217)
                      -|..+|=..+...-+.|+.      ++..++|++.... ++|+.. .|...+..      +...++.++|.++|+.+.+.
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            3677888888888888999      9999999998875 566532 12111111      22347899999999999765


Q ss_pred             CCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 035645           75 GSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNP  113 (217)
Q Consensus        75 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  113 (217)
                      .-.. ...|......=.+.|+.+.|.+++......+..|
T Consensus        90 hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           90 CKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            3332 6667777777788999999999999998876444

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.09  E-value=0.27  Score=40.13  Aligned_cols=125  Identities=13%  Similarity=0.096  Sum_probs=82.0

Q ss_pred             HHHHHHHHhcCc-hhHHHHHHHHHHhcCCCcchhh--HHHHHHHHHhcC-CHHHHHHHHHHHHhC------CCCCCc---
Q 035645           49 NSLIETICKSGE-VEFCVEMYYSVCKLGSCADVST--YKILIPAVSKAG-MIDEAFRLLHNLVED------GHNPFP---  115 (217)
Q Consensus        49 ~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~--~~~ll~~~~~~~-~~~~a~~~~~~~~~~------~~~~~~---  115 (217)
                      ..++..+...++ .+.|+.+|+++....  |...+  ...++..+...+ +--+|.+++++..+.      ...+..   
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            456666666766 588999999998753  43333  233443333333 223455666554421      111111   


Q ss_pred             --------ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645          116 --------SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus       116 --------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                              .....-.+.+...|+++-|+.+-++....  .|+ -.+|..|..+|...|+++.|.-.++.+.
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                    12222245577889999999999998876  454 6899999999999999999999998873

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=96.03  E-value=0.25  Score=37.05  Aligned_cols=116  Identities=19%  Similarity=0.207  Sum_probs=82.3

Q ss_pred             chhhHHHHHHHHH---hcCCHHHHHHHHHHHHhC--CC-CCCc------------------ccHHHHHHHHHhcCChHHH
Q 035645           79 DVSTYKILIPAVS---KAGMIDEAFRLLHNLVED--GH-NPFP------------------SLYAPIIKGAFRRGQFDDA  134 (217)
Q Consensus        79 ~~~~~~~ll~~~~---~~~~~~~a~~~~~~~~~~--~~-~~~~------------------~~~~~ll~~~~~~g~~~~a  134 (217)
                      |...|..++....   ..|+.+.|...+.+....  |- -++.                  .+...++..+...|+++++
T Consensus       111 D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~~~a  190 (388)
T 2ff4_A          111 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAV  190 (388)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            4455665555433   357888888888887754  21 1111                  1123445667789999999


Q ss_pred             HHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHH-----HcCCCCChhhHHHHHHHH
Q 035645          135 FCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMT-----EMGLTPISRCFDLVTDGL  195 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-----~~~~~~~~~~~~~l~~~~  195 (217)
                      ...+..+... .+.+...+..++.++.+.|+..+|.+.|+.+.     +.|+.|+..+-...-..+
T Consensus       191 ~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~~~il  255 (388)
T 2ff4_A          191 IAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNERIL  255 (388)
T ss_dssp             HHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            9998888765 35578899999999999999999999999876     469999988655444434

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.85  E-value=0.056  Score=40.55  Aligned_cols=76  Identities=14%  Similarity=0.134  Sum_probs=61.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHh-----cCCCCCHhHHHHHHH
Q 035645           84 KILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKI-----KGHPPNRPVYTTLIT  158 (217)
Q Consensus        84 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~~li~  158 (217)
                      ..++..+...|+++++...+..+.... +.+...|..++.++.+.|+..+|.+.|+.+..     .|+.|...+-...-.
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~~~  253 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNER  253 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence            445667778899999999999988765 66788999999999999999999999998754     499998766554433


Q ss_pred             HH
Q 035645          159 MC  160 (217)
Q Consensus       159 ~~  160 (217)
                      .+
T Consensus       254 il  255 (388)
T 2ff4_A          254 IL  255 (388)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>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=95.80  E-value=0.13  Score=30.22  Aligned_cols=65  Identities=14%  Similarity=0.139  Sum_probs=48.3

Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 035645          130 QFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGL  195 (217)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (217)
                      +.-++.+-+..+....+.|++.+..+.+++|-+.+++..|.++|+-++.+. .+...+|..+++-+
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lqEl   89 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQEL   89 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHHHH
Confidence            445667777777777888899999999999999999999999998877543 23355677776543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.77  E-value=4.8e-06  Score=63.15  Aligned_cols=185  Identities=15%  Similarity=0.167  Sum_probs=111.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ...|..+..+..+.+++.+|++-|   .+.   -|+..|..++.+..+.|.+++-+..+....+..  .+...=+.|+-+
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsy---IkA---~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~a  125 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSY---IKA---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFA  125 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSS---CCC---SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHH---HhC---CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHH
Confidence            345677777777777666665544   221   256667788888888888888888776665542  244455678888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcC--------------------CCCC
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG--------------------HPPN  149 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--------------------~~~~  149 (217)
                      |.+.++..+..+++.       .|+..-...+-.-|...|.++.|.-+|..+.+..                    -.-+
T Consensus       126 yAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns  198 (624)
T 3lvg_A          126 LAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANS  198 (624)
T ss_dssp             HHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCS
T ss_pred             HHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            888888766544432       3555555666666777777777766665433211                    0135


Q ss_pred             HhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          150 RPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       150 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      +.||..+-.+|...+.+..|--.--.++     ....-...++..|...|.+++-..+++.-..+
T Consensus       199 ~ktWKeV~~ACvd~~EfrLAqicGLniI-----vhadeL~elv~~YE~~G~f~ELIsLlEaglgl  258 (624)
T 3lvg_A          199 TRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGL  258 (624)
T ss_dssp             SCSHHHHTHHHHHSCTTTTTTHHHHHHH-----CCSSCCSGGGSSSSTTCCCTTSTTTHHHHTTS
T ss_pred             hhHHHHHHHHHhCchHHHHHHHhcchhc-----ccHHHHHHHHHHHHhCCCHHHHHHHHHHHhCC
Confidence            5677777777777776665544332222     11112234556666777777766666655443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.48  E-value=0.57  Score=40.43  Aligned_cols=147  Identities=16%  Similarity=0.154  Sum_probs=95.0

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC----------------
Q 035645           50 SLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNP----------------  113 (217)
Q Consensus        50 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~----------------  113 (217)
                      .++..+...+.++.+.++.....     .+....-.+..++...|++++|...|.+.-. ++..                
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~~-----~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWLN-----SDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHSC-----CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcc-----CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccc
Confidence            34555666666666655443322     2333345566778888999999999976421 1100                


Q ss_pred             -------CcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC----HhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCC
Q 035645          114 -------FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN----RPVYTTLITMCGRGGRFVEAANYLMEMTEMGLT  182 (217)
Q Consensus       114 -------~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  182 (217)
                             -..-|..++..+.+.+.++.+.++-....+...+.+    ...|..+.+.+...|++++|...+..+.+...+
T Consensus       891 ~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r  970 (1139)
T 4fhn_B          891 KYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK  970 (1139)
T ss_dssp             TTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC
T ss_pred             cccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH
Confidence                   012367788888899999998888777665422212    136788889999999999999998877765432


Q ss_pred             CChhhHHHHHHHHHhcCCchHH
Q 035645          183 PISRCFDLVTDGLKNCGKHDLA  204 (217)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~~a  204 (217)
                        ......|+..++..|+.+.-
T Consensus       971 --~~cLr~LV~~lce~~~~~~L  990 (1139)
T 4fhn_B          971 --KSCLLDFVNQLTKQGKINQL  990 (1139)
T ss_dssp             --HHHHHHHHHHHHHHCCHHHH
T ss_pred             --HHHHHHHHHHHHhCCChhhh
Confidence              34566777777766665543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.32  E-value=0.65  Score=40.07  Aligned_cols=193  Identities=12%  Similarity=0.032  Sum_probs=118.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC----------------
Q 035645           14 DLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC----------------   77 (217)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----------------   77 (217)
                      ..++..+.+.+..+.+.++..-.     +-+...--.+..++...|++++|.+.|++... |+.                
T Consensus       816 ~~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~  889 (1139)
T 4fhn_B          816 TELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIA  889 (1139)
T ss_dssp             HHHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccc
Confidence            34566667777777776654332     22444445667788999999999999977521 110                


Q ss_pred             -------cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----cccHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 035645           78 -------ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPF----PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGH  146 (217)
Q Consensus        78 -------~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  146 (217)
                             .-..-|..++..+.+.+.++.+.++-....+.....+    ...|..+.+++...|++++|...+-.+.....
T Consensus       890 ~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~  969 (1139)
T 4fhn_B          890 EKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL  969 (1139)
T ss_dssp             HTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS
T ss_pred             ccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH
Confidence                   0113467788899999999999888777665321111    12588899999999999999999988766533


Q ss_pred             CCCHhHHHHHHHHHhcCCCH------------HHHHHHHHHHHHcC--CCCChhhHHHHHHHHHhcCCchHHHHH-HHHH
Q 035645          147 PPNRPVYTTLITMCGRGGRF------------VEAANYLMEMTEMG--LTPISRCFDLVTDGLKNCGKHDLAEKI-EQLE  211 (217)
Q Consensus       147 ~~~~~~~~~li~~~~~~g~~------------~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~  211 (217)
                        -......|+..++..|..            ++..+++....+..  +...+.-|..|-.-+...|++..|-.+ ++.+
T Consensus       970 --r~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~ 1047 (1139)
T 4fhn_B          970 --KKSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKL 1047 (1139)
T ss_dssp             --CHHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHH
Confidence              345566666666655544            44444443322111  111112244444444556666655444 5655


Q ss_pred             hhh
Q 035645          212 VSL  214 (217)
Q Consensus       212 ~~~  214 (217)
                      .++
T Consensus      1048 ~RL 1050 (1139)
T 4fhn_B         1048 SRY 1050 (1139)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            543

>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=95.09  E-value=0.25  Score=29.04  Aligned_cols=63  Identities=10%  Similarity=0.109  Sum_probs=45.2

Q ss_pred             CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645           25 YLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus        25 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +.=++.+-++.+......|++......+++|.+.+++..|+++++-++.. ..+...+|..++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            45566777777777788888888888888888888888888888877643 2223445655543

>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=94.27  E-value=0.55  Score=29.27  Aligned_cols=61  Identities=11%  Similarity=0.168  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 035645           63 FCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKG  124 (217)
Q Consensus        63 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (217)
                      +..+-++.+......|++.+..+.+.+|-+.+++--|.++|+-.+..- .+....|..+++-
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lqE  131 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQE  131 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHHH
Confidence            344445555555556666666666666666666666666666555331 2223345544443

>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=94.24  E-value=0.56  Score=29.23  Aligned_cols=62  Identities=21%  Similarity=0.290  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH
Q 035645           96 IDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLIT  158 (217)
Q Consensus        96 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  158 (217)
                      .-+..+-++.+...++.|++.+....+++|-+.+++..|.++|+-++.+ ..+...+|..+++
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            3345566666666677777777777777777777777777777777654 2333445655544

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.13  E-value=1.5  Score=33.60  Aligned_cols=172  Identities=15%  Similarity=0.175  Sum_probs=97.8

Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHhh-CCCCCChhh--HHHHHHHHHhcCchhH--HHHHHHHHHh--cC-CC
Q 035645            6 FNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIK-QGSDPDLET--FNSLIETICKSGEVEF--CVEMYYSVCK--LG-SC   77 (217)
Q Consensus         6 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-~~~~~~~~~--~~~ll~~~~~~~~~~~--a~~~~~~~~~--~~-~~   77 (217)
                      ...+......++..|...|+++...+.+..+.+ +|..+...+  .+.++.........+.  -..+.+.+..  .| +.
T Consensus        52 ~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~~d~~~~~~~i~~l~~vte~kif  131 (445)
T 4b4t_P           52 LASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKSLDLNTRISVIETIRVVTENKIF  131 (445)
T ss_dssp             TTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHCCSSSSSCCCC
T ss_pred             hhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHhccchH
Confidence            444556667777778888888877777666553 333222221  1222222222222221  1112211110  01 11


Q ss_pred             c---chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCC---cccHHHHHHHHHhcCChHHHHHHHHHHHh----cC
Q 035645           78 A---DVSTYKILIPAVSKAGMIDEAFRLLHNLVED--GHNPF---PSLYAPIIKGAFRRGQFDDAFCFFSEIKI----KG  145 (217)
Q Consensus        78 ~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~  145 (217)
                      .   .......|...+...|++.+|.+++..+...  +....   ...+...++.|...+++..|..++.++..    ..
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            1   1223456778888889999999998887632  21111   23566677888889999999888887642    22


Q ss_pred             CCCC--HhHHHHHHHHHhcCCCHHHHHHHHHHHH
Q 035645          146 HPPN--RPVYTTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus       146 ~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                      ..|+  ...+...+..+...+++.+|.+.|.+..
T Consensus       212 ~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          212 KYESLKLEYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            2222  2456677777778888888887777664

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=93.10  E-value=0.0025  Score=48.81  Aligned_cols=125  Identities=14%  Similarity=0.027  Sum_probs=84.0

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      |...|..++.+..+.|.+++-...+...++..-  ++..=+.|+-+|++.++..+..+++       -.||..-...+.+
T Consensus        82 Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ayAk~~rL~elEefl-------~~~N~A~iq~VGD  152 (624)
T 3lvg_A           82 DPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALAKTNRLAELEEFI-------NGPNNAHIQQVGD  152 (624)
T ss_dssp             CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHHHTSCSSSTTTSTT-------SCCSSSCTHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHHHhhCcHHHHHHHH-------cCCCcccHHHHHH
Confidence            567789999999999999999999987776533  4455568999999999887744443       1255555566666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC--------------------CCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVED--------------------GHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIK  142 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~--------------------~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  142 (217)
                      -|...|.++.|.-+|..+...                    ..-.++.||-.+-.+|...+.+.-|.-+--.+.
T Consensus       153 rcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniI  226 (624)
T 3lvg_A          153 RCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIV  226 (624)
T ss_dssp             HHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhc
Confidence            666666666665555433211                    012356778777777777777666655544443

>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=92.61  E-value=1.1  Score=27.80  Aligned_cols=66  Identities=14%  Similarity=0.115  Sum_probs=32.9

Q ss_pred             CCcccHHHHHHHHHhcCCh---HHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          113 PFPSLYAPIIKGAFRRGQF---DDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       113 ~~~~~~~~ll~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      |+..+--....++.+..+.   .+++.++.++.+.+..-.....--+.-++.+.|++++|.+..+.+.+
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            3333333344445544433   34555666555543111233344445556666666666666666665

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.16  E-value=2.1  Score=32.48  Aligned_cols=97  Identities=11%  Similarity=0.035  Sum_probs=52.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhC--CCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHh---cCCCcchhh--HH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQ--GSDPDLETFNSLIETICKSGEVEFCVEMYYSVCK---LGSCADVST--YK   84 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~--~~   84 (217)
                      ++..+...|.+.|+++.|.+.+.++...  +...-...+-.+++.+...+++..+...+.+...   .+..|+...  ..
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            4556666777777777777777776653  2222344556666667777777777777666532   121222111  00


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHh
Q 035645           85 ILIPAVSKAGMIDEAFRLLHNLVE  108 (217)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~  108 (217)
                      .-...+...+++..|...|-+...
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhc
Confidence            111122345666666666655543

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=92.10  E-value=1.4  Score=27.75  Aligned_cols=68  Identities=13%  Similarity=0.108  Sum_probs=41.2

Q ss_pred             CCCcccHHHHHHHHHhcCCh---HHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHc
Q 035645          112 NPFPSLYAPIIKGAFRRGQF---DDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEM  179 (217)
Q Consensus       112 ~~~~~~~~~ll~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  179 (217)
                      .|+..+--....++.+..+.   .++..+++++...+..-.....-.+.-++.+.|++++|.++.+.+.+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            34555544555666666543   456777777766432212334444556677888888888888877774

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=92.09  E-value=1.9  Score=29.22  Aligned_cols=181  Identities=8%  Similarity=-0.033  Sum_probs=91.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCChhh--HHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhh--HHHHHHHHH
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLET--FNSLIETICKSGEVEFCVEMYYSVCKLGSCADVST--YKILIPAVS   91 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~ll~~~~   91 (217)
                      .+...++.|+.+.+..+++.+.+.|..++...  -...+...+..|+.+-    ++.+.+.|..++...  -...+...+
T Consensus        12 ~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~----v~~Ll~~g~~~~~~~~~g~t~l~~A~   87 (241)
T 1k1a_A           12 PLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPSV----VRLLVTAGASPMALDRHGQTAAHLAC   87 (241)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHHH----HHHHHHTTCCTTCCCTTSCCHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCcccccCCCHHHHHHHcCCHHH----HHHHHHcCCCccccCCCCCCHHHHHH
Confidence            45566788999999999888777665554321  1233444556676643    444555565544321  224455566


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCC---cccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhH---HHHHHHHHhcCCC
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNPF---PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPV---YTTLITMCGRGGR  165 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~---~~~li~~~~~~g~  165 (217)
                      ..|+.+-+..+++.....+..++   ....+ .+...+..|+.+.+..    +.+.|..++...   -...+...+..|+
T Consensus        88 ~~~~~~~~~~Ll~~~~~~~~~~~~~~~~g~t-~L~~A~~~~~~~~~~~----Ll~~g~~~~~~~~~~g~t~L~~A~~~~~  162 (241)
T 1k1a_A           88 EHRSPTCLRALLDSAAPGTLDLEARNYDGLT-ALHVAVNTECQETVQL----LLERGADIDAVDIKSGRSPLIHAVENNS  162 (241)
T ss_dssp             HTTCHHHHHHHHHHSCTTSCCTTCCCTTSCC-HHHHHHHHTCHHHHHH----HHHTTCCTTCCCTTTCCCHHHHHHHTTC
T ss_pred             HcCCHHHHHHHHHcCCCccccccccCcCCCc-HHHHHHHcCCHHHHHH----HHHcCCCcccccccCCCcHHHHHHHcCC
Confidence            77887766666555432111221   12222 3344456666654444    444554443211   1223344456676


Q ss_pred             HHHHHHHHHHHHHcCCCCChhh--HHHHHHHHHhcCCchHHHHHHH
Q 035645          166 FVEAANYLMEMTEMGLTPISRC--FDLVTDGLKNCGKHDLAEKIEQ  209 (217)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~  209 (217)
                      .+-+.    .+.+.|..++...  -...+...+..|+.+-+.-+++
T Consensus       163 ~~~v~----~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~  204 (241)
T 1k1a_A          163 LSMVQ----LLLQHGANVNAQMYSGSSALHSASGRGLLPLVRTLVR  204 (241)
T ss_dssp             HHHHH----HHHHTTCCTTCBCTTSCBHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHH----HHHHcCCCCCCcCCCCCCHHHHHHHcCCHHHHHHHHh
Confidence            65444    3445565553321  1123333445666665555543

>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=91.74  E-value=3.2  Score=31.15  Aligned_cols=167  Identities=12%  Similarity=0.001  Sum_probs=105.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCC---ChhhHHHHHHHHHhcC-chhHHHHHHHHHH----hcC-CCcch
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQ-GSDP---DLETFNSLIETICKSG-EVEFCVEMYYSVC----KLG-SCADV   80 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-~~~~---~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~----~~~-~~~~~   80 (217)
                      .....+...|.+.|+.++..+++.....- +..|   .......++..+.... ..+.-.++..+..    ... .....
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~   99 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34567888999999999999999887542 1122   2344667888877643 3344444444333    211 00011


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-----cccHHHHHHHHHhcCChHHHHHHHHHHHhc--CCCCCHhHH
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPF-----PSLYAPIIKGAFRRGQFDDAFCFFSEIKIK--GHPPNRPVY  153 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~  153 (217)
                      ..=..++..|...|++.+|.+++.++.+.=...|     ..+|..-++.|...+++.++...+......  .+.+++.+-
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~  179 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQ  179 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHH
Confidence            1223688999999999999999998876311222     234666678889999999999999887542  232343322


Q ss_pred             HH----HHHHHh-cCCCHHHHHHHHHHHH
Q 035645          154 TT----LITMCG-RGGRFVEAANYLMEMT  177 (217)
Q Consensus       154 ~~----li~~~~-~~g~~~~a~~~~~~~~  177 (217)
                      ..    -...+. ..++|..|...|-+..
T Consensus       180 a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          180 GALDLQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHhccCHHHHHHHHHHHH
Confidence            22    123345 7899999888776553

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.61  E-value=3.6  Score=31.44  Aligned_cols=189  Identities=9%  Similarity=0.024  Sum_probs=119.0

Q ss_pred             CCHHHHHHHHHHHhh-----CCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhc-CCCcchhh--HHHHHHHHHhcCC
Q 035645           24 GYLESAKQMVNKMIK-----QGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKL-GSCADVST--YKILIPAVSKAGM   95 (217)
Q Consensus        24 g~~~~a~~~~~~m~~-----~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~--~~~ll~~~~~~~~   95 (217)
                      |+++.|.+.+-.+.+     .+...+......++..|...++++...+.+..+.+. |..+...+  .+.++........
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            678888887766653     234446677888999999999999998888777543 33222221  2233333333443


Q ss_pred             HHHH--HHHHHHHHhC--C-CCC---CcccHHHHHHHHHhcCChHHHHHHHHHHHhc--CCCCC---HhHHHHHHHHHhc
Q 035645           96 IDEA--FRLLHNLVED--G-HNP---FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK--GHPPN---RPVYTTLITMCGR  162 (217)
Q Consensus        96 ~~~a--~~~~~~~~~~--~-~~~---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~~~~~---~~~~~~li~~~~~  162 (217)
                      .+..  ..+.+.+...  | +..   .......|...+...|++.+|.+++..+...  |..+.   ...+...++.|..
T Consensus       110 ~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~  189 (445)
T 4b4t_P          110 LDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSIL  189 (445)
T ss_dssp             THHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence            3322  1222211111  1 111   1123356788899999999999999998642  32222   3577778889999


Q ss_pred             CCCHHHHHHHHHHHHH----cCCCCC--hhhHHHHHHHHHhcCCchHHHHHHHHHh
Q 035645          163 GGRFVEAANYLMEMTE----MGLTPI--SRCFDLVTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       163 ~g~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      .+++..|..++++...    ....|+  ...|...+..+...+++.+|-+.|..+.
T Consensus       190 ~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          190 KGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            9999999999988752    222222  2356677777788888888887765543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=91.39  E-value=1.1  Score=31.63  Aligned_cols=71  Identities=20%  Similarity=0.278  Sum_probs=51.6

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCC--CCChhhHHHHHHH
Q 035645          123 KGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGL--TPISRCFDLVTDG  194 (217)
Q Consensus       123 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~  194 (217)
                      ....+.|.+++++.....-++.. +-|...-..+++.+|-.|+++.|.+-++...+...  .|...+|..+|.+
T Consensus         5 ~~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            5 KNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA   77 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHH
Confidence            45667889999988888777663 44777778889999999999999998888776432  2333455555554

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=90.93  E-value=2.2  Score=27.67  Aligned_cols=61  Identities=13%  Similarity=0.189  Sum_probs=37.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCCCh-------hhHHHHHHHHHhcCchhHHHHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQ-GSDPDL-------ETFNSLIETICKSGEVEFCVEMYYSVC   72 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~-~~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~   72 (217)
                      .+-.-+..+...|.++.|.-+.+.+... +..|+.       .++..+.+++...+++..|...|++..
T Consensus        22 ~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qAL   90 (167)
T 3ffl_A           22 NVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMAL   90 (167)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            3445566677777777777776665432 112221       244556667777777777777777753

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis}

Probab=89.52  E-value=3.1  Score=27.24  Aligned_cols=184  Identities=13%  Similarity=0.059  Sum_probs=84.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhh--HHHHHHHHHhcC
Q 035645           17 VQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVST--YKILIPAVSKAG   94 (217)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~ll~~~~~~~   94 (217)
                      +...+..|+.+.+..++..-...--..+..-++. +...++.|+.+-    .+.+.+.|..++...  -...+...+..|
T Consensus         9 L~~A~~~g~~~~v~~ll~~~~~~~~~~~~~g~t~-L~~A~~~~~~~~----v~~Ll~~g~~~~~~~~~g~t~l~~A~~~~   83 (201)
T 3hra_A            9 LLEAANQRDTKKVKEILQDTTYQVDEVDTEGNTP-LNIAVHNNDIEI----AKALIDRGADINLQNSISDSPYLYAGAQG   83 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHTCTTCCTTCCCTTSCCH-HHHHHHHTCHHH----HHHHHHTTCCTTCCCTTSCCHHHHHHHTT
T ss_pred             HHHHHHhccHHHHHHHHHcCCCCCCCCCCCCCCH-HHHHHHcCCHHH----HHHHHHcCCCCCCCCCCCCCHHHHHHHcC
Confidence            3445677888887777643221100112222333 334455666544    444445565554321  223445556677


Q ss_pred             CHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHH-HhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHH
Q 035645           95 MIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEI-KIKGHPPNRPVYTTLITMCGRGGRFVEAANYL  173 (217)
Q Consensus        95 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~-~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  173 (217)
                      +.+-+..+++.-...-...+.... ..+...+..|+.+.+..+++.- .... ..+..-.+.+..+.........-.++.
T Consensus        84 ~~~~~~~Ll~~~~~~~~~~~~~g~-t~L~~A~~~~~~~~v~~Ll~~g~~~~~-~~~~~g~t~L~~A~~~~~~~~~~~~~v  161 (201)
T 3hra_A           84 RTEILAYMLKHATPDLNKHNRYGG-NALIPAAEKGHIDNVKLLLEDGREDID-FQNDFGYTALIEAVGLREGNQLYQDIV  161 (201)
T ss_dssp             CHHHHHHHHHHSCCCTTCCCTTSC-CSHHHHHHTTCHHHHHHHHHHCCCCTT-CCCTTSCCHHHHHHHSSCCSHHHHHHH
T ss_pred             CHHHHHHHHhccCcccccccCCCC-cHHHHHHHcCCHHHHHHHHHcCCCCcC-CCCCCCCCHHHHHHHhccchhhHHHHH
Confidence            776665555432111001111111 2344556678776665555432 1110 122233344444443332233345666


Q ss_pred             HHHHHcCCCCChhhHH--HHHHHHHhcCCchHHHHH
Q 035645          174 MEMTEMGLTPISRCFD--LVTDGLKNCGKHDLAEKI  207 (217)
Q Consensus       174 ~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~  207 (217)
                      +.+.+.|..++.....  .-+....+.|+.+-+.-+
T Consensus       162 ~~Ll~~ga~~~~~~~~g~t~l~~A~~~~~~~~~~~L  197 (201)
T 3hra_A          162 KLLMENGADQSIKDNSGRTAMDYANQKGYTEISKIL  197 (201)
T ss_dssp             HHHHHTTCCTTCCCTTSCCHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHCCCCCCccCCCCCCHHHHHHHcCCHhHHHHH
Confidence            6677777766543211  233344455666555444

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.16  E-value=6  Score=30.04  Aligned_cols=97  Identities=7%  Similarity=-0.143  Sum_probs=63.6

Q ss_pred             hHHHHHHHHHhcCchhHHHHHHHHHHhcC--CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCcccHHHH--
Q 035645           47 TFNSLIETICKSGEVEFCVEMYYSVCKLG--SCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG-HNPFPSLYAPI--  121 (217)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l--  121 (217)
                      +...+...|.+.|+++.|.+.|.++...-  ...-...+-..+..+...+++..+...+++....- -.++....+.+  
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            56678888888999999999998886532  22334667788888888899998888888765321 11222221111  


Q ss_pred             --HHHHHhcCChHHHHHHHHHHHh
Q 035645          122 --IKGAFRRGQFDDAFCFFSEIKI  143 (217)
Q Consensus       122 --l~~~~~~g~~~~a~~~~~~~~~  143 (217)
                        ...+...+++..|-..|.+...
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhc
Confidence              1223456788888887777654

>3jxi_A Vanilloid receptor-related osmotically activated protein; ankyrin repeats, ANK repeat, ION transport, ionic channel, R transmembrane, transport; 2.30A {Gallus gallus} PDB: 3jxj_A 4dx1_A 4dx2_A*

Probab=88.56  E-value=1  Score=31.17  Aligned_cols=191  Identities=10%  Similarity=-0.047  Sum_probs=97.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCChhh-------HHHHHHHHH--hcCchhHHHHHHHHHHhcC---------CC
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLET-------FNSLIETIC--KSGEVEFCVEMYYSVCKLG---------SC   77 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~-------~~~ll~~~~--~~~~~~~a~~~~~~~~~~~---------~~   77 (217)
                      .+...++.|+.+....+++.+.+.|..++...       .+.|..+..  +.|+.+-+..+++.-...+         +.
T Consensus         8 ~L~~A~~~g~~~~v~~ll~~l~~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~g~~~~v~~Ll~~g~~~~~~~~~~~~~~~   87 (260)
T 3jxi_A            8 ILFDIVSRGSPDGLEGLLSFLLTHKKRLTDEEFREPSTGKTCLPKALLNLSAGRNDTIPILLDIAEKTGNMREFINSPFR   87 (260)
T ss_dssp             HHHHHHHHTCGGGGTTHHHHHHHHTCCTTSGGGSCTTTCCCHHHHHHTSCBTTBCTHHHHHHHHHHHTTCHHHHHTCCBC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCcchhhhhccCCCCcHHHHHHHHhhcCCHHHHHHHHHhcccccchHhhhccccc
Confidence            45556688999999899988877776665333       334444432  5677777666666543211         11


Q ss_pred             cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCccc----------------HHHHHHHHHhcCChHHHHHHHHHH
Q 035645           78 ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSL----------------YAPIIKGAFRRGQFDDAFCFFSEI  141 (217)
Q Consensus        78 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----------------~~~ll~~~~~~g~~~~a~~~~~~~  141 (217)
                      .....-.+.+...+..|+.+-+.    .+.+.|..++...                -...+...+..|+.+-+..+++.-
T Consensus        88 ~~d~~g~t~L~~A~~~g~~~~v~----~Ll~~ga~~~~~~~~~~~~~~~~~~~~~~g~tpL~~A~~~g~~~~v~~Ll~~~  163 (260)
T 3jxi_A           88 DVYYRGQTALHIAIERRCKHYVE----LLVEKGADVHAQARGRFFQPKDEGGYFYFGELPLSLAACTNQPHIVHYLTENG  163 (260)
T ss_dssp             CSSEESBCHHHHHHHTTCHHHHH----HHHHTTCCTTCCCEECCCSSSCCCCSCCSCSSHHHHHHHTTCHHHHHHHHHCS
T ss_pred             ccccCCCCHHHHHHHcCCHHHHH----HHHhCCCCcCccccccccCcccccccccCCCCHHHHHHHcCCHHHHHHHHhcc
Confidence            00001223445556677776444    4444555544332                223455566778766554444310


Q ss_pred             HhcCCCCC---HhHHHHHHHHHhc-CCC---HHHHHHHHHHHHHcCCCC----------ChhhHHHHHHHHHhcCCchHH
Q 035645          142 KIKGHPPN---RPVYTTLITMCGR-GGR---FVEAANYLMEMTEMGLTP----------ISRCFDLVTDGLKNCGKHDLA  204 (217)
Q Consensus       142 ~~~~~~~~---~~~~~~li~~~~~-~g~---~~~a~~~~~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~~a  204 (217)
                       ..|..++   ..-.+.|..+... .+.   .+...++++.+.+.|..+          |..-.+ -+...++.|+.+-+
T Consensus       164 -~~ga~~~~~d~~g~TpLh~A~~~~~~~~~~~~~~~~~v~~Ll~~ga~~~~~~~~~~~~d~~g~t-pL~~A~~~g~~~~v  241 (260)
T 3jxi_A          164 -HKQADLRRQDSRGNTVLHALVAIADNTRENTKFVTKMYDLLLIKCAKLFPDTNLEALLNNDGLS-PLMMAAKTGKIGIF  241 (260)
T ss_dssp             -SCCCCTTCCCTTSCCHHHHHHHHCCSSHHHHHHHHHHHHHHHHHHHHHCTTCCGGGCCCTTSCC-HHHHHHHTTCHHHH
T ss_pred             -ccCCCCcccCCCCCcHHHHHHHhccCchhHHHHHHHHHHHHHHhCcccccccchhhcccCCCCC-HHHHHHHcCCHHHH
Confidence             0444443   2233444444322 222   222235555555554333          222233 34444567888887


Q ss_pred             HHHHHHHh
Q 035645          205 EKIEQLEV  212 (217)
Q Consensus       205 ~~~~~~~~  212 (217)
                      .-+++.-.
T Consensus       242 ~~Ll~~g~  249 (260)
T 3jxi_A          242 QHIIRREI  249 (260)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHhCC
Confidence            77776543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=88.54  E-value=3.6  Score=26.69  Aligned_cols=116  Identities=11%  Similarity=-0.008  Sum_probs=57.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCc-------ccHHHHHHHHHhcCChHHHHHHHHHHHhc--CCCCCHhH
Q 035645           83 YKILIPAVSKAGMIDEAFRLLHNLVED-GHNPFP-------SLYAPIIKGAFRRGQFDDAFCFFSEIKIK--GHPPNRPV  152 (217)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~-------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~  152 (217)
                      +-.-+..+...+.++.|.-+.+.+... +..|+.       .++..+..++...|++..|...|+...+.  .+.-+..+
T Consensus        23 l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~  102 (167)
T 3ffl_A           23 VIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKV  102 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC------
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence            444555666677777776666654432 112222       13455566677777777777777765332  11101111


Q ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHH
Q 035645          153 YTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLE  211 (217)
Q Consensus       153 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (217)
                      ...+-    .......         .....++...--.+..+|.+.+++++|..+++-+
T Consensus       103 ~~~~~----~~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          103 RPSTG----NSASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             ---------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             ccccc----ccCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence            11000    0000000         0112233445556888888999999998887654

>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=88.40  E-value=3.1  Score=25.84  Aligned_cols=68  Identities=16%  Similarity=0.119  Sum_probs=36.1

Q ss_pred             CCChhhHHHHHHHHHhcCc---hhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 035645           42 DPDLETFNSLIETICKSGE---VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        42 ~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      .|+..+--....++.++.+   ..+++.+++.+.+.+........--+.-++.+.|++++|.+..+.+++.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            4454444444444444443   3356666666655442122333444555666667777776666666654

>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=87.75  E-value=4.7  Score=27.09  Aligned_cols=57  Identities=12%  Similarity=0.033  Sum_probs=42.9

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCc-ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 035645           93 AGMIDEAFRLLHNLVEDGHNPFP-SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPN  149 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~  149 (217)
                      .+...++.++|..|...|+-... .-|......+...|++++|.++|..-++.+-.|-
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            34467888888888887765443 3566777788888999999999988888776663

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=87.69  E-value=2.9  Score=24.58  Aligned_cols=49  Identities=14%  Similarity=0.093  Sum_probs=20.5

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHc
Q 035645          125 AFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEM  179 (217)
Q Consensus       125 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  179 (217)
                      +.+.|++++|..+.+..    ..||...|-+|-.  .+.|..+++...+..+...
T Consensus        49 LmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~rL~~la~s   97 (115)
T 2uwj_G           49 LANQGRYQEALAFAHGN----PWPALEPWFALCE--WHLGLGAALDRRLAGLGGS   97 (115)
T ss_dssp             HHHTTCHHHHHGGGTTC----CCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTC
T ss_pred             HHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHHHHHHHhC
Confidence            34445555544443322    1344444444322  2344444444444444433

>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=87.55  E-value=7.5  Score=29.23  Aligned_cols=164  Identities=9%  Similarity=-0.052  Sum_probs=103.7

Q ss_pred             hhHHHHHHHHHhcCchhHHHHHHHHHHhc-CCCc---chhhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCcccH--
Q 035645           46 ETFNSLIETICKSGEVEFCVEMYYSVCKL-GSCA---DVSTYKILIPAVSKAG-MIDEAFRLLHNLVEDGHNPFPSLY--  118 (217)
Q Consensus        46 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~--  118 (217)
                      .....|...|.+.|+.++..+++.....- +..|   .......+++.+.... ..+.-.++..+..+.. .-...+|  
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~r~flr   98 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWA-KQEKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHH-HHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence            34567888999999999999988776431 0111   2345667888887643 3344444444433211 0112333  


Q ss_pred             ----HHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-----HhHHHHHHHHHhcCCCHHHHHHHHHHHHH--cCCCCChhh
Q 035645          119 ----APIIKGAFRRGQFDDAFCFFSEIKIKGHPPN-----RPVYTTLITMCGRGGRFVEAANYLMEMTE--MGLTPISRC  187 (217)
Q Consensus       119 ----~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~  187 (217)
                          ..+...|...|++.+|..++..+.+.=-..|     ..++..-++.|...+++.++...+.....  ..+.+++.+
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                2678899999999999999998876411111     35667778889999999999999988763  223344433


Q ss_pred             HHH----HHHHHH-hcCCchHHHHHHHH
Q 035645          188 FDL----VTDGLK-NCGKHDLAEKIEQL  210 (217)
Q Consensus       188 ~~~----l~~~~~-~~~~~~~a~~~~~~  210 (217)
                      -..    -...+. ..++|+.|...|-.
T Consensus       179 ~a~i~~~~Gi~~l~~~rdyk~A~~~F~e  206 (394)
T 3txn_A          179 QGALDLQSGILHAADERDFKTAFSYFYE  206 (394)
T ss_dssp             HHHHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHhccCHHHHHHHHHH
Confidence            222    223344 67888888877643

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=87.18  E-value=3.1  Score=24.46  Aligned_cols=15  Identities=20%  Similarity=0.297  Sum_probs=6.7

Q ss_pred             HHhcCChHHHHHHHH
Q 035645          125 AFRRGQFDDAFCFFS  139 (217)
Q Consensus       125 ~~~~g~~~~a~~~~~  139 (217)
                      +.+.|++++|..+.+
T Consensus        50 LmNrG~Yq~Al~l~~   64 (116)
T 2p58_C           50 LMNRGDYASALQQGN   64 (116)
T ss_dssp             HHHTTCHHHHHHHHT
T ss_pred             HHcchhHHHHHHhcC
Confidence            334444444444433

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=84.79  E-value=4.3  Score=23.85  Aligned_cols=51  Identities=12%  Similarity=0.077  Sum_probs=23.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKG  145 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  145 (217)
                      .+...|++++|..+.+.+    ..||...|-.+.  -.+.|..+++..-+..+..+|
T Consensus        48 SLmNrG~Yq~Al~l~~~~----c~pdlepw~ALc--e~rlGl~s~le~rL~~la~sg   98 (115)
T 2uwj_G           48 SLANQGRYQEALAFAHGN----PWPALEPWFALC--EWHLGLGAALDRRLAGLGGSS   98 (115)
T ss_dssp             HHHHTTCHHHHHGGGTTC----CCGGGHHHHHHH--HHHTTCHHHHHHHHHHHHTCS
T ss_pred             HHHcchhHHHHHHhcCCC----CCchHHHHHHHH--HHhcccHHHHHHHHHHHHhCC
Confidence            344555555555443322    144444443332  234555555555554444443

>2d2s_A Exocyst complex component EXO84; tethering complex, EXO84P, endocytosis/exocytosis complex; 2.85A {Saccharomyces cerevisiae} SCOP: a.118.17.2

Probab=84.35  E-value=8.1  Score=26.67  Aligned_cols=92  Identities=14%  Similarity=0.052  Sum_probs=58.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhC--CCCC----ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHH
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQ--GSDP----DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKIL   86 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~--~~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   86 (217)
                      .-.-++.+....+|++|.+++++..+.  +.++    +.......+..-.....-.-+..+.+.+..   .++.......
T Consensus        21 ~~deLDv~IA~r~feeAv~lle~~~~~l~~~~~~~~~~~~~~~~~l~~ki~eR~~~L~~~L~~~l~~---~~~~~~~r~~   97 (235)
T 2d2s_A           21 GVEEIDIELARLRFESAVETLLDIESQLEDLSERISDEELMLLNLISLKIEQRREAISSKLSQSILS---SNEIVHLKSG   97 (235)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTC-------CHHHHHHHHHHHHHHHHHHHHHHHHHHT---CSSHHHHHHH
T ss_pred             ccHHHHHHHHHHhHHHHHHHHHHHHHHHHhCcccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh---cCCHHHHHHH
Confidence            334577888999999999999987642  2332    112233334444444444455555555533   3456667777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHH
Q 035645           87 IPAVSKAGMIDEAFRLLHNLV  107 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~  107 (217)
                      +..+.+.|+.++|.++|=+..
T Consensus        98 v~~L~rLg~~~~A~~lfL~~r  118 (235)
T 2d2s_A           98 TENMIKLGLPEQALDLFLQNR  118 (235)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCChhHHHHHHHHHH
Confidence            889999999999998886543

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=84.34  E-value=4.6  Score=23.78  Aligned_cols=49  Identities=12%  Similarity=0.108  Sum_probs=20.8

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      +...|++++|..+.+.+.    .||...|-.+..  .+.|..+++..-+..+..+
T Consensus        50 LmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~~la~s   98 (116)
T 2p58_C           50 LMNRGDYASALQQGNKLA----YPDLEPWLALCE--YRLGLGSALESRLNRLARS   98 (116)
T ss_dssp             HHHTTCHHHHHHHHTTSC----CGGGHHHHHHHH--HHHTCHHHHHHHHHHHTTC
T ss_pred             HHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHHHHHhC
Confidence            344455555544433221    344444433322  3444444444444444443

>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=84.11  E-value=7.5  Score=26.10  Aligned_cols=59  Identities=20%  Similarity=0.203  Sum_probs=49.2

Q ss_pred             cCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChh
Q 035645          128 RGQFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISR  186 (217)
Q Consensus       128 ~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  186 (217)
                      .+....+.++|..|...|+--. ...|......+-..|++.+|.++|+.-++.+-.|-..
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~~r  151 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPYNR  151 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHHH
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccHHH
Confidence            4557799999999998877544 5678888888889999999999999999888888544

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens}

Probab=83.64  E-value=7.2  Score=26.14  Aligned_cols=17  Identities=12%  Similarity=0.061  Sum_probs=8.4

Q ss_pred             HHHHhcCCchHHHHHHH
Q 035645          193 DGLKNCGKHDLAEKIEQ  209 (217)
Q Consensus       193 ~~~~~~~~~~~a~~~~~  209 (217)
                      ....+.|+.+-+.-+.+
T Consensus       215 ~~A~~~~~~~~v~~L~~  231 (240)
T 3eu9_A          215 DLAKQRKNVWMINHLQE  231 (240)
T ss_dssp             HHHHHTTCHHHHHHHHH
T ss_pred             HHHHHcCcHHHHHHHHH
Confidence            33345555555554443

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=83.19  E-value=11  Score=27.52  Aligned_cols=102  Identities=13%  Similarity=0.055  Sum_probs=54.1

Q ss_pred             HHhcCchhHHHHH----HHHHHhcCCCcchhhHHHHHHHHHhcCCHH-HHHHHHHHHH----hC--CCCCCcccHHHHHH
Q 035645           55 ICKSGEVEFCVEM----YYSVCKLGSCADVSTYKILIPAVSKAGMID-EAFRLLHNLV----ED--GHNPFPSLYAPIIK  123 (217)
Q Consensus        55 ~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~-~a~~~~~~~~----~~--~~~~~~~~~~~ll~  123 (217)
                      +.+.|+...|-++    .+-..+.++++|......++..+.....-+ .=..+.+++.    +.  ....|+.....+..
T Consensus        65 ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~  144 (336)
T 3lpz_A           65 LLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGT  144 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHH
T ss_pred             HHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHH
Confidence            3444554443333    344456677777777777777776654321 1122222222    11  12345566677778


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMC  160 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  160 (217)
                      .|.+.+++.+|..-|-    .|-.+....|..++.-+
T Consensus       145 ~~~~e~~~~~Ae~H~i----lg~~~s~~~~a~mL~ew  177 (336)
T 3lpz_A          145 LYVEEGEFEAAEKHLV----LGTKESPEVLARMEYEW  177 (336)
T ss_dssp             HHHHTTCHHHHHHHHT----TSCTTHHHHHHHHHHHH
T ss_pred             HHHccCCHHHHHHHHH----hcCCchHHHHHHHHHHH
Confidence            8888888888777663    12233335554444433

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=83.07  E-value=8.4  Score=25.90  Aligned_cols=149  Identities=9%  Similarity=-0.083  Sum_probs=77.8

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhcCCCcchh--hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCccc--HHHHHHHHHh
Q 035645           52 IETICKSGEVEFCVEMYYSVCKLGSCADVS--TYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSL--YAPIIKGAFR  127 (217)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~ll~~~~~  127 (217)
                      +...++.|+.+.+..+++.+.+.|..++..  .-.+.+...+..|+.+-    ++.+.+.|..++...  -...+...+.
T Consensus        13 L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~----v~~Ll~~g~~~~~~~~~g~t~l~~A~~   88 (241)
T 1k1a_A           13 LHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPSV----VRLLVTAGASPMALDRHGQTAAHLACE   88 (241)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHHH----HHHHHHTTCCTTCCCTTSCCHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCcccccCCCHHHHHHHcCCHHH----HHHHHHcCCCccccCCCCCCHHHHHHH
Confidence            445567788888888888776666555432  12244555667777754    444455555544321  1234555667


Q ss_pred             cCChHHHHHHHHHHHhcCCCC---CHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhh---HHHHHHHHHhcCCc
Q 035645          128 RGQFDDAFCFFSEIKIKGHPP---NRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRC---FDLVTDGLKNCGKH  201 (217)
Q Consensus       128 ~g~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~  201 (217)
                      .|+.+.+..+++.....+..+   +..-.+.+. ..+..|+.+    +++.+.+.|..++...   -...+...+..|+.
T Consensus        89 ~~~~~~~~~Ll~~~~~~~~~~~~~~~~g~t~L~-~A~~~~~~~----~~~~Ll~~g~~~~~~~~~~g~t~L~~A~~~~~~  163 (241)
T 1k1a_A           89 HRSPTCLRALLDSAAPGTLDLEARNYDGLTALH-VAVNTECQE----TVQLLLERGADIDAVDIKSGRSPLIHAVENNSL  163 (241)
T ss_dssp             TTCHHHHHHHHHHSCTTSCCTTCCCTTSCCHHH-HHHHHTCHH----HHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCH
T ss_pred             cCCHHHHHHHHHcCCCccccccccCcCCCcHHH-HHHHcCCHH----HHHHHHHcCCCcccccccCCCcHHHHHHHcCCH
Confidence            888877766666543211121   122222232 233455544    3444455565544321   22334444566777


Q ss_pred             hHHHHHHH
Q 035645          202 DLAEKIEQ  209 (217)
Q Consensus       202 ~~a~~~~~  209 (217)
                      +-+.-+++
T Consensus       164 ~~v~~Ll~  171 (241)
T 1k1a_A          164 SMVQLLLQ  171 (241)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            76665554

>2etb_A Transient receptor potential cation channel subfamily V member 2; TRPV2, ankyrin repeat domain, transport protein; 1.65A {Rattus norvegicus} PDB: 2eta_A 2etc_A 2f37_A

Probab=82.87  E-value=7.1  Score=26.75  Aligned_cols=189  Identities=11%  Similarity=-0.033  Sum_probs=95.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCCh-------hhHHHHHHHHHhc---CchhHHHHHHHHHHhcCCCc------
Q 035645           15 LLVQGLLNAGYLESAKQMVNKMIKQGSDPDL-------ETFNSLIETICKS---GEVEFCVEMYYSVCKLGSCA------   78 (217)
Q Consensus        15 ~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~-------~~~~~ll~~~~~~---~~~~~a~~~~~~~~~~~~~~------   78 (217)
                      +.+...++.|+.+.+..+++.+.+.|..++.       .-.+.|. ..+..   |+.+-+..+++.-...+...      
T Consensus         4 t~L~~A~~~g~~~~v~~ll~~l~~~g~~i~~~~~~~d~~g~t~L~-~A~~~~~~g~~~~v~~Ll~~g~~~~~~~~~~~~~   82 (256)
T 2etb_A            4 DRLFSVVSRGVPEELTGLLEYLRWNSKYLTDSAYTEGSTGKTCLM-KAVLNLQDGVNACIMPLLQIDKDSGNPKPLVNAQ   82 (256)
T ss_dssp             HHHHHHHHHTCGGGGTTHHHHHHHHTCCTTSGGGSBTTTTBCHHH-HHHHTCBTTBCTTHHHHHHHHHHTTCSSCGGGCC
T ss_pred             cHHHHHHHcCCHHHHHHHHHHHHHcCCCcccccccCCCCCCCHHH-HHHHccccchHHHHHHHHhcCCcccchhhhcccc
Confidence            3456677889999888888888877765543       2333444 44444   77777666665543322110      


Q ss_pred             ----chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCccc---------------HHHHHHHHHhcCChHHHHHHHH
Q 035645           79 ----DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSL---------------YAPIIKGAFRRGQFDDAFCFFS  139 (217)
Q Consensus        79 ----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---------------~~~ll~~~~~~g~~~~a~~~~~  139 (217)
                          |.. -.+.+...+..|+.+-+..    +.+.|..++...               -...+...+..|+.+-+..+++
T Consensus        83 ~~~~d~~-g~t~L~~A~~~g~~~~v~~----Ll~~ga~~~~~~~~~~~~~~~~~~~~~g~tpL~~A~~~~~~~~v~~Ll~  157 (256)
T 2etb_A           83 CTDEFYQ-GHSALHIAIEKRSLQCVKL----LVENGADVHLRACGRFFQKHQGTCFYFGELPLSLAACTKQWDVVTYLLE  157 (256)
T ss_dssp             CCSTTTT-TCCHHHHHHHTTCHHHHHH----HHHTTCCTTCCCCSGGGSCCSSSCCCSCSSHHHHHHHTTCHHHHHHHHH
T ss_pred             ccccccc-CCCHHHHHHHcCCHHHHHH----HHHcCCCCCcccccccccccccccccCCCCHHHHHHHcCCHHHHHHHHh
Confidence                111 2234455566777655444    444454443321               1234455566787765544443


Q ss_pred             HHHhcCCCCC---HhHHHHHHHHHh-cCCCHH---HHHHHHHHHHHcCCCC----------ChhhHHHHHHHHHhcCCch
Q 035645          140 EIKIKGHPPN---RPVYTTLITMCG-RGGRFV---EAANYLMEMTEMGLTP----------ISRCFDLVTDGLKNCGKHD  202 (217)
Q Consensus       140 ~~~~~~~~~~---~~~~~~li~~~~-~~g~~~---~a~~~~~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~  202 (217)
                      .- ..|..++   ..-.+.|..+.. ..+..+   ...++.+.+.+.|..+          |..-.+ -+...+..|+.+
T Consensus       158 ~~-~~ga~~n~~d~~g~TpLh~A~~~~~~~~~~~~~~~~iv~~Ll~~ga~~~~~~~~~~~~d~~g~t-pL~~A~~~g~~~  235 (256)
T 2etb_A          158 NP-HQPASLEATDSLGNTVLHALVMIADNSPENSALVIHMYDGLLQMGARLCPTVQLEEISNHQGLT-PLKLAAKEGKIE  235 (256)
T ss_dssp             CS-SCCCCTTCCCTTSCCHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHHHHSTTCCGGGCCCTTSCC-HHHHHHHTTCHH
T ss_pred             cc-ccCCCcCccCCCCCCHHHHHHHcccCCchhhHHHHHHHHHHHHcCCCcccccccccccCCCCCC-HHHHHHHhCCHH
Confidence            10 0444433   223334444432 255554   1122334444443333          222222 334445667877


Q ss_pred             HHHHHHHHH
Q 035645          203 LAEKIEQLE  211 (217)
Q Consensus       203 ~a~~~~~~~  211 (217)
                      -+.-+++.-
T Consensus       236 ~v~~Ll~~g  244 (256)
T 2etb_A          236 IFRHILQRE  244 (256)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHhCC
Confidence            777766553

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}

Probab=82.49  E-value=11  Score=26.58  Aligned_cols=18  Identities=17%  Similarity=0.327  Sum_probs=7.7

Q ss_pred             HHHHHhcCChHHHHHHHH
Q 035645          122 IKGAFRRGQFDDAFCFFS  139 (217)
Q Consensus       122 l~~~~~~g~~~~a~~~~~  139 (217)
                      +...+..|+.+-+..+++
T Consensus       165 L~~A~~~g~~~~v~~Ll~  182 (285)
T 3kea_A          165 IHITIKNGHVDMMILLLD  182 (285)
T ss_dssp             HHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHcChHHHHHHHHH
Confidence            333444455444444433

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}

Probab=82.06  E-value=11  Score=26.51  Aligned_cols=144  Identities=7%  Similarity=-0.040  Sum_probs=71.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhh--HHHHHHHHHhc
Q 035645           16 LVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVST--YKILIPAVSKA   93 (217)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~ll~~~~~~   93 (217)
                      .+...+..|+.+.+..+++    .|..++...-.+.+...+..|+.+-+..    +.+.|..++...  -.+.+...+..
T Consensus        34 ~L~~A~~~g~~~~v~~Ll~----~g~~~~~~~g~t~L~~A~~~g~~~~v~~----Ll~~ga~~~~~d~~g~t~L~~A~~~  105 (285)
T 3kea_A           34 ASYYAIADNNVRLVCTLLN----AGALKNLLENEFPLHQAATLEDTKIVKI----LLFSGLDDSQFDDKGNTALYYAVDS  105 (285)
T ss_dssp             HHHHHHHTTCHHHHHHHHH----TTGGGSCCTTCCHHHHHTTSSSCHHHHH----HHHTTCCTTCCCTTSCCHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHh----CCCCCCCCCCCCHHHHHHHcCCHHHHHH----HHHCCCCCCCcCCCCCcHHHHHHHc
Confidence            4455566788766655544    4444433322334555566677654433    344455444321  12344455667


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCc---ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHhHHHHHHHHHhcCCCHHHH
Q 035645           94 GMIDEAFRLLHNLVEDGHNPFP---SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPP-NRPVYTTLITMCGRGGRFVEA  169 (217)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a  169 (217)
                      |+.+-+.-+++.    |..++.   ..+...+...+..|+.+-+..++    +.|..+ +...-.+.+...+..|+.+-+
T Consensus       106 g~~~~v~~Ll~~----ga~~~~~~~~g~~t~L~~A~~~~~~~~v~~Ll----~~g~~~~~~~~g~t~L~~A~~~g~~~~v  177 (285)
T 3kea_A          106 GNMQTVKLFVKK----NWRLMFYGKTGWKTSFYHAVMLNDVSIVSYFL----SEIPSTFDLAILLSCIHITIKNGHVDMM  177 (285)
T ss_dssp             TCHHHHHHHHHH----CGGGGGCSSSGGGSHHHHHHHTTCHHHHHHHH----TTSCTTCCCSTHHHHHHHHHHTTCHHHH
T ss_pred             CCHHHHHHHHhc----CCCCCccCCCCCCCHHHHHHHcCCHHHHHHHH----hCCCccccccCCccHHHHHHHcChHHHH
Confidence            777655544443    333332   22234555666777765544443    444333 211223334444566777666


Q ss_pred             HHHHHH
Q 035645          170 ANYLME  175 (217)
Q Consensus       170 ~~~~~~  175 (217)
                      .-+++.
T Consensus       178 ~~Ll~~  183 (285)
T 3kea_A          178 ILLLDY  183 (285)
T ss_dssp             HHHHHH
T ss_pred             HHHHHc
Confidence            555544

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=81.74  E-value=13  Score=26.99  Aligned_cols=161  Identities=9%  Similarity=-0.046  Sum_probs=83.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCC---CCC--hhhHHHHHHHHHhcCchhHHHHH----HHHHHhcCCCcchhhHHHHH
Q 035645           17 VQGLLNAGYLESAKQMVNKMIKQGS---DPD--LETFNSLIETICKSGEVEFCVEM----YYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~m~~~~~---~~~--~~~~~~ll~~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~ll   87 (217)
                      +......|++=+|.+.++....+-+   +.+  ......-...+.+.|+...|-++    .+-..+.+.+++......++
T Consensus        20 l~~~I~~G~yYEAhQ~~Rtl~~Ry~~~~~~~eAidlL~~ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~   99 (312)
T 2wpv_A           20 FENKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQGALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLV   99 (312)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHH
T ss_pred             HHHHhhccChHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            3444556677666666655433210   100  11111222334456665554443    45555667788888888888


Q ss_pred             HHHHhcCCHH-HHHHHHHHHH----hCC--CCCCcccHHHHHHHHHhcCChHHHHHHHH----------------HHHhc
Q 035645           88 PAVSKAGMID-EAFRLLHNLV----EDG--HNPFPSLYAPIIKGAFRRGQFDDAFCFFS----------------EIKIK  144 (217)
Q Consensus        88 ~~~~~~~~~~-~a~~~~~~~~----~~~--~~~~~~~~~~ll~~~~~~g~~~~a~~~~~----------------~~~~~  144 (217)
                      ..+.....-+ .=.++.+.+.    +.|  ...++.....+...|.+.|++.+|..-|-                ...+.
T Consensus       100 ~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~  179 (312)
T 2wpv_A          100 RLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQV  179 (312)
T ss_dssp             HHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhc
Confidence            7776643211 1123333332    222  22456677788888888888888877552                11111


Q ss_pred             --CCCCCHhHH-HHHHHHHhcCCCHHHHHHHHHHHH
Q 035645          145 --GHPPNRPVY-TTLITMCGRGGRFVEAANYLMEMT  177 (217)
Q Consensus       145 --~~~~~~~~~-~~li~~~~~~g~~~~a~~~~~~~~  177 (217)
                        |.+-....| ...+-.|...|+...|..+++...
T Consensus       180 ~~~~~~e~dlf~~RaVL~yL~l~n~~~A~~~~~~f~  215 (312)
T 2wpv_A          180 DDIEDSTVAEFFSRLVFNYLFISNISFAHESKDIFL  215 (312)
T ss_dssp             TCCCHHHHHHHHHHHHHHHHHTTBHHHHHHHHHHHH
T ss_pred             CCCCcchHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence              221111111 122333456788888888888765

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens}

Probab=81.53  E-value=8.8  Score=25.68  Aligned_cols=174  Identities=13%  Similarity=0.070  Sum_probs=78.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCChh--hHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchh---hHHHHHHHHH
Q 035645           17 VQGLLNAGYLESAKQMVNKMIKQGSDPDLE--TFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVS---TYKILIPAVS   91 (217)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~m~~~~~~~~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~ll~~~~   91 (217)
                      +...++.|+++.+..+++    .|..++..  .-...+...+..|+.+-+..    +.+.|..++..   .-...+...+
T Consensus        13 l~~A~~~g~~~~~~~Ll~----~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~----Ll~~~~~~~~~~~~~~~t~L~~A~   84 (240)
T 3eu9_A           13 IVKATQYGIYERCRELVE----AGYDVRQPDKENVTLLHWAAINNRIDLVKY----YISKGAIVDQLGGDLNSTPLHWAT   84 (240)
T ss_dssp             HHHHHHTTCHHHHHHHHH----TTCCTTCCCTTSCCHHHHHHHTTCHHHHHH----HHHTTCCTTCCBTTTTBCHHHHHH
T ss_pred             HHHHHHcCChHHHHHHHH----cCCCcCCCCCCCCCHHHHHHHhCCHHHHHH----HHHcCCcchhhcCCcCCChhHHHH
Confidence            344567788766655544    44444322  11234555666777654443    44444333221   1224455556


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCccc--HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH---hHHHHHHHHHhcCCCH
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNPFPSL--YAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNR---PVYTTLITMCGRGGRF  166 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~  166 (217)
                      ..|+.+-+    +.+.+.|..++...  -...+...+..|+.+-+..+    .+.|..++.   .-.+.+..+....+. 
T Consensus        85 ~~~~~~~v----~~Ll~~g~~~~~~~~~g~t~l~~A~~~~~~~~~~~L----l~~~~~~~~~~~~g~t~l~~a~~~~~~-  155 (240)
T 3eu9_A           85 RQGHLSMV----VQLMKYGADPSLIDGEGCSCIHLAAQFGHTSIVAYL----IAKGQDVDMMDQNGMTPLMWAAYRTHS-  155 (240)
T ss_dssp             HHTCHHHH----HHHHHTTCCTTCCCTTSCCHHHHHHHTTCHHHHHHH----HHTTCCTTCCCTTSCCHHHHHHHHCCS-
T ss_pred             HcCCHHHH----HHHHHcCCCCcccCCCCCCHHHHHHHcCHHHHHHHH----HhcCCCccccCCCCCcHHHHHHHhCCh-
Confidence            66776544    44445554443221  11234555666776644444    344444332   222333333323222 


Q ss_pred             HHHHHHHHHHHHcCCCCChhh---HHHHHHHHHhcCCchHHHHHHHH
Q 035645          167 VEAANYLMEMTEMGLTPISRC---FDLVTDGLKNCGKHDLAEKIEQL  210 (217)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~  210 (217)
                      ....+   .+.+.|..++...   -...+...+..|+.+-+.-+++.
T Consensus       156 ~~~~~---~L~~~~~~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~  199 (240)
T 3eu9_A          156 VDPTR---LLLTFNVSVNLGDKYHKNTALHWAVLAGNTTVISLLLEA  199 (240)
T ss_dssp             STTHH---HHHHTTCCTTCCCTTTCCCHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHH---HHHhcCCCcchhhccCCCcHHHHHHHcCCHHHHHHHHHc
Confidence            22222   2344444433221   11234444556776666555543

>1mzb_A Ferric uptake regulation protein; ferric uptake regulator, iron, DTXR, gene regulation; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.42

Probab=81.04  E-value=1.8  Score=26.96  Aligned_cols=63  Identities=13%  Similarity=0.215  Sum_probs=42.6

Q ss_pred             HHhhCCCCCChhhHHHHHHHHHhcC-chhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHH
Q 035645           35 KMIKQGSDPDLETFNSLIETICKSG-EVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDE   98 (217)
Q Consensus        35 ~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~   98 (217)
                      .+.+.|.+++..= ..++..+...+ ..-.|.++++.+.+.+...+..|...-+..+.+.|-+.+
T Consensus         8 ~l~~~g~r~T~qR-~~Il~~L~~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv~~   71 (136)
T 1mzb_A            8 ELRKAGLKVTLPR-VKILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLVVR   71 (136)
T ss_dssp             HHHHTTCCCCHHH-HHHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSEEE
T ss_pred             HHHHCCCCCCHHH-HHHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCcEEE
Confidence            3556777755442 34455555555 677888889888877766777777777788888776653

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=80.92  E-value=8.2  Score=24.32  Aligned_cols=68  Identities=16%  Similarity=0.119  Sum_probs=35.2

Q ss_pred             CCChhhHHHHHHHHHhcCc---hhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 035645           42 DPDLETFNSLIETICKSGE---VEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        42 ~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      .|+..+--....++.++.+   ..+++.+++.+.+.+......-.-.+.-++.+.|++++|.+..+.+++.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            3455444444445555443   3356666666655432222233334444566666666666666666654

>2d2s_A Exocyst complex component EXO84; tethering complex, EXO84P, endocytosis/exocytosis complex; 2.85A {Saccharomyces cerevisiae} SCOP: a.118.17.2

Probab=80.55  E-value=12  Score=25.87  Aligned_cols=92  Identities=11%  Similarity=0.005  Sum_probs=56.8

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhc--CCCc----chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 035645           50 SLIETICKSGEVEFCVEMYYSVCKL--GSCA----DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIK  123 (217)
Q Consensus        50 ~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (217)
                      --++.+....++++|+++.++..+.  +.++    ........+..-.....-.-+..+.+++. .  .++.......+.
T Consensus        23 deLDv~IA~r~feeAv~lle~~~~~l~~~~~~~~~~~~~~~~~l~~ki~eR~~~L~~~L~~~l~-~--~~~~~~~r~~v~   99 (235)
T 2d2s_A           23 EEIDIELARLRFESAVETLLDIESQLEDLSERISDEELMLLNLISLKIEQRREAISSKLSQSIL-S--SNEIVHLKSGTE   99 (235)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTC-------CHHHHHHHHHHHHHHHHHHHHHHHHHH-T--CSSHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHhCcccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-h--cCCHHHHHHHHH
Confidence            3478888899999999999877532  2221    11222233333333333344445555553 3  344555667778


Q ss_pred             HHHhcCChHHHHHHHHHHHhc
Q 035645          124 GAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      .+.+.|+.++|.++|-+....
T Consensus       100 ~L~rLg~~~~A~~lfL~~rs~  120 (235)
T 2d2s_A          100 NMIKLGLPEQALDLFLQNRSN  120 (235)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCChhHHHHHHHHHHHH
Confidence            889999999999999877643

>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*

Probab=80.48  E-value=2.1  Score=27.00  Aligned_cols=64  Identities=13%  Similarity=0.139  Sum_probs=47.0

Q ss_pred             HHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHH
Q 035645           34 NKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDE   98 (217)
Q Consensus        34 ~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~   98 (217)
                      +.+.+.|..++.. -..++..+...+..-.|.++++.+.+.+...+..|...-+..+...|-+.+
T Consensus        11 ~~l~~~g~r~T~q-R~~Il~~L~~~~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv~~   74 (145)
T 2fe3_A           11 ETLKETGVRITPQ-RHAILEYLVNSMAHPTADDIYKALEGKFPNMSVATVYNNLRVFRESGLVKE   74 (145)
T ss_dssp             HHHHHTTCCCCHH-HHHHHHHHHHCSSCCCHHHHHHHHGGGCTTCCHHHHHHHHHHHHHTTSEEE
T ss_pred             HHHHHcCCCCCHH-HHHHHHHHHhCCCCCCHHHHHHHHHHhCCCCChhhHHHHHHHHHHCCCEEE
Confidence            4466778776554 334555566667778899999999887777788888888888988887653

>3eyy_A Putative iron uptake regulatory protein; NUR, nickel-uptake regulator, D-domain, dimerization domain, DB-domain, DNA-binding domain; 2.40A {Streptomyces coelicolor}

Probab=80.39  E-value=2.3  Score=26.80  Aligned_cols=62  Identities=13%  Similarity=0.131  Sum_probs=41.6

Q ss_pred             HHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHH
Q 035645           34 NKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMID   97 (217)
Q Consensus        34 ~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~   97 (217)
                      +.+.+.|++++..= ..++..+...+ .-.|.++++.+.+.+...+..|...-++.+...|-+.
T Consensus         8 ~~L~~~g~r~T~qR-~~Il~~l~~~~-h~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Glv~   69 (145)
T 3eyy_A            8 SDLRQRGYRLTPQR-QLVLEAVDTLE-HATPDDILGEVRKTASGINISTVYRTLELLEELGLVS   69 (145)
T ss_dssp             HHHHTTTCCCCHHH-HHHHHHHHHHS-SBCHHHHHHHHHTTCTTCCHHHHHHHHHHHHHHTSEE
T ss_pred             HHHHHcCCCcCHHH-HHHHHHHHhcC-CCCHHHHHHHHHhhCCCCCHhHHHHHHHHHHHCCcEE
Confidence            34566777765542 33444555555 6688888888887776667777777777888877654

---

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	217
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.77
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.73
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.67
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.53
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.51
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.5
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.45
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.37
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.29
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.18
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.11
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.11
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.0
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.96
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.95
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.94
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.93
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.9
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.89
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.87
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.87
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.87
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.86
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.79
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.75
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.67
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.66
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.61
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.55
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.51
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.48
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.46
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.45
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.41
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.4
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.4
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.36
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.33
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.33
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.3
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.3
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.21
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.15
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.13
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.05
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.97
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.91
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.89
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.78
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.71
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.59
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.59
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.44
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	96.99
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.92
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.83
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.62
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.93
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	95.86
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	95.2
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.92
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	92.75
d1mzba_	134	Ferric uptake regulation protein, FUR {Pseudomonas	81.48
d1u9pa1	36	Arc repressor {Salmonella bacteriophage P22 [TaxId	81.23
d1uoha_	223	26S proteasome non-ATPase regulatory subunit 10, g	80.34

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=8e-16  Score=112.85  Aligned_cols=203  Identities=15%  Similarity=0.103  Sum_probs=175.0

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +...+..+...+...|+++.|...+++..+.. +-+...+..+...+...|++++|+..+++..... +.+...+..+..
T Consensus       168 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  245 (388)
T d1w3ba_         168 FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLAC  245 (388)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHH
Confidence            35667788889999999999999999988753 2366788999999999999999999999998764 345677888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVE  168 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  168 (217)
                      .+.+.|++++|...|++..+.. +.+..++..+...+...|++++|...+...... .+.+...+..+...+...|++++
T Consensus       246 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~  323 (388)
T d1w3ba_         246 VYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEE  323 (388)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHH
Confidence            9999999999999999998875 345678889999999999999999999998776 35577889999999999999999


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          169 AANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      |.+.|++..+.. +-+..++..+..+|.+.|++++|.+.++...+++|
T Consensus       324 A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P  370 (388)
T d1w3ba_         324 AVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP  370 (388)
T ss_dssp             HHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            999999988754 22466788999999999999999999999988876

>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=99.73  E-value=9.2e-15  Score=105.33  Aligned_cols=199  Identities=14%  Similarity=0.090  Sum_probs=159.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhc
Q 035645           14 DLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKA   93 (217)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~   93 (217)
                      -.....+.+.|++++|...|+++.+.. +-+..+|..+..++...|++++|+..|++..+... -+...+..+...|...
T Consensus        23 ~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~  100 (323)
T d1fcha_          23 FEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccc-cccccccccccccccc
Confidence            345667889999999999999998864 23677899999999999999999999999887532 2567788888899999


Q ss_pred             CCHHHHHHHHHHHHhCCC-----------------------------------------------C---CCcccHHHHHH
Q 035645           94 GMIDEAFRLLHNLVEDGH-----------------------------------------------N---PFPSLYAPIIK  123 (217)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~-----------------------------------------------~---~~~~~~~~ll~  123 (217)
                      |++++|.+.+++......                                               .   ++..++..+..
T Consensus       101 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~  180 (323)
T d1fcha_         101 SLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGV  180 (323)
T ss_dssp             TCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHH
T ss_pred             ccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            999999888887654310                                               1   12234566677


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchH
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDL  203 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (217)
                      .+...|++++|...++...... +-+..+|..+...+...|++++|.+.|++..+.. +-+..++..+..+|.+.|++++
T Consensus       181 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~  258 (323)
T d1fcha_         181 LFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHRE  258 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHH
Confidence            7889999999999999987763 3357888999999999999999999999988754 2345678889999999999999


Q ss_pred             HHHHHHHHhhhcC
Q 035645          204 AEKIEQLEVSLRS  216 (217)
Q Consensus       204 a~~~~~~~~~~~~  216 (217)
                      |.+.++...++.|
T Consensus       259 A~~~~~~al~l~p  271 (323)
T d1fcha_         259 AVEHFLEALNMQR  271 (323)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC
Confidence            9999998887654

>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=99.67  E-value=3.3e-14  Score=104.06  Aligned_cols=186  Identities=13%  Similarity=0.130  Sum_probs=159.6

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      +...|..+...+...|++++|...+++....+ +.+...+..+...+.+.|++++|+..|++..+.. +-+..++..+..
T Consensus       202 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~  279 (388)
T d1w3ba_         202 FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLAN  279 (388)
T ss_dssp             CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHH
T ss_pred             cHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45678889999999999999999999988764 3467788889999999999999999999998753 235678899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHH
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVE  168 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  168 (217)
                      ++...|++++|...++...... +.+...+..+...+...|++++|...|++..+.. +-+..++..+..++...|++++
T Consensus       280 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~  357 (388)
T d1w3ba_         280 ALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQE  357 (388)
T ss_dssp             HHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHH
T ss_pred             HHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999988764 5567788899999999999999999999988752 3357789999999999999999


Q ss_pred             HHHHHHHHHHcCCCC-ChhhHHHHHHHHHhcCC
Q 035645          169 AANYLMEMTEMGLTP-ISRCFDLVTDGLKNCGK  200 (217)
Q Consensus       169 a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  200 (217)
                      |.+.|++..+.  .| +..+|..+..+|.+.||
T Consensus       358 A~~~~~~al~l--~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         358 ALMHYKEAIRI--SPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHTT--CTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            99999998875  45 46688899999888775

>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=99.53  E-value=1e-11  Score=89.10  Aligned_cols=197  Identities=12%  Similarity=0.012  Sum_probs=155.4

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCC------------
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGS------------   76 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~------------   76 (217)
                      +..+|..+..++...|+++.|...+++..+... -+...+..+..+|...|++++|.+.++.......            
T Consensus        52 ~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  130 (323)
T d1fcha_          52 HMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEG  130 (323)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC-----
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHhhhcccc-ccccccccccccccccccccccccchhhHHHhccchHHHHHhhhhh
Confidence            467899999999999999999999999887542 3677888889999999999999988877653210            


Q ss_pred             --------------------------------------CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccH
Q 035645           77 --------------------------------------CADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLY  118 (217)
Q Consensus        77 --------------------------------------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  118 (217)
                                                            .++..++..+...+...|++++|...|++..... +-+..+|
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~  209 (323)
T d1fcha_         131 AGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLW  209 (323)
T ss_dssp             ----------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             hhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccch
Confidence                                                  1234556777888899999999999999988764 3456788


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcC----------CCCChhhH
Q 035645          119 APIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG----------LTPISRCF  188 (217)
Q Consensus       119 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----------~~~~~~~~  188 (217)
                      ..+...+...|++++|.+.|....+.. +-+..++..+..+|.+.|++++|.+.|++.++..          .......+
T Consensus       210 ~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~  288 (323)
T d1fcha_         210 NKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIW  288 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHH
T ss_pred             hhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHH
Confidence            899999999999999999999988763 2357789999999999999999999999887521          11122356


Q ss_pred             HHHHHHHHhcCCchHHHHHH
Q 035645          189 DLVTDGLKNCGKHDLAEKIE  208 (217)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~  208 (217)
                      ..+-.++...++.+.+....
T Consensus       289 ~~l~~al~~~~~~d~~~~~~  308 (323)
T d1fcha_         289 STLRLALSMLGQSDAYGAAD  308 (323)
T ss_dssp             HHHHHHHHHHTCGGGHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHH
Confidence            66777777778877665543

>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=99.51  E-value=5.1e-12  Score=90.65  Aligned_cols=201  Identities=7%  Similarity=0.033  Sum_probs=158.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC-chhHHHHHHHHHHhcCCCcchhhHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSG-EVEFCVEMYYSVCKLGSCADVSTYKILIP   88 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~   88 (217)
                      ...|+.+...+.+.+.+++|+++++++++... -+...|+....++...| ++++|+..++...+... -+..+|+.+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP-~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p-~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNA-ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCC-CChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHH-hhhhHHHHHhH
Confidence            45677777788899999999999999998642 36778888888888876 58999999999987643 36788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCC---
Q 035645           89 AVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGR---  165 (217)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---  165 (217)
                      .+.+.|++++|+..++++.+.. +-+..+|..+...+...|++++|...++.+.+... -+...|+.+...+.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC-ccHHHHHHHHHHHHHccccch
Confidence            9999999999999999999875 44678999999999999999999999999988743 367778877666555444   


Q ss_pred             ---HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          166 ---FVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       166 ---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                         +++|.+.+....+.. +-+...|..+...+.. ...+++.+.++...++.+
T Consensus       199 ~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~  250 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQP  250 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTT
T ss_pred             hhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCC
Confidence               678888888887765 2355666666665544 446777777777766543

>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=99.50  E-value=1.6e-11  Score=87.71  Aligned_cols=189  Identities=12%  Similarity=0.040  Sum_probs=151.2

Q ss_pred             CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHH
Q 035645           25 YLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLH  104 (217)
Q Consensus        25 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  104 (217)
                      ..++|..+|++..+...+.+...|...+....+.|+++.|..+|+++.+........+|...+..+.+.++++.|.++|+
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            45788899999887655556678888889999999999999999999875433334578999999999999999999999


Q ss_pred             HHHhCCCCCCcccHHHHHHH-HHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcC-CC
Q 035645          105 NLVEDGHNPFPSLYAPIIKG-AFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMG-LT  182 (217)
Q Consensus       105 ~~~~~~~~~~~~~~~~ll~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~  182 (217)
                      +..+.. +.+...|...... +...|+.+.|..+|+.+... .+.+...|...++.+...|+++.|..+|++..... ..
T Consensus       159 ~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         159 KAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            998775 3344455444433 34468999999999999876 34568899999999999999999999999988754 34


Q ss_pred             CC--hhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          183 PI--SRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       183 ~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      |.  ...|...+.--...|+.+.+.++.+++.+.-
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~  271 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  271 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            43  3467888887788999999999999887653

>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=3.4e-12  Score=88.77  Aligned_cols=201  Identities=12%  Similarity=-0.057  Sum_probs=137.4

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           10 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      ..+|..+...|.+.|++++|...|++.++.. +-+..+|..+..++.+.|++++|+..|++..+... -+..++..+..+
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~  114 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIA  114 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh-hhhhhHHHHHHH
Confidence            3467778889999999999999999998864 23778899999999999999999999999988542 256778889999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHH
Q 035645           90 VSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEA  169 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  169 (217)
                      +...|++++|...|+...+.. +.+......+..++.+.+..+.+..+........  ++...++ ++..+.........
T Consensus       115 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~~~~~~~  190 (259)
T d1xnfa_         115 LYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--KEQWGWN-IVEFYLGNISEQTL  190 (259)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--CCSTHHH-HHHHHTTSSCHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--hhhhhhh-HHHHHHHHHHHHHH
Confidence            999999999999999988764 2334444444455566666666666655555432  2222222 22333222222221


Q ss_pred             HHHHHHHHH--cCCCCC-hhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          170 ANYLMEMTE--MGLTPI-SRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       170 ~~~~~~~~~--~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      .........  ....|+ ..+|..+...+...|++++|.+.++...+..|
T Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         191 MERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             HHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            111111111  011222 24677789999999999999999999988765

>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=99.37  E-value=2e-10  Score=81.95  Aligned_cols=187  Identities=9%  Similarity=-0.037  Sum_probs=142.3

Q ss_pred             HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh--------------cCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHH
Q 035645           26 LESAKQMVNKMIKQGSDPDLETFNSLIETICK--------------SGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVS   91 (217)
Q Consensus        26 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~--------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   91 (217)
                      .+++..+|++++.. .+.+...|...+..+-+              .+..++|..+|++..+...+.+...+...+....
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            46677888888765 23356666665554432              2345788999999887544556677888899999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHH-HhcCCCHHHHH
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITM-CGRGGRFVEAA  170 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~a~  170 (217)
                      +.|+++.|..+|+++.+........+|...+....+.|+.+.|..+|....+.+. .+...|...... +...|+.+.|.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhccCHHHHH
Confidence            9999999999999998764333344788999999999999999999999987743 244444444433 34568999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          171 NYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      .+|+.+.+.. +.+...+...++.+.+.|+++.|..+|+...+..
T Consensus       190 ~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~  233 (308)
T d2onda1         190 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  233 (308)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC
Confidence            9999998753 4456789999999999999999999999987654

>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=99.29  E-value=2.2e-10  Score=82.01  Aligned_cols=168  Identities=7%  Similarity=0.028  Sum_probs=138.0

Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 035645           45 LETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAG-MIDEAFRLLHNLVEDGHNPFPSLYAPIIK  123 (217)
Q Consensus        45 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (217)
                      ...++.+...+.+.+.+++|+++++++++.+. -+..+|+....++...+ ++++|+..++...+.+ +-+..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP-~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNA-ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCC-CChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            34567777788899999999999999998642 25567888888888876 5899999999998875 446789999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC---
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGK---  200 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  200 (217)
                      .+.+.|++++|+..+..+.+.. +.+...|..+...+...|++++|.+.+++..+.+ +-+...|+.+...+.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccch
Confidence            9999999999999999998873 3468999999999999999999999999999875 3356678777777777666   


Q ss_pred             ---chHHHHHHHHHhhhcC
Q 035645          201 ---HDLAEKIEQLEVSLRS  216 (217)
Q Consensus       201 ---~~~a~~~~~~~~~~~~  216 (217)
                         +++|.+.+..+.++.|
T Consensus       199 ~~~~~~ai~~~~~al~~~P  217 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVP  217 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHST
T ss_pred             hhhhHHhHHHHHHHHHhCC
Confidence               4678777777776654

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.18  E-value=5.9e-10  Score=78.77  Aligned_cols=205  Identities=12%  Similarity=-0.066  Sum_probs=142.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCCC-ChhhHHHHHHHHHhcCchhHHHHHHHHHHhc----CC-Ccch
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GSDP-DLETFNSLIETICKSGEVEFCVEMYYSVCKL----GS-CADV   80 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~   80 (217)
                      ..|......|...|++++|.+.|.+..+.    +-++ -..+|..+..+|.+.|++++|++.+++..+.    |. ....
T Consensus        38 ~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~  117 (290)
T d1qqea_          38 DLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (290)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHH
Confidence            45888888999999999999999988652    2222 2357889999999999999999999987542    11 1123


Q ss_pred             hhHHHHHHHHHh-cCCHHHHHHHHHHHHhC----CCCC-CcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH----
Q 035645           81 STYKILIPAVSK-AGMIDEAFRLLHNLVED----GHNP-FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNR----  150 (217)
Q Consensus        81 ~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~----  150 (217)
                      .++..+...|.. .|++++|...+++..+.    +.++ ...++..+...+...|++++|...|.+..........    
T Consensus       118 ~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~  197 (290)
T d1qqea_         118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS  197 (290)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG
T ss_pred             HHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhh
Confidence            556677777754 69999999999987642    2111 1346788899999999999999999998765322111    


Q ss_pred             --hHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCC-CC---hhhHHHHHHHHHh--cCCchHHHHHHHHHhhhc
Q 035645          151 --PVYTTLITMCGRGGRFVEAANYLMEMTEMGLT-PI---SRCFDLVTDGLKN--CGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       151 --~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~  215 (217)
                        ..+...+..+...|+++.|.+.+++..+.... ++   ......++.++..  .+.+++|.+-++.+.+++
T Consensus       198 ~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD  270 (290)
T d1qqea_         198 LKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLD  270 (290)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCC
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcC
Confidence              22344555667889999999999988765321 12   2345667777665  234677777665554443

>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=99.11  E-value=1.4e-08  Score=67.15  Aligned_cols=127  Identities=7%  Similarity=-0.131  Sum_probs=93.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHH
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVS   91 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~   91 (217)
                      .|+. ...+...|+++.|++.|.++    .+|+..+|..+..+|...|++++|++.|++..+... -+...|..+..++.
T Consensus         8 l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp-~~~~a~~~~g~~~~   81 (192)
T d1hh8a_           8 LWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYY   81 (192)
T ss_dssp             HHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh-hhhhhHHHHHHHHH
Confidence            3544 55667889999999988764    356778888899999999999999999999987542 35678888888999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCC---------------cccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           92 KAGMIDEAFRLLHNLVEDGHNPF---------------PSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      +.|++++|...|++.........               ..++..+..++.+.|++++|.+.+......
T Consensus        82 ~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          82 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             hhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            99999999999988765321100               123445566677777777777777766654

>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=99.11  E-value=5.3e-09  Score=69.20  Aligned_cols=140  Identities=11%  Similarity=0.007  Sum_probs=109.7

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCh
Q 035645           52 IETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQF  131 (217)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~  131 (217)
                      ...+...|+++.|++.|+++    .+|+..+|..+..+|...|++++|.+.|++..+.+ +.+...|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            44567889999999999865    34677888999999999999999999999999875 44577899999999999999


Q ss_pred             HHHHHHHHHHHhcCC------------C--CC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 035645          132 DDAFCFFSEIKIKGH------------P--PN-RPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLK  196 (217)
Q Consensus       132 ~~a~~~~~~~~~~~~------------~--~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  196 (217)
                      ++|...|++......            .  ++ ..++..+..++...|++++|.+.+....+....+........+..+.
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~Al~~~~  166 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKAMECVW  166 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHHHHHHHH
Confidence            999999998865311            1  11 24566777888999999999999998887665555554444444443

>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=99.00  E-value=2.3e-09  Score=77.11  Aligned_cols=189  Identities=8%  Similarity=-0.055  Sum_probs=133.7

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCc--hhHHHHHHHHHHhcCCCcchhhH-HHHHHHHHhcCCHHHH
Q 035645           23 AGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGE--VEFCVEMYYSVCKLGSCADVSTY-KILIPAVSKAGMIDEA   99 (217)
Q Consensus        23 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~-~~ll~~~~~~~~~~~a   99 (217)
                      .|++++|+..++...+.. +-+...|..+..++...++  +++|+..+++..+... ++...+ ......+...+.+++|
T Consensus        86 ~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          86 AALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccHHH
Confidence            455788999999988764 3367777777777777664  7899999999987533 344444 4455677788999999


Q ss_pred             HHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHH------------------------------HHHHHHHHhcCCCCC
Q 035645          100 FRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDA------------------------------FCFFSEIKIKGHPPN  149 (217)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a------------------------------~~~~~~~~~~~~~~~  149 (217)
                      ...++...+.+ +-+...|+.+..++.+.|++++|                              ...+...... -+++
T Consensus       164 l~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~-~~~~  241 (334)
T d1dcea1         164 LAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLG-RAEP  241 (334)
T ss_dssp             HHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHS-CCCC
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHHh-Ccch
Confidence            99999888775 34566777777777777765443                              2222222211 1222


Q ss_pred             HhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHhhhcC
Q 035645          150 RPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEVSLRS  216 (217)
Q Consensus       150 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  216 (217)
                      ...+..+...+...+++++|...+.+..+.. +-+..++..+..++...|+.++|.+.++.+.+++|
T Consensus       242 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP  307 (334)
T d1dcea1         242 LFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  307 (334)
T ss_dssp             SSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCG
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            3344445556666788888888888777654 23556788899999999999999999999999887

>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=98.96  E-value=2e-08  Score=70.71  Aligned_cols=168  Identities=10%  Similarity=-0.000  Sum_probs=121.5

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhc----CCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-CCccc
Q 035645           48 FNSLIETICKSGEVEFCVEMYYSVCKL----GSCA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVED----GHN-PFPSL  117 (217)
Q Consensus        48 ~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~  117 (217)
                      |......|...+++++|.+.|.+..+.    +-++ -..+|..+..+|.+.|++++|...+++..+.    +.. ....+
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            555677889999999999999988642    2222 2367899999999999999999999976542    211 11345


Q ss_pred             HHHHHHHHHh-cCChHHHHHHHHHHHhc----CCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCC-----h-
Q 035645          118 YAPIIKGAFR-RGQFDDAFCFFSEIKIK----GHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPI-----S-  185 (217)
Q Consensus       118 ~~~ll~~~~~-~g~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~-  185 (217)
                      +..+...+.. .|++++|...+....+.    +..+. ..++..+...+...|++++|.+.|++.........     . 
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            6666666644 69999999999887542    22221 35678889999999999999999999876432211     1 


Q ss_pred             hhHHHHHHHHHhcCCchHHHHHHHHHhhhc
Q 035645          186 RCFDLVTDGLKNCGKHDLAEKIEQLEVSLR  215 (217)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  215 (217)
                      ..+...+..+...|+++.|.+.++...+..
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            224455667778899999999998877654

>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=98.95  E-value=6.6e-08  Score=66.52  Aligned_cols=152  Identities=8%  Similarity=-0.061  Sum_probs=113.8

Q ss_pred             CCHHHHHHHHHHHhhCCC-CC--ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHH
Q 035645           24 GYLESAKQMVNKMIKQGS-DP--DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAF  100 (217)
Q Consensus        24 g~~~~a~~~~~~m~~~~~-~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  100 (217)
                      .+.+.++.-+++...... .+  ...+|..+..+|.+.|++++|++.|++..+.. +-+..+|+.+..++.+.|++++|.
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            456677777888776432 21  23467778889999999999999999998853 236788999999999999999999


Q ss_pred             HHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          101 RLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                      ..|++..+.+ +.+..++..+..++...|++++|...|+...+.. +.+......+...+.+.+..+.+..+......
T Consensus        92 ~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (259)
T d1xnfa_          92 EAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  167 (259)
T ss_dssp             HHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc
Confidence            9999999875 3456688889999999999999999999998763 22444444444445555555555555554444

>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=98.94  E-value=5.9e-09  Score=69.23  Aligned_cols=100  Identities=13%  Similarity=-0.007  Sum_probs=87.5

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCc-chhhHHH
Q 035645            7 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCA-DVSTYKI   85 (217)
Q Consensus         7 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~   85 (217)
                      .|+...+-.....+.+.|++++|+..|++.++.. +-+...|..+..+|.+.|++++|+..|++..+.  .| +..+|..
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~   77 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFF   77 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHH
Confidence            3777888888999999999999999999988764 347888999999999999999999999999874  34 5678999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC
Q 035645           86 LIPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      +..+|.+.|++++|...|++..+.
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999999999999999999987753

>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=6.5e-08  Score=58.45  Aligned_cols=91  Identities=16%  Similarity=0.096  Sum_probs=50.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCH
Q 035645           17 VQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMI   96 (217)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~   96 (217)
                      ...+.+.|++++|+..|++.++.. +-+...|..+..++.+.|++++|+..+++..+.. +.+...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            344555566666666666655542 2244555555555556666666666665555542 22445555555555566666


Q ss_pred             HHHHHHHHHHHhC
Q 035645           97 DEAFRLLHNLVED  109 (217)
Q Consensus        97 ~~a~~~~~~~~~~  109 (217)
                      ++|+..|++..+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            6666666555544

>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=98.90  E-value=8.6e-08  Score=57.89  Aligned_cols=91  Identities=15%  Similarity=0.085  Sum_probs=52.9

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCh
Q 035645           52 IETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQF  131 (217)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~  131 (217)
                      ...+.+.|++++|+..|++..+.. +-+...|..+..++.+.|++++|+..+....+.+ +.+...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            344555666666666666665542 2244556666666666666666666666665543 33455566666666666666


Q ss_pred             HHHHHHHHHHHhc
Q 035645          132 DDAFCFFSEIKIK  144 (217)
Q Consensus       132 ~~a~~~~~~~~~~  144 (217)
                      ++|...|+...+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            6666666666543

>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=98.89  E-value=7e-08  Score=61.62  Aligned_cols=90  Identities=11%  Similarity=0.072  Sum_probs=42.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHH
Q 035645           18 QGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMID   97 (217)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~   97 (217)
                      ..|.+.|++++|...|++..+.. +-+...|..+..+|...|++++|++.|++..+.. +-+..+|..+..++...|+++
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHH
Confidence            34445555555555555554432 1244444445555555555555555555554432 113344444555555555555


Q ss_pred             HHHHHHHHHHhC
Q 035645           98 EAFRLLHNLVED  109 (217)
Q Consensus        98 ~a~~~~~~~~~~  109 (217)
                      +|...+++....
T Consensus        96 eA~~~~~~a~~~  107 (159)
T d1a17a_          96 AALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc
Confidence            555555544443

>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=98.87  E-value=4.1e-08  Score=65.01  Aligned_cols=99  Identities=8%  Similarity=-0.044  Sum_probs=86.5

Q ss_pred             CChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHH
Q 035645           43 PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPII  122 (217)
Q Consensus        43 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll  122 (217)
                      |+...+......+.+.|++++|+..|++..... +.+...|..+..+|.+.|++++|+..|++..+.+ +-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            677778888899999999999999999998764 3467889999999999999999999999998764 33467899999


Q ss_pred             HHHHhcCChHHHHHHHHHHHh
Q 035645          123 KGAFRRGQFDDAFCFFSEIKI  143 (217)
Q Consensus       123 ~~~~~~g~~~~a~~~~~~~~~  143 (217)
                      .++.+.|++++|...|+...+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999998765

>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=98.87  E-value=1e-06  Score=62.73  Aligned_cols=203  Identities=14%  Similarity=0.042  Sum_probs=140.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHhh----CCCCCC---hhhHHHHHHHHHhcCchhHHHHHHHHHHhcC----CCcch
Q 035645           12 GRDLLVQGLLNAGYLESAKQMVNKMIK----QGSDPD---LETFNSLIETICKSGEVEFCVEMYYSVCKLG----SCADV   80 (217)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~m~~----~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~~   80 (217)
                      .+..+...+...|++..+...+.....    .+..+.   ...+..+...+...|+++.+...+.......    .....
T Consensus        93 ~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  172 (366)
T d1hz4a_          93 SLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQL  172 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHH
Confidence            344555666677777777777766543    111111   2345566778888999999999998876432    22234


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC--CcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC---CHh
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVED----GHNP--FPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPP---NRP  151 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~  151 (217)
                      ..+......+...++...+...+.+....    +..+  ....+......+...|++++|...+..........   ...
T Consensus       173 ~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  252 (366)
T d1hz4a_         173 QCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQG  252 (366)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHH
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHH
Confidence            55666777788889999988888776532    1111  12245566677889999999999998876543222   234


Q ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHH----cCCCCC-hhhHHHHHHHHHhcCCchHHHHHHHHHhhh
Q 035645          152 VYTTLITMCGRGGRFVEAANYLMEMTE----MGLTPI-SRCFDLVTDGLKNCGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       152 ~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (217)
                      .+..+..++...|++++|...++....    .+..|+ ..++..+..+|.+.|++++|.+.++...++
T Consensus       253 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l  320 (366)
T d1hz4a_         253 QWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  320 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            566678889999999999999998763    344444 357888899999999999999999887654

>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=98.87  E-value=4.6e-07  Score=64.56  Aligned_cols=201  Identities=11%  Similarity=0.036  Sum_probs=113.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCC----hhhHHHHHHHHHhcCchhHHHHHHHHHHhcC----CCc-chhhH
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPD----LETFNSLIETICKSGEVEFCVEMYYSVCKLG----SCA-DVSTY   83 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~   83 (217)
                      .......+...|++++|.+++++..+.....+    ...+..+..++...|++++|+..|++..+..    ..+ ...++
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            33345566788888888888888776422111    2356667778888888888888888775421    111 12345


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC---cccHHHHHHHHHhcCChHHHHHHHHHHHhcCCC----CC---
Q 035645           84 KILIPAVSKAGMIDEAFRLLHNLVED----GHNPF---PSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHP----PN---  149 (217)
Q Consensus        84 ~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~----~~---  149 (217)
                      ..+...+...|++..+...+.+....    .....   ...+..+...+...|+++.+...+.........    ..   
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            55566666777777777766654421    11111   123344455566666666666666554332110    00   


Q ss_pred             --------------------------------------HhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCC---ChhhH
Q 035645          150 --------------------------------------RPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTP---ISRCF  188 (217)
Q Consensus       150 --------------------------------------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~  188 (217)
                                                            ...+......+...|++++|...+..........   ....+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence                                                  1223334445556666777766666554332211   22344


Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHhh
Q 035645          189 DLVTDGLKNCGKHDLAEKIEQLEVS  213 (217)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~  213 (217)
                      ..+..++...|++++|.+.++....
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~  279 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNE  279 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5567777777777777777776654

>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=98.86  E-value=1.1e-07  Score=60.61  Aligned_cols=92  Identities=13%  Similarity=0.090  Sum_probs=74.6

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC
Q 035645           51 LIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQ  130 (217)
Q Consensus        51 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~  130 (217)
                      ....|.+.|++++|+..|++..+.. +.+...|..+..+|...|++++|...|++..+.+ +-+..+|..+..++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            4556778899999999999888764 3366778888888889999999999999888765 4455788888888899999


Q ss_pred             hHHHHHHHHHHHhc
Q 035645          131 FDDAFCFFSEIKIK  144 (217)
Q Consensus       131 ~~~a~~~~~~~~~~  144 (217)
                      +++|...+......
T Consensus        94 ~~eA~~~~~~a~~~  107 (159)
T d1a17a_          94 FRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999988888776

>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=98.79  E-value=3.6e-08  Score=60.00  Aligned_cols=100  Identities=12%  Similarity=0.065  Sum_probs=73.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC---hHHHHHHHHHHHhcCCCCC-HhHHHHHHHH
Q 035645           84 KILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQ---FDDAFCFFSEIKIKGHPPN-RPVYTTLITM  159 (217)
Q Consensus        84 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~~~~~-~~~~~~li~~  159 (217)
                      ..+++.+...+++++|.+.|++....+ +.+..++..+..++.+.++   +++|+.+++++...+..|+ ..++..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            457778888888888888888888765 4566777778888876554   4568888888776543333 2467778888


Q ss_pred             HhcCCCHHHHHHHHHHHHHcCCCCChh
Q 035645          160 CGRGGRFVEAANYLMEMTEMGLTPISR  186 (217)
Q Consensus       160 ~~~~g~~~~a~~~~~~~~~~~~~~~~~  186 (217)
                      |.+.|++++|.+.|++..+..  |+..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~--P~~~  106 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE--PQNN  106 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCH
T ss_pred             HHHHhhhHHHHHHHHHHHHhC--cCCH
Confidence            888888888888888888754  6544

>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=1.1e-07  Score=56.91  Aligned_cols=90  Identities=13%  Similarity=0.059  Sum_probs=55.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcC
Q 035645           15 LLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAG   94 (217)
Q Consensus        15 ~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~   94 (217)
                      .....+.+.|++++|...|++.++... -+..+|..+..++.+.|++++|+..|++..+.. +.+..++..+...|...|
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhccccc-ccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCC
Confidence            345556666666666666666665432 255666666666666666666666666666542 224556666666666666


Q ss_pred             CHHHHHHHHHHH
Q 035645           95 MIDEAFRLLHNL  106 (217)
Q Consensus        95 ~~~~a~~~~~~~  106 (217)
                      ++++|.+.+++.
T Consensus        99 ~~~~A~~~l~~~  110 (112)
T d1hxia_          99 NANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            666666666654

>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=98.67  E-value=1.5e-07  Score=56.35  Aligned_cols=87  Identities=9%  Similarity=-0.011  Sum_probs=47.2

Q ss_pred             HHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCh
Q 035645           52 IETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQF  131 (217)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~  131 (217)
                      ...+.+.|++++|+..|++..+... -+..+|..+..++.+.|++++|...|++..+.+ +.+..++..+...|...|++
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhccccc-ccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCH
Confidence            3445555666666666665554321 134555555555666666666666665555543 22344555555555555555


Q ss_pred             HHHHHHHHH
Q 035645          132 DDAFCFFSE  140 (217)
Q Consensus       132 ~~a~~~~~~  140 (217)
                      ++|.+.+++
T Consensus       101 ~~A~~~l~~  109 (112)
T d1hxia_         101 NAALASLRA  109 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555554

>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=2.9e-07  Score=55.88  Aligned_cols=95  Identities=9%  Similarity=0.083  Sum_probs=58.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC---chhHHHHHHHHHHhcCCCcc-hhhHHHHHHH
Q 035645           14 DLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSG---EVEFCVEMYYSVCKLGSCAD-VSTYKILIPA   89 (217)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~   89 (217)
                      ..++..+...+++++|.+.|++....+ +.+..++..+..++.+.+   ++++|+.+|+++......|+ ..++..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            345666666677777777777766653 335566666666666533   34457777776665433333 2355666667


Q ss_pred             HHhcCCHHHHHHHHHHHHhC
Q 035645           90 VSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~  109 (217)
                      |.+.|++++|.+.|++.++.
T Consensus        82 y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHh
Confidence            77777777777777777664

>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=98.61  E-value=3.9e-07  Score=65.15  Aligned_cols=182  Identities=5%  Similarity=-0.059  Sum_probs=128.0

Q ss_pred             ChhhHHHHHHHHHhcC--CHHHHHHHHHHHhhCCCCCChhhHH-HHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHH
Q 035645            9 PVRGRDLLVQGLLNAG--YLESAKQMVNKMIKQGSDPDLETFN-SLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKI   85 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   85 (217)
                      +...|..+..++...+  ++++|...++++.+.. +++...+. .....+...+.+++|+..++...+... -+...|+.
T Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~  183 (334)
T d1dcea1         106 SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHY  183 (334)
T ss_dssp             CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHH
T ss_pred             cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHH
Confidence            4566777777777765  4899999999998764 33555554 445677788999999999998887643 35677888


Q ss_pred             HHHHHHhcCCHHHH------------------------------HHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHH
Q 035645           86 LIPAVSKAGMIDEA------------------------------FRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAF  135 (217)
Q Consensus        86 ll~~~~~~~~~~~a------------------------------~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~  135 (217)
                      +..++.+.|++++|                              ...+....... +++...+..+...+...|+.++|.
T Consensus       184 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~  262 (334)
T d1dcea1         184 RSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESC  262 (334)
T ss_dssp             HHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHH
Confidence            88888777765433                              22222222222 333445556667777889999999


Q ss_pred             HHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHH
Q 035645          136 CFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPIS-RCFDLVTDGLK  196 (217)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~  196 (217)
                      ..+.+..... +.+..++..+...+...|++++|.+.+++..+..  |+. .-|..+...+.
T Consensus       263 ~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld--P~~~~y~~~L~~~~~  321 (334)
T d1dcea1         263 KELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD--PMRAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHH
T ss_pred             HHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--cccHHHHHHHHHHHh
Confidence            9998887653 2246788889999999999999999999998854  644 34555555544

>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=55.18  Aligned_cols=62  Identities=11%  Similarity=-0.055  Sum_probs=42.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           82 TYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      +|+.+..+|.+.|++++|+..++..++.+ +.+..+|..+..++...|++++|...|+...+.
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            45556667777777777777777776654 335566777777777777777777777777664

>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=98.51  E-value=3.6e-06  Score=54.04  Aligned_cols=83  Identities=7%  Similarity=-0.099  Sum_probs=65.5

Q ss_pred             cHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCC-ChhhHHHHHHHH
Q 035645          117 LYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTP-ISRCFDLVTDGL  195 (217)
Q Consensus       117 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~  195 (217)
                      +|+.+..+|.+.|++++|...+....... +.++.++..+..++...|++++|...|+...+..  | +..+...+..+.
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~--P~n~~~~~~l~~~~  140 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY--PNNKAAKTQLAVCQ  140 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHH
Confidence            57778889999999999999999998874 3378899999999999999999999999998865  4 455555555544


Q ss_pred             HhcCCch
Q 035645          196 KNCGKHD  202 (217)
Q Consensus       196 ~~~~~~~  202 (217)
                      .+.+...
T Consensus       141 ~~~~~~~  147 (170)
T d1p5qa1         141 QRIRRQL  147 (170)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4433333

>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=98.48  E-value=2.4e-06  Score=52.18  Aligned_cols=96  Identities=10%  Similarity=0.160  Sum_probs=60.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC-cc-----hhhHHHH
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC-AD-----VSTYKIL   86 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~-----~~~~~~l   86 (217)
                      +-.+...+.+.|++++|+..|++.++.+ +.+...+..+..+|.+.|++++|+..++++.+.... +.     ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            3445666777777777777777777653 235667777777777777777777777776542110 00     1345556


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC
Q 035645           87 IPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      ...+...+++++|...|++....
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            66666667777777777665543

>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=98.46  E-value=2.2e-06  Score=52.35  Aligned_cols=58  Identities=12%  Similarity=0.139  Sum_probs=31.0

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 035645           50 SLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE  108 (217)
Q Consensus        50 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  108 (217)
                      .+...+.+.|++++|+..|++.++... .+...+..+..+|.+.|++++|...+++..+
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            344555555555555555555555421 2345555555555555555555555555443

>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=98.45  E-value=5.5e-06  Score=52.19  Aligned_cols=111  Identities=6%  Similarity=-0.115  Sum_probs=63.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      +..-...+.+.|++.+|+..|.+....-.....              ..+...  .....    .....+|+.+..+|.+
T Consensus        20 ~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~--------------~~~~~~--~~~~~----~~~~~~~~Nla~~~~~   79 (153)
T d2fbna1          20 IKEEGNEFFKKNEINEAIVKYKEALDFFIHTEE--------------WDDQIL--LDKKK----NIEISCNLNLATCYNK   79 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTT--------------CCCHHH--HHHHH----HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhh--------------hhhHHH--HHhhh----hHHHHHHhhHHHHHHH
Confidence            444556677888888888888877653110000              000000  00000    0122355666666777


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           93 AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      .|++++|+..+++..+.+ +.+..+|..+..++...|++++|...|....+.
T Consensus        80 l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          80 NKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            777777777777766654 345566777777777777777777777776654

>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=98.41  E-value=6.4e-06  Score=53.32  Aligned_cols=71  Identities=15%  Similarity=0.161  Sum_probs=41.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHh-----cCCCCCHhH
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKI-----KGHPPNRPV  152 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~  152 (217)
                      ..+..+...+.+.|++++|...+++..+.. +.+...|..++.++.+.|+.++|.+.|+.+..     .|+.|...+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            345556666666666666666666666554 34555666666666666666666666665532     355555443

>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=98.40  E-value=7e-06  Score=52.56  Aligned_cols=92  Identities=14%  Similarity=0.023  Sum_probs=41.9

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhcC--------------CC-cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCc
Q 035645           51 LIETICKSGEVEFCVEMYYSVCKLG--------------SC-ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFP  115 (217)
Q Consensus        51 ll~~~~~~~~~~~a~~~~~~~~~~~--------------~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  115 (217)
                      ....+...|++++|++.|.+..+..              .. .....+..+..++.+.|++++|+..+++.++.+ +.+.
T Consensus        33 ~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~  111 (169)
T d1ihga1          33 IGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNT  111 (169)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhh
Confidence            3444556666666666666554310              00 122233334444444444444444444444432 2233


Q ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHHHh
Q 035645          116 SLYAPIIKGAFRRGQFDDAFCFFSEIKI  143 (217)
Q Consensus       116 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~  143 (217)
                      .+|..+..++.+.|++++|...|....+
T Consensus       112 ~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1         112 KALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            3444444444444444444444444444

>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=98.40  E-value=3.6e-06  Score=53.97  Aligned_cols=110  Identities=11%  Similarity=0.006  Sum_probs=83.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCC--------------CC-CChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQG--------------SD-PDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC   77 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~--------------~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~   77 (217)
                      +......+.+.|+++.|+..|.+.++..              +. .....+..+..++.+.|++++|+..+++..+.. +
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p  108 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  108 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-h
Confidence            4455667888999999999998775410              11 134466778889999999999999999998864 3


Q ss_pred             cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 035645           78 ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKG  124 (217)
Q Consensus        78 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (217)
                      .+..+|..+..++.+.|++++|...|++..+.. +.+..+...+..+
T Consensus       109 ~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~  154 (169)
T d1ihga1         109 SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKV  154 (169)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            367889999999999999999999999999864 2344444444443

>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=98.36  E-value=1.7e-05  Score=49.88  Aligned_cols=68  Identities=15%  Similarity=0.016  Sum_probs=59.4

Q ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChh
Q 035645          116 SLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISR  186 (217)
Q Consensus       116 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  186 (217)
                      .+|+.+..+|.+.|++++|+..+....... +.+..+|..+..++...|++++|...|+...+..  |+..
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~--P~n~  135 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN--PNNL  135 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTCH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC--CCCH
Confidence            467889999999999999999999998874 4478999999999999999999999999999865  5443

>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=1.3e-05  Score=51.17  Aligned_cols=62  Identities=10%  Similarity=-0.061  Sum_probs=37.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           82 TYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      +|+.+..+|.+.|++++|+..+++..+.+ +.+..+|..+..++...|++++|...|......
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34445555666666666666666666543 334555666666666666666666666666554

>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=98.33  E-value=3e-05  Score=50.02  Aligned_cols=125  Identities=14%  Similarity=0.098  Sum_probs=84.8

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC
Q 035645           51 LIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQ  130 (217)
Q Consensus        51 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~  130 (217)
                      ........|++++|.+.|.+.....  +....        ......+.+...-..+...    ....+..+...+.+.|+
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~l--------~~~~~~~w~~~~r~~l~~~----~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREW--RGPVL--------DDLRDFQFVEPFATALVED----KVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTC--CSSTT--------GGGTTSTTHHHHHHHHHHH----HHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC--ccccc--------ccCcchHHHHHHHHHHHHH----HHHHHHHHHHHHHHCCC
Confidence            3456677888888888888876531  11100        0000000011111111111    13457788999999999


Q ss_pred             hHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHH-----HcCCCCChhhHHH
Q 035645          131 FDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMT-----EMGLTPISRCFDL  190 (217)
Q Consensus       131 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-----~~~~~~~~~~~~~  190 (217)
                      +++|...++...... +-+...|..++.++...|+..+|.+.|+++.     +.|+.|...+-..
T Consensus        83 ~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~l  146 (179)
T d2ff4a2          83 ASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  146 (179)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             chHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHHH
Confidence            999999999998873 4578999999999999999999999999985     4799998876443

>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=98.30  E-value=0.00015  Score=49.50  Aligned_cols=194  Identities=10%  Similarity=-0.051  Sum_probs=121.1

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh----cCchhHHHHHHHHHHhcCCCcchhhHH
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICK----SGEVEFCVEMYYSVCKLGSCADVSTYK   84 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (217)
                      |+..+..|...+.+.|++++|++.|++..+.|   +...+..|...|..    ..+...|...+......+   +.....
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            45567778888889999999999999998876   55666666666665    557788888887776654   223333


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHhCCCC---------------------------------CCcccHHHHHHHHHh
Q 035645           85 ILIPAVSK----AGMIDEAFRLLHNLVEDGHN---------------------------------PFPSLYAPIIKGAFR  127 (217)
Q Consensus        85 ~ll~~~~~----~~~~~~a~~~~~~~~~~~~~---------------------------------~~~~~~~~ll~~~~~  127 (217)
                      .+...+..    ..+.+.|...++...+.|..                                 .+...+..+...+..
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~L~~~~~~  154 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYDA  154 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhcccccchhhhhhhhhcc
Confidence            33333332    34556666666665544321                                 112223333333332


Q ss_pred             ----cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhc----CCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh--
Q 035645          128 ----RGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGR----GGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKN--  197 (217)
Q Consensus       128 ----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  197 (217)
                          ..+...+...+....+.|   +......+...+..    ..++++|...|....+.|   ++..+..|...|.+  
T Consensus       155 ~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~  228 (265)
T d1ouva_         155 GRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGE  228 (265)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTS
T ss_pred             CCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCC
Confidence                234445555555555443   44455555444443    568899999998888876   34455667777765  


Q ss_pred             --cCCchHHHHHHHHHhhh
Q 035645          198 --CGKHDLAEKIEQLEVSL  214 (217)
Q Consensus       198 --~~~~~~a~~~~~~~~~~  214 (217)
                        ..+.++|.+.|++....
T Consensus       229 g~~~n~~~A~~~~~kAa~~  247 (265)
T d1ouva_         229 GVTRNEKQAIENFKKGCKL  247 (265)
T ss_dssp             SSSCCSTTHHHHHHHHHHH
T ss_pred             CCccCHHHHHHHHHHHHHC
Confidence              44788999999887654

>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=98.30  E-value=1.3e-05  Score=51.18  Aligned_cols=116  Identities=14%  Similarity=-0.050  Sum_probs=86.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHhhC---CCCCC-----------hhhHHHHHHHHHhcCchhHHHHHHHHHHhcCC
Q 035645           11 RGRDLLVQGLLNAGYLESAKQMVNKMIKQ---GSDPD-----------LETFNSLIETICKSGEVEFCVEMYYSVCKLGS   76 (217)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~---~~~~~-----------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~   76 (217)
                      ..+......+.+.|+++.|...|.+....   ...++           ...|+.+..+|.+.|++++|+..++...+.. 
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-   94 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-   94 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-
Confidence            34566777899999999999999887642   11111           2345667788999999999999999998864 


Q ss_pred             CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 035645           77 CADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR  128 (217)
Q Consensus        77 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (217)
                      +.+..+|..+..++...|++++|...|++..+.+ +.+..+...+-....+.
T Consensus        95 p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          95 SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHH
Confidence            3477889999999999999999999999999864 33344444443333333

>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=98.21  E-value=1e-06  Score=60.86  Aligned_cols=121  Identities=12%  Similarity=0.042  Sum_probs=61.5

Q ss_pred             HhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-cccHHHHHHHHHhcCChHHH
Q 035645           56 CKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPF-PSLYAPIIKGAFRRGQFDDA  134 (217)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~g~~~~a  134 (217)
                      .+.|++++|+..+++..+.. +.|...+..+...++..|++++|...++...+..  |+ ...+..+...+...+..+++
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   83 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhccccHHH
Confidence            45577777777777776653 2355677777777777777777777777776653  33 22332232222222222221


Q ss_pred             HHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHc
Q 035645          135 FCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEM  179 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  179 (217)
                      ..-.......+-+++..........+...|+.++|.+.+..+.+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            111110000011112233333344555667777777777666553

>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=98.15  E-value=4.1e-06  Score=57.76  Aligned_cols=123  Identities=18%  Similarity=0.128  Sum_probs=84.7

Q ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcc-hhhHHHHHHHHHhcCCHH
Q 035645           19 GLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCAD-VSTYKILIPAVSKAGMID   97 (217)
Q Consensus        19 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~   97 (217)
                      ...+.|++++|+..+++.++.. +-+...+..+...++..|++++|...|+...+.  .|+ ...+..+...+...+..+
T Consensus         5 ~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           5 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccH
Confidence            3457899999999999999874 348889999999999999999999999999875  344 344444544444333333


Q ss_pred             HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 035645           98 EAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIK  144 (217)
Q Consensus        98 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  144 (217)
                      ++..-...-...+-+++...+......+...|+.++|.+.+..+.+.
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            32221111111111222334445567788899999999999998765

>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=98.13  E-value=2.4e-05  Score=48.70  Aligned_cols=73  Identities=7%  Similarity=-0.021  Sum_probs=46.8

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhc----------CchhHHHHHHHHHHhcCCCcchhhHHHHHHH
Q 035645           20 LLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKS----------GEVEFCVEMYYSVCKLGSCADVSTYKILIPA   89 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~   89 (217)
                      |-+.+.+++|.+.|+...+.. |-+..++..+..++...          +.+++|+..|++..+.. +.+..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            345567888888888888764 33666777777777644          33456777777776643 2245566666666


Q ss_pred             HHhcC
Q 035645           90 VSKAG   94 (217)
Q Consensus        90 ~~~~~   94 (217)
                      |...|
T Consensus        85 y~~~g   89 (145)
T d1zu2a1          85 YTSFA   89 (145)
T ss_dssp             HHHHH
T ss_pred             HHHcc
Confidence            65543

>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=98.05  E-value=3.2e-05  Score=48.06  Aligned_cols=73  Identities=11%  Similarity=-0.148  Sum_probs=48.6

Q ss_pred             HHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhc----------CCHHHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 035645           55 ICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKA----------GMIDEAFRLLHNLVEDGHNPFPSLYAPIIKG  124 (217)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~  124 (217)
                      |-+.+.+++|+..|+...+.. +.+..++..+..++...          +.+++|+..|++..+.+ +.+..+|..+-.+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            445667899999999998764 33567777777777654          33466777777777654 3345566666666


Q ss_pred             HHhcC
Q 035645          125 AFRRG  129 (217)
Q Consensus       125 ~~~~g  129 (217)
                      |...|
T Consensus        85 y~~~g   89 (145)
T d1zu2a1          85 YTSFA   89 (145)
T ss_dssp             HHHHH
T ss_pred             HHHcc
Confidence            65543

>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=97.97  E-value=5.1e-05  Score=47.69  Aligned_cols=97  Identities=15%  Similarity=0.042  Sum_probs=51.9

Q ss_pred             hhHHHH--HHHHHhcCCHHHHHHHHHHHhhCCC-CCC----------hhhHHHHHHHHHhcCchhHHHHHHHHHHhc---
Q 035645           11 RGRDLL--VQGLLNAGYLESAKQMVNKMIKQGS-DPD----------LETFNSLIETICKSGEVEFCVEMYYSVCKL---   74 (217)
Q Consensus        11 ~~~~~l--l~~~~~~g~~~~a~~~~~~m~~~~~-~~~----------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---   74 (217)
                      .+|..+  ...+.+.|++++|+..|++.++... .|+          ...|+.+..+|...|++++|+..+++..+.   
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            345555  4445566777777777777664210 111          234556666666666666666666655431   


Q ss_pred             --CCCc-----chhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 035645           75 --GSCA-----DVSTYKILIPAVSKAGMIDEAFRLLHNLV  107 (217)
Q Consensus        75 --~~~~-----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  107 (217)
                        ...+     ...+++.+..+|...|++++|...|++..
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence              0011     11234455556666666666666665544

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.91  E-value=5.7e-05  Score=56.82  Aligned_cols=111  Identities=13%  Similarity=0.054  Sum_probs=43.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 035645           81 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMC  160 (217)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  160 (217)
                      ..+..+...+.+.|+.++|...+.......   ...++..+...+...|++++|...|.+..+.. +-+...|+.+...+
T Consensus       121 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~  196 (497)
T d1ya0a1         121 VKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILA  196 (497)
T ss_dssp             ----------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHH
T ss_pred             HHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            344444445555555555554444333211   12344445555555556666666555555442 22345555555555


Q ss_pred             hcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 035645          161 GRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLK  196 (217)
Q Consensus       161 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  196 (217)
                      ...|+..+|...|.+..... .|...++..|...|.
T Consensus       197 ~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         197 SSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALS  231 (497)
T ss_dssp             HHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHH
Confidence            55566655555555554433 233444444444443

>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=97.89  E-value=0.00015  Score=45.50  Aligned_cols=98  Identities=19%  Similarity=0.062  Sum_probs=59.3

Q ss_pred             hhHHHH--HHHHHhcCCHHHHHHHHHHHHhCCC-CCC----------cccHHHHHHHHHhcCChHHHHHHHHHHHhc---
Q 035645           81 STYKIL--IPAVSKAGMIDEAFRLLHNLVEDGH-NPF----------PSLYAPIIKGAFRRGQFDDAFCFFSEIKIK---  144 (217)
Q Consensus        81 ~~~~~l--l~~~~~~~~~~~a~~~~~~~~~~~~-~~~----------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---  144 (217)
                      .+|..+  ...+.+.|++++|+..|++..+... .|+          ..+|+.+..+|.+.|++++|...+.+....   
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            355555  4455567888888888888765321 121          235666777777777777777777766532   


Q ss_pred             --CCCCC-----HhHHHHHHHHHhcCCCHHHHHHHHHHHHH
Q 035645          145 --GHPPN-----RPVYTTLITMCGRGGRFVEAANYLMEMTE  178 (217)
Q Consensus       145 --~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~  178 (217)
                        ...++     ...++.+..+|...|++++|.+.|++..+
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              11111     12455566667777777777777766554

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.78  E-value=0.0025  Score=45.00  Aligned_cols=145  Identities=14%  Similarity=0.104  Sum_probs=89.1

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645            8 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus         8 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      ||..--..+.+-|.+.|.++.|..+|..+..         |..++..+.+.+++..|.++..+.      -+..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHH
Confidence            4555556677788889999999998876532         667778888888888888877644      2556788888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHH
Q 035645           88 PAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFV  167 (217)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  167 (217)
                      ..+.+.....-+     .+.......+......++..|-..|.+++...++...... -.++...++.++..|++.+ .+
T Consensus        77 ~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~~  149 (336)
T d1b89a_          77 FACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-PQ  149 (336)
T ss_dssp             HHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-HH
T ss_pred             HHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-hH
Confidence            888877766543     2222333345555677888888899999988888877543 2456677888888888765 34


Q ss_pred             HHHHHHH
Q 035645          168 EAANYLM  174 (217)
Q Consensus       168 ~a~~~~~  174 (217)
                      +..+.++
T Consensus       150 kl~e~l~  156 (336)
T d1b89a_         150 KMREHLE  156 (336)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.71  E-value=0.00018  Score=54.01  Aligned_cols=113  Identities=12%  Similarity=-0.055  Sum_probs=63.7

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIK  123 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~  123 (217)
                      +...+..+...+.+.|+.++|...+......  . ...++..+...+...+++++|...|++..+.. +-+..+|+.+..
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~-~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~  194 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--I-CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAI  194 (497)
T ss_dssp             ------------------------CCHHHHH--H-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--C-HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHH
Confidence            4445666666777777777777776665442  1 13456677888888888888888888888764 445668888888


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHh
Q 035645          124 GAFRRGQFDDAFCFFSEIKIKGHPPNRPVYTTLITMCG  161 (217)
Q Consensus       124 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  161 (217)
                      .+...|+..+|...|.+..... +|...++..|...+.
T Consensus       195 ~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         195 LASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALS  231 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHH
Confidence            8888888888888888877653 345666666666553

>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=97.59  E-value=0.00073  Score=38.32  Aligned_cols=66  Identities=11%  Similarity=0.103  Sum_probs=45.3

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHhhCC-----CCCC-hhhHHHHHHHHHhcCchhHHHHHHHHHHhc
Q 035645            9 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQG-----SDPD-LETFNSLIETICKSGEVEFCVEMYYSVCKL   74 (217)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~~-----~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   74 (217)
                      +...+-.+...+.+.|+++.|...|++..+..     ..++ ..++..+..++.+.|++++|+..++++.+.
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            44455567777788888888888888775421     1112 346777777788888888888888877764

>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=97.59  E-value=0.00053  Score=38.92  Aligned_cols=65  Identities=22%  Similarity=0.090  Sum_probs=37.2

Q ss_pred             hhhHHHHHHHHHhcCchhHHHHHHHHHHhcC-----CCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 035645           45 LETFNSLIETICKSGEVEFCVEMYYSVCKLG-----SCA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        45 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      ...+-.+...+.+.|++++|+..|++..+..     ..+ ...+++.+..++.+.|++++|...+++.++.
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3344455666666677777766666654321     011 1345666666666666666666666666654

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.44  E-value=0.0085  Score=42.21  Aligned_cols=104  Identities=13%  Similarity=0.150  Sum_probs=51.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh
Q 035645           13 RDLLVQGLLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK   92 (217)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   92 (217)
                      |..++..+.+.+++..|.+++.+.-      +..+|..+...+.+......+     .+.......+......++..|..
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~  111 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQD  111 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHH
Confidence            4456677777777777766654431      344555555555544433322     11111122233334455555555


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 035645           93 AGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRR  128 (217)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  128 (217)
                      .|.+++...+++...... ..+...++.++..|++.
T Consensus       112 ~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_         112 RGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  146 (336)
T ss_dssp             TTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT
T ss_pred             cCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHh
Confidence            566665555555543321 23344455555555554

>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=96.99  E-value=0.022  Score=38.26  Aligned_cols=96  Identities=10%  Similarity=0.046  Sum_probs=65.9

Q ss_pred             ChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCcccHH
Q 035645           44 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSK----AGMIDEAFRLLHNLVEDGHNPFPSLYA  119 (217)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  119 (217)
                      |+..+..|...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...|...+....+.+   +.....
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            45567777778888999999999999998765   55566667777776    568888999988887765   223333


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHHhcC
Q 035645          120 PIIKGAFR----RGQFDDAFCFFSEIKIKG  145 (217)
Q Consensus       120 ~ll~~~~~----~g~~~~a~~~~~~~~~~~  145 (217)
                      .+...+..    ..+.+.|...++...+.|
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g  104 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLK  104 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhh
Confidence            33333322    345667777776655544

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.92  E-value=0.014  Score=34.93  Aligned_cols=16  Identities=25%  Similarity=0.073  Sum_probs=9.5

Q ss_pred             CHHHHHHHHHHHhhCC
Q 035645           25 YLESAKQMVNKMIKQG   40 (217)
Q Consensus        25 ~~~~a~~~~~~m~~~~   40 (217)
                      ++++|.++|++..+.|
T Consensus         8 d~~~A~~~~~kaa~~g   23 (133)
T d1klxa_           8 DLKKAIQYYVKACELN   23 (133)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCC
Confidence            4556666666665554

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.83  E-value=0.017  Score=34.56  Aligned_cols=111  Identities=11%  Similarity=0.020  Sum_probs=60.9

Q ss_pred             CchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHHH
Q 035645           59 GEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFR----RGQFDDA  134 (217)
Q Consensus        59 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~g~~~~a  134 (217)
                      .++++|++.|++..+.|.   ...+..+.  .....+.++|..++++..+.|   ++.....+-..|..    ..+.++|
T Consensus         7 kd~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHH
Confidence            356777777777766552   22222222  223456677777777776665   23334444444433    3456677


Q ss_pred             HHHHHHHHhcCCCCCHhHHHHHHHHHhc----CCCHHHHHHHHHHHHHcC
Q 035645          135 FCFFSEIKIKGHPPNRPVYTTLITMCGR----GGRFVEAANYLMEMTEMG  180 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~  180 (217)
                      .++|+...+.|   ++.....|...|..    ..+.++|.++|+...+.|
T Consensus        79 ~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          79 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            77777766655   23344444444433    345666666666666555

>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=96.62  E-value=0.024  Score=33.46  Aligned_cols=122  Identities=16%  Similarity=0.190  Sum_probs=63.6

Q ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCC------------------cchh
Q 035645           20 LLNAGYLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSC------------------ADVS   81 (217)
Q Consensus        20 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~------------------~~~~   81 (217)
                      +.-.|.+++..+++.+...+.   +..-||-++--....-+-+-..++++..-+. +.                  .+..
T Consensus        12 ~ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~-FDls~C~Nlk~vv~C~~~~n~~se   87 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY-FDLDKCQNLKSVVECGVINNTLNE   87 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG-SCGGGCSCTHHHHHHHHHTTCCCH
T ss_pred             HHHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhh-cCchhhhcHHHHHHHHHHhcchHH
Confidence            455688888888888877542   3444444444444444445555555544322 11                  1233


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 035645           82 TYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDAFCFFSEIKIKGH  146 (217)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  146 (217)
                      .+...++.+...|+-+...++++.+.+.+ .+++...-.+..+|.+.|...++.+++.+.-+.|+
T Consensus        88 ~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          88 HVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            44445555555555555555555544433 44444445555555555555555555555555544

>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=95.93  E-value=0.034  Score=32.75  Aligned_cols=49  Identities=16%  Similarity=0.177  Sum_probs=28.6

Q ss_pred             ChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHhcCCCHHHHHHHHHHHHHc
Q 035645          130 QFDDAFCFFSEIKIKGHPPN-RPVYTTLITMCGRGGRFVEAANYLMEMTEM  179 (217)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  179 (217)
                      +.++++.++++..+.+ +.+ ...+-.|.-+|.+.|++++|.+.++.+.+.
T Consensus        53 d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          53 DERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             HHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            3456666666665542 112 234445555666777777777777766664

>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=95.86  E-value=0.055  Score=30.15  Aligned_cols=65  Identities=14%  Similarity=0.139  Sum_probs=47.8

Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 035645          130 QFDDAFCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGL  195 (217)
Q Consensus       130 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  195 (217)
                      +.-++.+-+..+....+.|++....+.+++|-+.+++..|.++|+..+.+. .++...|..+++-.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yilqel   85 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQEL   85 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHHHHH
Confidence            444666667777777788888888888999999999999999988777432 34456777666543

>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=95.20  E-value=0.1  Score=29.02  Aligned_cols=62  Identities=10%  Similarity=0.112  Sum_probs=45.2

Q ss_pred             CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCchhHHHHHHHHHHhcCCCcchhhHHHHH
Q 035645           25 YLESAKQMVNKMIKQGSDPDLETFNSLIETICKSGEVEFCVEMYYSVCKLGSCADVSTYKILI   87 (217)
Q Consensus        25 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll   87 (217)
                      +.=++.+-++.+......|++....+.+.+|.+.+++..|+++++..+.. ..++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHH
Confidence            45556777777777888888888888888888888888888888887643 223444555554

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.92  E-value=0.29  Score=28.59  Aligned_cols=67  Identities=16%  Similarity=0.128  Sum_probs=35.7

Q ss_pred             CChhhHHHHHHHHHhc---CchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 035645           43 PDLETFNSLIETICKS---GEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  109 (217)
Q Consensus        43 ~~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  109 (217)
                      |+..+--....+++++   .+.++++.+++.+.+.+.......+..|.-+|.+.|++++|.+.++.+++.
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            3433333333444433   345567777776665431111234445555666777777777777776664

>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=92.75  E-value=0.5  Score=27.80  Aligned_cols=136  Identities=10%  Similarity=-0.002  Sum_probs=67.0

Q ss_pred             HHhcCchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHH
Q 035645           55 ICKSGEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHNPFPSLYAPIIKGAFRRGQFDDA  134 (217)
Q Consensus        55 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a  134 (217)
                      +...|..++..++..+....   .+..-||=.+--....-+-+-...+++.+-+.   .|.          ...++....
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHHH
Confidence            34567788888888887653   23333443333334444555555555544322   111          123333333


Q ss_pred             HHHHHHHHhcCCCCCHhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCchHHHHHHHHHh
Q 035645          135 FCFFSEIKIKGHPPNRPVYTTLITMCGRGGRFVEAANYLMEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEQLEV  212 (217)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (217)
                      ...+-.+.     .+...++..++.+..+|+-+...++.+++.+.+ +|++...-.+..+|.+-|...++.+++..+.
T Consensus        76 v~C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~AC  147 (161)
T d1wy6a1          76 VECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEAC  147 (161)
T ss_dssp             HHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            33332221     123344445555555555555555555555433 4555555555566666666666655555443

>d1mzba_ a.4.5.42 (A:) Ferric uptake regulation protein, FUR {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: FUR-like
domain: Ferric uptake regulation protein, FUR
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=81.48  E-value=3.4  Score=24.06  Aligned_cols=61  Identities=13%  Similarity=0.221  Sum_probs=39.2

Q ss_pred             HHhhCCCCCChhhHHHHHHHHHhc-CchhHHHHHHHHHHhcCCCcchhhHHHHHHHHHhcCCH
Q 035645           35 KMIKQGSDPDLETFNSLIETICKS-GEVEFCVEMYYSVCKLGSCADVSTYKILIPAVSKAGMI   96 (217)
Q Consensus        35 ~m~~~~~~~~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~   96 (217)
                      ++++.|+.++. .-..++..+.+. +..-.|.++++.+.+.+...+..|.-.-+..+...|-+
T Consensus         6 ~Lr~~GlR~T~-qR~~Il~~L~~~~~~h~sa~ei~~~l~~~~~~i~~aTVYR~L~~l~e~gli   67 (134)
T d1mzba_           6 ELRKAGLKVTL-PRVKILQMLDSAEQRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLV   67 (134)
T ss_dssp             HHHHTTCCCCH-HHHHHHHHHHCC-CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSE
T ss_pred             HHHHcCCCCCH-HHHHHHHHHHhCCCCCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHhccEE
Confidence            35677777665 344555666554 34677788888887777666776655566666665544

>d1u9pa1 a.43.1.1 (A:72-107) Arc repressor {Salmonella bacteriophage P22 [TaxId: 10754]}

class: All alpha proteins
fold: Ribbon-helix-helix
superfamily: Ribbon-helix-helix
family: Arc/Mnt-like phage repressors
domain: Arc repressor
species: Salmonella bacteriophage P22 [TaxId: 10754]

Probab=81.23  E-value=1.2  Score=18.55  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=16.5

Q ss_pred             HcCCCCChhhHHHHHHHHHhcCC
Q 035645          178 EMGLTPISRCFDLVTDGLKNCGK  200 (217)
Q Consensus       178 ~~~~~~~~~~~~~l~~~~~~~~~  200 (217)
                      +.|...+...|..++..+.+.|+
T Consensus        13 eng~s~ns~iy~~vmes~kkegr   35 (36)
T d1u9pa1          13 ENGRSVNSEIYQRVMESFKKEGR   35 (36)
T ss_dssp             HHTCCHHHHHHHHHHHHHHHTTC
T ss_pred             HcCcchhHHHHHHHHHHHHHccC
Confidence            46666777777777777777665

>d1uoha_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.34  E-value=3.9  Score=25.86  Aligned_cols=21  Identities=33%  Similarity=0.398  Sum_probs=15.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHH
Q 035645           15 LLVQGLLNAGYLESAKQMVNK   35 (217)
Q Consensus        15 ~ll~~~~~~g~~~~a~~~~~~   35 (217)
                      .++...+..|+.+.+.+++..
T Consensus         5 ~~~~~~a~~G~~~~v~~~l~~   25 (223)
T d1uoha_           5 LMVCNLAYSGKLEELKESILA   25 (223)
T ss_dssp             SHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHh
Confidence            455666888888888777765